Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 217 of 253
Found at i:71471879 original size:9 final size:9
Alignment explanation
Indices: 71471865--71471940 Score: 61
Period size: 9 Copynumber: 8.4 Consensus size: 9
71471855 TAAACAATAT
71471865 TTTTTATAA
1 TTTTTATAA
*
71471874 TTTTTATAC
1 TTTTTATAA
71471883 TTTTTAATAA
1 TTTTT-ATAA
* *
71471893 TTTTAATAC
1 TTTTTATAA
71471902 TTTTT-T-A
1 TTTTTATAA
71471909 TTTTTAAATAA
1 TTTTT--ATAA
71471920 TTTTT-TGAA
1 TTTTTAT-AA
71471929 TTTTTA-AA
1 TTTTTATAA
71471937 TTTT
1 TTTT
71471941 AAAAAATTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
7 5 0.09
8 8 0.15
9 27 0.50
10 8 0.15
11 6 0.11
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:71471886 original size:19 final size:19
Alignment explanation
Indices: 71471860--71471909 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
71471850 AAACTTAAAC
71471860 AATA-TTTTTTATAATTTT
1 AATACTTTTTTATAATTTT
* *
71471878 TATACTTTTTAATAATTTT
1 AATACTTTTTTATAATTTT
71471897 AATACTTTTTTAT
1 AATACTTTTTTAT
71471910 TTTTAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
AATACTTTTTTATAATTTT
Found at i:71471932 original size:27 final size:26
Alignment explanation
Indices: 71471860--71471948 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
71471850 AAACTTAAAC
*
71471860 AATATTTTTTATAATTTTTATACTTTTT-
1 AATAATTTTT-TAATTTTT-TA-TTTTTA
* *
71471888 AATAATTTTAATACTTTTTTATTTTTA
1 AATAATTTT-TTAATTTTTTATTTTTA
* *
71471915 AATAATTTTTTGAATTTTTAAATTTTA
1 AATAATTTTTT-AATTTTTTATTTTTA
*
71471942 AAAAATT
1 AATAATT
71471949 AATTACTGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 6 0.12
27 29 0.58
28 15 0.30
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (26 bp):
AATAATTTTTTAATTTTTTATTTTTA
Found at i:71478804 original size:21 final size:21
Alignment explanation
Indices: 71478778--71478820 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
71478768 AAAAGATAAA
71478778 TGAGTTCATTTTCTTTTTGCT
1 TGAGTTCATTTTCTTTTTGCT
71478799 TGAGTTCATTTTCTTTTTGCT
1 TGAGTTCATTTTCTTTTTGCT
71478820 T
1 T
71478821 ATTTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (21 bp):
TGAGTTCATTTTCTTTTTGCT
Found at i:71481275 original size:28 final size:29
Alignment explanation
Indices: 71481234--71481292 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
71481224 AGTAAAAAAC
*
71481234 TTAATAAATAATAGAAATAAAAGAT-GAAA
1 TTAATAAAGAATAGAAATAAAAG-TGGAAA
* *
71481263 TTAA-AAAGAATAGCATTAAAAGTGGAAA
1 TTAATAAAGAATAGAAATAAAAGTGGAAA
71481291 TT
1 TT
71481293 TATTGAGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 21 0.81
29 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (29 bp):
TTAATAAAGAATAGAAATAAAAGTGGAAA
Found at i:71485803 original size:33 final size:34
Alignment explanation
Indices: 71485743--71485809 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
71485733 AATATATGAT
* **
71485743 AAAATTATACTTTAATCCTTCCCAAAT-ATGAAA
1 AAAATTATACTTTAACCCTTCAAAAATAATGAAA
71485776 AAAATTATA-TTTAACCCCTTCAAAAATAATGAAA
1 AAAATTATACTTTAA-CCCTTCAAAAATAATGAAA
71485810 TTATAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 5 0.17
33 18 0.62
34 6 0.21
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.31
Consensus pattern (34 bp):
AAAATTATACTTTAACCCTTCAAAAATAATGAAA
Found at i:71486939 original size:127 final size:125
Alignment explanation
Indices: 71486678--71487192 Score: 349
Period size: 128 Copynumber: 3.8 Consensus size: 125
71486668 GATGATAATG
* ** * *
71486678 ATAATAATACTAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATGTTAAAATA
1 ATAATAATAATAATAATAATAATGAAATACAAAAAAAAAGCAAATATAATAAAAATATTAAAATA
* * * * * *
71486743 AAGTAATTAAAAATAGTATTATATATAAATATATATACGTATATAATAAAAATATACACTA
66 AAGTAATTAAAAATAATACTATATATAAATATAAATACG-ATATAATAAAAATAAAAAATA
* * *
71486804 ATAATAATAATAATAATAATATTGAAATACAAAAAGCAAATG-TAATATAATAAAAATATTAAAA
1 ATAATAATAATAATAATAATAATGAAATACAAAAA--AAAAGCAAATATAATAAAAATATTAAAA
* *
71486868 TAAAGTAATTAAAAAATAATACTATGTATAAATATAAATAC-ATATACATATATAATAAAAAATA
64 TAAAGTAATT-AAAAATAATACTATATATAAATATAAATACGATATA-ATA-AAAATAAAAAATA
*
71486932 TACTAATATTAGTAGTAATAATAATAATAAT-AATAGTAATAATATTGAAATATAAAAAGCAAAT
1 -A-T-A-A-TA--A-TAATAATAATAATAATGAA-A-T-ACAA-A---AAA-----AAAGCAAAT
*
71486996 ATAATATCATAATAATATTAAAATAAAGTAATTAAAAATAATACTGTATATAAATATATATATA-
46 AT-A-AT-A-AA-AATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATA-A-ATAC
* *
71487060 TATATGTACATATATAATAAAAATATA
104 GATA--TA-ATA-AAAATAAAAA-ATA
* * **
71487087 CACTAATAATAATGATAATAGTAAT-AATATTGAAATACAAAAAGCAAATATAATAAAAATATTA
1 -A-TAATAATAATAATAATAATAATGAA-ATACAAA-A-AAAAAGCAAATATAATAAAAATATTA
* * *
71487151 AAATAAAGTAATAAAAAATACTA-TATATATACATATATAATA
61 AAATAAAGTAATTAAAAATAATACTATATATAAATATA-AATA
71487193 AAAATATACA
Statistics
Matches: 319, Mismatches: 32, Indels: 69
0.76 0.08 0.16
Matches are distributed among these distances:
126 36 0.11
127 32 0.10
128 39 0.12
129 1 0.00
130 1 0.00
131 1 0.00
132 1 0.00
133 5 0.02
134 14 0.04
135 31 0.10
136 18 0.06
137 2 0.01
138 5 0.02
139 2 0.01
140 12 0.04
142 2 0.01
144 1 0.00
145 5 0.02
146 6 0.02
147 3 0.01
148 3 0.01
149 19 0.06
150 26 0.08
151 21 0.07
152 8 0.03
153 1 0.00
154 18 0.06
155 6 0.02
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (125 bp):
ATAATAATAATAATAATAATAATGAAATACAAAAAAAAAGCAAATATAATAAAAATATTAAAATA
AAGTAATTAAAAATAATACTATATATAAATATAAATACGATATAATAAAAATAAAAAATA
Found at i:71487001 original size:151 final size:143
Alignment explanation
Indices: 71486773--71487193 Score: 483
Period size: 151 Copynumber: 3.0 Consensus size: 143
71486763 ATATATAAAT
* * * *
71486773 ATATATACGTATATAATAAAAATATACACTAATAATAATAAT-A-A-TAATAATATTGAAATACA
1 ATATATACATAAAAAATAAAAATATACAATAATAATAATAATAATAGTAATAATATTGAAATACA
*
71486835 AAAAGCAAATGTAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATGTATAAA
66 AAAAGCAAAT-TAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATATATAAA
71486900 TATAAATACATATAC
130 TATAAATA-ATATAC
*
71486915 ATATATA-ATAAAAAATATACTAATATTAGTAGTAATAATAATAATAATAATAGTAATAATATTG
1 ATATATACATAAAAAATA-A--AA-A-TA-TA-CAATAATAATAATAATAATAGTAATAATATTG
* * * *
71486979 AAATATAAAAAGCAAATATAATATCATAATAATATTAAAATAAAGTAATT-AAAAATAATACTGT
59 AAATACAAAAAGCAAAT-TAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTAT
*
71487043 ATATAAATAT--AT-ATATAT
123 ATATAAATATAAATAATATAC
* * * * *
71487061 ATATGTACATATATAATAAAAATATACACTAATAATAATGATAATAGTAATAATATTGAAATACA
1 ATATATACATAAAAAATAAAAATATACAATAATAATAATAATAATAGTAATAATATTGAAATACA
* *
71487126 AAAAGC--A--AATATAATAAAAATATTAAAATAAAGTAA-TAAAAAATACTA-TATATATACAT
66 AAAAGCAAATTAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATATATAAAT
71487185 ATATAATAA
131 ATA-AATAA
71487194 AAATATACAC
Statistics
Matches: 239, Mismatches: 24, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
134 12 0.05
135 36 0.15
137 2 0.01
138 2 0.01
140 41 0.17
141 9 0.04
142 10 0.04
143 1 0.00
144 4 0.02
145 1 0.00
146 14 0.06
147 10 0.04
148 16 0.07
149 1 0.00
150 23 0.10
151 57 0.24
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (143 bp):
ATATATACATAAAAAATAAAAATATACAATAATAATAATAATAATAGTAATAATATTGAAATACA
AAAAGCAAATTAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATATATAAAT
ATAAATAATATAC
Found at i:71487022 original size:278 final size:280
Alignment explanation
Indices: 71486672--71487192 Score: 713
Period size: 277 Copynumber: 1.9 Consensus size: 280
71486662 AATAATGATG
* * *
71486672 ATAATGATAATAATACTAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATGTT
1 ATAATAATAATAATAATAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATATT
*
71486737 AAAATAAAGTAATT-AAA-AATA-GTAT-T-ATATATA-A-ATATATATACGTATATAATAAAAA
66 AAAATAAAGTAATTAAAATAATACGTATATAATATATATATATATATATACATATATAATAAAAA
71486795 TATACACTAATAAT-A-ATAATAATAATAATATTGAAATACAAAAAGCAAATGTAATATAATAAA
131 TATACACTAATAATAAGATAATAATAATAATATTGAAATACAAAAAGC--A---AATATAATAAA
*
71486858 AATATTAAAATAAAGTAATTAAAAAATAATACTATGTATAAATATA-AATACATATACATATATA
191 AATATTAAAATAAAGTAA-TAAAAAATAATA-TATATATAAATATATAATACATATACATATATA
71486922 ATAAAAAATATACTAATATTAGTAGTA
254 ATAAAAAATATACTAATATTAGTAGTA
* * * * * *
71486949 ATAATAATAATAATAATAGTAATAATATTGAAATATAAAAAGCAAA-TATAATATCATAATAATA
1 ATAATAATAATAATAATAGCAATAATAATGAAATACAAAAA-AAAAGCA-AATATAATAATAATA
*
71487013 TTAAAATAAAGTAATTAAAAATAATACTGTATATAAATATATATATATATATGTACATATATAAT
64 TTAAAATAAAGTAATT-AAAATAATAC-GTATAT-AATATATATATATATATATACATATATAAT
*
71487078 AAAAATATACACTAATAATAATGATAATAGTAATAATATTGAAATACAAAAAGCAAATATAATAA
126 AAAAATATACACTAATAATAA-GATAATAATAATAATATTGAAATACAAAAAGCAAATATAATAA
* *
71487143 AAATATTAAAATAAAGTAATAAAAAATACTATATATATACATATATAATA
190 AAATATTAAAATAAAGTAATAAAAAATAATATATATATAAATATATAATA
71487193 AAAATATACA
Statistics
Matches: 213, Mismatches: 15, Indels: 24
0.85 0.06 0.10
Matches are distributed among these distances:
277 37 0.17
278 32 0.15
280 3 0.01
281 4 0.02
283 4 0.02
284 13 0.06
285 15 0.07
286 36 0.17
287 1 0.00
288 36 0.17
289 2 0.01
291 30 0.14
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (280 bp):
ATAATAATAATAATAATAGCAATAATAATGAAATACAAAAAAAAAGCAAATATAATAATAATATT
AAAATAAAGTAATTAAAATAATACGTATATAATATATATATATATATATACATATATAATAAAAA
TATACACTAATAATAAGATAATAATAATAATATTGAAATACAAAAAGCAAATATAATAAAAATAT
TAAAATAAAGTAATAAAAAATAATATATATATAAATATATAATACATATACATATATAATAAAAA
ATATACTAATATTAGTAGTA
Found at i:71487099 original size:140 final size:138
Alignment explanation
Indices: 71486762--71487259 Score: 521
Period size: 135 Copynumber: 3.5 Consensus size: 138
71486752 AAAATAGTAT
* *
71486762 TATATATAAATATATATACGTATATAATAAAAATATACACTAATAATAATAAT-A-A-TAATAAT
1 TATATATATATATATATACATATATAATAAAAATATACACTAATAATAATAATAATAGTAATAAT
*
71486824 ATTGAAATACAAAAAGCAAATGTAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATA
66 ATTGAAATACAAAAAGCAAATATAATAT-AT-AAAATATTAAAATAAAGTAATT-AAAAATAATA
*
71486889 CTATGTATAAA
128 CTATATATAAA
* * * * *
71486900 TATAAATACATATACATATATA-ATAAAAAATATACTAATATTAGTAGTAATAATAATAATAATA
1 TAT--AT--ATATATATATATACATATATAATA-A--AA-A-TA-TA-CACTAATAATAATAATA
*
71486964 ATAGTAATAATATTGAAATATAAAAAGCAAATATAATATCATAATAATATTAAAATAAAGTAATT
55 ATAGTAATAATATTGAAATACAAAAAGCAAATATAATAT-ATAA-AATATTAAAATAAAGTAATT
*
71487029 AAAAATAATACTGTATATAAA
118 AAAAATAATACTATATATAAA
* *
71487050 TATATATATATATATGTACATATATAATAAAAATATACACTAATAATAATGATAATAGTAATAAT
1 TATATATATATATATATACATATATAATAAAAATATACACTAATAATAATAATAATAGTAATAAT
* *
71487115 ATTGAAATACAAAAAGCAAATAT-A-ATA-AAAATATTAAAATAAAGTAATAAAAAATACTA-TA
