Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 98 of 216
Found at i:30514919 original size:20 final size:22
Alignment explanation
Indices: 30514894--30514941 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
30514884 CGAATCTGTC
30514894 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
30514914 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
30514936 AAAAAT
1 AAAAAT
30514942 GAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:30530409 original size:35 final size:35
Alignment explanation
Indices: 30530369--30530440 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
30530359 CAATAATGCA
* *
30530369 TTGAGACTAATGTGTAGTTGATTGGTGACAAAGTG
1 TTGAGACTAATGTGCAGTTGATTGATGACAAAGTG
30530404 TTGAGACTAATGTGCAGTTGATTGATGACAAAGTG
1 TTGAGACTAATGTGCAGTTGATTGATGACAAAGTG
30530439 TT
1 TT
30530441 CTCATTGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.35
Consensus pattern (35 bp):
TTGAGACTAATGTGCAGTTGATTGATGACAAAGTG
Found at i:30531308 original size:13 final size:13
Alignment explanation
Indices: 30531290--30531315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30531280 TTTTTTACTG
30531290 AAATTATTATAAT
1 AAATTATTATAAT
30531303 AAATTATTATAAT
1 AAATTATTATAAT
30531316 TATGATTTCA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:30540131 original size:29 final size:30
Alignment explanation
Indices: 30540073--30540131 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30540063 TGTCTTTAAA
* *
30540073 AATATTTACAAAAAGAGACAACTAATTTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
30540103 AATATTTACAAAAAGA-ACAACCAAATTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
30540132 GTAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAAATTTT
Found at i:30591733 original size:1 final size:1
Alignment explanation
Indices: 30591727--30591775 Score: 89
Period size: 1 Copynumber: 49.0 Consensus size: 1
30591717 AACTTGCACG
*
30591727 AAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30591776 TCAATTGTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.98, C:0.02, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:30603236 original size:138 final size:138
Alignment explanation
Indices: 30603046--30603575 Score: 603
Period size: 138 Copynumber: 3.8 Consensus size: 138
30603036 CATAGATATA
* *
30603046 ATTAATTG-ATATATTTTATCGAATTTATTACTAT-AAAGTTATATTAATTAATTTCGGT-AAAT
1 ATTAATTGTATATATTTTACCGAATTTATTAATATAAAAGTTATATTAATTAATTTCGGTCAAAT
* *
30603108 ATATTAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTCA
66 ATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTCA
*
30603173 TTCAAAAT
131 TACAAAAT
* * * * * *
30603181 TTTAATTGTATATATTTGACCAAATTTATTAATGTAAACAGTTATATTAATTAATTTCAGACAAA
1 ATTAATTGTATATATTTTACCGAATTTATTAATATAAA-AGTTATATTAATTAATTTCGGTCAAA
* *
30603246 -ATATAAAAGACATGAAAATTAATATTCTTTTTGAAAGAATATAATTAATATATGAATCTTATTC
65 TATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTC
**
30603310 ATACAGGAT
130 ATACAAAAT
** *
30603319 ATTAATTGTATATATAATACTGAATTTATTAATATAAACAGTAGTATAAATAGTTATATTAATTA
1 ATTAATTGTATATATTTTACCGAATTTATTAATAT-AA-A--AGT-T--ATA-TTA-ATTAA-T-
* * *
30603384 AATTAGGTCAAATACA-AAATA-A-ATGGAAATTAATATT-TTTTGGAAAGAATATAATTAATAT
55 --TTCGGTCAAATATATAAA-AGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATAT
* *
30603445 ATGAATTTGATTCATAAAAAAT
117 ATGAATTTTATTCATACAAAAT
* * * *
30603467 ATTAATTGCATATATTTTATCGAATTTATTAATATAAAA-TTATAGTAATTAATTTCGATCAAA-
1 ATTAATTGTATATATTTTACCGAATTTATTAATATAAAAGTTATATTAATTAATTTCGGTCAAAT
*
30603530 ATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATGTAATT
66 ATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATT
30603576 CCTTTTTCTA
Statistics
Matches: 328, Mismatches: 45, Indels: 43
0.79 0.11 0.10
Matches are distributed among these distances:
133 3 0.01
134 12 0.04
135 21 0.06
136 39 0.12
137 3 0.01
138 119 0.36
139 7 0.02
140 4 0.01
141 3 0.01
142 2 0.01
143 1 0.00
144 4 0.01
145 3 0.01
146 6 0.02
147 3 0.01
148 70 0.21
149 14 0.04
150 11 0.03
151 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (138 bp):
ATTAATTGTATATATTTTACCGAATTTATTAATATAAAAGTTATATTAATTAATTTCGGTCAAAT
ATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTTATTCA
TACAAAAT
Found at i:30603441 original size:148 final size:150
Alignment explanation
Indices: 30603215--30603575 Score: 393
Period size: 148 Copynumber: 2.5 Consensus size: 150
30603205 TTTATTAATG
* * * *
30603215 TAAACAGTTATATTAATTAATTTCAGACAAAATATAAAAGACATGAAAATTAATATTCTTTTTGA
1 TAAACAGTTATATTAATTAAATTCAGACAAAATACAAAAGAAATGAAAATTAATATTCTTTTGGA
* ** *
30603280 AAGAATATAATTAATATATGAATCTT-ATTCATACAGGATATTAATTGTATATATAATA-CTGAA
