Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 21 of 213
Found at i:5511658 original size:60 final size:60
Alignment explanation
Indices: 5511585--5511706 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
5511575 ATACTAAACT
* * * * * *
5511585 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTAATTTTTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
5511645 AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
5511705 AA
1 AA
5511707 TATTCATACA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
Found at i:5511799 original size:61 final size:61
Alignment explanation
Indices: 5511728--5511871 Score: 261
Period size: 61 Copynumber: 2.4 Consensus size: 61
5511718 AAAATTACAA
* * *
5511728 AATTATAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTTATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
5511789 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
5511850 AATTACAATATTCATACAAAAT
1 AATTACAATATTCATACAAAAT
5511872 TATCCATTGG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 80 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (61 bp):
AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
Found at i:5511939 original size:27 final size:27
Alignment explanation
Indices: 5511879--5511940 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
5511869 AATTATCCAT
* **
5511879 TGGCGCCTCCCTATGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGACACAATTAA
* *
5511906 TGACGCCTCCCTATGAGACACAATTAG
1 TGGCGCCTCCCTATGAGACACAATTAA
5511933 TGGCGCCT
1 TGGCGCCT
5511941 ACCTGACAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGACACAATTAA
Found at i:5514805 original size:3 final size:3
Alignment explanation
Indices: 5514799--5514829 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5514789 TGGTGGGGAA
*
5514799 GAT GAT GAT GAT GAT GAT GAT GAT TAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
5514830 GTGAGAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
GAT
Found at i:5517909 original size:20 final size:20
Alignment explanation
Indices: 5517889--5517928 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5517879 TTTTGCTAAA
5517889 TTGTCATTTTTTTTATAAAAT
1 TTGT-ATTTTTTTTATAAAAT
* *
5517910 TTGTTTTTTTTTTTTAAAA
1 TTGTATTTTTTTTATAAAA
5517929 AATTAGTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTGTATTTTTTTTATAAAAT
Found at i:5522924 original size:23 final size:23
Alignment explanation
Indices: 5522898--5522950 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
5522888 CAAATTCCTC
5522898 ATGTAAAGAAGCATGACACAAAA
1 ATGTAAAGAAGCATGACACAAAA
*
5522921 ATGTTAAGAAGCATGACACAAAA
1 ATGTAAAGAAGCATGACACAAAA
*
5522944 GTGTAAA
1 ATGTAAA
5522951 CCAAGTGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.17
Consensus pattern (23 bp):
ATGTAAAGAAGCATGACACAAAA
Found at i:5525509 original size:24 final size:26
Alignment explanation
Indices: 5525473--5525522 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
5525463 TATGGTTTGA
*
5525473 TAAATGATAATCAACTATCAATTCAT
1 TAAATGATAATCAAATATCAATTCAT
*
5525499 TAAAT-AT-ATCAAATTTCAATTCAT
1 TAAATGATAATCAAATATCAATTCAT
5525523 CATATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (26 bp):
TAAATGATAATCAAATATCAATTCAT
Found at i:5526381 original size:10 final size:10
Alignment explanation
Indices: 5526368--5526410 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
5526358 AAAATTAGCC
5526368 TAATTAACTA
1 TAATTAACTA
5526378 TAATTAACTA
1 TAATTAACTA
*
5526388 -AACTTAATTA
1 TAA-TTAACTA
5526398 TAATTAA-TA
1 TAATTAACTA
5526407 TAAT
1 TAAT
5526411 CAGTGGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 20 0.67
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTAACTA
Found at i:5534853 original size:16 final size:16
Alignment explanation
Indices: 5534828--5534870 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
5534818 GTTGTCTGGG
5534828 TGTA-ACATACATACAT
1 TGTATACATACATAC-T
5534844 T-TATACATACATACT
1 TGTATACATACATACT
*
5534859 TGTATACTTACA
1 TGTATACATACA
5534871 AAGTCCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (16 bp):
TGTATACATACATACT
Found at i:5541153 original size:46 final size:46
Alignment explanation
Indices: 5541082--5541291 Score: 253
Period size: 46 Copynumber: 4.3 Consensus size: 46
5541072 GAAATCAGTA
*
5541082 ACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
5541128 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
**
5541174 ACAAAGTGATAAGTGGTAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTA--G---CCT--TAG------CTACACTTATCTGATCAAGTG
*
5541233 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC-AGGG
1 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
5541278 AC-AAGTGATAAGTG
1 ACAAAGTGATAAGTG
5541292 ATCATACGTA
Statistics
Matches: 145, Mismatches: 6, Indels: 28
0.81 0.03 0.16
Matches are distributed among these distances:
44 12 0.08
45 5 0.03
46 79 0.54
48 1 0.01
51 1 0.01
52 3 0.02
53 3 0.02
54 1 0.01
57 1 0.01
59 39 0.27
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
Found at i:5541196 original size:13 final size:13
Alignment explanation
Indices: 5541178--5541205 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5541168 CAAGTGACAA
5541178 AGTGATAAGTGGT
1 AGTGATAAGTGGT
5541191 AGTGATAAGTGGT
1 AGTGATAAGTGGT
5541204 AG
1 AG
5541206 CCTTAGCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (13 bp):
AGTGATAAGTGGT
Found at i:5541210 original size:59 final size:59
Alignment explanation
Indices: 5541132--5541251 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
5541122 CAAGTGACAA
5541132 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
5541191 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
5541250 AG
1 AG
5541252 CCTTAGCTAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (59 bp):
AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
Found at i:5541252 original size:105 final size:103
Alignment explanation
Indices: 5541086--5541291 Score: 376
Period size: 105 Copynumber: 2.0 Consensus size: 103
5541076 TCAGTAACAA
*
5541086 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
*
5541151 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
66 AGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTGGT
5541191 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
5541256 AGCTACACTTATCTGATCAGGGACAAGTGATAAGTG
66 AGCTACACTTATCTGATCAGGGACAAGTGATAAGTG
5541292 ATCATACGTA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
103 12 0.12
104 5 0.05
105 82 0.83
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (103 bp):
AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
AGCTACACTTATCTGATCAGGGACAAGTGATAAGTGGT
Found at i:5548460 original size:140 final size:146
Alignment explanation
Indices: 5548252--5548630 Score: 396
Period size: 158 Copynumber: 2.5 Consensus size: 146
5548242 AGACTTAAAA
* ** * *
5548252 TTTGAAATGTATTAATTTAGTGTGTTTTTATTATATAAATTTAGTAAAAAATTCTCATTTTGACC
1 TTTGAAATGTATTATTTTAGTGTG--TTT-TTATATAAATTTAGTAAAAAAACCTTATTTTG-GC
* *
5548317 CTTTGTTCG-ATTTTTA-TTAC---TT-T-TAAAAAATATACTATTTTCGTGTCTAT-TTATTTT
62 CTTTGTTCGTATTTTTATTTACGTTTTATATAAAAAATATAATATTTTCGTAT-TATATTATTTT
*
5548374 ATTTTATTTTAGTACATAATG
126 ATATTATTTTAGTACATAATG
*
5548395 TTTGAAATGTATTATTTTACTGTGTTTTTATATAAATTTAGTAAAAAAACCTTTATTTTGGCCTT
1 TTTGAAATGTATTATTTTAGTGTGTTTTTATATAAATTTAGTAAAAAAACC-TTATTTTGGCC-T
* * *
5548460 TTATTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATAATATTTTCGTATTTTA
64 TTGTTCGTA--TTT-TTATTTAC-G-TTTTA-TA---T-AAAAAATATAATATTTTCGTATTATA
5548525 TTATTTTATATTATTTTAGTACATAATG
119 TTATTTTATATTATTTTAGTACATAATG
* * * *
5548553 TTTGAAATGTATTATTTTTGTGTGTTTTTATATAAATTTAGTGAAAAACCCTTATTTTGGCAATT
1 TTTGAAATGTATTATTTTAGTGTGTTTTTATATAAATTTAGTAAAAAAACCTTATTTTGGC-CTT
5548618 TGTTCGTATTTTT
65 TGTTCGTATTTTT
5548631 CTCTTTTTTT
Statistics
Matches: 197, Mismatches: 18, Indels: 31
0.80 0.07 0.13
Matches are distributed among these distances:
140 24 0.12
141 17 0.09
142 1 0.01
143 22 0.11
144 3 0.02
145 3 0.02
146 3 0.02
151 2 0.01
153 1 0.01
154 2 0.01
155 3 0.02
157 22 0.11
158 94 0.48
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (146 bp):
TTTGAAATGTATTATTTTAGTGTGTTTTTATATAAATTTAGTAAAAAAACCTTATTTTGGCCTTT
GTTCGTATTTTTATTTACGTTTTATATAAAAAATATAATATTTTCGTATTATATTATTTTATATT
ATTTTAGTACATAATG
Found at i:5548529 original size:158 final size:159
Alignment explanation
Indices: 5548328--5548692 Score: 508
Period size: 158 Copynumber: 2.3 Consensus size: 159
5548318 TTTGTTCGAT
* * *
5548328 TTTTATTACTTTTAAAAAATATACTATTTTCGT-GTCTATTTATTTTATTTTATTTTAGTACATA
1 TTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTA-TTATTTTATTTTATTTTAGTACATA
*
5548392 ATGTTTGAAATGTATTATTTTACTGTGTTTTTATATAAATTTAGTAAAAAAACCTTTATTTTGGC
65 ATGTTTGAAATGTATTATTTTACTGTGTTTTTATATAAATTTAGT-AAAAAACCCTTATTTTGGC
** *
5548457 CTTTTATTCGTA-TTTT-TCTTATTTTCGGA
129 AATTTATTCGTATTTTTCTCTTATTTTCAGA
* *
5548486 TTTTATTACTTTCAAAAAATATAATATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAA
1 TTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATTTTATTTTAGTACATAA
** *
5548551 TGTTTGAAATGTATTATTTTTGTGTGTTTTTATATAAATTTAGTGAAAAACCCTTATTTTGGCAA
66 TGTTTGAAATGTATTATTTTACTGTGTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCAA
* *
5548616 TTTGTTCGTATTTTTCTCTTTTTTTCAGA
131 TTTATTCGTATTTTTCTCTTATTTTCAGA
** * *
5548645 TTTTATTACTTTCAGTAAATTTACTATTTT--TATTTTTTTA-TTTATTTT
1 TTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATTTT
5548693 CGTATTTTGT
Statistics
Matches: 184, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
156 7 0.04
157 35 0.19
158 102 0.55
159 40 0.22
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (159 bp):
TTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATTTTATTTTAGTACATAA
TGTTTGAAATGTATTATTTTACTGTGTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCAA
TTTATTCGTATTTTTCTCTTATTTTCAGA
Found at i:5548836 original size:27 final size:27
Alignment explanation
Indices: 5548789--5548860 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
5548779 GAACAAAGGG
* *
5548789 GGTGCCGCCTATGGCAGTGGCACCTTT
1 GGTGCCGCCTATGCCAGTGGCACCATT
* *
5548816 GGTGCCGCCTCTGCCATTGGCACCATT
1 GGTGCCGCCTATGCCAGTGGCACCATT
*
5548843 GGTGCCGCCTATGGCAGT
1 GGTGCCGCCTATGCCAGT
5548861 CCCTCCACTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.11, C:0.32, G:0.32, T:0.25
Consensus pattern (27 bp):
GGTGCCGCCTATGCCAGTGGCACCATT
Found at i:5552925 original size:20 final size:20
Alignment explanation
Indices: 5552900--5552939 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5552890 GTCTTTCTGC
5552900 GATTTCCCCTCATCCTTTCT
1 GATTTCCCCTCATCCTTTCT
5552920 GATTTCCCCTCATCCTTTCT
1 GATTTCCCCTCATCCTTTCT
5552940 TCATCTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.40, G:0.05, T:0.45
Consensus pattern (20 bp):
GATTTCCCCTCATCCTTTCT
Found at i:5553723 original size:10 final size:10
Alignment explanation
Indices: 5553708--5553739 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
5553698 TTTACCTTCT
5553708 TATACATATA
1 TATACATATA
5553718 TATACATATA
1 TATACATATA
*
5553728 TATATATATA
1 TATACATATA
5553738 TA
1 TA
5553740 AGTGACGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (10 bp):
TATACATATA
Found at i:5554577 original size:17 final size:17
Alignment explanation
Indices: 5554555--5554587 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5554545 TTATTTTCTA
5554555 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
5554572 TATAAGTTTTGTAAAT
1 TATAAGTTTTCTAAAT
5554588 AATTATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:5554633 original size:15 final size:16
Alignment explanation
Indices: 5554596--5554634 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5554586 ATAATTATTC
*
5554596 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
5554612 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
5554627 TAAATTTA
1 TAAATTTA
5554635 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:5554634 original size:61 final size:61
Alignment explanation
Indices: 5554566--5554715 Score: 178
Period size: 61 Copynumber: 2.5 Consensus size: 61
5554556 ATAAGTTTTC
5554566 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* * * * * *
5554627 TAAATTTATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * * *
5554688 CAATTTTACACGTTTTGTAAATAATTAT
1 TAAATTTATAAGTTTTGTAAATAATTAT
5554716 ATATTTTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
60 1 0.01
61 70 0.96
62 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:5554950 original size:8 final size:7
Alignment explanation
Indices: 5554937--5554982 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
5554927 TAACGTATAT
5554937 ATAATAAC
1 ATAAT-AC
5554945 ATAATA-
1 ATAATAC
*
5554951 A-ATTAC
1 ATAATAC
5554957 ATAATAC
1 ATAATAC
5554964 ATAATAAC
1 ATAAT-AC
5554972 ATAATAC
1 ATAATAC
5554979 ATAA
1 ATAA
5554983 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:5554970 original size:95 final size:95
Alignment explanation
Indices: 5554858--5555121 Score: 386
Period size: 95 Copynumber: 2.8 Consensus size: 95
5554848 AATCATTTGC
* * * *
5554858 TTACTTAATACATAATAACACAATGCATAA-TTGGTATATAAGCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTT-ATATATAAGCTTGCATAACTTACATAATAAC
5554922 TTCCATAACGTATATATAATAACATAATAAA
65 TTCCATAACGTATATATAATAACATAATAAA
*
5554953 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACATAATAACT
1 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
* * *** *
5555018 TTCATAACTTATATATAATCTGATAATACA
66 TCCATAACGTATATATAATAACATAATAAA
* *
5555048 TTACATAATACATAATAACATAACACATAACTTATATTATAATCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGCATAACTTACATAATAAC
5555113 TTCCATAAC
65 TTCCATAAC
5555122 TTAATACACC
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
95 116 0.76
96 36 0.24
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (95 bp):
TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
TCCATAACGTATATATAATAACATAATAAA
Found at i:5554975 original size:15 final size:15
Alignment explanation
Indices: 5554937--5554982 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
5554927 TAACGTATAT
5554937 ATAATAACATAAT--
1 ATAATAACATAATAC
*
5554950 A-AATTACATAATAC
1 ATAATAACATAATAC
5554964 ATAATAACATAATAC
1 ATAATAACATAATAC
5554979 ATAA
1 ATAA
5554983 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:5555004 original size:21 final size:20
Alignment explanation
Indices: 5554978--5555035 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
5554968 TAACATAATA
5554978 CATAACTTATATATAAGCTTGT
1 CATAACTTATATATAA-CTT-T
*
5555000 -ATAACTTACATAATAACTTT
1 CATAACTTATAT-ATAACTTT
5555020 CATAACTTATATATAA
1 CATAACTTATATATAA
5555036 TCTGATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 23 0.72
22 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (20 bp):
CATAACTTATATATAACTTT
Found at i:5555098 original size:22 final size:21
Alignment explanation
Indices: 5555073--5555124 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
5555063 TAACATAACA
* * *
5555073 CATAACTTATATTATAATCTTG
1 CATAACTTACATAATAA-CTTC
5555095 CATAACTTACATAATAACTTC
1 CATAACTTACATAATAACTTC
5555116 CATAACTTA
1 CATAACTTA
5555125 ATACACCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (21 bp):
CATAACTTACATAATAACTTC
Found at i:5555223 original size:9 final size:9
Alignment explanation
Indices: 5555195--5555384 Score: 93
Period size: 9 Copynumber: 22.2 Consensus size: 9
5555185 CATATATAGA
*
5555195 AACTGACAT
1 AACTTACAT
* *
5555204 AAATTAAAT
1 AACTTACAT
5555213 AACTTACAT
1 AACTTACAT
5555222 AACTTACAT
1 AACTTACAT
* *
5555231 AAATTAAAT
1 AACTTACAT
*
5555240 TACTTACAT
1 AACTTACAT
5555249 AACTTACAT
1 AACTTACAT
*
5555258 TA--TACAT
1 AACTTACAT
*
5555265 AACCTT-CTT
1 AA-CTTACAT
5555274 AACTTACAT
1 AACTTACAT
* *
5555283 TA--TACAC
1 AACTTACAT
* *
5555290 GACTCACAT
1 AACTTACAT
5555299 AA-TTA-AT
1 AACTTACAT
* *
5555306 -ATTATACAC
1 AACT-TACAT
5555315 AACTTACAT
1 AACTTACAT
5555324 AA--TAGC-T
1 AACTTA-CAT
**
5555331 TTCTTACAT
1 AACTTACAT
5555340 AACTTACAT
1 AACTTACAT
*
5555349 TACTTACAGT
1 AACTTACA-T
5555359 -ACTTACAT
1 AACTTACAT
5555367 AA--TACAT
1 AACTTACAT
5555374 AACTTACAT
1 AACTTACAT
5555383 AA
1 AA
5555385 TACATAAAAA
Statistics
Matches: 133, Mismatches: 30, Indels: 36
0.67 0.15 0.18
Matches are distributed among these distances:
6 1 0.01
7 24 0.18
8 10 0.08
9 94 0.71
10 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:5555225 original size:27 final size:27
Alignment explanation
Indices: 5555195--5555257 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
5555185 CATATATAGA
*
5555195 AACTGACATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
*
5555222 AACTTACATAAATTAAATTACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
5555249 AACTTACAT
1 AACTTACAT
5555258 TATACATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (27 bp):
AACTTACATAAATTAAATAACTTACAT
Found at i:5555378 original size:16 final size:16
Alignment explanation
Indices: 5555335--5555391 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
5555325 ATAGCTTTCT
*
5555335 TACATAACTTACATTACT
1 TACATAACTTACA-TA-A
5555353 TACAGT-ACTTACATAA
1 TACA-TAACTTACATAA
5555369 TACATAACTTACATAA
1 TACATAACTTACATAA
5555385 TACATAA
1 TACATAA
5555392 AAATATATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 1 0.03
16 21 0.58
17 2 0.06
18 11 0.31
19 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:5557408 original size:21 final size:22
Alignment explanation
Indices: 5557377--5557440 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
5557367 CTTAAAGAAG
*
5557377 AGGCGGCAGCGAGGGAAGCAG-
1 AGGCTGCAGCGAGGGAAGCAGA
* *
5557398 CGGCTGCAGCGAAGGAAGC-GA
1 AGGCTGCAGCGAGGGAAGCAGA
*
5557419 AGGCTGCAGCGAGAGAAGCAGA
1 AGGCTGCAGCGAGGGAAGCAGA
5557441 GCAGAGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 1 0.03
21 32 0.91
22 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.45, T:0.03
Consensus pattern (22 bp):
AGGCTGCAGCGAGGGAAGCAGA
Found at i:5557807 original size:42 final size:42
Alignment explanation
Indices: 5557759--5558089 Score: 358
Period size: 42 Copynumber: 7.9 Consensus size: 42
5557749 GCGTTTTTGT
*
5557759 AAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * *
5557801 AAAAAAATGCCGCTAAAGAACATGTTCTTTAACGACGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
5557843 TAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
5557884 ATAAAAAACGCCGCTAAAGACCATATTCTTTAGCGGCGCTTAG
1 A-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * *
5557927 AGAAAAACGCCGCTAAATAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * * * **
5557969 AAGAAAATGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTT
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
**** * * * * **
5558011 TCTTAAGCGCAGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* ** * *
5558053 TACTAAGCGCCGCTAAAGAATATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
5558090 TTTTTGTTTG
Statistics
Matches: 248, Mismatches: 39, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
42 247 1.00
43 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
Found at i:5558522 original size:16 final size:17
Alignment explanation
Indices: 5558490--5558522 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5558480 ACTATAATTA
5558490 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