66 ATTGAAATACAAAAAGCAAATATAATATATAAAATATTAAAATAAAGTAATTAAAAATAATACTA
*
71487176 TATATACA
131 TATATAAA
* * * * * * * * *
71487184 TATATA-ATAAAAATATACACTAATATTAATAATAATA-ATAGTGATAATAGTGATAATATTAAT
1 TATATATATATATATATACA-T-ATA-TAATAAAAATATACACTAATAATAATAATAATAGTAAT
71487247 AATATTAGAAATA
63 AATATT-GAAATA
71487260 ATAATAATAA
Statistics
Matches: 307, Mismatches: 33, Indels: 42
0.80 0.09 0.11
Matches are distributed among these distances:
133 10 0.03
134 15 0.05
135 58 0.19
136 18 0.06
137 1 0.00
138 5 0.02
139 1 0.00
140 49 0.16
141 9 0.03
142 14 0.05
143 1 0.00
144 4 0.01
145 1 0.00
146 14 0.05
147 10 0.03
148 16 0.05
149 1 0.00
150 25 0.08
151 55 0.18
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (138 bp):
TATATATATATATATATACATATATAATAAAAATATACACTAATAATAATAATAATAGTAATAAT
ATTGAAATACAAAAAGCAAATATAATATATAAAATATTAAAATAAAGTAATTAAAAATAATACTA
TATATAAA
Found at i:71487218 original size:3 final size:3
Alignment explanation
Indices: 71487136--71487271 Score: 59
Period size: 3 Copynumber: 45.0 Consensus size: 3
71487126 AAAAGCAAAT
* * * *
71487136 ATA ATA AAA ATA TTA A-A ATA A-A GTA ATA A-A A-A ATA CTA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* *
71487178 TATA CATA TATA ATA AAA AT- ATA CACTA ATA TTA ATA ATA ATA ATA
1 -ATA -ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
71487224 GTG ATA ATA GTG ATA ATA TTA ATA ATA TTA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
71487269 ATA
1 ATA
71487272 TTTAATAAAG
Statistics
Matches: 98, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
2 10 0.10
3 72 0.73
4 14 0.14
5 2 0.02
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:71487933 original size:14 final size:13
Alignment explanation
Indices: 71487916--71487945 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
71487906 AATAGATTCG
71487916 AAAAAATAAAAATA
1 AAAAAATAAAAA-A
71487930 AAAAAATAAAAAA
1 AAAAAATAAAAAA
71487943 AAA
1 AAA
71487946 TCACCTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAAATAAAAAA
Found at i:71492611 original size:93 final size:93
Alignment explanation
Indices: 71492499--71492669 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
71492489 GCCCATAAGT
* *
71492499 GAACTCGGACTCAACTCAACGA-TCTCGGGCCTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
71492563 ACGAGCTCGGATGCCGAGTTACATCTCTC
65 ACGAGCTCAGATGCCGAGTTACATCTCTC
71492592 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
71492657 CGAGTTCAGATGC
66 CGAGCTCAGATGC
71492670 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCGAGTTACATCTCTC
Found at i:71492660 original size:46 final size:45
Alignment explanation
Indices: 71492491--71492663 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
71492481 TGTAACCCGC
*
71492491 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCCTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TC-GGCATTCGCAT
* *
71492537 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* ***
71492583 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
71492630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
71492664 AGATGCTCAA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 63 0.59
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:71492685 original size:46 final size:45
Alignment explanation
Indices: 71492496--71492685 Score: 119
Period size: 46 Copynumber: 4.1 Consensus size: 45
71492486 CCCGCCCATA
* **
71492496 AGTGAACTCGGACTCAACTCAACGA-TCTC-G-GGCCTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGT-TCAGATGCCAAC-CATCC-T
* *
71492541 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCGAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCC-A---ACCATC-CT
* * *
71492591 --CGAACTCGGACTCAACTCAACGAGTTC-G--GACATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCA-AC-CATCC-T
71492634 AAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-CAACCATCCT
71492681 AGTGA
1 AGTGA
71492686 CATGTCACTT
Statistics
Matches: 115, Mismatches: 11, Indels: 36
0.71 0.07 0.22
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.05
44 2 0.02
46 59 0.51
47 28 0.24
48 8 0.07
49 2 0.02
50 7 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCAACCATCCT
Found at i:71505198 original size:53 final size:54
Alignment explanation
Indices: 71505079--71505191 Score: 210
Period size: 53 Copynumber: 2.1 Consensus size: 54
71505069 TGGTAAGGGC
71505079 TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
1 TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
*
71505133 TAATTTTAATTTTTGAATATTATTTAATA-TTTTTTCATTTATGTAATTTTAAT
1 TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
71505186 TAATTT
1 TAATTT
71505192 GTATTTTATC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
53 29 0.50
54 29 0.50
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (54 bp):
TAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATCTTAAT
Found at i:71517623 original size:44 final size:45
Alignment explanation
Indices: 71517560--71517656 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
71517550 ACTGCTTAAG
** ** *
71517560 GAGATAAGATCTATGATCTTCAGTCTTCT-TCTTTGCTACCTCAG-
1 GAGATAAGATCTACAATCTTCAACCTACTCTC-TTGCTACCTCAGA
71517604 GAAGATAAGA-CTACAATCTTCAACCTACTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTACAATCTTCAACCTACTCTCTTGCTACCTCAGA
71517649 GAGATAAG
1 GAGATAAG
71517657 GCTGGTGGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 34 0.76
45 11 0.24
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (45 bp):
GAGATAAGATCTACAATCTTCAACCTACTCTCTTGCTACCTCAGA
Found at i:71517658 original size:177 final size:177
Alignment explanation
Indices: 71517225--71517901 Score: 915
Period size: 177 Copynumber: 3.8 Consensus size: 177
71517215 AGATAAGGTC
* * * ** * *
71517225 TAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTTTCGGCCTACTCCCTTACTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * *
71517290 TAG-GAAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTGCCTCAGAAAGATAAGATTCGCCA
66 CAGAG-AGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCGCCA
* * * * *
71517354 TCTTCAATCTGCTCCACTGCTATTTTAGGGAGATAAGATCTACAATCTT
130 TCTTCGATCTACTCCACTACT-TCTTAGGGAGATAAGATCTATAATCTT
* ** * * * * *
71517403 TAATCTACTTCCTTAATACCACAGGAAGATAAAACTATAATCTTCAACCTGCTCTCTTGCTACTT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* * **
71517468 CAGAGAGATAAGGCTGATGACTAAAATCTGCTCCCCTGCTACCTTGGGAAGATAAGATTCGCCAT
66 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCGCCAT
* * * *
71517533 CTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTATGATCTT
131 CTTCGATCTACTCCACTACTTCTTAGGGAGATAAGATCTATAATCTT
* * *
71517580 CAGTCTTCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
*
71517645 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACTTCAGGAAGATAAGATTCGCCAT
66 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCGCCAT
*
71517710 CTTCGATCTACTTCACTACTTCTTAGGGAGATAAGATCTATAATCTT
131 CTTCGATCTACTCCACTACTTCTTAGGGAGATAAGATCTATAATCTT
* * * **
71517757 TGGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCTTCAACCTGTTCTCTTGCTACCT
1 TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
* ** * *
71517822 CAAAGAGATAAGGCTGGTGGCTAAAATCTATTCCCCTGCTACCTCGGGAAGATAAGATTCACCAT
66 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCGCCAT
71517887 CTTCGATCTACTCCA
131 CTTCGATCTACTCCA
71517902 TTGCTACCTC
Statistics
Matches: 434, Mismatches: 64, Indels: 3
0.87 0.13 0.01
Matches are distributed among these distances:
177 309 0.71
178 124 0.29
179 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (177 bp):
TAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCT
CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAGATTCGCCAT
CTTCGATCTACTCCACTACTTCTTAGGGAGATAAGATCTATAATCTT
Found at i:71520866 original size:125 final size:126
Alignment explanation
Indices: 71520611--71520878 Score: 416
Period size: 125 Copynumber: 2.1 Consensus size: 126
71520601 TGCCAAGCAT
* * *
71520611 GAACTACTGTAGAAAAAGAGCATTCACATAGGAGCTTTTTTCAGAAATTTTGTTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACATAGGAGCTTTTTTCAGAAAATTTGCTGACATTGCATC
* *
71520676 CTGCTTGAAGCATTTTTGATACTATTTATTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
71520737 GAACTACTGTAGAAAAAGAGCATCCACATTA-GAGCTTTTTTCA-AAAATTTGACTGACATTGCA
1 GAACTACTGTAGAAAAAGAGCATCCACA-TAGGAGCTTTTTTCAGAAAATTTG-CTGACATTGCA
* * *
71520800 T-CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
64 TCCTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
*
71520862 GAACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
71520879 CCATAAATCC
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
125 79 0.60
126 50 0.38
127 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACATAGGAGCTTTTTTCAGAAAATTTGCTGACATTGCATC
CTGCTTGAAGCATTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:71520951 original size:36 final size:36
Alignment explanation
Indices: 71520911--71521025 Score: 123
Period size: 34 Copynumber: 3.3 Consensus size: 36
71520901 TTTTTATAAA
* **
71520911 ATAACACTAAATCTTAATTTATTTTTAA-AATCTACT
1 ATAACCCTAAATCTTAATTTATTTTTAACAA-AAACT
* *
71520947 ATAACCCAAAACCTTAATTTA-TTTTAACAAAAACT
1 ATAACCCTAAATCTTAATTTATTTTTAACAAAAACT
* *
71520982 A-AACCCTAAATCTTAACTTA-TTTTAACAAAACCT
1 ATAACCCTAAATCTTAATTTATTTTTAACAAAAACT
71521016 -TAACCCTAAA
1 ATAACCCTAAA
71521026 AACCCTAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
34 38 0.56
35 10 0.15
36 20 0.29
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (36 bp):
ATAACCCTAAATCTTAATTTATTTTTAACAAAAACT
Found at i:71521429 original size:41 final size:41
Alignment explanation
Indices: 71521384--71521465 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
71521374 TTTTAAACTC
71521384 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
1 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
*
71521425 GTGTTATCTCTTTTAGTTTTTAAATTTGTATTATTTATCAA
1 GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
71521466 ATCATATTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (41 bp):
GTGTTATCTCTTTTAGCTTTTAAATTTGTATTATTTATCAA
Found at i:71521574 original size:22 final size:21
Alignment explanation
Indices: 71521549--71521590 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
71521539 ATTTATACAT
71521549 TATTTATT-AATTTTTTAGAATA
1 TATTT-TTAAATTTTTT-GAATA
71521571 TATTTTTAAATTTTTTGAAT
1 TATTTTTAAATTTTTTGAAT
71521591 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TATTTTTAAATTTTTTGAATA
Found at i:71521584 original size:21 final size:22
Alignment explanation
Indices: 71521549--71521590 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