66 AAGAATATAATTAATATATGAAT-TTGATTCATAAAAAATATTAATTGCATATATAATATC-GAA
30603343 TTTATTAATATAAACAGTAGTA
129 TTTATTAATATAAACAGTAGTA
* * * *
30603365 TAAATAGTTATATTAATTAAATT-AGGTC-AAATACAAAATAAATGGAAATTAATATT-TTTTGG
1 TAAACAGTTATATTAATTAAATTCA-GACAAAATACAAAAGAAATGAAAATTAATATTCTTTTGG
**
30603427 AAAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGCATATATTTTATCGAAT
65 AAAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGCATATATAATATCGAAT
30603492 TTATTAATATAAA-A-T--TA
130 TTATTAATATAAACAGTAGTA
* *
30603509 T----AG-TA-ATTAA-T---TTC-GATCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
1 TAAACAGTTATATTAATTAAATTCAGA-CAAAATACAAAAGAAATGAAAATTAATATTCTTTTGG
*
30603563 AAAGAATGTAATT
65 AAAGAATATAATT
30603576 CCTTTTTCTA
Statistics
Matches: 184, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
133 1 0.01
134 3 0.02
135 24 0.13
136 18 0.10
137 1 0.01
138 5 0.03
139 2 0.01
140 2 0.01
144 3 0.02
146 1 0.01
147 3 0.02
148 72 0.39
149 26 0.14
150 23 0.12
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (150 bp):
TAAACAGTTATATTAATTAAATTCAGACAAAATACAAAAGAAATGAAAATTAATATTCTTTTGGA
AAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGCATATATAATATCGAATT
TATTAATATAAACAGTAGTA
Found at i:30624187 original size:20 final size:20
Alignment explanation
Indices: 30624146--30624193 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
30624136 AGGAGGTTAG
* *
30624146 GGTAGTTTCTTATGAGTTGA
1 GGTAGTTGCTTATGAGTCGA
*
30624166 GGTAGTTGCTTATGCGTCGA
1 GGTAGTTGCTTATGAGTCGA
*
30624186 GGCAGTTG
1 GGTAGTTG
30624194 AGGCCGCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.10, G:0.35, T:0.38
Consensus pattern (20 bp):
GGTAGTTGCTTATGAGTCGA
Found at i:30630947 original size:10 final size:10
Alignment explanation
Indices: 30630932--30630980 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
30630922 ACGAGCTCAA
30630932 TGAGCTGAAT
1 TGAGCTGAAT
30630942 TGAGCTCGAA-
1 TGAGCT-GAAT
*
30630952 TGAGCTGACT
1 TGAGCTGAAT
* *
30630962 TGAGCTCAAG
1 TGAGCTGAAT
30630972 TGAGCTGAA
1 TGAGCTGAA
30630981 CCACATGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:30630953 original size:20 final size:19
Alignment explanation
Indices: 30630924--30630980 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 19
30630914 AGCTAATAAC
30630924 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
*
30630943 GAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGAATT
30630963 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
30630981 CCACATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:30640626 original size:25 final size:25
Alignment explanation
Indices: 30640562--30640627 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
30640552 TGTAGATTGA
* *
30640562 TATGCTCTCACGAGCTATAAATTAG
1 TATGCTCTCACGAGTTATAAATCAG
*
30640587 TATGCTCTCACGAGTTATAAATCAT
1 TATGCTCTCACGAGTTATAAATCAG
30640612 TATGCTCTCACGAGTT
1 TATGCTCTCACGAGTT
30640628 GCAGAGTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (25 bp):
TATGCTCTCACGAGTTATAAATCAG
Found at i:30650375 original size:24 final size:24
Alignment explanation
Indices: 30650346--30650391 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
30650336 CACCCTAAAT
*
30650346 TGACATTTCATTAGGGTTTACAAA
1 TGACATGTCATTAGGGTTTACAAA
30650370 TGACATGTCATTAGGGTTTACA
1 TGACATGTCATTAGGGTTTACA
30650392 TGATTCAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (24 bp):
TGACATGTCATTAGGGTTTACAAA
Found at i:30655624 original size:38 final size:39
Alignment explanation
Indices: 30655566--30655641 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
30655556 GCATTAGATA
30655566 AACATACCCATATCTACTAAAATCATCAGTGAAAGTAAT
1 AACATACCCATATCTACTAAAATCATCAGTGAAAGTAAT
*
30655605 AACATACCC-TTTCTACTAAAATCATCAGTGAAAGTAA
1 AACATACCCATATCTACTAAAATCATCAGTGAAAGTAA
30655642 CGAAGTACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (39 bp):
AACATACCCATATCTACTAAAATCATCAGTGAAAGTAAT
Found at i:30656057 original size:17 final size:18
Alignment explanation
Indices: 30656030--30656063 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30656020 AATTATTCTT
*
30656030 AATTATTGTCTCAAAACC
1 AATTATTGTCTAAAAACC
30656048 AATT-TTGTCTAAAAAC
1 AATTATTGTCTAAAAAC
30656064 AGAAATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (18 bp):
AATTATTGTCTAAAAACC
Found at i:30660038 original size:28 final size:28
Alignment explanation
Indices: 30660005--30660059 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
30659995 GAACAAATTA
30660005 ATGACTTAAAGCAGTATTAATGAATATT
1 ATGACTTAAAGCAGTATTAATGAATATT
30660033 ATGACTTAAAGCAGTATTAATGAATAT
1 ATGACTTAAAGCAGTATTAATGAATAT
30660060 CACATATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.35