5558507 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
5558523 GTATAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:5561888 original size:88 final size:87
Alignment explanation
Indices: 5561751--5561990 Score: 264
Period size: 88 Copynumber: 2.7 Consensus size: 87
5561741 GCTCCGCAAC
* * * * * * * *
5561751 GACCCAAAGTGAAACACGTATCTACCAGGCCTAAGCCTGCACGAGATGTCAGTACTAGGAATAGA
1 GACCCAGAGTGAGACACGTGTCCAGCAGGCCTAAGCCTGCACGAAATGTCAGTACTAGGAACAAA
* ** *
5561816 AAGGACCGCGTGCTTCGCAGGT
66 AAGAACCGCGTGCACCACAGGT
* * * *
5561838 GACCCAGAGTGAGACATGTGTCCAGCCGGCCTGAAGCCCGCACGAAATGTCAGCACTAGGAACAA
1 GACCCAGAGTGAGACACGTGTCCAGCAGGCCT-AAGCCTGCACGAAATGTCAGTACTAGGAACAA
5561903 AAAGAACCGCGTGCACCACAGGT
65 AAAGAACCGCGTGCACCACAGGT
* * * * * *
5561926 GATCCAGAGTGAGACACGTGTCCAGCAAGCCTAAAGCCTACACGGATTGTCAGTACTAAGAACAA
1 GACCCAGAGTGAGACACGTGTCCAGCAGGCCT-AAGCCTGCACGAAATGTCAGTACTAGGAACAA
5561991 CGAAGTCAAG
Statistics
Matches: 125, Mismatches: 27, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
87 25 0.20
88 100 0.80
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.15
Consensus pattern (87 bp):
GACCCAGAGTGAGACACGTGTCCAGCAGGCCTAAGCCTGCACGAAATGTCAGTACTAGGAACAAA
AAGAACCGCGTGCACCACAGGT
Found at i:5564921 original size:23 final size:23
Alignment explanation
Indices: 5564886--5564936 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
5564876 ACCTATTTTT
* *
5564886 TTACTGTAATAATTTTCGGGGTA
1 TTACAGTAATAATTTTCGGGATA
*
5564909 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAATAATTTTCGGGATA
5564932 TTACA
1 TTACA
5564937 CCCCTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAATAATTTTCGGGATA
Found at i:5565371 original size:19 final size:19
Alignment explanation
Indices: 5565334--5565371 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5565324 AAAAATCACA
*
5565334 TTTTTTACATTTAATATAT
1 TTTTTTACATTTAAAATAT
5565353 TTTTTTA-ATTTCAAAATAT
1 TTTTTTACATTT-AAAATAT
5565372 ATAGTGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTACATTTAAAATAT
Found at i:5566546 original size:56 final size:55
Alignment explanation
Indices: 5566469--5566573 Score: 138
Period size: 56 Copynumber: 1.9 Consensus size: 55
5566459 TATTATTGAA
* * * * *
5566469 TATGTTATATTACCTTGTTTGGTTCATTTACTTAGAATGTAAGGTATTGTCCAAG
1 TATGTTACATTACCTTATTTGGTTCATTTACTTAAAATATAAAGTATTGTCCAAG
* *
5566524 TATGTTTACATTACTTTATTTGGTTCATTTAGTTAAAATATAAAGTATTG
1 TATG-TTACATTACCTTATTTGGTTCATTTACTTAAAATATAAAGTATTG
5566574 CTATTTGACA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 4 0.10
56 38 0.90
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.48
Consensus pattern (55 bp):
TATGTTACATTACCTTATTTGGTTCATTTACTTAAAATATAAAGTATTGTCCAAG
Found at i:5583338 original size:3 final size:3
Alignment explanation
Indices: 5583325--5583365 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
5583315 GGAACTCTTG
*
5583325 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5583366 CCTTATAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5583885 original size:51 final size:51
Alignment explanation
Indices: 5583809--5583911 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
5583799 ATTTGAATAA
5583809 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
1 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
5583860 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
1 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
5583911 T
1 T
5583912 CAGGCAAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (51 bp):
TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
Found at i:5592998 original size:26 final size:24
Alignment explanation
Indices: 5592963--5593011 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
5592953 ATTTTATTGG
5592963 ATTTTAAATTTATGTTTATATTTTAT
1 ATTTTAAATTTA-GTTTAT-TTTTAT
*
5592989 ATTTTCAATTTAGTTTATTTTTA
1 ATTTTAAATTTAGTTTATTTTTA
5593012 GTAAGAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAAATTTAGTTTATTTTTAT
Found at i:5597355 original size:29 final size:30
Alignment explanation
Indices: 5597300--5597357 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
5597290 AACTAAACCT
5597300 AGTCCCTGTACTTTTGTATATTTAGAATTG
1 AGTCCCTGTACTTTTGTATATTTAGAATTG
* *
5597330 AGTCCCTTTA-TTTT-TATTTTTAAGAATT
1 AGTCCCTGTACTTTTGTATATTT-AGAATT
5597358 TAATCTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 10 0.40
30 9 0.36
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (30 bp):
AGTCCCTGTACTTTTGTATATTTAGAATTG
Found at i:5598205 original size:20 final size:20
Alignment explanation
Indices: 5598180--5598219 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
5598170 ATGATTTTCT
*
5598180 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
5598200 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
5598220 TCAATTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:5604556 original size:17 final size:17
Alignment explanation
Indices: 5604534--5604586 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
5604524 TTATTTTAAA
*
5604534 TAAAAATAAATATTATT
1 TAAAAATAAATATGATT
*
5604551 TAAAAATAAGTA-GATT
1 TAAAAATAAATATGATT
*
5604567 AAGAAAATAAATATGATT
1 TA-AAAATAAATATGATT
5604585 TA
1 TA
5604587 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 4 0.14
17 20 0.69
18 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
TAAAAATAAATATGATT
Found at i:5604726 original size:19 final size:20
Alignment explanation
Indices: 5604692--5604730 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
5604682 GCATTATTTT
5604692 TATTTAAAATAAATAAATAG
1 TATTTAAAATAAATAAATAG
*
5604712 TATTTAGAA-AAATAAATAG
1 TATTTAAAATAAATAAATAG
5604731 ATTAAGCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
TATTTAAAATAAATAAATAG
Found at i:5605772 original size:29 final size:28
Alignment explanation
Indices: 5605717--5605772 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
5605707 AGCTTGATAG
* * *
5605717 GTTTTATATTTTTAGTTAGCGAAAACAA
1 GTTTTATATTTTTAATTAACAAAAACAA
*
5605745 GTTTTATATTTTTAATTAATAATAAACA
1 GTTTTATATTTTTAATTAACAA-AAACA
5605773 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (28 bp):
GTTTTATATTTTTAATTAACAAAAACAA
Found at i:5607344 original size:12 final size:12
Alignment explanation
Indices: 5607327--5607351 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5607317 CAGCAGAAAG
5607327 GAGTGAAGAGAA
1 GAGTGAAGAGAA
5607339 GAGTGAAGAGAA
1 GAGTGAAGAGAA
5607351 G
1 G
5607352 GCATTTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGTGAAGAGAA
Found at i:5615589 original size:78 final size:78
Alignment explanation
Indices: 5615467--5615624 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
5615457 TTAATGAATC
5615467 TTGTTTACTTTAAGAAAAAAAACATTTTAAATTATTTAATTTTAATTTAGACTAGATTTACCCGA
1 TTGTTTACTTTAAGAAAAAAAACATTTTAAATTATTTAATTTTAATTTAGACTAGATTTACCCGA
*
5615532 CATACAAATCTTT
66 AATACAAATCTTT
5615545 TTGTTTACTTTAAGAAAAAAAACATTTTAAATTATTTAATTTTAATTTAGACTAGATTTACCCGA
1 TTGTTTACTTTAAGAAAAAAAACATTTTAAATTATTTAATTTTAATTTAGACTAGATTTACCCGA
5615610 AATACAAATCTTT
66 AATACAAATCTTT
5615623 TT
1 TT
5615625 CTCTAAGTTC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (78 bp):
TTGTTTACTTTAAGAAAAAAAACATTTTAAATTATTTAATTTTAATTTAGACTAGATTTACCCGA
AATACAAATCTTT
Found at i:5617975 original size:57 final size:57
Alignment explanation
Indices: 5617887--5618002 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
5617877 TCATTTCCCC
5617887 TCCATTTCCTTCACCCCTCTGCTGATGAAACAAGGCCTTCTGCAACCCACAATTGAA
1 TCCATTTCCTTCACCCCTCTGCTGATGAAACAAGGCCTTCTGCAACCCACAATTGAA
5617944 TCCATTTCCTTCACCCCTCTGCTGATGAAACAAGGCCTTCTGCAACCCACAATTGAA
1 TCCATTTCCTTCACCCCTCTGCTGATGAAACAAGGCCTTCTGCAACCCACAATTGAA
5618001 TC
1 TC
5618003 AATCTTTCTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.12, T:0.27
Consensus pattern (57 bp):
TCCATTTCCTTCACCCCTCTGCTGATGAAACAAGGCCTTCTGCAACCCACAATTGAA
Found at i:5618828 original size:15 final size:15
Alignment explanation
Indices: 5618805--5618839 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5618795 ACAATGACGT
*
5618805 GATGTGACATCTTAA
1 GATGAGACATCTTAA
*
5618820 GATGAGACATGTTAA
1 GATGAGACATCTTAA
5618835 GATGA
1 GATGA
5618840 CTAGCAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.29
Consensus pattern (15 bp):
GATGAGACATCTTAA
Found at i:5625759 original size:19 final size:20
Alignment explanation
Indices: 5625719--5625762 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
5625709 GTTTCTTTTG
* *
5625719 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
5625738 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
5625757 GCATTA
1 GCATTA
5625763 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:5630006 original size:86 final size:86
Alignment explanation
Indices: 5629856--5630204 Score: 540
Period size: 86 Copynumber: 4.0 Consensus size: 86
5629846 GTAAAAATTA
* * * * *
5629856 AAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCTG
1 AAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCTG
5629921 CATTGACAGCGAAGCAGATCG
66 CATTGACAGCGAAGCAGATCG
*
5629942 AAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGT-AGATCTTGCCTTCCT
1 AAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATA-TCAGATCTTGCCTTCCT
5630006 GCATTGACAGCGAAGCAGATCG
65 GCATTGACAGCGAAGCAGATCG
*
5630028 AAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGT-AGATCTTGCCTTCCT
1 AAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATA-TCAGATCTTGCCTTCCT
*
5630092 GCACTGACAGCGAAGCAGATCG
65 GCATTGACAGCGAAGCAGATCG
* * *
5630114 AAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCTG
1 AAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCTG
* *