71521539 ATTTATACAT
*
71521549 TATTTATTAATTTTTTAGAATA
1 TATTTATTAAATTTTTAGAATA
*
71521571 TATTT-TTAAATTTTTTGAAT
1 TATTTATTAAATTTTTAGAAT
71521591 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TATTTATTAAATTTTTAGAATA
Found at i:71521978 original size:15 final size:15
Alignment explanation
Indices: 71521943--71521972 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71521933 TTTAATCATT
71521943 TATAAATTATAAAAA
1 TATAAATTATAAAAA
71521958 TATAAATTATAAAAA
1 TATAAATTATAAAAA
71521973 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:71532687 original size:17 final size:17
Alignment explanation
Indices: 71532667--71532699 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71532657 ATTAAGAATG
*
71532667 TTATTAATTTATATTTT
1 TTATTAAATTATATTTT
71532684 TTATTAAATTATATTT
1 TTATTAAATTATATTT
71532700 AATAATAAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:71532972 original size:16 final size:16
Alignment explanation
Indices: 71532946--71533012 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
71532936 TTGATTACTG
*
71532946 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
71532962 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCC
*
71532978 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
71532994 ATTACAGC-CTATTCC
1 ATTACAGCTCTATTCC
71533009 ATTA
1 ATTA
71533013 TAGTGAACCA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
15 10 0.22
16 35 0.78
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:71533250 original size:17 final size:18
Alignment explanation
Indices: 71533230--71533263 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
71533220 ATTTTTTAGA
71533230 AAAT-AATTTTTTTGTTC
1 AAATAAATTTTTTTGTTC
71533247 AAATAAATTTTTTTGTT
1 AAATAAATTTTTTTGTT
71533264 TAAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (18 bp):
AAATAAATTTTTTTGTTC
Found at i:71535811 original size:37 final size:37
Alignment explanation
Indices: 71535770--71535917 Score: 260
Period size: 37 Copynumber: 4.0 Consensus size: 37
71535760 TAGTTTTAGC
71535770 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
71535807 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
71535844 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
* ** *
71535881 TACACTTATCCGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
71535918 AGCTTCAGCT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:71535988 original size:45 final size:46
Alignment explanation
Indices: 71535881--71536002 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
71535871 GATAAGTGGT
* *
71535881 TACACTTATCCGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGC
1 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCCTCAGC
*
71535927 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCT-AGC
1 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCCTCAGC
*
71535972 TACACTTATCTGATCAAG-GA-CAAGTGATAAG
1 TACACTTATCTGATCAAGTGATAAAGTGATAAG
71536003 AGGTCATATG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 10 0.14
44 1 0.01
45 21 0.30
46 39 0.55
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (46 bp):
TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCCTCAGC
Found at i:71538115 original size:16 final size:18
Alignment explanation
Indices: 71538076--71538109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71538066 TAAGTTTATA
71538076 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
71538093 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
71538110 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:71541086 original size:31 final size:29
Alignment explanation
Indices: 71541022--71541090 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
71541012 GCTATAACGT
* * *
71541022 AAGTGACTAAAATGTAACATTTTAAACAT
1 AAGTGACTAAAATGTAACATGTCAAACAA
*
71541051 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAATGTAACAT--GTCAAACAA
71541082 AAGTGACTA
1 AAGTGACTA
71541091 TTTTAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGTCAAACAA
Found at i:71542400 original size:32 final size:32
Alignment explanation
Indices: 71542363--71542425 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
71542353 TAATAAATTT
* *
71542363 ATAAATTGATTACTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* * *
71542395 ATAAATTAATTAATTTAATTTGATAATTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
71542426 ACCGATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:71543227 original size:2 final size:2
Alignment explanation
Indices: 71543220--71543250 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
71543210 CCACAAGCCA
71543220 AC AC AC AC AC AC AC AC AC AC AC AC AC TAC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC -AC AC
71543251 TAGGAAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.48, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:71550572 original size:21 final size:19
Alignment explanation
Indices: 71550548--71550587 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
71550538 CACTCTACAT
71550548 CTATTTCATGCTGATATGTCA
1 CTATTT-AT-CTGATATGTCA
*
71550569 CTATTTATCTTATATGTCA
1 CTATTTATCTGATATGTCA
71550588 TGTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (19 bp):
CTATTTATCTGATATGTCA
Found at i:71550645 original size:8 final size:7
Alignment explanation
Indices: 71550611--71550644 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
71550601 TTAAAATTAA
71550611 AAAAATT
1 AAAAATT
71550618 CAAAAATT
1 -AAAAATT
71550626 AAAAATT
1 AAAAATT
71550633 AAAAATT
1 AAAAATT
71550640 AAAAA
1 AAAAA
71550645 AAATATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:71550761 original size:17 final size:17
Alignment explanation
Indices: 71550749--71550809 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
71550739 TGTTAATAAT
71550749 AATTTAAAATTAAAAAA
1 AATTTAAAATTAAAAAA
*
71550766 AATTTAAAAATT---CAA
1 AATTT-AAAATTAAAAAA
*
71550781 AATTAAAAATTAAAAAA
1 AATTTAAAATTAAAAAA
*
71550798 AATATAAAATTA
1 AATTTAAAATTA
71550810 TTCCTAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.17
15 6 0.17
17 17 0.49
18 6 0.17
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
AATTTAAAATTAAAAAA
Found at i:71550806 original size:8 final size:7
Alignment explanation
Indices: 71550763--71550796 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
71550753 TAAAATTAAA
71550763 AAAAATTT
1 AAAAA-TT
71550771 AAAAATT
1 AAAAATT
*
71550778 CAAAATT
1 AAAAATT
71550785 AAAAATT
1 AAAAATT
71550792 AAAAA
1 AAAAA
71550797 AAATATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:71550840 original size:150 final size:151
Alignment explanation
Indices: 71550582--71550854 Score: 487
Period size: 150 Copynumber: 1.8 Consensus size: 151
71550572 TTTATCTTAT
71550582 ATGTCATGTTAATAATAATTTAAAATTAAAAAAATTCAAAAATTAAAAATTAAAAATTAAAAAAA
1 ATGTCATGTTAATAATAATTTAAAATTAAAAAAATTCAAAAATTAAAAATTAAAAATTAAAAAAA
71550647 ATATATAAAATTATTCATAAAGATTCAAAAAAAATTAGCATGAAGTATACACGAATTACCATACA
66 ATATATAAAATTATTCATAAAGATTCAAAAAAAATTAGCATGAAGTATACACGAATTACCATACA
71550712 AGCTATCATGTTTAAAATTTA
131 AGCTATCATGTTTAAAATTTA
* *
71550733 ATGTCATGTTAATAATAATTTAAAATTAAAAAAAATTTAAAAATTCAAAATTAAAAATT-AAAAA
1 ATGTCATGTTAATAATAATTTAAAATT-AAAAAAATTCAAAAATTAAAAATTAAAAATTAAAAAA
* *
71550797 AA-ATATAAAATTATTCCTAAAGATTCAAAAAAAATTAGCATGAAGTATACATGAATTA
65 AATATATAAAATTATTCATAAAGATTCAAAAAAAATTAGCATGAAGTATACACGAATTA
71550855 TTCAAAAAAA
Statistics
Matches: 117, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
150 54 0.46
151 34 0.29
152 29 0.25
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (151 bp):
ATGTCATGTTAATAATAATTTAAAATTAAAAAAATTCAAAAATTAAAAATTAAAAATTAAAAAAA
ATATATAAAATTATTCATAAAGATTCAAAAAAAATTAGCATGAAGTATACACGAATTACCATACA
AGCTATCATGTTTAAAATTTA
Found at i:71557724 original size:46 final size:44
Alignment explanation
Indices: 71557672--71557757 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
71557662 AGAACAGAAA
*
71557672 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
71557718 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
71557758 TGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:71557771 original size:44 final size:45
Alignment explanation
Indices: 71557665--71557798 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
71557655 ACAGGACAGA
* * *
71557665 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
71557711 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
71557755 ACATGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
71557799 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:71560373 original size:38 final size:39
Alignment explanation
Indices: 71560322--71560400 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
71560312 ATTATTCATG
**
71560322 TCTCCAATGCCATA-TATAATATGGACTTACATGGCTCA
1 TCTCCAAAACCATATTATAATATGGACTTACATGGCTCA
*
71560360 TCTCCAAAACCATATTTCTAATATGGACTTACATGGCTCA
1 TCTCCAAAACCATA-TTATAATATGGACTTACATGGCTCA
71560400 T
1 T
71560401 TTCTGTTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 12 0.33
40 24 0.67
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (39 bp):
TCTCCAAAACCATATTATAATATGGACTTACATGGCTCA
Found at i:71562922 original size:10 final size:10
Alignment explanation
Indices: 71562898--71562942 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
71562888 CTGGAAAAAT
*
71562898 TTAAAAATTCT
1 TTAAAAATT-A
*
71562909 TTAAAAATTG
1 TTAAAAATTA
71562919 TTAAAAATTA
1 TTAAAAATTA
*
71562929 TTAAGAATTA
1 TTAAAAATTA
71562939 TTAA
1 TTAA
71562943 TTTCTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:71562932 original size:20 final size:21
Alignment explanation
Indices: 71562830--71562942 Score: 56
Period size: 20 Copynumber: 5.4 Consensus size: 21
71562820 AAATTTATTT
**
71562830 AATTATATAAAAAAACATGTAAA
1 AATTAT-TAAAAATTCAT-TAAA
* *
71562853 AATTATTTAAAACT-ATTAAA
1 AATTATTAAAAATTCATTAAA
* * * *
71562873 AAGTT-GTAAAATTTCCTGGAAA
1 AA-TTATTAAAAATTCAT-TAAA
*
71562895 AA-T-TTAAAAATTCTTTAAA
1 AATTATTAAAAATTCATTAAA
* *
71562914 AATTGTTAAAAATT-ATTAAG
1 AATTATTAAAAATTCATTAAA
71562934 AATTATTAA
1 AATTATTAA
71562943 TTTCTTTAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
19 5 0.07
20 34 0.49
21 14 0.20
22 10 0.14
23 6 0.09
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (21 bp):
AATTATTAAAAATTCATTAAA
Found at i:71563383 original size:22 final size:21
Alignment explanation
Indices: 71563353--71563401 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
71563343 TAAAAATTGT
*
71563353 AATTTTTTTTAAAATTTTA-A