Consensus pattern (28 bp):
ATGACTTAAAGCAGTATTAATGAATATT
Found at i:30663263 original size:19 final size:20
Alignment explanation
Indices: 30663239--30663284 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
30663229 CATCCAAACA
30663239 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
30663258 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
30663278 CCAGAAA
1 CCAGAAA
30663285 TTATTTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:30663767 original size:17 final size:18
Alignment explanation
Indices: 30663736--30663771 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
30663726 CTTTTATATG
30663736 AACCAAATCATAATAATT
1 AACCAAATCATAATAATT
30663754 AACCAAAT-ATAATAATT
1 AACCAAATCATAATAATT
30663771 A
1 A
30663772 TAATTACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (18 bp):
AACCAAATCATAATAATT
Found at i:30666744 original size:21 final size:21
Alignment explanation
Indices: 30666687--30666783 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
30666677 TAGAGGCATG
* *
30666687 TAAGTGCAATTTAGGGGGTAC-
1 TAAGTGCAATTCA-GGGGCACA
30666708 TGAAGTGCAA--CAGGGGCACA
1 T-AAGTGCAATTCAGGGGCACA
*
30666728 TAAGTGCAATTCAGGGGCACC
1 TAAGTGCAATTCAGGGGCACA
* * ** *
30666749 GAAGTACAA-AAAAGGGCACA
1 TAAGTGCAATTCAGGGGCACA
30666769 TAAGTGCAATTCAGG
1 TAAGTGCAATTCAGG
30666784 TGTACTGAAG
Statistics
Matches: 57, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
19 14 0.25
20 16 0.28
21 19 0.33
22 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (21 bp):
TAAGTGCAATTCAGGGGCACA
Found at i:30666835 original size:21 final size:21
Alignment explanation
Indices: 30666811--30666876 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
30666801 AAGGGCACGT
*
30666811 AAGTGTAATTCAGGGGTATCG
1 AAGTGCAATTCAGGGGTATCG
* * *
30666832 AAGTACAA-ACAGGGGCAT-G
1 AAGTGCAATTCAGGGGTATCG
30666851 TAAGTGCAATTCAGGGGTATCG
1 -AAGTGCAATTCAGGGGTATCG
30666873 AAGT
1 AAGT
30666877 ACAAATAGGG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.03
20 15 0.43
21 18 0.51
22 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (21 bp):
AAGTGCAATTCAGGGGTATCG
Found at i:30666844 original size:20 final size:20
Alignment explanation
Indices: 30666821--30666887 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
30666811 AAGTGTAATT
30666821 CAGGGGTATCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
* * *
30666841 CAGGGGCAT-GTAAGTGCAATT
1 CAGGGGTATCG-AAGTACAA-A
30666862 CAGGGGTATCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
*
30666882 TAGGGG
1 CAGGGG
30666888 AATGTAAGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.03
20 20 0.54
21 15 0.41
22 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.18
Consensus pattern (20 bp):
CAGGGGTATCGAAGTACAAA
Found at i:30666856 original size:123 final size:123
Alignment explanation
Indices: 30666649--30666881 Score: 301
Period size: 123 Copynumber: 1.9 Consensus size: 123
30666639 GGGCACGTGT
* *
30666649 GTGCAATTCAGGGGTACCGAACTACAAATAGAGGCATGTAAGTGCAATTTAGGGGGTACTGAAGT
1 GTGCAATTCAGGGGTACCGAACTACAAATAGAGGCACGTAAGTGCAATTCAGGGGGTACTGAAGT
*
30666714 GCAACAGGGGCACATAAGTGCAATTCAGGGGCACCGAAGTACAAAAAAGGGCACATAA
66 ACAACAGGGGCACATAAGTGCAATTCAGGGGCACCGAAGTACAAAAAAGGGCACATAA
* * * ** *
30666772 GTGCAATTCAGGTGTACTGAAGTATGAATA-AGGGCACGTAAGTGTAATTCA-GGGGTA-TCGAA
1 GTGCAATTCAGGGGTACCGAACTACAAATAGA-GGCACGTAAGTGCAATTCAGGGGGTACT-GAA
** * *
30666834 GTACAAACAGGGGCATGTAAGTGCAATTCAGGGGTATCGAAGTACAAA
64 GTAC-AACAGGGGCACATAAGTGCAATTCAGGGGCACCGAAGTACAAA
30666882 TAGGGGAATG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
121 1 0.01
122 13 0.14
123 80 0.85
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.20
Consensus pattern (123 bp):
GTGCAATTCAGGGGTACCGAACTACAAATAGAGGCACGTAAGTGCAATTCAGGGGGTACTGAAGT
ACAACAGGGGCACATAAGTGCAATTCAGGGGCACCGAAGTACAAAAAAGGGCACATAA
Found at i:30666876 original size:82 final size:83
Alignment explanation
Indices: 30666634--30666877 Score: 289
Period size: 82 Copynumber: 3.0 Consensus size: 83
30666624 TCGGAGTTTA
** * * * *
30666634 AACAAGGGCACGTGTGTGCAATTCAGGGGTACCGAACTACAAATAGAGGCATGTAAGTGCAATTT
1 AACAAGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTC
30666699 AGGGGGTACTGAAG--TGC
66 A-GGGGTACTGAAGTATGC
* * * * **
30666716 AACAGGGGCACATAAGTGCAATTCAGGGGCACCGAAGTACAAAAAAGGGCACATAAGTGCAATTC
1 AACAAGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTC
*
30666781 AGGTGTACTGAAGTATG-
66 AGGGGTACTGAAGTATGC
* * * *
30666798 AATAAGGGCACGTAAGTGTAATTCAGGGGTATCGAAGTACAAACAGGGGCATGTAAGTGCAATTC
1 AACAAGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTC
30666863 AGGGGTA-TCGAAGTA
66 AGGGGTACT-GAAGTA
30666878 CAAATAGGGG
Statistics