5630179 TATTTGGCAGCGAAGCAGATCG
66 CA-TTGACAGCGAAGCAGATCG
5630201 AAGA
1 AAGA
5630205 TGGCAGATTT
Statistics
Matches: 246, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
85 1 0.00
86 223 0.91
87 22 0.09
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (86 bp):
AAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCTG
CATTGACAGCGAAGCAGATCG
Found at i:5630042 original size:42 final size:42
Alignment explanation
Indices: 5629909--5630129 Score: 107
Period size: 42 Copynumber: 5.2 Consensus size: 42
5629899 GTTATCAGAT
5629909 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
5629951 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGTAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAGACA--A-AC
5629995 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
5630037 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGTAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAGACA--A-AC
*
5630081 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
5630123 CTTGCCT
1 CTTGCCT
5630130 CTCTCGTTTG
Statistics
Matches: 122, Mismatches: 37, Indels: 40
0.61 0.19 0.20
Matches are distributed among these distances:
40 2 0.02
41 30 0.25
42 31 0.25
43 4 0.03
44 23 0.19
45 30 0.25
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:5630158 original size:41 final size:41
Alignment explanation
Indices: 5629941--5630158 Score: 97
Period size: 41 Copynumber: 5.1 Consensus size: 41
5629931 GAAGCAGATC
* *
5629941 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
* * * * * * *
5629982 GAAGATAGTAGATCTTGCCT-TC-CTGCATTGACAGC-GAAGCAGATC
1 GAAGACA--A-ACCTTGCCTCTCTC-G-TTTG-TAGCAG-AGCTGGTT
* *
5630027 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
* * ** * * * *
5630068 GAAGATAGTAGATCTTGCCT-TC-CTGCACTGACAGC-GAAGCAGATC
1 GAAGACA--A-ACCTTGCCTCTCTC-G-TTTG-TAGCAG-AGCTGGTT
5630113 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
5630154 GAAGA
1 GAAGA
5630159 TATCAGATCT
Statistics
Matches: 121, Mismatches: 36, Indels: 40
0.61 0.18 0.20
Matches are distributed among these distances:
41 32 0.26
42 24 0.20
43 16 0.13
44 23 0.19
45 26 0.21
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (41 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
Found at i:5630393 original size:134 final size:134
Alignment explanation
Indices: 5630152--5630427 Score: 482
Period size: 134 Copynumber: 2.1 Consensus size: 134
5630142 GCAGAGCTGG
* * *
5630152 TTGAAGATATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATATCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
5630217 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGGCAGTGGAA
5630282 TAGA
131 TAGA
5630286 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGATAT-CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
*
5630350 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGGCAGTGGA
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGGCAGTGGA
5630415 ATAGA
130 ATAGA
5630420 TTGAAGAT
1 TTGAAGAT
5630428 CAAAGATGGC
Statistics
Matches: 135, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
133 1 0.01
134 134 0.99
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATATCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCATGTATTTGGCAGTGGAA
TAGA
Found at i:5630440 original size:95 final size:95
Alignment explanation
Indices: 5630329--5630617 Score: 560
Period size: 95 Copynumber: 3.0 Consensus size: 95
5630319 GCAGCGAAGC
5630329 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
5630394 CTCCATGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
5630424 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
5630489 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
5630519 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
5630584 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
5630614 AGAT
1 AGAT
5630618 TGCAGATCTT
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 192 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:5630665 original size:229 final size:229
Alignment explanation
Indices: 5630424--5631180 Score: 1424
Period size: 229 Copynumber: 3.3 Consensus size: 229
5630414 AATAGATTGA
*
5630424 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
5630489 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
5630554 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATT
131 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATT
5630619 GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
196 GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
5630653 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
5630718 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
*
5630783 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCTTGTATTTGGCAGTGGAATAGATTGAAGATT
131 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATT
5630848 GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
196 GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
5630882 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
5630947 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
* *
5631012 AGTGGAATACATTGAAGTCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATT
131 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATT
5631077 GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
196 GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
* ** * **
5631111 AGATCGAAGATGGCAGGTTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGATAGTTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
5631176 CTCCC
66 CTCCC
5631181 GTGGCGAAGT
Statistics
Matches: 517, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 517 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (229 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATT
GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
Found at i:5630768 original size:95 final size:95
Alignment explanation
Indices: 5630653--5630846 Score: 361
Period size: 95 Copynumber: 2.0 Consensus size: 95
5630643 GCAGCAAAGC
*
5630653 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
5630718 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
5630748 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
5630813 CTCCTTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
5630843 AGAT
1 AGAT
5630847 TGCAGATCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:5630790 original size:324 final size:324
Alignment explanation
Indices: 5630195--5630846 Score: 1232
Period size: 324 Copynumber: 2.0 Consensus size: 324
5630185 GCAGCGAAGC
* *
5630195 AGATCGAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
5630260 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
5630325 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
5630390 CTATCTCCATGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA
196 CTATCTCCATGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA
5630455 CCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
261 CCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
*
5630519 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
5630584 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
*
5630649 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
*
5630714 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA
196 CTATCTCCATGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA
* *
5630779 CTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCTTGTATTTGGCAGTGGAATAGATTGA
261 CCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
5630843 AGAT
1 AGAT
5630847 TGCAGATCTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
324 320 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (324 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCATGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA
CCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:5630967 original size:45 final size:45
Alignment explanation
Indices: 5630916--5631073 Score: 133
Period size: 45 Copynumber: 3.4 Consensus size: 45
5630906 TCCCTGACCA
*
5630916 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * * *
5630961 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
*
5631011 CAGTGGAATACATTGAAGTCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
5631056 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
5631074 ATTGCAGATC
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
42 11 0.13
43 2 0.02
44 1 0.01
45 33 0.39
46 3 0.04
47 1 0.01
49 3 0.04
50 17 0.20
51 1 0.01
52 2 0.02
53 11 0.13
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:5630989 original size:324 final size:318
Alignment explanation
Indices: 5630204--5631075 Score: 973
Period size: 324 Copynumber: 2.7 Consensus size: 318
5630194 CAGATCGAAG
* * *** * * * * * *
5630204 ATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTA
1 ATGGCAGATCTTACCTCCCTGACTACAGCAAAGCACATCGAAGACGACAACTCTACCTCCCTGTA
*** * ** * * * ** *
5630269 TTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC
66 -TCCACAGTGGAATACATTGAAGACCGCAGAACTTACCTCCCTGTATTTGGCAGAAAAGAAGATC
*
5630334 AAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCA
130 AAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCC
5630399 TGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGG
195 TGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGG
5630464 AGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
260 AGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
* *** * * * * *
5630523 CAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCC
1 -----ATGGCAGATCTTACCTCCCTGACTACAGCAAAGCACATCGAAGACGACAACTCTACCTCC
*** * ** * * * * *
5630588 CTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGC
61 CTGTA-TCCACAGTGGAATACATTGAAGACCGCAGAACTTACCTCCCTGTATTTGGCAGAAAAGA
*
5630653 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
125 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
5630718 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTAC
190 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCAC
*
5630783 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCTTGTATTTGGCAGTGGAATAGATTGAAGAT
255 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
* * * * * * * * *
5630847 -T-GCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCGAAGATGGCAGATTTTACCTCCC
1 ATGGCAGATCTTACCTCCCTG-A-CT-ACAGCAAAGCACATCGAAGACGACA-ACTCTACCTCCC
* * *
5630910 TG-A-CCACAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGGCAGTGGAATA
62 TGTATCCACAGTGGAATACATTGAAGACCGCAGAACT-TACCTCCCTGTATTTGGCA---GAA-A
* * *
5630971 GATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGTCGATAA
122 -A--GAAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAA
5631036 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
184 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
5631076 TGCAGATCTT
Statistics
Matches: 493, Mismatches: 43, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
316 4 0.01
317 32 0.06
318 18 0.04
319 1 0.00
320 17 0.03
321 12 0.02
322 1 0.00
324 408 0.83
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (318 bp):
ATGGCAGATCTTACCTCCCTGACTACAGCAAAGCACATCGAAGACGACAACTCTACCTCCCTGTA
TCCACAGTGGAATACATTGAAGACCGCAGAACTTACCTCCCTGTATTTGGCAGAAAAGAAGATCA
AAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
GTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGA
GTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
Found at i:5630997 original size:95 final size:95
Alignment explanation
Indices: 5630882--5631075 Score: 352
Period size: 95 Copynumber: 2.0 Consensus size: 95
5630872 GCAGCAAAGC
* *
5630882 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAATACATTGAAGCCGATAACTCTAT
5630947 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
5630977 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAATACATTGAAGTCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAATACATTGAAGCCGATAACTCTAT
5631042 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
5631072 AGAT
1 AGAT
5631076 TGCAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAATACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:5631332 original size:87 final size:88
Alignment explanation
Indices: 5631186--5631391 Score: 299
Period size: 87 Copynumber: 2.4 Consensus size: 88
5631176 CTCCCGTGGC
* * * *
5631186 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAATAGATCGAAGAT-GCAA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATCAAAGATAACAA
* *
5631250 ATTCTGTCTTCCTATATTGGTAG
66 ATCCGGTCTTCCTATATTGGTAG
* *
5631273 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATCAAAGATAACAA
*
5631338 GTCCGGTCTTCCTATATTGGTAG
66 ATCCGGTCTTCCTATATTGGTAG
* *
5631361 GAAGTGGATCGAAG-ATGCAGATCTTGTCTTC
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
5631392 CCACATTGGT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 72 0.67
88 35 0.33
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (88 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATCAAAGATAACAA
ATCCGGTCTTCCTATATTGGTAG
Found at i:5631455 original size:132 final size:131
Alignment explanation
Indices: 5631236--5631501 Score: 392
Period size: 132 Copynumber: 2.0 Consensus size: 131
5631226 GCGTGAAATA
* *
5631236 GATCGAAGATGCAAATTCTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGT
1 GATCGAAGATGCAAATTCTGTCTTCCCACATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGT
* *
5631301 CTTCATGTATTGGCATGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAGT
66 CTTCATGTATTGGCATGAAGTAGATCAAAGATAACAGATCCGGCCTTCCTATATTGGTAGGAAGT
5631366 G
131 G
* *
5631367 GATCGAAGATGCAGA-TCTTGTCTTCCCACATTGGTGGCGAAGTAGATCGAAGAAAGCATG-TCT
1 GATCGAAGATGCAAATTC-TGTCTTCCCACATTGGTAG-GAAGTAGATCGAAGAAAGCA-GATCT
* * * * *
5631430 TGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGCCTTCCTATATTTGTAGGA
63 TGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAACAGATCCGGCCTTCCTATATTGGTAGGA
5631495 AGTG
128 AGTG
5631499 GAT
1 GAT
5631502 TGAAAAACAG
Statistics
Matches: 121, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
130 2 0.02
131 30 0.25
132 88 0.73
133 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (131 bp):
GATCGAAGATGCAAATTCTGTCTTCCCACATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGT
CTTCATGTATTGGCATGAAGTAGATCAAAGATAACAGATCCGGCCTTCCTATATTGGTAGGAAGT
G
Found at i:5631497 original size:44 final size:44
Alignment explanation
Indices: 5631186--5631497 Score: 274
Period size: 44 Copynumber: 7.1 Consensus size: 44
5631176 CTCCCGTGGC
* * * * * *
5631186 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG-CG
1 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
* * *
5631229 TGAAATAGATCGAAGAT-GCAAATTCTGTCTTCCTATATTGGTAG
1 -GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
* * * * * *
5631273 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
* * * *
5631317 GAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
* * * * *
5631361 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCACATTGGTGG
1 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
* * * * *
5631404 CGAAGTAGATCGAAGAAAGCATG-TCTTGTCTTCATGTATTGG-CG
1 -GAAGTAGATCGAAGATAGCA-GATCCTGTCTTCCTATATTGGTAG
* *
5631448 TGAAGTAGATCGAAGATAGCAGATCCTGCCTTCCTATATTTGTAG
1 -GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
5631493 GAAGT
1 GAAGT
5631498 GGATTGAAAA
Statistics
Matches: 209, Mismatches: 52, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
43 53 0.25
44 136 0.65
45 19 0.09
46 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG
Found at i:5637798 original size:28 final size:26
Alignment explanation
Indices: 5637747--5637798 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
5637737 CAATGGCATA
**
5637747 GAAATAATATAAAAAAATGAATAAAC
1 GAAATAATATAAAAAAAACAATAAAC
5637773 GAAATTAATATACAAAAAAACAATAA
1 GAAA-TAATATA-AAAAAAACAATAA
5637799 TCCATGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 7 0.32
28 11 0.50
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (26 bp):
GAAATAATATAAAAAAAACAATAAAC
Found at i:5638208 original size:26 final size:26
Alignment explanation
Indices: 5638178--5638234 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
5638168 CTACATATAT
* *
5638178 ATATAGATTATAAAAAA-GATAATTAC
1 ATATAGA-TAAAAAAAATAATAATTAC
*
5638204 ATATATATAAAAAAAATAATAATTAC
1 ATATAGATAAAAAAAATAATAATTAC
5638230 ATATA
1 ATATA
5638235 TTGAAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (26 bp):
ATATAGATAAAAAAAATAATAATTAC
Found at i:5638395 original size:17 final size:17
Alignment explanation
Indices: 5638373--5638407 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5638363 TAGGAAATAA
* *
5638373 AAAATGTATATGTATAT
1 AAAATGTAAATATATAT
5638390 AAAATGTAAATATATAT
1 AAAATGTAAATATATAT
5638407 A
1 A
5638408 TGTATATAAA
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:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
AAAATGTAAATATATAT
Found at i:5638902 original size:23 final size:22
Alignment explanation
Indices: 5638872--5638914 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
5638862 AAATTAAATC
*
5638872 TCTAAGATTATATAATCATATAT
1 TCTAAGATTACAT-ATCATATAT
5638895 TCTAAGATTACATATCATAT
1 TCTAAGATTACATATCATAT
5638915 CTAAGATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (22 bp):
TCTAAGATTACATATCATATAT
Found at i:5638919 original size:19 final size:22
Alignment explanation
Indices: 5638872--5638922 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
5638862 AAATTAAATC
*
5638872 TCTAAGATTATATAATCATATAT
1 TCTAAGATTACATAATCA-ATAT
5638895 TCTAAGATTACAT-ATC-ATA-
1 TCTAAGATTACATAATCAATAT
5638914 TCTAAGATT
1 TCTAAGATT
5638923 GTATATCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
22 3 0.11
23 12 0.44
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (22 bp):
TCTAAGATTACATAATCAATAT
Found at i:5638928 original size:19 final size:21
Alignment explanation
Indices: 5638872--5638929 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
5638862 AAATTAAATC
5638872 TCTAAGATTATATAATCATATAT
1 TCTAAGATTATAT-ATCA-ATAT
*
5638895 TCTAAGATTACATATC-ATA-
1 TCTAAGATTATATATCAATAT
*
5638914 TCTAAGATTGTATATC
1 TCTAAGATTATATATC
5638930 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
20 3 0.09
22 3 0.09
23 12 0.38
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (21 bp):
TCTAAGATTATATATCAATAT
Found at i:5640241 original size:31 final size:30
Alignment explanation
Indices: 5640193--5640259 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 30
5640183 TTTGGCCCCC
5640193 AAATTTTATATTTTTAACTTATTATTGTAAA-A
1 AAATTTTATATTTTTAAC-T-TTA-TGTAAATA
5640225 AAATTTTAT-TTTTTAACTTTATGTAAATA
1 AAATTTTATATTTTTAACTTTATGTAAATA
5640254 AAATTT
1 AAATTT
5640260 AACTTAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
28 6 0.18
29 10 0.29
30 1 0.03
31 8 0.24
32 9 0.26
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (30 bp):
AAATTTTATATTTTTAACTTTATGTAAATA
Found at i:5640266 original size:5 final size:5
Alignment explanation
Indices: 5640258--5640291 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
5640248 TAAATAAAAT
5640258 TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
1 TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
5640292 AATTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAC
Found at i:5640361 original size:17 final size:17
Alignment explanation