1 AATTTTTTTTTAAATTTTAGA
*
71563373 CAATTTTTTTTTACATTTTAGA
1 -AATTTTTTTTTAAATTTTAGA
71563395 AATTTTT
1 AATTTTT
71563402 AATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
AATTTTTTTTTAAATTTTAGA
Found at i:71563460 original size:11 final size:10
Alignment explanation
Indices: 71563446--71563491 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
71563436 TTTTTAAATT
71563446 TTTTTTACTAA
1 TTTTTTA-TAA
71563457 -TTTTTATAA
1 TTTTTTATAA
71563466 TTTATTTATAA
1 TTT-TTTATAA
*
71563477 -TTTTTGTAA
1 TTTTTTATAA
71563486 TTTTTT
1 TTTTTT
71563492 TAAATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 9 0.29
10 15 0.48
11 7 0.23
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:71563466 original size:9 final size:9
Alignment explanation
Indices: 71563447--71563490 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
71563437 TTTTAAATTT
71563447 TTTTTACTAA
1 TTTTTA-TAA
71563457 TTTTTATAA
1 TTTTTATAA
71563466 TTTATTTATAA
1 -TT-TTTATAA
*
71563477 TTTTTGTAA
1 TTTTTATAA
71563486 TTTTT
1 TTTTT
71563491 TTAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 14 0.45
10 10 0.32
11 7 0.23
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:71563980 original size:21 final size:21
Alignment explanation
Indices: 71563956--71563995 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
71563946 TTAAAAAAAT
71563956 TATAAAATAACTAAATATTAA
1 TATAAAATAACTAAATATTAA
* * *
71563977 TATAGAATGAGTAAATATT
1 TATAAAATAACTAAATATT
71563996 TAGTAGATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
TATAAAATAACTAAATATTAA
Found at i:71564124 original size:18 final size:18
Alignment explanation
Indices: 71564101--71564136 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
71564091 AGTGAATCAG
71564101 AATTTAAAAATCTAAGCT
1 AATTTAAAAATCTAAGCT
71564119 AATTTAAAAATCTAAGCT
1 AATTTAAAAATCTAAGCT
71564137 CAAGCTCGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
AATTTAAAAATCTAAGCT
Found at i:71565000 original size:16 final size:16
Alignment explanation
Indices: 71564967--71565000 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
71564957 GGCCTATGTT
* *
71564967 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
71564983 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
71564999 AA
1 AA
71565001 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:71567826 original size:21 final size:21
Alignment explanation
Indices: 71567800--71567840 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
71567790 AGACGAGCAA
* *
71567800 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
71567821 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
71567841 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:71569777 original size:16 final size:16
Alignment explanation
Indices: 71569744--71569777 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
71569734 GGAGATTGTT
* *
71569744 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
71569760 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
71569776 AA
1 AA
71569778 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:71573219 original size:50 final size:49
Alignment explanation
Indices: 71573094--71573273 Score: 198
Period size: 50 Copynumber: 3.6 Consensus size: 49
71573084 GTAGCAGAAG
* * * *
71573094 CTATCTGGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * * *
71573143 TTATCCGGTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
* * * *
71573193 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACATACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * *
71573243 GTTATCAGGTACGCATAGTAGCCTGCACTTA
1 -CTATCTGGTACACATAGTAGCCTGCACTTA
71573274 TTCATCACAA
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 39 0.36
50 44 0.40
51 26 0.24
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:71578983 original size:29 final size:29
Alignment explanation
Indices: 71578951--71579017 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
71578941 AATTTTTATA
71578951 ACATCCATTCATAAAACTTAAATTATATC
1 ACATCCATTCATAAAACTTAAATTATATC
*
71578980 ACATCCGTTCATAAAACTTAAATTATATC
1 ACATCCATTCATAAAACTTAAATTATATC
71579009 ACATCCATT
1 ACATCCATT
71579018 GGATTGTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.34
Consensus pattern (29 bp):
ACATCCATTCATAAAACTTAAATTATATC
Found at i:71582513 original size:15 final size:15
Alignment explanation
Indices: 71582493--71582523 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
71582483 TGGAACTTAG
71582493 AGTAAGGAGAATTCC
1 AGTAAGGAGAATTCC
71582508 AGTAAGGAGAATTCC
1 AGTAAGGAGAATTCC
71582523 A
1 A
71582524 CTCCCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (15 bp):
AGTAAGGAGAATTCC
Found at i:71583430 original size:21 final size:21
Alignment explanation
Indices: 71583400--71583440 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
71583390 TAACGAGAGT
71583400 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
* *
71583421 GCTGATGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
71583441 TGCCATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:71585200 original size:16 final size:15
Alignment explanation
Indices: 71585167--71585196 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71585157 CCAATAGGTG
*
71585167 TATCTTTTCATAAGA
1 TATCCTTTCATAAGA
71585182 TATCCTTTCATAAGA
1 TATCCTTTCATAAGA
71585197 ATATATCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
TATCCTTTCATAAGA
Found at i:71586381 original size:39 final size:38
Alignment explanation
Indices: 71586334--71586450 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 38
71586324 TGGGGTTTCA
*
71586334 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTTC
71586372 GATTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTTC
1 G-TTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTTC
71586411 TGTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTTC
1 -GTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTTC
71586450 G
1 G
71586451 GGCTTCCTTT
Statistics
Matches: 76, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 2 0.03
39 73 0.96
40 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (38 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTTC
Found at i:71586492 original size:46 final size:46
Alignment explanation
Indices: 71586403--71586495 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
71586393 AGTTAGCCTC
* *
71586403 CGGGCTTCTGTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTT
1 CGGGCTTCTGTTTAGCACTTATGTGCTTCAGCTAGACTCCGGGCTT
* * *
71586449 CGGGCTTCCT-TTTAGTACTTATGTGCTTCAGCTAGATTTCGGGCTT
1 CGGGCTT-CTGTTTAGCACTTATGTGCTTCAGCTAGACTCCGGGCTT
71586495 C
1 C
71586496 AAATCACGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
46 39 0.95
47 2 0.05
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.39
Consensus pattern (46 bp):
CGGGCTTCTGTTTAGCACTTATGTGCTTCAGCTAGACTCCGGGCTT
Found at i:71589406 original size:30 final size:30
Alignment explanation
Indices: 71589372--71589429 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
71589362 CTCAATTGAC
*
71589372 GCATAGTATAGGAATTAAATTCGAATTTAT
1 GCATAGTATAGGAACTAAATTCGAATTTAT
*
71589402 GCATAGTATAGGGACTAAATTCGAATTT
1 GCATAGTATAGGAACTAAATTCGAATTT
71589430 GCTAGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (30 bp):
GCATAGTATAGGAACTAAATTCGAATTTAT
Found at i:71592217 original size:13 final size:14
Alignment explanation
Indices: 71592179--71592220 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
71592169 TATATGAAAA
71592179 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
71592194 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
71592209 -TATTATTAAAAT
1 ATATTATTAAAAT
71592221 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:71592256 original size:34 final size:29
Alignment explanation
Indices: 71592201--71592275 Score: 73
Period size: 34 Copynumber: 2.4 Consensus size: 29
71592191 ATTATCATTT
*
71592201 TTAA-AATTTATTATTAAAATAAAATTGAAATA
1 TTAATAATTTATTATAAAAAT-AAATT---ATA
71592233 TTAAATAATTTATTA-AAATAATAAATTATA
1 TT-AATAATTTATTATAAA-AATAAATTATA
71592263 TTAATAATTTATT
1 TTAATAATTTATT
71592276 TTATGATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 11 0.28
30 5 0.13
32 2 0.05
33 9 0.23
34 12 0.31
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
TTAATAATTTATTATAAAAATAAATTATA
Found at i:71592342 original size:21 final size:22
Alignment explanation
Indices: 71592316--71592358 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
71592306 ATGTTTAATA
71592316 ATATTAAAATTATAATA-TTTT
1 ATATTAAAATTATAATACTTTT
* *
71592337 ATATTAATATTTTAATACTTTT
1 ATATTAAAATTATAATACTTTT
71592359 CAATGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTAAAATTATAATACTTTT
Found at i:71593159 original size:16 final size:16
Alignment explanation
Indices: 71593140--71593179 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
71593130 AAATAAAATA
**
71593140 TTTAAAAAATTATTTT
1 TTTAAAAAATTAACTT
71593156 TTTAAAAAATTAACTT
1 TTTAAAAAATTAACTT
71593172 TTTAAAAA
1 TTTAAAAA
71593180 TATATAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAAAATTAACTT
Found at i:71615413 original size:46 final size:46
Alignment explanation
Indices: 71615338--71615466 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
71615328 TGTAACCCGC
* * *
71615338 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
71615384 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
71615430 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71615467 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:71617902 original size:15 final size:15
Alignment explanation
Indices: 71617848--71617925 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
71617838 CAAAGATAAC
*
71617848 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
71617862 AA-AAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
71617876 GAGAAA-CCAGAATA
1 AAGAAATCCAGAATA
71617890 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
71617905 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
71617920 AAGAAA
1 AAGAAA
71617926 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
13 6 0.11
14 17 0.32
15 30 0.57
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:71617934 original size:15 final size:15
Alignment explanation
Indices: 71617859--71617934 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
71617849 AGAAAACCGA
71617859 ATAAA-AAATCCAAG
1 ATAAAGAAATCCAAG
*
71617873 ATAGAGAAA-CC-AG
1 ATAAAGAAATCCAAG
71617886 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
71617901 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