Matches: 135, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
81 12 0.09
82 121 0.90
83 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (83 bp):
AACAAGGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTC
AGGGGTACTGAAGTATGC
Found at i:30666887 original size:41 final size:41
Alignment explanation
Indices: 30666639--30666911 Score: 255
Period size: 41 Copynumber: 6.7 Consensus size: 41
30666629 GTTTAAACAA
** * *
30666639 GGGCACGTGTGTGCAATTCAGGGGTACCGAACTACAAATAG
1 GGGCACGTAAGTGCAATTCAGGGGTATCGAAGTACAAATAG
* * * * *
30666680 AGGCATGTAAGTGCAATTTAGGGGGTA-CTGAAGTGC-AACAG
1 GGGCACGTAAGTGCAATTCA-GGGGTATC-GAAGTACAAATAG
* * * * *
30666721 GGGCACATAAGTGCAATTCAGGGGCACCGAAGTACAAAAAA
1 GGGCACGTAAGTGCAATTCAGGGGTATCGAAGTACAAATAG
* * ** *
30666762 GGGCACATAAGTGCAATTCAGGTGTA-CTGAAGTATGAATAA
1 GGGCACGTAAGTGCAATTCAGGGGTATC-GAAGTACAAATAG
* *
30666803 GGGCACGTAAGTGTAATTCAGGGGTATCGAAGTACAAACAG
1 GGGCACGTAAGTGCAATTCAGGGGTATCGAAGTACAAATAG
*
30666844 GGGCATGTAAGTGCAATTCAGGGGTATCGAAGTACAAATAG
1 GGGCACGTAAGTGCAATTCAGGGGTATCGAAGTACAAATAG
* * ** *
30666885 GGGAATGTAAGCACAATTCAAGGGTAT
1 GGGCACGTAAGTGCAATTCAGGGGTAT
30666912 AATTAAGTGT
Statistics
Matches: 191, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
40 12 0.06
41 167 0.87
42 12 0.06
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (41 bp):
GGGCACGTAAGTGCAATTCAGGGGTATCGAAGTACAAATAG
Found at i:30666902 original size:123 final size:123
Alignment explanation
Indices: 30666681--30666904 Score: 281
Period size: 123 Copynumber: 1.8 Consensus size: 123
30666671 TACAAATAGA
* * *
30666681 GGCATGTAAGTGCAATTTAGGGGGTACTGAAGTGCAACAGGGGCACATAAGTGCAATTCAGGGGC
1 GGCACGTAAGTGCAATTCAGGGGGTACTGAAGTACAACAGGGGCACATAAGTGCAATTCAGGGGC
* **
30666746 ACCGAAGTACAAAAAAGGGCACATAAGTGCAATTCAGGTGTACTGAAGTATGAATAAG
66 ACCGAAGTACAAAAAAGGGAACATAAGCACAATTCAGGTGTACTGAAGTATGAATAAG
* **
30666804 GGCACGTAAGTGTAATTCA-GGGGTA-TCGAAGTACAAACAGGGGCATGTAAGTGCAATTCAGGG
1 GGCACGTAAGTGCAATTCAGGGGGTACT-GAAGTAC-AACAGGGGCACATAAGTGCAATTCAGGG
* * * * **
30666867 GTATCGAAGTACAAATAGGGGAATGTAAGCACAATTCA
64 GCACCGAAGTACAAAAAAGGGAACATAAGCACAATTCA
30666905 AGGGTATAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
121 1 0.01
122 12 0.14
123 71 0.85
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (123 bp):
GGCACGTAAGTGCAATTCAGGGGGTACTGAAGTACAACAGGGGCACATAAGTGCAATTCAGGGGC
ACCGAAGTACAAAAAAGGGAACATAAGCACAATTCAGGTGTACTGAAGTATGAATAAG
Found at i:30666911 original size:82 final size:81
Alignment explanation
Indices: 30666639--30666910 Score: 285
Period size: 82 Copynumber: 3.3 Consensus size: 81
30666629 GTTTAAACAA
** * * * *
30666639 GGGCACGTGTGTGCAATTCAGGGGTACCGAACTACAAATAGAGGCATGTAAGTGCAATTTAGGGG
1 GGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTCA-GGG
* *
30666704 GTACTGAAGTGCAACAG
65 GTACTGAAGTACAATAG
* * * ** *
30666721 GGGCACATAAGTGCAATTCAGGGGCACCGAAGTACAAAAAAGGGCACATAAGTGCAATTCAGGTG
1 GGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTCAGGGG
* *
30666786 TACTGAAGTATGAATAA
66 TACTGAAGTA-CAATAG
* * *
30666803 GGGCACGTAAGTGTAATTCAGGGGTATCGAAGTACAAACAGGGGCATGTAAGTGCAATTCAGGGG
1 GGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTCAGGGG
30666868 TA-TCGAAGTACAAATAG
66 TACT-GAAGTAC-AATAG
* * ** *
30666885 GGGAATGTAAGCACAATTCAAGGGTA
1 GGGCACGTAAGTGCAATTCAGGGGTA
30666911 TAATTAAGTG
Statistics
Matches: 154, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
81 13 0.08
82 141 0.92
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.20
Consensus pattern (81 bp):
GGGCACGTAAGTGCAATTCAGGGGTACCGAAGTACAAAAAGGGGCATGTAAGTGCAATTCAGGGG
TACTGAAGTACAATAG
Found at i:30669611 original size:27 final size:27
Alignment explanation
Indices: 30669581--30669803 Score: 266
Period size: 27 Copynumber: 8.3 Consensus size: 27
30669571 AGAGAGAAAT
*
30669581 AAATGACCGGATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
30669608 AAATGACTGAATTACCCCTACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * * *
30669635 AGATGATCGAATTACCCCCAGAAGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * **
30669662 AAATGATCAAATTAAGCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
30669689 AAATGATCGAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
30669716 AAATGACCGAATTACTCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* **
30669743 AAATGACTGAATTACCCTTACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
30669770 AAATGATCGAAATACACCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
30669797 AAATGAC
1 AAATGAC
30669804 TGTTATACCC
Statistics
Matches: 163, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCACAGGGTA
Found at i:30670167 original size:28 final size:27