Indices: 5640339--5640388 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
5640329 TAAAATAAAA
5640339 TTTTAAATAGTTTTAAC
1 TTTTAAATAGTTTTAAC
**
5640356 TTTTAAA-ATGTTTTAGT
1 TTTTAAATA-GTTTTAAC
5640373 TTTTAACATA-TTTTAA
1 TTTTAA-ATAGTTTTAA
5640389 AAAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.04
17 24 0.89
18 1 0.04
19 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTTAAATAGTTTTAAC
Found at i:5646096 original size:26 final size:26
Alignment explanation
Indices: 5646046--5646130 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 26
5646036 ACCCAAACCA
* * * *
5646046 GCGACCACAACTCACTAGACCCATTG
1 GCGACCCCAACTCGCTAGGCTCATTG
* * * *
5646072 GCGACCCCAACTTGCTATGTTCATTC
1 GCGACCCCAACTCGCTAGGCTCATTG
5646098 GCGACCCCAACTCGCTAGGCTCATTG
1 GCGACCCCAACTCGCTAGGCTCATTG
*
5646124 ACGACCC
1 GCGACCC
5646131 AAGCTCGGCA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.20
Consensus pattern (26 bp):
GCGACCCCAACTCGCTAGGCTCATTG
Found at i:5647098 original size:19 final size:19
Alignment explanation
Indices: 5647076--5647114 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
5647066 TAGTTAAGGG
*
5647076 TAATTAACGATTTAATTGA
1 TAATTAACGATGTAATTGA
**
5647095 TAATTAGGGATGTAATTGA
1 TAATTAACGATGTAATTGA
5647114 T
1 T
5647115 CATAGGCCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (19 bp):
TAATTAACGATGTAATTGA
Found at i:5653760 original size:31 final size:31
Alignment explanation
Indices: 5653724--5653854 Score: 142
Period size: 31 Copynumber: 4.3 Consensus size: 31
5653714 ATATACATAT
*
5653724 TCATATACTAATCAAATTCGACAATGTATAA
1 TCATATACTAATCAAATTCGGCAATGTATAA
** * *
5653755 TCATATAAAAATC-AATTTGGCAATGTAGAA
1 TCATATACTAATCAAATTCGGCAATGTATAA
* *
5653785 CCATATA-TGAATCAAGTTCGGCAATGTATAA
1 TCATATACT-AATCAAATTCGGCAATGTATAA
*
5653816 TCATAT-CCAAGTCAAATTCGGCAATGTATAA
1 TCATATACTAA-TCAAATTCGGCAATGTATAA
*
5653847 CCATATAC
1 TCATATAC
5653855 GAATTAATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
30 26 0.32
31 54 0.67
32 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (31 bp):
TCATATACTAATCAAATTCGGCAATGTATAA
Found at i:5653798 original size:61 final size:62
Alignment explanation
Indices: 5653725--5653858 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 62
5653715 TATACATATT
*
5653725 CATATACT-AATCAAATTCGACAATGTATAATCATATAAAAATC-AATTTGGCAATGTAGAAC
1 CATATA-TGAATCAAATTCGACAATGTATAATCATATAAAAATCAAATTCGGCAATGTAGAAC
* * ** * *
5653786 CATATATGAATCAAGTTCGGCAATGTATAATCATATCCAAGTCAAATTCGGCAATGTATAAC
1 CATATATGAATCAAATTCGACAATGTATAATCATATAAAAATCAAATTCGGCAATGTAGAAC
*
5653848 CATATACGAAT
1 CATATATGAAT
5653859 TAATTTGGGA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
60 1 0.02
61 36 0.57
62 26 0.41
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (62 bp):
CATATATGAATCAAATTCGACAATGTATAATCATATAAAAATCAAATTCGGCAATGTAGAAC
Found at i:5653907 original size:92 final size:92
Alignment explanation
Indices: 5653701--5653915 Score: 213
Period size: 92 Copynumber: 2.3 Consensus size: 92
5653691 CCAATGGTCA
* * *
5653701 AATCAATTT-AACAATATACATATTCATATACTAATCAAATTCGACAATGTATAATCATATAAAA
1 AATCAATTTCAACAATAT--ATAATCATATACCAATCAAATTCGACAATGTATAACCATATAAAA
5653765 ATCAATTTGGCAATGTAGAACCATATATG
64 ATCAATTTGGCAATGTAGAACCATATATG
* ** * * **
5653794 AATCAAGTTCGGCAATGTATAATCATAT-CCAAGTCAAATTCGGCAATGTATAACCATATACGAA
1 AATCAATTTCAACAATATATAATCATATACCAA-TCAAATTCGACAATGTATAACCATATAAAAA
* * * *
5653858 TTAATTTGGGAACT-TATATCCATATACT-
65 TCAATTTGGCAA-TGTAGAACCATATA-TG
* *
5653886 ATTCAATTTCAACAATATATAACCATATAC
1 AATCAATTTCAACAATATATAATCATATAC
5653916 AAATTAATTT
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
91 3 0.03
92 78 0.80
93 11 0.11
94 5 0.05
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (92 bp):
AATCAATTTCAACAATATATAATCATATACCAATCAAATTCGACAATGTATAACCATATAAAAAT
CAATTTGGCAATGTAGAACCATATATG
Found at i:5653925 original size:31 final size:29
Alignment explanation
Indices: 5653837--5653927 Score: 78
Period size: 31 Copynumber: 3.0 Consensus size: 29
5653827 TCAAATTCGG
*
5653837 CAATGTATAACCATATACGAATTAATTTGGGAA
1 CAAT-TATAACCATATAC-AATTAATTT--CAA
* *
5653870 C--TTATATCCATATACTATTCAATTTCAA
1 CAATTATAACCATATACAATT-AATTTCAA
5653898 CAATATATAACCATATACAAATTAATTTCA
1 CAAT-TATAACCATATAC-AATTAATTTCA
5653928 GTAAAGTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 3 0.06
29 3 0.06
30 18 0.38
31 20 0.42
32 3 0.06
33 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (29 bp):
CAATTATAACCATATACAATTAATTTCAA
Found at i:5653938 original size:31 final size:30
Alignment explanation
Indices: 5653836--5653938 Score: 75
Period size: 31 Copynumber: 3.4 Consensus size: 30
5653826 GTCAAATTCG
* *
5653836 GCAATGTATAACCATATACGAATTAATTT-G
1 GCAAAGTATAACCATATAC-AATTAATTTCA
* ** * *
5653866 GGAACTTATATCCATATACTATTCAATTTCA
1 GCAAAGTATAACCATATACAATT-AATTTCA
*
5653897 ACAATA-TATAACCATATACAAATTAATTTCA
1 GCAA-AGTATAACCATATAC-AATTAATTTCA
*
5653928 GTAAAGTATAA
1 GCAAAGTATAA
5653939 TTGTAATACC
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
29 3 0.05
30 21 0.38
31 28 0.51
32 3 0.05
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (30 bp):
GCAAAGTATAACCATATACAATTAATTTCA
Found at i:5653988 original size:14 final size:14
Alignment explanation
Indices: 5653969--5653997 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5653959 CCCGGGACCA
5653969 AATACATCAGGCCC
1 AATACATCAGGCCC
5653983 AATACATCAGGCCC
1 AATACATCAGGCCC
5653997 A
1 A
5653998 CCTAGACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.34, G:0.14, T:0.14
Consensus pattern (14 bp):
AATACATCAGGCCC
Found at i:5656224 original size:31 final size:30
Alignment explanation
Indices: 5656140--5656224 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
5656130 AACTTATCTT
* *
5656140 CATATACAAATTAATTTTGATAATGTATAAC
1 CATATACAAATTAATTTAG-CAATGTATAAC
* *
5656171 CATATACAAATAAATTTCAGCAATGTATAATT
1 CATATACAAATTAATTT-AGCAATGTATAA-C
* *
5656203 TATATACGAATTAATTTAGCAA
1 CATATACAAATTAATTTAGCAA
5656225 CTTATCAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
31 30 0.67
32 15 0.33
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (30 bp):
CATATACAAATTAATTTAGCAATGTATAAC
Found at i:5659141 original size:15 final size:15
Alignment explanation
Indices: 5659121--5659154 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
5659111 TTTAAACCTT
5659121 ACCACTCTTTCTAAA
1 ACCACTCTTTCTAAA
5659136 ACCA--CTTTCTAAA
1 ACCACTCTTTCTAAA
5659149 ACCACT
1 ACCACT
5659155 TGACCTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
13 13 0.76
15 4 0.24
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (15 bp):
ACCACTCTTTCTAAA
Found at i:5659145 original size:13 final size:13
Alignment explanation
Indices: 5659127--5659155 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5659117 CCTTACCACT
5659127 CTTTCTAAAACCA
1 CTTTCTAAAACCA
5659140 CTTTCTAAAACCA
1 CTTTCTAAAACCA
5659153 CTT
1 CTT
5659156 GACCTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (13 bp):
CTTTCTAAAACCA
Found at i:5659195 original size:34 final size:34
Alignment explanation
Indices: 5659152--5659222 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
5659142 TTCTAAAACC
5659152 ACTTGACCTAATAAATCATTATAAAACACAAATT
1 ACTTGACCTAATAAATCATTATAAAACACAAATT
5659186 ACTTGACCTAATAAATCATTATAAAACACAAATT
1 ACTTGACCTAATAAATCATTATAAAACACAAATT
5659220 ACT
1 ACT
5659223 AATTCAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (34 bp):
ACTTGACCTAATAAATCATTATAAAACACAAATT
Found at i:5661924 original size:50 final size:50
Alignment explanation
Indices: 5661865--5662026 Score: 175
Period size: 50 Copynumber: 3.2 Consensus size: 50
5661855 AGCCGTTGTA
* * *
5661865 GCTTTAATCTTTTTAATTGCAATATCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGATGTG
** ** * * * *
5661915 GCTTTAATCTACTCCACTGC-ATCGCCTGGGG-AGATAAGATTCACTGTTGTA
1 GCTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAG-TAAGATTCACCGATGTG
*
5661966 GCTTTAATCTTTTTAACTGCAATGTCGAGGAAGTAAGATTCACCGATGTG
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGATGTG
5662016 GCTTTAATCTT
1 GCTTTAATCTT
5662027 CTCCGCTACT
Statistics
Matches: 87, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
49 2 0.02
50 46 0.53
51 37 0.43
52 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (50 bp):
GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGATGTG
Found at i:5661954 original size:51 final size:50
Alignment explanation
Indices: 5661893--5662030 Score: 145
Period size: 51 Copynumber: 2.7 Consensus size: 50
5661883 GCAATATCGG
* *
5661893 GGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGC-ATCGCCTG-
1 GGAAGTAAGATTCACCGATGTGGCTTTAATCTTCTCCACTGCAAT-GCC-GA
* * * * * ** *
5661943 GGGAGATAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGA
1 GGAAG-TAAGATTCACCGATGTGGCTTTAATCTTCTCCACTGCAATGCCGA
5661994 GGAAGTAAGATTCACCGATGTGGCTTTAATCTTCTCC
1 GGAAGTAAGATTCACCGATGTGGCTTTAATCTTCTCC
5662031 GCTACTGCTT
Statistics
Matches: 68, Mismatches: 17, Indels: 6
0.75 0.19 0.07
Matches are distributed among these distances:
50 31 0.46
51 35 0.51
52 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
GGAAGTAAGATTCACCGATGTGGCTTTAATCTTCTCCACTGCAATGCCGA
Found at i:5663446 original size:15 final size:14
Alignment explanation
Indices: 5663419--5663453 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
5663409 TTAGCCTCTC
5663419 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
5663433 CATTTTTTCATTTTT
1 CATTTTTAC-TTTTT
5663448 CATTTT
1 CATTTT
5663454 CAATTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:5664930 original size:35 final size:35
Alignment explanation
Indices: 5664888--5664971 Score: 134