71617917 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
71617932 ATA
1 ATA
71617935 CGATACTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.04
14 14 0.27
15 34 0.67
16 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:71620968 original size:46 final size:46
Alignment explanation
Indices: 71620801--71620976 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
71620791 TGTAACCCGC
** * * * * * *
71620801 CCATAAGAAAACTTGGAATCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
71620847 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
71620897 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
71620940 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71620977 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 30 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:71620976 original size:93 final size:93
Alignment explanation
Indices: 71620810--71620979 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
71620800 CCCATAAGAA
* * * *
71620810 AACTTGGAATCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
71620875 GAGTTCGGATGCCTAGTTACATCTCATG
66 GAGTTCGGATGCCTAGTTACATCTCATG
* * *
71620903 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
71620968 GAGTTCGGATGC
66 GAGTTCGGATGC
71620980 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
AACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCATG
Found at i:71620995 original size:46 final size:45
Alignment explanation
Indices: 71620852--71620995 Score: 145
Period size: 46 Copynumber: 3.1 Consensus size: 45
71620842 CGCATCCATG
71620852 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * *
71620899 CA-TGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
71620945 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
71620991 AGTGA
1 AGTGA
71620996 CATGTCACTT
Statistics
Matches: 81, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.02
46 34 0.42
47 32 0.40
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:71621910 original size:13 final size:13
Alignment explanation
Indices: 71621892--71621917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71621882 ATGAGCAAAA
71621892 TTGGCTTTTAATT
1 TTGGCTTTTAATT
71621905 TTGGCTTTTAATT
1 TTGGCTTTTAATT
71621918 CATTTTACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGGCTTTTAATT
Found at i:71623888 original size:24 final size:23
Alignment explanation
Indices: 71623861--71623908 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
71623851 TTTTGGGGAA
71623861 TATTTGTGTTTACGTTTTGAGGGT
1 TATTTGTGTTTACGTTTT-AGGGT
* *
71623885 TATTTGTTTTTAGGTTTTAGGGT
1 TATTTGTGTTTACGTTTTAGGGT
71623908 T
1 T
71623909 TAGTTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.12, C:0.02, G:0.27, T:0.58
Consensus pattern (23 bp):
TATTTGTGTTTACGTTTTAGGGT
Found at i:71629706 original size:24 final size:24
Alignment explanation
Indices: 71629679--71629724 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
71629669 AAGCTCATGT
* *
71629679 GAGCTAATAACGGGTAGCTTTGAA
1 GAGCCAATAACGGGAAGCTTTGAA
71629703 GAGCCAATAACGGGAAGCTTTG
1 GAGCCAATAACGGGAAGCTTTG
71629725 GATAGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTTTGAA
Found at i:71630875 original size:14 final size:14
Alignment explanation
Indices: 71630839--71630875 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
71630829 TGATATTAGA
71630839 TATTTA-TTTTATT
1 TATTTACTTTTATT
71630852 TA-TTATCTTTTATT
1 TATTTA-CTTTTATT
71630866 TATTTACTTT
1 TATTTACTTT
71630876 CCAACTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 2 0.10
14 13 0.62
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTACTTTTATT
Found at i:71643604 original size:46 final size:46
Alignment explanation
Indices: 71643551--71643726 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
71643541 TGGTTGAGCA
71643551 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
71643597 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
71643644 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71643690 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71643727 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71643707 original size:93 final size:93
Alignment explanation
Indices: 71643548--71643718 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
71643538 GGATGGTTGA
* *
71643548 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
71643613 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
71643641 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
71643706 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71643719 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:71646671 original size:15 final size:15
Alignment explanation
Indices: 71646651--71646719 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
71646641 GTATCTTGGG
71646651 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
71646666 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
71646681 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
71646696 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
71646711 TTTCTTTAT
1 TTTCTTTAT
71646720 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:71646720 original size:30 final size:30
Alignment explanation
Indices: 71646642--71646729 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
71646632 CATAGTATCG
* * * *
71646642 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
71646672 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
71646702 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
71646730 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:71648490 original size:46 final size:45
Alignment explanation
Indices: 71648437--71648612 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
71648427 TGGTTGAGCA
71648437 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
71648483 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
71648530 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
71648576 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71648613 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:71648593 original size:93 final size:93
Alignment explanation
Indices: 71648434--71648604 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71648424 GGATGGTTGA
* * *
71648434 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71648499 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
71648527 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71648592 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71648605 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:71651281 original size:16 final size:16
Alignment explanation
Indices: 71651260--71651294 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
71651250 GGTATGTAAC
71651260 AGAAAAAAAAAAGAAA
1 AGAAAAAAAAAAGAAA
*
71651276 AGAAAAAGAAAAGAAA
1 AGAAAAAAAAAAGAAA
71651292 AGA
1 AGA
71651295 GAGACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAGAAA
Found at i:71656425 original size:17 final size:17
Alignment explanation
Indices: 71656396--71656428 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71656386 TAATCTTTCA
71656396 TTATTGTTATTATTTAT
1 TTATTGTTATTATTTAT
71656413 TTATATGTT-TTATTTA
1 TTAT-TGTTATTATTTA
71656429 CATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTATTGTTATTATTTAT
Found at i:71661904 original size:13 final size:13
Alignment explanation
Indices: 71661886--71661920 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
71661876 ATAGTACCGG
71661886 CTTCATCATGGGT
1 CTTCATCATGGGT
71661899 CTTCATCATGGGT
1 CTTCATCATGGGT
*
71661912 ATTCATCAT
1 CTTCATCAT
71661921 ATGCTGTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (13 bp):
CTTCATCATGGGT
Found at i:71669255 original size:20 final size:21
Alignment explanation
Indices: 71669205--71669259 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
71669195 CTTGTTAAAC
* *
71669205 ATTAGATATTTTGGTAAATCT
1 ATTAGATATATTGATAAATCT
* *
71669226 -TTAAAAATATTGATAAAT-T
1 ATTAGATATATTGATAAATCT
71669245 ATTAGATATATTGAT
1 ATTAGATATATTGAT
71669260 GACTCCTTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (21 bp):
ATTAGATATATTGATAAATCT
Found at i:71684433 original size:18 final size:19
Alignment explanation
Indices: 71684377--71684434 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
71684367 ATTGCTACTA
* *
71684377 TATTGTT-ATTGTTTGTA-
1 TATTGTTAATTCTTTTTAT
*
71684394 TATTGTATAATTCTTGTT-T
1 TATTGT-TAATTCTTTTTAT
71684413 TATTGTTAATT-TTTTTAT
1 TATTGTTAATTCTTTTTAT
71684431 TATT
1 TATT
71684435 TTAGAGGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.30
18 11 0.33
19 12 0.36
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (19 bp):
TATTGTTAATTCTTTTTAT
Found at i:71686348 original size:16 final size:15
Alignment explanation
Indices: 71686329--71686371 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
71686319 ATTTGATGTT
71686329 TAAAAAAATTTAT-A
1 TAAAAAAATTTATAA
*
71686343 TATAAAAATTTATAA
1 TAAAAAAATTTATAA
71686358 TAAAAAAAGTTTAT
1 TAAAAAAA-TTTAT
71686372 GTCATCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 8 0.32
16 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TAAAAAAATTTATAA
Found at i:71687117 original size:225 final size:225
Alignment explanation
Indices: 71686726--71687174 Score: 889
Period size: 225 Copynumber: 2.0 Consensus size: 225
71686716 ATCATCATTA
*
71686726 TAAAATGATTTGTGTTTAAAATATATATTTTTTAATGGTGGAAGGGGAGAGATGGACAGCACCAG
1 TAAAATGATTTGTGTTTAAAATATATATTTTTTAAGGGTGGAAGGGGAGAGATGGACAGCACCAG
71686791 TATTTTCTGGTGCAAAAATGCAGTCTGACTGGTGGAGAATGAGAGAGAGGCGACACCAGACTGAA
66 TATTTTCTGGTGCAAAAATGCAGTCTGACTGGTGGAGAATGAGAGAGAGGCGACACCAGACTGAA
71686856 ATGCGATGGCCTAAAATATTCAGAGACCTAATATGTAAATATGTCATTTTAATTGATTGTGCTAA
131 ATGCGATGGCCTAAAATATTCAGAGACCTAATATGTAAATATGTCATTTTAATTGATTGTGCTAA
71686921 AAAGCTTTTAGGGTGCCGCTTGACAATGTT
196 AAAGCTTTTAGGGTGCCGCTTGACAATGTT
71686951 TAAAATGATTTGTGTTTAAAATATATATTTTTTAAGGGTGGAAGGGGAGAGATGGACAGCACCAG
1 TAAAATGATTTGTGTTTAAAATATATATTTTTTAAGGGTGGAAGGGGAGAGATGGACAGCACCAG
71687016 TATTTTCTGGTGCAAAAATGCAGTCTGACTGGTGGAGAATGAGAGAGAGGCGACACCAGACTGAA
66 TATTTTCTGGTGCAAAAATGCAGTCTGACTGGTGGAGAATGAGAGAGAGGCGACACCAGACTGAA
71687081 ATGCGATGGCCTAAAATATTCAGAGACCTAATATGTAAATATGTCATTTTAATTGATTGTGCTAA
131 ATGCGATGGCCTAAAATATTCAGAGACCTAATATGTAAATATGTCATTTTAATTGATTGTGCTAA
71687146 AAAGCTTTTAGGGTGCCGCTTGACAATGT
196 AAAGCTTTTAGGGTGCCGCTTGACAATGT
71687175 GGTAGCACCA
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 223 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (225 bp):