Alignment explanation
Indices: 30670126--30670186 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
30670116 ACTGTACCGA
* *
30670126 TACTGTATTGGGCTAAGGCCCACATTG
1 TACTGTATTAGGCTAAGGCCCACACTG
*
30670153 TTACTGTATTAGGCTAAGGCCTACACTG
1 -TACTGTATTAGGCTAAGGCCCACACTG
30670181 TACTGT
1 TACTGT
30670187 TACTGAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (27 bp):
TACTGTATTAGGCTAAGGCCCACACTG
Found at i:30670206 original size:33 final size:34
Alignment explanation
Indices: 30670151--30670219 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
30670141 AGGCCCACAT
*
30670151 TGTTACTGTATTAGGCTAAGGCCTACACTGT-AC
1 TGTTACTGTAATAGGCTAAGGCCTACACTGTCAC
* *
30670184 TGTTACTG-AATAGGGCTCAGGCCTAGACTGTCAC
1 TGTTACTGTAATA-GGCTAAGGCCTACACTGTCAC
30670218 TG
1 TG
30670220 CTTGTTGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 3 0.10
33 24 0.77
34 4 0.13
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (34 bp):
TGTTACTGTAATAGGCTAAGGCCTACACTGTCAC
Found at i:30682971 original size:32 final size:33
Alignment explanation
Indices: 30682921--30682984 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
30682911 TCATAAGTTT
30682921 GCATCTTTAAATTATGTCTTACATTATATGTTA
1 GCATCTTTAAATTATGTCTTACATTATATGTTA
*
30682954 GCATCTTT-AATTATGTCTTACATTATGTGTT
1 GCATCTTTAAATTATGTCTTACATTATATGTT
30682985 TTGCATTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (33 bp):
GCATCTTTAAATTATGTCTTACATTATATGTTA
Found at i:30688252 original size:49 final size:50
Alignment explanation
Indices: 30688192--30688296 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 50
30688182 GAATCTTATG
* ** * * *
30688192 TGTTAATTAAGTTTATGTTTTAATTATGTCATGCA-TTATGTAACTCATA
1 TGTTAAATAAGTTTACATTTTAATTAAGCCATGCATTTATGCAACTCATA
* * *
30688241 TGTTAAATAAGTTTGCATTTTAATTAAGCCATGCATTTATGCATCTTATA
1 TGTTAAATAAGTTTACATTTTAATTAAGCCATGCATTTATGCAACTCATA
30688291 TGTTAA
1 TGTTAA
30688297 TTATGCTTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 29 0.63
50 17 0.37
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (50 bp):
TGTTAAATAAGTTTACATTTTAATTAAGCCATGCATTTATGCAACTCATA
Found at i:30688784 original size:31 final size:31
Alignment explanation
Indices: 30688746--30688847 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 31
30688736 AAACCTGCAT
* *
30688746 ATTTAATTATGCCTTGCATTATATGTTTAGC
1 ATTTAATTATGACTTGCATTATGTGTTTAGC
30688777 ATTTAATTATGACTTGCATTATGTGTTT-GC
1 ATTTAATTATGACTTGCATTATGTGTTTAGC
* * **
30688807 ATCTTTAAATTTTGTCTTGCATTATGTGAGTAGC
1 A--TTT-AATTATGACTTGCATTATGTGTTTAGC
30688841 ATTTAAT
1 ATTTAAT
30688848 GAGAAGTCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.05
31 29 0.48
32 6 0.10
33 20 0.33
34 3 0.05
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTTAATTATGACTTGCATTATGTGTTTAGC
Found at i:30690357 original size:21 final size:19
Alignment explanation
Indices: 30690325--30690371 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
30690315 CAAATTCGAA
30690325 AAAATAAGAAAATTCAAAGTT
1 AAAA-AAGAAAATTCAAA-TT
*
30690346 AAAAAAGTAAAATTCGAATT
1 AAAAAAG-AAAATTCAAATT
30690366 AAAAAA
1 AAAAAA
30690372 ATATTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (19 bp):
AAAAAAGAAAATTCAAATT
Found at i:30690372 original size:21 final size:20
Alignment explanation
Indices: 30690316--30690372 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
30690306 AGTGAAAAAC
*
30690316 AAATTCGAA--AAAATAAGA
1 AAATTCGAATTAAAAAAAGA
*
30690334 AAATTCAAAGTT-AAAAAAGTA
1 AAATTCGAA-TTAAAAAAAG-A
30690355 AAATTCGAATTAAAAAAA
1 AAATTCGAATTAAAAAAA
30690373 TATTCAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 8 0.26
20 8 0.26
21 15 0.48
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (20 bp):
AAATTCGAATTAAAAAAAGA
Found at i:30691326 original size:28 final size:27
Alignment explanation
Indices: 30691265--30691328 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
30691255 TGGTGAGGAA
* *
30691265 ATTAAAAAGGAAAGAAAAAGAAAGTGT
1 ATTAAAAAAGAAAGAAAAAGAAAGAGT
*
30691292 ATAAAAAAAGAAA-AAAAATGAAAGAGAT
1 ATTAAAAAAGAAAGAAAAA-GAAAGAG-T
30691320 ATTAAAAAA
1 ATTAAAAAA
30691329 AGTGTGAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.16
27 17 0.55
28 9 0.29
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (27 bp):
ATTAAAAAAGAAAGAAAAAGAAAGAGT
Found at i:30691377 original size:17 final size:17
Alignment explanation
Indices: 30691343--30691385 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
30691333 TGAGAGGAAA
*
30691343 GAAAAAGAAAAATCAAAT
1 GAAAAAG-AAAATAAAAT
*
30691361 GAAAAAGAAATTAAAAT
1 GAAAAAGAAAATAAAAT
*
30691378 GAAGAAGA
1 GAAAAAGA
30691386 GTGAGATTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (17 bp):
GAAAAAGAAAATAAAAT