Period size: 35 Copynumber: 2.4 Consensus size: 35
5664878 GTATAAATTC
5664888 ATGAATAATTATTTGTACCATATGATTATGAATGA
1 ATGAATAATTATTTGTACCATATGATTATGAATGA
5664923 ATGAATAA-TAGTTTGTACCATATGATTATGAATGA
1 ATGAATAATTA-TTTGTACCATATGATTATGAATGA
* *
5664958 ATGGATAATCATTT
1 ATGAATAATTATTT
5664972 AGAAGAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 2 0.04
35 42 0.93
36 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (35 bp):
ATGAATAATTATTTGTACCATATGATTATGAATGA
Found at i:5676510 original size:9 final size:11
Alignment explanation
Indices: 5676486--5676510 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5676476 ATTTTTACAT
5676486 TATATAAATAA
1 TATATAAATAA
5676497 TATATAAATAA
1 TATATAAATAA
5676508 TAT
1 TAT
5676511 TACTTTCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATATAAATAA
Found at i:5680437 original size:24 final size:24
Alignment explanation
Indices: 5680389--5680437 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
5680379 GTAAATATCC
*
5680389 TTTAAAATAATTATTTATTTTATT
1 TTTAAAATAATTATTTATTTAATT
5680413 TTTAATAATAATCT-TTT-TTTAATT
1 TTTAA-AATAAT-TATTTATTTAATT
5680437 T
1 T
5680438 ACAAAGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 12 0.55
25 9 0.41
26 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTAAAATAATTATTTATTTAATT
Found at i:5688952 original size:15 final size:15
Alignment explanation
Indices: 5688932--5688962 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5688922 TCCAAATTGT
*
5688932 TTGTTGAAGCTTCCA
1 TTGTTGAAGATTCCA
5688947 TTGTTGAAGATTCCA
1 TTGTTGAAGATTCCA
5688962 T
1 T
5688963 AAAACATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (15 bp):
TTGTTGAAGATTCCA
Found at i:5690861 original size:16 final size:16
Alignment explanation
Indices: 5690840--5690878 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5690830 AACGTATACA
5690840 TATATATACATACTTT
1 TATATATACATACTTT
*
5690856 TATATATACATGCTTT
1 TATATATACATACTTT
*
5690872 CATATAT
1 TATATAT
5690879 CTCCATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:5690878 original size:34 final size:35
Alignment explanation
Indices: 5690838--5690926 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 35
5690828 ATAACGTATA
*
5690838 CATATATATACATACTTTTATATATACATGC-TTT
1 CATATATATACATACTTTTATATATACATGCATAT
* * * * *
5690872 CATATATCTCCATAATTTTATGTATATATGCATAT
1 CATATATATACATACTTTTATATATACATGCATAT
*
5690907 -ATATATATATATATCTTTTA
1 CATATATATACATA-CTTTTA
5690927 CATTTCTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
34 36 0.84
35 7 0.16
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (35 bp):
CATATATATACATACTTTTATATATACATGCATAT
Found at i:5692337 original size:12 final size:12
Alignment explanation
Indices: 5692320--5692359 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
5692310 TTTTGAACCT
*
5692320 CTGCTTCTATCG
1 CTGCTTCTCTCG
5692332 CTGCTTCTCTCG
1 CTGCTTCTCTCG
5692344 CTGCTTCTCTCG
1 CTGCTTCTCTCG
5692356 CTGC
1 CTGC
5692360 AGCATTTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.03, C:0.40, G:0.17, T:0.40
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:5693932 original size:5 final size:5
Alignment explanation
Indices: 5693922--5693978 Score: 73
Period size: 5 Copynumber: 11.2 Consensus size: 5
5693912 AATTATGTTT
5693922 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATTA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA
5693972 TGTATA T
1 T-TATA T
5693979 GACAAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 28 0.60
6 15 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:5694044 original size:40 final size:40
Alignment explanation
Indices: 5693987--5694082 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
5693977 ATGACAAAGA
5693987 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
5694028 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
5694068 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
5694083 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:5695493 original size:41 final size:39
Alignment explanation
Indices: 5695445--5695556 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
5695435 TCGACCTTGA
5695445 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
5695485 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
5695523 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
5695557 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:5696626 original size:25 final size:24
Alignment explanation
Indices: 5696533--5696625 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 24
5696523 GGAGTTTAGC
5696533 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGA-TATTAGCACATCA
*
5696558 GTGCTCTCTG-T-TTAGCACATCG
1 GTGCTCTCTGATATTAGCACATCA
*
5696580 GTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATA-TTAGCACATCA
5696605 GTGCTCTCTGAATATTAGCAC
1 GTGCTCTCTG-ATATTAGCAC
5696626 GCTCTCTGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
22 20 0.33
23 2 0.03
25 36 0.59
26 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
GTGCTCTCTGATATTAGCACATCA
Found at i:5697593 original size:13 final size:13
Alignment explanation
Indices: 5697577--5697604 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5697567 CGATTTCTTC
5697577 TGGGTATTCTATA
1 TGGGTATTCTATA
5697590 TGGGTATTCTATA
1 TGGGTATTCTATA
5697603 TG
1 TG
5697605 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:5697929 original size:24 final size:24
Alignment explanation
Indices: 5697897--5697945 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
5697887 AGTGATATTC
5697897 TTCTTTTGGATTTTCTCTGGGATA
1 TTCTTTTGGATTTTCTCTGGGATA
*
5697921 TTCTTTTGGATTTTTTCTGGGATA
1 TTCTTTTGGATTTTCTCTGGGATA
5697945 T
1 T
5697946 CATCGATCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.10, G:0.20, T:0.57
Consensus pattern (24 bp):
TTCTTTTGGATTTTCTCTGGGATA
Found at i:5699598 original size:5 final size:5
Alignment explanation
Indices: 5699588--5699654 Score: 93
Period size: 5 Copynumber: 13.2 Consensus size: 5
5699578 AATTATGTTT
5699588 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
5699637 TTATTA TTATA TATATA T
1 TTA-TA TTATA T-TATA T
5699655 GACAAAGAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 38 0.67
6 15 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:5699604 original size:3 final size:3
Alignment explanation
Indices: 5699591--5699646 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
5699581 TATGTTTTTA
*
5699591 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5699633 TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
5699647 ATATATATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
2 14 0.31
3 31 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:5699720 original size:40 final size:40
Alignment explanation
Indices: 5699663--5699758 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
5699653 ATGACAAAGA
5699663 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
5699704 AAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
5699744 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
5699759 GAAAGAAAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 34 0.65
41 18 0.35
ACGTcount: A:0.65, C:0.08, G:0.27, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:5701171 original size:41 final size:39
Alignment explanation
Indices: 5701123--5701234 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
5701113 TCGACCTTGA
5701123 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
5701163 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
5701201 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
5701235 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:5704855 original size:25 final size:25
Alignment explanation
Indices: 5704781--5704880 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
5704771 TATATATTTA
* **
5704781 TGTATTAAGTAAATTATGTAAGTAA
1 TGTATTAAGTAACTTATGTAAGTTG
* * *
5704806 TGTACGTGT-A-TAAGTTATTTAAGTTT
1 TGTA--T-TAAGTAACTTATGTAAGTTG
5704832 TGTATTAAGTAAAC-TATGTAAGTTG
1 TGTATTAAGT-AACTTATGTAAGTTG
*
5704857 TGTATTATGTAACTTATGTAAGTT
1 TGTATTAAGTAACTTATGTAAGTT
5704881 ATCAAAGCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.02
24 5 0.08
25 33 0.55
26 18 0.30
27 2 0.03
28 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (25 bp):
TGTATTAAGTAACTTATGTAAGTTG
Found at i:5704949 original size:9 final size:9
Alignment explanation
Indices: 5704789--5705039 Score: 148
Period size: 9 Copynumber: 28.8 Consensus size: 9
5704779 TATGTATTAA
*
5704789 GTAAATTAT
1 GTAAGTTAT
*
5704798 GTAAGTAAT
1 GTAAGTTAT
*
5704807 GTACGTGTA-
1 GTAAGT-TAT
5704816 -TAAGTTAT
1 GTAAGTTAT
* *
5704824 TTAAGTTTT
1 GTAAGTTAT
*
5704833 GT-A-TTAA
1 GTAAGTTAT
**
5704840 GTAAACTAT
1 GTAAGTTAT
*
5704849 GTAAGTTGT
1 GTAAGTTAT
5704858 GT-A-TTAT
1 GTAAGTTAT
*
5704865 GTAACTTAT
1 GTAAGTTAT
5704874 GTAAGTTAT
1 GTAAGTTAT
** **
5704883 CAAAGCAAT
1 GTAAGTTAT
*
5704892 GTATGTTAT
1 GTAAGTTAT
5704901 GTAAG-T-T
1 GTAAGTTAT
5704908 GTAAGTTAT
1 GTAAGTTAT
*
5704917 -TATGTATTAT
1 GTAAG--TTAT
* * *
5704927 ATAACTTCT
1 GTAAGTTAT
5704936 GTAAGTTAT
1 GTAAGTTAT
5704945 GTAAGTTAT
1 GTAAGTTAT
*
5704954 GTAAGTTGT
1 GTAAGTTAT
*
5704963 GTAAGCTAT
1 GTAAGTTAT
* *
5704972 TTCAGTTAT
1 GTAAGTTAT
5704981 GTAAGCTT-T
1 GTAAG-TTAT
5704990 GT-A-TTAT
1 GTAAGTTAT
5704997 GTAAGTTAT
1 GTAAGTTAT
*
5705006 GTAGGTTAT
1 GTAAGTTAT
*
5705015 GTAAGTTGT
1 GTAAGTTAT
*
5705024 GTAAATTAT
1 GTAAGTTAT
5705033 GTAAGTT
1 GTAAGTT
5705040 CTTGTACATA
Statistics
Matches: 179, Mismatches: 47, Indels: 32
0.69 0.18 0.12
Matches are distributed among these distances:
6 2 0.01
7 20 0.11
8 15 0.08
9 133 0.74