TAAAATGATTTGTGTTTAAAATATATATTTTTTAAGGGTGGAAGGGGAGAGATGGACAGCACCAG
TATTTTCTGGTGCAAAAATGCAGTCTGACTGGTGGAGAATGAGAGAGAGGCGACACCAGACTGAA
ATGCGATGGCCTAAAATATTCAGAGACCTAATATGTAAATATGTCATTTTAATTGATTGTGCTAA
AAAGCTTTTAGGGTGCCGCTTGACAATGTT
Found at i:71692994 original size:28 final size:28
Alignment explanation
Indices: 71692952--71693005 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
71692942 AAGTCATAGC
*
71692952 AAAGGGTTGCGGGTTCGAACACTGTAGT
1 AAAGGGTTGCGGGTTCAAACACTGTAGT
*
71692980 AAAGGGTTGCTGGTTCAAACACTGTA
1 AAAGGGTTGCGGGTTCAAACACTGTA
71693006 CTTACATCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
AAAGGGTTGCGGGTTCAAACACTGTAGT
Found at i:71694088 original size:32 final size:31
Alignment explanation
Indices: 71694023--71694093 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
71694013 ACACCTTACC
* *
71694023 AATTTGTAGCAAACGACCCATTTTGAAATTT
1 AATTTGTAGCAAACAACCCATTTGGAAATTT
* *
71694054 AATATTGTAGCAAACAATCCATTTCGGTAA-TT
1 AAT-TTGTAGCAAACAACCCATTT-GGAAATTT
71694086 AATTTGTA
1 AATTTGTA
71694094 AGCTAGCCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 23 0.68
33 3 0.09
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (31 bp):
AATTTGTAGCAAACAACCCATTTGGAAATTT
Found at i:71694167 original size:3 final size:3
Alignment explanation
Indices: 71694159--71694202 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
71694149 GTACTACGCA
* *
71694159 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AAG AAT AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
71694203 ATATACACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (3 bp):
AAG
Found at i:71696914 original size:59 final size:58
Alignment explanation
Indices: 71696672--71697271 Score: 719
Period size: 59 Copynumber: 10.3 Consensus size: 58
71696662 TATGATTATC
* * *
71696672 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAAATAA-TATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
** *
71696730 ATTATTATGAAATATGATTATTTATTT-A--ATCGAAAATTAATTAATTATTCATAGA
1 ATTATTATGAAATATGATTATTTATTTAATTATTAAAAATTAATTAATTATTCATAAA
* * * *
71696785 ATTATTTTGAAATATGATTAATTAATTAATTAATT-AAAATTAAATAA-TATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* * * * **
71696842 ATTACTATAAAATATGATTATTTATTTATTTATTTTAAAATTAATTAATTATTCATATT
1 ATTATTATGAAATATGATTATTTATTTAATTA-TTAAAAATTAATTAATTATTCATAAA
71696901 ATTATTATGAAATATGATTATTTATTTAATT-TGTACAAAGATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTAT-TA-AAA-ATTAATTAATTATTCATAAA
* ** * * *
71696961 ATTATTATGAAATATGAATATTTATTTAATTAATCGAAAATTAATAAATTATTTATAGA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* * *
71697020 ATTATTTTGAAATATGATTATTTATGTAATTAATAAAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* * * * *
71697079 ATTATTATGAAATATGATTATTTATTTATTTAATCAGAAATTAATTAATTATTCGTATA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
* *
71697138 ATTATTATGAAATATGATTATTTATTTAATTAATAAAAAATAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTATTTAATTATTAAAAATTAATTAATTATTCATAAA
* * * ** *
71697196 ATTATTATGAAATATAATTATTTATTTAATTAATCAGAAATTAATTAATTATTTGTATA
1 ATTATTATGAAATATGATTATTTATTTAATT-ATTAAAAATTAATTAATTATTCATAAA
71697255 ATTATTATGAAATATGA
1 ATTATTATGAAATATGA
71697272 CCCAGCTTTT
Statistics
Matches: 466, Mismatches: 62, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
54 14 0.03
55 33 0.07
56 2 0.00
57 38 0.08
58 100 0.21
59 227 0.49
60 51 0.11
62 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (58 bp):
ATTATTATGAAATATGATTATTTATTTAATTATTAAAAATTAATTAATTATTCATAAA
Found at i:71697185 original size:235 final size:233
Alignment explanation
Indices: 71696672--71697271 Score: 876
Period size: 235 Copynumber: 2.6 Consensus size: 233
71696662 TATGATTATC
* *
71696672 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAAATAA-TATTCATAAAATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAAT-AAAAATTAATTAATTATTCATAAAATTATT
* *
71696736 ATGAAATATG---A-TTATTTATTTAATCGAAAATTAATTAATTATTCATAGAATTATTTTGAAA
65 ATGAAATATGAATATTTATTTAATTAATCGAAAATTAATTAATTATTTATAGAATTATTTTGAAA
*
71696797 TATGATTAATTAATTAATTAATTAAAATTAAATAATATTCATAAAATTACTATAAAATATGATTA
130 TATGATTAATTAATTAATTAATAAAAATTAAATAATATTCATAAAATTACTATAAAATATGATTA
* * *
71696862 TTTATTTATTTATTTTAAAATTAATTAATTATTCATATT
195 TTTATTTATTTATATCAAAATTAATTAATTATTCATATA
**
71696901 ATTATTATGAAATATGATTATTTATTTAATTTGTACAAAGATTAATTAATTATTCATAAAATTAT
1 ATTATTATGAAATATGATTATTTATTTAATTAATA-AAA-ATTAATTAATTATTCATAAAATTAT
*
71696966 TATGAAATATGAATATTTATTTAATTAATCGAAAATTAATAAATTATTTATAGAATTATTTTGAA
64 TATGAAATATGAATATTTATTTAATTAATCGAAAATTAATTAATTATTTATAGAATTATTTTGAA
* * * *
71697031 ATATGATT-ATTTATGTAATTAATAAAAAATTAATTAATTATTCATAAAATTATTATGAAATATG
129 ATATGATTAATTAAT-TAATTAAT-AAAAATTAAATAA-TATTCATAAAATTACTATAAAATATG
*
71697095 ATTATTTATTTATTTA-ATCAGAAATTAATTAATTATTCGTATA
191 ATTATTTATTTATTTATATCA-AAATTAATTAATTATTCATATA
*
71697138 ATTATTATGAAATATGATTATTTATTTAATTAATAAAAAATAATTAATTATTCATAAAATTATTA
1 ATTATTATGAAATATGATTATTTATTTAATTAATAAAAATTAATTAATTATTCATAAAATTATTA
* * *
71697203 TGAAATAT-AATTATTTATTTAATTAATC-AGAAATTAATTAATTATTTGTATAATTATTATGAA
66 TGAAATATGAA-TATTTATTTAATTAATCGA-AAATTAATTAATTATTTATAGAATTATTTTGAA
71697266 ATATGA
129 ATATGA
71697272 CCCAGCTTTT
Statistics
Matches: 335, Mismatches: 23, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
228 1 0.00
229 34 0.10
230 8 0.02
231 26 0.08
234 9 0.03
235 148 0.44
236 16 0.05
237 93 0.28
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (233 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATAAAAATTAATTAATTATTCATAAAATTATTA
TGAAATATGAATATTTATTTAATTAATCGAAAATTAATTAATTATTTATAGAATTATTTTGAAAT
ATGATTAATTAATTAATTAATAAAAATTAAATAATATTCATAAAATTACTATAAAATATGATTAT
TTATTTATTTATATCAAAATTAATTAATTATTCATATA
Found at i:71697256 original size:27 final size:28
Alignment explanation
Indices: 71697028--71697249 Score: 118
Period size: 32 Copynumber: 7.7 Consensus size: 28
71697018 GAATTATTTT
* * * *
71697028 GAAATATGATTATTTATGTAATTAATAA
1 GAAATATAATTAATTATTTAATTAATCA
* *
71697056 AAAAT-TAATTAATTATTCATAAAATT-ATTA
1 GAAATATAATTAATTATT--T--AATTAATCA
* * *
71697086 TGAAATATGATTATTTATTTATTTAATCA
1 -GAAATATAATTAATTATTTAATTAATCA
*
71697115 GAAAT-TAATTAATTATTCGTATAATT-ATTA
1 GAAATATAATTAATTA-T--T-TAATTAATCA
* *
71697145 TGAAATATGATTATTTATTTAATTAAT-A
1 -GAAATATAATTAATTATTTAATTAATCA
* *
71697173 -AAAAATAATTAATTATTCATAAAATT-ATTA
1 GAAATATAATTAATTATT--T--AATTAATCA
*
71697203 TGAAATATAATTATTTATTTAATTAATCA
1 -GAAATATAATTAATTATTTAATTAATCA
71697232 GAAAT-TAATTAATTATTT
1 GAAATATAATTAATTATTT
71697250 GTATAATTAT
Statistics
Matches: 149, Mismatches: 23, Indels: 45
0.69 0.11 0.21
Matches are distributed among these distances:
26 14 0.09
27 29 0.19
28 29 0.19
29 12 0.08
30 14 0.09
31 18 0.12
32 33 0.22
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
GAAATATAATTAATTATTTAATTAATCA
Found at i:71705545 original size:68 final size:69
Alignment explanation
Indices: 71705426--71705597 Score: 206
Period size: 68 Copynumber: 2.5 Consensus size: 69
71705416 CTTTCCAAGG
* **
71705426 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
71705490 -TTAA
66 GTT-A
** * *
71705494 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
71705559 GTTT
66 GTTA
* * * *
71705563 TAAAT-TACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
71705598 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
68 83 0.92
69 5 0.06
70 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTA
Found at i:71706355 original size:69 final size:69
Alignment explanation
Indices: 71706188--71706362 Score: 201
Period size: 70 Copynumber: 2.5 Consensus size: 69
71706178 TTTGTTTTTC
* **
71706188 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
71706253 TTAAA
66 TT-AA
** *
71706258 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT-AATTTA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTT-
*
71706322 TGTT-T
65 T-TTAA
* ** * *
71706327 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
71706363 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
69 36 0.40
70 53 0.58
71 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
TTAA
Found at i:71706400 original size:192 final size:192
Alignment explanation
Indices: 71705426--71707760 Score: 4531
Period size: 192 Copynumber: 12.2 Consensus size: 192
71705416 CTTTCCAAGG
71705426 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT-AATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
71705490 TT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71705554 TTTATGTTTTAAATT-ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71705615 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
71705680 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71705745 TTTATGTTTT-AATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG-TTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71705805 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
71705870 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71705935 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71705997 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
71706062 TTAAAAAAATC-ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71706126 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71706188 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
71706253 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAA
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71706318 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71706380 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
71706445 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71706510 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71706572 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
71706637 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
71706702 TTTATGTTTTAGATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71706764 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
71706829 TTTAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71706894 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71706956 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
71707021 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCCGATGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71707086 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71707148 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