Found at i:30693589 original size:51 final size:51
Alignment explanation
Indices: 30693527--30693697 Score: 184
Period size: 51 Copynumber: 3.4 Consensus size: 51
30693517 TTTGGGGGTT
* * * * * * *
30693527 TTCACAGAGTACCACCCATGTTACTATTATCATTCGATACATGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATCTTTCGATACACGTAGTAGCC
* * * * *
30693578 TTCACATAGTACTTCACACGTGACCA-AAGCTTTTCGGTACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATC-TTTCGATACACGTAGTAGCC
* *
30693629 TTCACTTAGTACTACACATGTGACCATTAT-TTATCGATACACGTAGTAGTC
1 TTCACATAGTACTACACATGTGACCATTATCTT-TCGATACACGTAGTAGCC
30693680 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
30693698 CGTGTTCATC
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
50 4 0.04
51 92 0.95
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
TTCACATAGTACTACACATGTGACCATTATCTTTCGATACACGTAGTAGCC
Found at i:30700866 original size:41 final size:40
Alignment explanation
Indices: 30700798--30701065 Score: 220
Period size: 41 Copynumber: 6.6 Consensus size: 40
30700788 CTCAATGTTT
* * * *
30700798 CGCACACTAAATGTCATCGCATAGCCGAAGCTAT-TATAATC
1 CGCACACTAAGTGCCAT-ACATAGCCGAAGCTATCT-CAATC
* *
30700839 CTGCACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTC
1 C-GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATC
* * * *
30700880 TCACACACTAAGTGCCATATATA-CCTGAAGTTAT-TATAATCC
1 -CGCACACTAAGTGCCATACATAGCC-GAAGCTATCT-CAAT-C
* * *
30700922 CACACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTC
1 CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATC
** * * *
30700962 ACGCACACTAAGTGCCATATGTAGTCAAAGCTATTCCCAAT-
1 -CGCACACTAAGTGCCATACATAGCCGAAGCTA-TCTCAATC
* * *
30701003 CGCACATTAAGTGCCATAAATAGCCGAAGCTATCTCAATT
1 CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATC
* *
30701043 CGCACACTAAGTGCTAAACATAG
1 CGCACACTAAGTGCCATACATAG
30701066 TCGATTAATT
Statistics
Matches: 181, Mismatches: 35, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
39 6 0.03
40 50 0.28
41 101 0.56
42 24 0.13
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (40 bp):
CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAATC
Found at i:30700969 original size:82 final size:82
Alignment explanation
Indices: 30700824--30700981 Score: 271
Period size: 82 Copynumber: 1.9 Consensus size: 82
30700814 TCGCATAGCC
** *
30700824 GAAGCTATTATAATCCTGCACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTCTCACACACT
1 GAAGCTATTATAATCCCACACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTCACACACACT
30700889 AAGTGCCATATATACCT
66 AAGTGCCATATATACCT
* *
30700906 GAAGTTATTATAATCCCACACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTCACGCACACT
1 GAAGCTATTATAATCCCACACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTCACACACACT
30700971 AAGTGCCATAT
66 AAGTGCCATAT
30700982 GTAGTCAAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (82 bp):
GAAGCTATTATAATCCCACACACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTCACACACACT
AAGTGCCATATATACCT
Found at i:30709861 original size:41 final size:42
Alignment explanation
Indices: 30709794--30710060 Score: 191
Period size: 41 Copynumber: 6.5 Consensus size: 42
30709784 TCAATGATTT
* *
30709794 GCACACTAAATGCCATCGCATAGCTGAAGCTAT-TATAATCTC
1 GCACACTAAGTGCCAT-ACATAGCTGAAGCTATCTATAATCTC
* * *
30709836 GCACACTAAGTGCCTTACATAGCTGAAGCTATCT-TAGTCTA
1 GCACACTAAGTGCCATACATAGCTGAAGCTATCTATAATCTC
* * *
30709877 ACACACTAAGTGCCATATC-TAGCTAAAGCTAT-TATAATCCC
1 GCACACTAAGTGCCATA-CATAGCTGAAGCTATCTATAATCTC
* * * *
30709918 GCACAGTAAGTGCCTTACATAG-TCGAAGCTATCT-CAGTCTC
1 GCACACTAAGTGCCATACATAGCT-GAAGCTATCTATAATCTC
* * ** *
30709959 ACACATTAAGTGCCATATGTAG-TCGAAGCTAT-TCCTAA--TC
1 GCACACTAAGTGCCATACATAGCT-GAAGCTATCT-ATAATCTC
* * *
30709999 GCACACTAAGTGCCATAAATAGCCGAAGTTATCTCA-AA--TC
1 GCACACTAAGTGCCATACATAGCTGAAGCTATCT-ATAATCTC
* *
30710039 GCACACTAAGTGCAAAACATAG
1 GCACACTAAGTGCCATACATAG
30710061 TCGATTAATC
Statistics
Matches: 180, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
40 54 0.30
41 108 0.60
42 18 0.10
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
GCACACTAAGTGCCATACATAGCTGAAGCTATCTATAATCTC
Found at i:30709933 original size:82 final size:81
Alignment explanation
Indices: 30709795--30710034 Score: 279
Period size: 82 Copynumber: 2.9 Consensus size: 81
30709785 CAATGATTTG
* **
30709795 CACACTAAATGCCATCGCATAGCTGAAGCTATTATAATCTCGCACACTAAGTGCCTTACATAGCT
1 CACACTAAGTGCCATATC-TAGCTGAAGCTATTATAATC-CGCACACTAAGTGCCTTACATAGCT
*
30709860 GAAGCTATCTTAGTCTAA
64 GAAGCTATCTCAGTCTAA
* *
30709878 CACACTAAGTGCCATATCTAGCTAAAGCTATTATAATCCCGCACAGTAAGTGCCTTACATAG-TC
1 CACACTAAGTGCCATATCTAGCTGAAGCTATTATAAT-CCGCACACTAAGTGCCTTACATAGCT-