10 7 0.04
11 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:5705253 original size:53 final size:53
Alignment explanation
Indices: 5705184--5705586 Score: 220
Period size: 53 Copynumber: 7.6 Consensus size: 53
5705174 TTTATAGCGG
*
5705184 GTAATGTATTTAAGTAACATACTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * * *
5705237 TTAATGTATCTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * * * ** *
5705290 GTAATGTATTTAAGTAACTTATTTAAGTAATATATTAAAGTAATATATTA--AGA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAA-ATTTTAGTA-A
* * ** * * * * *
5705343 GTAA--AATTT-AGTAAAAAATATGTTTTATTTATTAATATTGTAA-GACA---T-CTAA
1 GTAATGTATTTAAGT--AACATA---TTTAAGTA-AAAAATT-TAACCAAATTTTAGTAA
* * * * * ** * * ***
5705395 --AATATACTTAA-AAATATTTACTTAAGTAATGTAATATATACTTAAATTTATAGCGG
1 GTAATGTATTTAAGTAACA--TATTTAAGTAA-AAAATTTA-AC-CAAATTT-TAGTAA
5705451 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * * * *
5705504 TTAATATATCTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
**
5705557 GTAATGTATTTAAGTAATGTATTTAAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAA
5705587 CTTATTTAAG
Statistics
Matches: 256, Mismatches: 66, Indels: 56
0.68 0.17 0.15
Matches are distributed among these distances:
48 2 0.01
49 8 0.03
50 8 0.03
51 6 0.02
52 12 0.05
53 164 0.64
54 11 0.04
55 10 0.04
56 11 0.04
57 12 0.05
58 9 0.04
59 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.39
Consensus pattern (53 bp):
GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:5705305 original size:13 final size:13
Alignment explanation
Indices: 5705287--5705338 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
5705277 GAAATTTTAG
*
5705287 TAAGTAATGTATT
1 TAAGTAATATATT
5705300 TAAGTAACT-TATT
1 TAAGTAA-TATATT
5705313 TAAGTAATATATT
1 TAAGTAATATATT
*
5705326 AAAGTAATATATT
1 TAAGTAATATATT
5705339 AAGAGTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 1 0.03
13 34 0.94
14 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:5705339 original size:13 final size:13
Alignment explanation
Indices: 5705288--5705346 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
5705278 AAATTTTAGT
* *
5705288 AAGTAATGTATTT
1 AAGTAATATATTA
*
5705301 AAGTAACT-TATTT
1 AAGTAA-TATATTA
5705314 AAGTAATATATTA
1 AAGTAATATATTA
5705327 AAGTAATATATTA
1 AAGTAATATATTA
5705340 AGAGTAA
1 A-AGTAA
5705347 AATTTAGTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
12 1 0.02
13 35 0.83
14 6 0.14
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (13 bp):
AAGTAATATATTA
Found at i:5705473 original size:13 final size:13
Alignment explanation
Indices: 5705451--5705618 Score: 101
Period size: 13 Copynumber: 12.8 Consensus size: 13
5705441 TTTATAGCGG
*
5705451 GTAATGTATTTAA
1 GTAATATATTTAA
*
5705464 GTAACATATTTAA
1 GTAATATATTTAA
* *
5705477 GTAAAAAATTTAA
1 GTAATATATTTAA
** *
5705490 CCAA-ATTTTAGTAA
1 GTAATATATT--TAA
* * *
5705504 TTAATATATCTGA
1 GTAATATATTTAA
*
5705517 GTAACATATTTAA
1 GTAATATATTTAA
* *
5705530 GTAAAAAATTTAA
1 GTAATATATTTAA
*
5705543 CG-AA-ATTTTAGTAA
1 -GTAATATATT--TAA
*
5705557 GTAATGTATTTAA
1 GTAATATATTTAA
*
5705570 GTAATGTATTTAA
1 GTAATATATTTAA
5705583 GTAACT-TATTTAA
1 GTAA-TATATTTAA
*
5705596 GTAATATATTCAA
1 GTAATATATTTAA
5705609 GTAATATATT
1 GTAATATATT
5705619 AAGAGTCAAA
Statistics
Matches: 121, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
12 7 0.06
13 96 0.79
14 12 0.10
15 6 0.05
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (13 bp):
GTAATATATTTAA
Found at i:5706184 original size:17 final size:18
Alignment explanation
Indices: 5706156--5706191 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
5706146 CAGTCAACAG
5706156 AAAATAGCAAAACAGAAA
1 AAAATAGCAAAACAGAAA
*
5706174 AAAATAG-AAAATAGAAA
1 AAAATAGCAAAACAGAAA
5706191 A
1 A
5706192 CAAAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.75, C:0.06, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAATAGCAAAACAGAAA
Found at i:5706205 original size:29 final size:29
Alignment explanation
Indices: 5706164--5706244 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
5706154 AGAAAATAGC
*
5706164 AAAACAGAAAAAAATAGAAAATAGAAAACA-A
1 AAAACAG--AAAAATA-AAAATAAAAAACATA
*
5706195 AAAACAGAAAAATATAAAACAAAAAACATA
1 AAAACAGAAAAATA-AAAATAAAAAACATA
* *
5706225 AAATAAAGAAACATAAAAAT
1 AAA-ACAGAAAAATAAAAAT
5706245 GGTACGGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
29 18 0.43
30 8 0.19
31 16 0.38
ACGTcount: A:0.77, C:0.07, G:0.06, T:0.10
Consensus pattern (29 bp):
AAAACAGAAAAATAAAAATAAAAAACATA
Found at i:5706206 original size:22 final size:22
Alignment explanation
Indices: 5706151--5706227 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
5706141 CACTTCAGTC
5706151 AACAG-AAAATAGCAAAACAGAAA
1 AACAGAAAAATAG-AAAACA-AAA
* *
5706174 AAAATAGAAAATAGAAAACAAAA
1 AACAGA-AAAATAGAAAACAAAA
*
5706197 AACAGAAAAATATAAAACAAAA
1 AACAGAAAAATAGAAAACAAAA
*
5706219 AACATAAAA
1 AACAGAAAA
5706228 TAAAGAAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
22 23 0.50
23 10 0.22
24 6 0.13
25 7 0.15
ACGTcount: A:0.75, C:0.09, G:0.08, T:0.08
Consensus pattern (22 bp):
AACAGAAAAATAGAAAACAAAA
Found at i:5706214 original size:15 final size:15
Alignment explanation
Indices: 5706151--5706227 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 15
5706141 CACTTCAGTC
*
5706151 AACAG-AAAATAGCAA
1 AACAGAAAAATA-TAA
*
5706166 AACAGAAAAAAATAGAA
1 AACAG--AAAAATATAA
*
5706183 AATAGAAAACA-A-AA
1 AACAGAAAA-ATATAA
5706197 AACAGAAAAATATAA
1 AACAGAAAAATATAA
*
5706212 AACA-AAAAACATAA
1 AACAGAAAAATATAA
5706226 AA
1 AA
5706228 TAAAGAAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
13 1 0.02
14 22 0.42
15 16 0.31
16 1 0.02
17 6 0.12
18 6 0.12
ACGTcount: A:0.75, C:0.09, G:0.08, T:0.08
Consensus pattern (15 bp):
AACAGAAAAATATAA
Found at i:5706236 original size:15 final size:14
Alignment explanation
Indices: 5706188--5706242 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
5706178 TAGAAAATAG
*
5706188 AAAACAAAAAACAGA
1 AAAACATAAAACA-A
*
5706203 AAAATATAAAACAA
1 AAAACATAAAACAA
*
5706217 AAAACATAAAATAA
1 AAAACATAAAACAA
5706231 AGAAACATAAAA
1 A-AAACATAAAA
5706243 ATGGTACGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.40
15 21 0.60
ACGTcount: A:0.78, C:0.09, G:0.04, T:0.09
Consensus pattern (14 bp):
AAAACATAAAACAA
Found at i:5706236 original size:22 final size:21
Alignment explanation
Indices: 5706172--5706243 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
5706162 GCAAAACAGA
* * *
5706172 AAAAAATAGAAAATAGAAAAC
1 AAAAAACAAAAAATAAAAAAC
*
5706193 AAAAAACAGAAAAATATAAAAC
1 AAAAAACA-AAAAATAAAAAAC
*
5706215 AAAAAACATAAAATAAAGAAAC
1 AAAAAACAAAAAATAAA-AAAC
5706237 ATAAAAA
1 A-AAAAA
5706244 TGGTACGGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
21 14 0.33
22 24 0.56
23 5 0.12
ACGTcount: A:0.78, C:0.07, G:0.06, T:0.10
Consensus pattern (21 bp):
AAAAAACAAAAAATAAAAAAC
Found at i:5706964 original size:27 final size:27
Alignment explanation
Indices: 5706934--5706989 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
5706924 CAATTTGAAC
* *
5706934 TTACAAGTTTTGAATAGTGCTGTAGTG
1 TTACAAGTTTTGAACAGTGCTATAGTG
5706961 TTACAAGTTTTGAACAGTGCTATAGTG
1 TTACAAGTTTTGAACAGTGCTATAGTG
5706988 TT
1 TT
5706990 CAGTTCCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (27 bp):
TTACAAGTTTTGAACAGTGCTATAGTG
Found at i:5707897 original size:198 final size:197
Alignment explanation
Indices: 5707536--5707960 Score: 654
Period size: 197 Copynumber: 2.2 Consensus size: 197
5707526 TAATTAACCT
5707536 ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
* * * *
5707601 TAACTCAAAGTCATTGCGTTTTAGAGAAAACGGCATCATCTCCAAAAAATTAAAAAAATTTTGCG
66 TAACTAAAACTCATGGCATTTTAGAGAAAACGGCATCATCTCCAAAAAATTAAAAAAATTTTGCG
*
5707666 GCGTTTACTAAAAACGCCACTAAAAGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTG
131 GCGTTTACTAAAAACGCCACTAAAAGTAAATAAGAAAACGAAGCCGTTTGCCTAAACAATTTCTG
5707731 TA
196 TA
* * * *
5707733 ATTTGTGGCGTTTATATACCAGTGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATTAGT
1 ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
* ** *
5707798 TAACTAAAACTCATGGCATTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACCATTTTGT
66 TAACTAAAACTCATGGCATTTTAGAGAAAACGGCATCATCTCCA-AAAAATTAAAAAAATTTTGC
* *
5707863 GGCGTTTACTAAAAGCGCCACT-AAAGTTAAATAAGAAAACGGAGCCGTTTGCCTAAACAATTTC
130 GGCGTTTACTAAAAACGCCACTAAAAG-TAAATAAGAAAACGAAGCCGTTTGCCTAAACAATTTC
5707927 TGTA
194 TGTA
* * * *
5707931 AATTGCGGCATTTATACATAAGCGCCACTA
1 ATTTGCGGCGTTTATATACAAGCGCCACTA
5707961 AATATTAGGC
Statistics
Matches: 204, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
197 104 0.51
198 100 0.49
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (197 bp):
ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
TAACTAAAACTCATGGCATTTTAGAGAAAACGGCATCATCTCCAAAAAATTAAAAAAATTTTGCG
GCGTTTACTAAAAACGCCACTAAAAGTAAATAAGAAAACGAAGCCGTTTGCCTAAACAATTTCTG
TA
Found at i:5708414 original size:47 final size:47
Alignment explanation
Indices: 5708326--5708417 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
5708316 GTTAATTTCG
* **
5708326 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
5708373 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
5708418 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:5708459 original size:24 final size:24
Alignment explanation
Indices: 5708414--5708459 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
5708404 AATTTTAGTT
* *
5708414 TTTTTATTTCTTTTTTATTTTTTA
1 TTTTCATTTCTTTTTTAATTTTTA
5708438 TTTTCATTT-TTTTTGTAATTTT
1 TTTTCATTTCTTTTT-TAATTTT
5708460 GACAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTCATTTCTTTTTTAATTTTTA
Done.