71707213 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71707278 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71707340 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
71707405 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71707470 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
71707532 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT-AGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
71707596 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGATGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
71707661 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
71707723 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
71707761 GGGGCACGCC
Statistics
Matches: 2123, Mismatches: 16, Indels: 11
0.99 0.01 0.01
Matches are distributed among these distances:
189 58 0.03
190 157 0.07
191 489 0.23
192 1419 0.67
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:71706885 original size:70 final size:69
Alignment explanation
Indices: 71706758--71706892 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 69
71706748 TTAATTTTTG
* **
71706758 TTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
1 TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
71706823 AATT
66 AATT
* ** *
71706827 TTTTTAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
1 TTTTTAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT
71706892 A
65 A
71706893 GTTTATGTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
69 9 0.16
70 49 0.84
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (69 bp):
TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
AATT
Found at i:71707538 original size:314 final size:306
Alignment explanation
Indices: 71707217--71707918 Score: 789
Period size: 314 Copynumber: 2.2 Consensus size: 306
71707207 AATTTTTTAA
* * *
71707217 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAATTTA
** * * *
71707282 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTT-A-A-GCC-TTTTAATTTTT-G-TT-T-TT
66 TGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGACGCCGATGT-ATTTTTAGTTTATGTT
* *
71707339 CAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTT
130 CAAAATCAACTCATATTGCGAG--A-G-G-TGAG--TCAAG-C-C-TT---GTAATTTT---TGT
*
71707404 TTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
179 TTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
71707469 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
244 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* ** *
71707532 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TTAGGTATTTTTAATTT-
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAATTTA
*
71707594 T-TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGATGTATTTT
66 TGTTT---TAAATCAACTCATATTGCGAGAAGTGAGTTGA--------G-ACGCCGATGTATTTT
** ** * * *
71707658 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
119 TAGTTTATGTTCAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTTGTAATTTTTGTTTTTA
71707723 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
184 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
71707788 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
249 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * * * *
71707846 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTTAATT
71707911 TATGTTTT
64 TATGTTTT
71707919 TTTCAATCTA
Statistics
Matches: 328, Mismatches: 33, Indels: 50
0.80 0.08 0.12
Matches are distributed among these distances:
311 3 0.01
312 1 0.00
313 14 0.04
314 195 0.59
315 35 0.11
317 10 0.03
318 15 0.05
319 1 0.00
320 5 0.02
321 1 0.00
322 1 0.00
323 4 0.01
325 5 0.02
326 10 0.03
327 4 0.01
328 3 0.01
329 1 0.00
330 20 0.06
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (306 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAATTTA
TGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGACGCCGATGTATTTTTAGTTTATGTTC
AAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTTGTAATTTTTGTTTTTAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAAATTG
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:71707628 original size:122 final size:122
Alignment explanation
Indices: 71707410--71707636 Score: 298
Period size: 122 Copynumber: 1.9 Consensus size: 122
71707400 ATTTTTTTAA
* ** * *
71707410 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
* ** *
71707475 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
**
71707532 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TTAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
71707595 -TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
66 GTTT---AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
71707637 CGGGGCACGC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
119 3 0.03
120 1 0.01
121 14 0.16
122 72 0.80
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:71707741 original size:54 final size:54
Alignment explanation
Indices: 71707677--71707882 Score: 160
Period size: 54 Copynumber: 3.5 Consensus size: 54
71707667 TTTTAAATTG
71707677 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
** * *** ***
71707731 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTT-T-TCAAAA
**
71707796 ATTG
51 ATCA
71707800 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* *
71707854 ACTCATATTGCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
71707883 CGGCTCACAT
Statistics
Matches: 113, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
54 58 0.51
55 1 0.01
56 4 0.04
57 6 0.05
60 1 0.01
63 1 0.01
66 6 0.05
67 4 0.04
68 1 0.01
69 31 0.27
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:71707923 original size:16 final size:17
Alignment explanation
Indices: 71707902--71707935 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
71707892 TGCTGAGGTA
*
71707902 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
71707918 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
71707935 T
1 T
71707936 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:71708046 original size:176 final size:183
Alignment explanation
Indices: 71707841--71708253 Score: 477
Period size: 193 Copynumber: 2.2 Consensus size: 183
71707831 TAATTTTTGT
*
71707841 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* *
71707905 TC-AA-TTT-A-TGTTTTTTTCAATCTATGCT-TTTC--AAAAATCAACTTATATTGCGAGAGGT
64 TCAAATTTTAATTGTTTTTTTCAATCTATG-TGTTTCAAAAAAATCAACTCATATTGCAAGAGGT
* *
71707963 GAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
128 GAGTTGAGCCTCAAGGCACGCTGAGATATTTTCAATTTCTACTTTAC-AATTTCTAC
* *
71708019 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
* * *
71708083 AAATTCTGTTTTTAATTTTTGTTTTTTTTAATTTCTGTGTTTCAAAAAAAAATCAACTCATATTG
66 AAA------TTTTAA---TTGTTTTTTTCAATCTATGTGTTTC--AAAAAAATCAACTCATATTG
* * * **
71708148 CAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTTAATTTCTACTTTTCAATTTCTGT
120 CAAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGATATTTTCAATTTCTACTTTACAATTTCTAC
71708212 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
71708254 TTTAATTTCT
Statistics
Matches: 197, Mismatches: 16, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
176 52 0.26
177 5 0.03
178 5 0.03
184 3 0.02
185 1 0.01
188 1 0.01
189 19 0.10
192 2 0.01
193 75 0.38
195 34 0.17
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (183 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AAATTTTAATTGTTTTTTTCAATCTATGTGTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAG
TTGAGCCTCAAGGCACGCTGAGATATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:71708099 original size:85 final size:88
Alignment explanation
Indices: 71707841--71708099 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 88
71707831 TAATTTTTGT
*
71707841 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
71707905 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
71707932 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
71707994 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
71708019 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
71708083 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
71708100 TTTGTTTTTT
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 29 0.20
88 2 0.01
89 31 0.21
91 41 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:71708386 original size:57 final size:54
Alignment explanation
Indices: 71708197--71708417 Score: 306
Period size: 57 Copynumber: 4.1 Consensus size: 54
71708187 TTAATTTCTA
*
71708197 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
1 CTTTT-AATTTCTATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
* *
71708252 CTTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTTGAGTTGAGC
1 CTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGAGG-TGAGTTGAGC
71708307 C--TT--TTTCTATTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
1 CTTTTAATTTCTATTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
* * *
71708358 CTTTTGCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT--AATTTCTATTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
71708415 CTT
1 CTT
71708418 GGCTCACGTG
Statistics
Matches: 150, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
51 23 0.15
52 23 0.15
53 4 0.03
54 36 0.24
55 16 0.11
57 48 0.32
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (54 bp):
CTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
Found at i:71708677 original size:13 final size:14
Alignment explanation
Indices: 71708659--71708691 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
71708649 TTTAATTTTC
*
71708659 AAAATTTCAAAA-A
1 AAAATTTAAAAATA
71708672 AAAATTTAAAAATA
1 AAAATTTAAAAATA
71708686 AAAATT
1 AAAATT
71708692 GCATTTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTTAAAAATA
Found at i:71708721 original size:30 final size:30
Alignment explanation
Indices: 71708687--71708788 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
71708677 TTAAAAATAA
*
71708687 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-CT
* *
71708717 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTCT
* * *
71708747 AAATTTCACTTAGACCCCTAAAATTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTC-TCT
71708777 AAATTTCATTTT
1 AAATTTCATTTT
71708789 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
30 59 0.97
31 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTCT
Found at i:71708802 original size:29 final size:28
Alignment explanation
Indices: 71708687--71708803 Score: 92
Period size: 30 Copynumber: 4.0 Consensus size: 28
71708677 TTAAAAATAA
* * *
71708687 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTT-AACCCTAAA-TTTTCTT