*
30709942 GAAGCTATCTCAGTCTCA
64 GAAGCTATCTCAGTCTAA
* * * * * *
30709960 CACATTAAGTGCCATATGTAG-TCGAAGCTATTCCTAAT-CGCACACTAAGTGCCATAAATAGCC
1 CACACTAAGTGCCATATCTAGCT-GAAGCTATT-ATAATCCGCACACTAAGTGCCTTACATAGCT
*
30710023 GAAGTTATCTCA
64 GAAGCTATCTCA
30710035 AATCGCACAC
Statistics
Matches: 136, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
81 33 0.24
82 83 0.61
83 20 0.15
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (81 bp):
CACACTAAGTGCCATATCTAGCTGAAGCTATTATAATCCGCACACTAAGTGCCTTACATAGCTGA
AGCTATCTCAGTCTAA
Found at i:30712518 original size:18 final size:20
Alignment explanation
Indices: 30712485--30712523 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
30712475 GGAATTTTGG
30712485 AATGGAAAAGAAGAGA-GAA
1 AATGGAAAAGAAGAGATGAA
*
30712504 AATGGAGAA-AAGAGATGAA
1 AATGGAAAAGAAGAGATGAA
30712523 A
1 A
30712524 TATGTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (20 bp):
AATGGAAAAGAAGAGATGAA
Found at i:30719348 original size:155 final size:155
Alignment explanation
Indices: 30719066--30719372 Score: 605
Period size: 155 Copynumber: 2.0 Consensus size: 155
30719056 CTGATCCTCC
30719066 AGTGCTACTGTAATCTGATTATACCCCGGGTATCCATCGAGAAAATAGTAATAGTCTCACCCTGC
1 AGTGCTACTGTAATCTGATTATACCCCGGGTATCCATCGAGAAAATAGTAATAGTCTCACCCTGC
30719131 AAGTATATCCAGCATCTGGTCCAAAAATGGCAAAGGAAAGTGATCTTTCCTAGTTGCCTTGTTAA
66 AAGTATATCCAGCATCTGGTCCAAAAATGGCAAAGGAAAGTGATCTTTCCTAGTTGCCTTGTTAA
30719196 GCTTCCGGTAATCGATGCAAGTCCT
131 GCTTCCGGTAATCGATGCAAGTCCT
*
30719221 AGTGCTACTGTAATCTGATTATACCCCGGGTATCCATCGAGAAAATAGTAATAGTCTCGCCCTGC
1 AGTGCTACTGTAATCTGATTATACCCCGGGTATCCATCGAGAAAATAGTAATAGTCTCACCCTGC
30719286 AAGTATATCCAGCATCTGGTCCAAAAATGGCAAAGGAAAGTGATCTTTCCTAGTTGCCTTGTTAA
66 AAGTATATCCAGCATCTGGTCCAAAAATGGCAAAGGAAAGTGATCTTTCCTAGTTGCCTTGTTAA
30719351 GCTTCCGGTAATCGATGCAAGT
131 GCTTCCGGTAATCGATGCAAGT
30719373 TCTCCATCCC
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 151 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (155 bp):
AGTGCTACTGTAATCTGATTATACCCCGGGTATCCATCGAGAAAATAGTAATAGTCTCACCCTGC
AAGTATATCCAGCATCTGGTCCAAAAATGGCAAAGGAAAGTGATCTTTCCTAGTTGCCTTGTTAA
GCTTCCGGTAATCGATGCAAGTCCT
Found at i:30720297 original size:23 final size:23
Alignment explanation
Indices: 30720261--30720311 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
30720251 TTGTGCCAAG
30720261 TGTAATATCCCGAAAACTACTAC
1 TGTAATATCCCGAAAACTACTAC
*
30720284 TGTAATA-CCTCGAAAATTACTAC
1 TGTAATATCC-CGAAAACTACTAC
*
30720307 AGTAA
1 TGTAA
30720312 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATATCCCGAAAACTACTAC
Found at i:30723455 original size:50 final size:50
Alignment explanation
Indices: 30723354--30723841 Score: 654
Period size: 50 Copynumber: 9.6 Consensus size: 50
30723344 TGTGAGCTAG
** *
30723354 TGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAAATTATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGC---ACCG--A-GATGAGAGGTCCCA
*
30723410 TGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * *
30723460 TGTAAGACCATGTCTAGGACATGACATTGGCACCGAGATGTGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * *
30723510 TGTATGACCATCTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* *
30723560 TGTACGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
30723610 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * * *
30723660 TGTAAGACCACGTCTGGGGCATGGCGTTGGCACCTAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* *
30723710 TGTAAGACCATGTCTGGGACATGACATTGGCACC-AGGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GATGAGAGGTCCCA
* * * * * * **
30723760 CGTAAGGCCATGTCTGGGACATGGCATGGGCATCGATATGAAAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* *
30723810 TGTAAGACCATATCTGGGATATGGCATTGGCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA
30723842 GTACAGGAAA
Statistics
Matches: 390, Mismatches: 40, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
49 1 0.00
50 355 0.91
51 2 0.01
53 2 0.01
56 30 0.08
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
Found at i:30725390 original size:23 final size:23
Alignment explanation
Indices: 30725354--30725404 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
30725344 GGGAGAGAAA
30725354 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
30725377 TGTAATA-CCTCGAAAATTACTAC
1 TGTAATATCC-CGAAAATTACTAC
*
30725400 AGTAA
1 TGTAA
30725405 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:30733011 original size:50 final size:50
Alignment explanation
Indices: 30732949--30733333 Score: 409
Period size: 51 Copynumber: 7.6 Consensus size: 50
30732939 TCATTCGATA
*
30732949 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* * *