* *
71708717 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTAACCC-TAAATTTTC-TT
* *
71708747 AAATTTCA-CTTAGACCCCTAAAATTTCATT
1 AAATTTCATTTTA-A-CCCTAAATTTTC-TT
*
71708777 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTAACCCTAAATTTTCT
71708804 AAAAATTACA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
28 1 0.01
29 19 0.27
30 44 0.63
31 6 0.09
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.44
Consensus pattern (28 bp):
AAATTTCATTTTAACCCTAAATTTTCTT
Found at i:71709185 original size:3 final size:3
Alignment explanation
Indices: 71709177--71709248 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
71709167 GCTAGACTTT
*
71709177 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA
*
71709224 GAAA GAA -AA -AA GAA AAA GAA -AA GAA
1 G-AA GAA GAA GAA GAA GAA GAA GAA GAA
71709249 ATAATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:71709195 original size:10 final size:10
Alignment explanation
Indices: 71709180--71709208 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
71709170 AGACTTTGAA
71709180 GAAGAAGAAG
1 GAAGAAGAAG
71709190 GAAGAAGAAG
1 GAAGAAGAAG
71709200 GAAGAAGAA
1 GAAGAAGAA
71709209 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:71709195 original size:13 final size:13
Alignment explanation
Indices: 71709177--71709222 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
71709167 GCTAGACTTT
71709177 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
71709190 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
71709203 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
71709214 GAAGAAGAA
1 GAAGAAGAA
71709223 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:71709360 original size:20 final size:20
Alignment explanation
Indices: 71709337--71709377 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
71709327 AAAACAACAA
71709337 AAACAAAAACAAAAAAAAAG
1 AAACAAAAACAAAAAAAAAG
***
71709357 AAACAAGCCCAAAAAAAAAG
1 AAACAAAAACAAAAAAAAAG
71709377 A
1 A
71709378 GCAGGCCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.15, G:0.07, T:0.00
Consensus pattern (20 bp):
AAACAAAAACAAAAAAAAAG
Found at i:71709530 original size:11 final size:11
Alignment explanation
Indices: 71709508--71709576 Score: 56
Period size: 11 Copynumber: 6.3 Consensus size: 11
71709498 GGCCCAATAG
71709508 AGAAAA-AAAA
1 AGAAAAGAAAA
71709518 AGAAAAGAAAA
1 AGAAAAGAAAA
71709529 AG--AAGAAAA
1 AGAAAAGAAAA
*
71709538 AGAGAAGGAAAAA
1 AGA-AAAG-AAAA
71709551 AGAAGGAA-AAAA
1 AGAA--AAGAAAA
*
71709563 AGAAAAAAAAA
1 AGAAAAGAAAA
71709574 AGA
1 AGA
71709577 GGTTCAATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
9 9 0.18
10 8 0.16
11 13 0.27
12 11 0.22
13 7 0.14
14 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:71709534 original size:14 final size:14
Alignment explanation
Indices: 71709511--71709574 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
71709501 CCAATAGAGA
71709511 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
71709525 AAAAAGAAGAAAAAG
1 AAAAAAAAG-AAAAG
*
71709540 AGAAGGAAAAA-AGAAG
1 A-AA--AAAAAGAAAAG
*
71709556 GAAAAAAAGAAAA-
1 AAAAAAAAGAAAAG
71709569 AAAAAA
1 AAAAAA
71709575 GAGGTTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
13 10 0.26
14 11 0.28
15 8 0.21
16 6 0.15
18 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:71709551 original size:23 final size:22
Alignment explanation
Indices: 71709512--71709573 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
71709502 CAATAGAGAA
71709512 AAAAAAAGAAAAGAAAAAGAA-G
1 AAAAAAAGAAAA-AAAAAGAAGG
* *
71709534 AAAAAGAGAAGGAAAAAAGAAGG
1 AAAAAAAGAA-AAAAAAAGAAGG
71709557 AAAAAAAGAAAAAAAAA
1 AAAAAAAGAAAAAAAAA
71709574 AGAGGTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 23 0.68
23 11 0.32
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAAAGAAGG
Found at i:71709574 original size:36 final size:36
Alignment explanation
Indices: 71709509--71709577 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
71709499 GCCCAATAGA
*
71709509 GAAAAAAAAAGAAAAGAAAAAGAAGAAAAAGAGAAG
1 GAAAAAAAAAGAAAAGAAAAAGAAAAAAAAGAGAAG
*
71709545 GAAAAAAGAAGGAAAA-AAAGAA-AAAAAAAAGAG
1 GAAAAAA-AAAGAAAAGAAA-AAGAAAAAAAAGAG
71709578 GTTCAATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 20 0.69
37 9 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (36 bp):
GAAAAAAAAAGAAAAGAAAAAGAAAAAAAAGAGAAG
Found at i:71709944 original size:18 final size:18
Alignment explanation
Indices: 71709900--71710390 Score: 192
Period size: 17 Copynumber: 27.8 Consensus size: 18
71709890 TCAATAATCC
*
71709900 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
71709918 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
71709935 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
71709952 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
71709969 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
71709990 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * ***
71710007 CCGTATTTTCAAAAAAAAA
1 TCGTGTTTTC-AAAAATTT
*
71710026 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
**
71710045 TCGTGTTTTCAAAAAAAAATGA
1 TCGTGTTTTC----AAAAATTT
*
71710067 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
71710084 CCGTGTTAAAAAAAAATCT
1 TCGTGTT-TTCAAAAATTT
* *
71710103 TCGTATTTTCAAAAAAATT
1 TCGTGTTTTC-AAAAATTT
*
71710122 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
*
71710140 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* * ***
71710157 CCGGTGATTT-AAAAAAAA
1 TC-GTGTTTTCAAAAATTT
*
71710175 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
*
71710193 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
71710210 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
*
71710227 TCGTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
*
71710244 TCGTATTTT---AAATTT
1 TCGTGTTTTCAAAAATTT
** **
71710259 T--T-TTTAAGAAAAAAAT
1 TCGTGTTT-TCAAAAATTT
* *
71710275 T-GTG-TTTCAAAAAAAATG
1 TCGTGTTTTC--AAAAATTT
* *
71710293 TCTTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
71710310 TCGTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
71710327 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
**
71710344 TCGTG-TTTCTGAAATTT
1 TCGTGTTTTCAAAAATTT
* *
71710361 CCGTG-TTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
71710377 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
71710391 AAAAACTTTC
Statistics
Matches: 351, Mismatches: 83, Indels: 79
0.68 0.16 0.15
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 6 0.02
16 29 0.08
17 164 0.47
18 65 0.19
19 46 0.13
20 7 0.02
21 20 0.06
22 10 0.03
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:71709962 original size:16 final size:16
Alignment explanation
Indices: 71709911--71709964 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
71709901 CGTGCTTTTA
71709911 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
71709927 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
71709945 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
71709961 AAAA
1 AAAA
71709965 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:71709996 original size:38 final size:39
Alignment explanation
Indices: 71709910--71710090 Score: 160
Period size: 38 Copynumber: 4.8 Consensus size: 39
71709900 TCGTGCTTTT
* * *
71709910 AAAAATTCTCATGTTTCAAAAATCTTCGTGTTTTC----
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
* * * *
71709945 -AAAATTCTAGTGTTTCAAAAATTTTCTTGTTTTC-AGA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
* * * * *
71709982 AAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
* *
71710021 AAAAATCAT-GTCTTTCAAAAATTTTCGTGTTTTCAAAA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
* * *
71710059 AAAAATGACCGTGTTTCAAAAATTTCCGTGTT
1 AAAAATTATCGTGTTTCAAAAATTTTCGTGTT
71710091 AAAAAAAAAT
Statistics
Matches: 117, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
34 30 0.26
38 58 0.50
39 29 0.25
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (39 bp):
AAAAATTATCGTGTTTCAAAAATTTTCGTGTTTTCAAAA
Found at i:71710060 original size:39 final size:37
Alignment explanation
Indices: 71709957--71710240 Score: 130
Period size: 38 Copynumber: 7.7 Consensus size: 37
71709947 AATTCTAGTG
* * ** *
71709957 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGTTTTCA-AAAAAA-AATCATGT
* *
71709996 TTT-ATAAATTTCCGTATTTTCAAAAAAAAATCATGT
1 TTTCAAAAATTTCCGTGTTTTCAAAAAAAAATCATGT
* * *
71710032 CTTTCAAAAATTTTCGTGTTTTCAAAAAAAAATGACCGT
1 -TTTCAAAAATTTCCGTGTTTTCAAAAAAAAATCA-TGT
*
71710071 GTTTCAAAAATTTCCGTG--TT-AAAAAAAAATCTTCGTAT
1 -TTTCAAAAATTTCCGTGTTTTCAAAAAAAAATCAT-G--T
* * *** *
71710109 TTTCAAAAAAATTTCGGTG-TTTC-AAAGATTTTCGTGT
1 TTTC--AAAAATTTCCGTGTTTTCAAAAAAAAATCATGT
* *
71710146 TTTCAAAAA-CTCCGGTGATTT--AAAAAAAATC--GT
1 TTTCAAAAATTTCC-GTGTTTTCAAAAAAAAATCATGT
*** *
71710179 TTTCTAAAAAATTTCCGTG-TTTC-AAAAATTTTCGTGT
1 TTTC--AAAAATTTCCGTGTTTTCAAAAAAAAATCATGT
*
71710216 TTT-AAAAATTTTCGTGTTTT-AAAAA
1 TTTCAAAAATTTCCGTGTTTTCAAAAA
71710241 TTCTCGTATT
Statistics
Matches: 191, Mismatches: 34, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
33 6 0.03
34 17 0.09
35 36 0.19
36 22 0.12
37 25 0.13
38 42 0.22
39 34 0.18
40 9 0.05
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (37 bp):
TTTCAAAAATTTCCGTGTTTTCAAAAAAAAATCATGT
Found at i:71710119 original size:56 final size:57
Alignment explanation
Indices: 71710037--71710146 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 57
71710027 CATGTCTTTC
* *
71710037 AAAAATTTTCGTGTTTTCAAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAA
1 AAAAATCTTCGTATTTTC-AAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAA
** * * *
71710095 AAAAATCTTCGTATTTTC-AAAAAAATTTCGGTGTTTCAAAGATTTTCGTGTT
1 AAAAATCTTCGTATTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTT
71710147 TTCAAAAACT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 29 0.64
58 16 0.36
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (57 bp):
AAAAATCTTCGTATTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAA
Found at i:71712967 original size:25 final size:26
Alignment explanation
Indices: 71712913--71712967 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
71712903 CATGGCAATG
* * * *
71712913 CAGCAGAGGACTGTTGACGTCGATGA
1 CAGCAAAGGACGGTCGACGACGATGA
71712939 -AGCAAAGGACGGTCGACGACGAT-A
1 CAGCAAAGGACGGTCGACGACGATGA
71712963 CAGCA
1 CAGCA
71712968 GACGTTGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.33, C:0.22, G:0.33, T:0.13
Consensus pattern (26 bp):
CAGCAAAGGACGGTCGACGACGATGA
Done.