30732999 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTATACGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* * * * *
30733049 CACGTAGTAGCCTTCACATATTATTACACACGTGACAAAAGCTTT-CTGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGTTTTAC-GGTT
* * * *
30733100 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TTTGT-CGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA--AGTTT-TACGGTT
* * *
30733151 CACGTAGTAGTCTTCACACAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* *
30733201 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTT
* * * *** * *
30733252 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGGTT
* * *
30733303 CACGTAGGAGCCTTCACACAATACTACACAC
1 CACGTAGTAGCCTTCACATAGTACTACACAC
30733334 ATGTTCATCG
Statistics
Matches: 279, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
49 5 0.02
50 124 0.44
51 143 0.51
52 7 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
Found at i:30733186 original size:152 final size:151
Alignment explanation
Indices: 30732942--30733333 Score: 565
Period size: 152 Copynumber: 2.6 Consensus size: 151
30732932 ACTTTTATCA
* * * * * *
30732942 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA--AGTTTTACGGTTCACGTA
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TTTT-CGATTCACGTA
* *
30733005 GTAGCCTTCACATAGTACTACACACGTGATCAAGTTATACGATTCACGTAGTAGCCTTCACATAT
64 GTAGCCTTCACACAGTACTACACACGTGATCAAGTTATACGATTCACGTAGTAGCCTTCACATAG
*
30733070 TATTACACACGTGACAAAAGC-T
129 TACTACACACGTGACAAAAGCTT
30733092 TTCTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTGTCGATTCACGTA
1 TTC-GGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTT-TCGATTCACGTA
* * *
30733157 GTAGTCTTCACACAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACATAG
64 GTAGCCTTCACACAGTACTACACACGTGATCAAGTTATACGATTCACGTAGTAGCCTTCACATAG
* *
30733222 TACTACATACGTGACCAAAGCTT
129 TACTACACACGTGACAAAAGCTT
*
30733245 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTT-TCGATTCACGTAG
* *
30733310 GAGCCTTCACACAATACTACACAC
65 TAGCCTTCACACAGTACTACACAC
30733334 ATGTTCATCG
Statistics
Matches: 218, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
150 3 0.01
151 37 0.17
152 172 0.79
153 6 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (151 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTTCGATTCACGTAGT
AGCCTTCACACAGTACTACACACGTGATCAAGTTATACGATTCACGTAGTAGCCTTCACATAGTA
CTACACACGTGACAAAAGCTT
Found at i:30733260 original size:101 final size:100
Alignment explanation
Indices: 30732942--30733333 Score: 432
Period size: 101 Copynumber: 3.9 Consensus size: 100
30732932 ACTTTTATCA
30732942 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGT
*
30733007 AGCCTTCACATAGTACTACACACGTGATCAAG-TT
66 AGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * * * * *
30733041 ATACGATTCACGTAGTAGCCTTCACATATTATTACACACGTGA-CAAAAGCTTT-CTGGTACACA
1 -TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AAGTTTTAC-GGTTCACG
* * *
30733104 TAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
62 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * *
30733143 TGTCGATTCACGTAGTAGTCTTCACACAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAG
*
30733208 TAGCCTTCACATAGTACTACATACGTGACCAAAGCTT
65 TAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * *** * *
30733245 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAG
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAG
* * *
30733310 GAGCCTTCACACAATACTACACAC
65 TAGCCTTCACATAGTACTACACAC
30733334 ATGTTCATCG
Statistics
Matches: 241, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
99 1 0.00
100 40 0.17
101 125 0.52
102 72 0.30
103 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (100 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGT
AGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:30735842 original size:17 final size:17
Alignment explanation
Indices: 30735797--30735843 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
30735787 GAATTTCCAT
30735797 TTTGGGTTAAATTATAA
1 TTTGGGTTAAATTATAA
* * *
30735814 TTTTGCTAAAATGTA-AA
1 TTTGGGTTAAAT-TATAA
30735831 TTTGGGTTAAATT
1 TTTGGGTTAAATT
30735844 GAATAAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
16 1 0.04
17 20 0.87
18 2 0.09
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (17 bp):
TTTGGGTTAAATTATAA
Found at i:30737483 original size:12 final size:12
Alignment explanation
Indices: 30737462--30737491 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30737452 TCAAACTATT
*
30737462 ACACGACCTAGC
1 ACACGGCCTAGC
30737474 ACACGGCCTAGC
1 ACACGGCCTAGC
30737486 ACACGG
1 ACACGG
30737492 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:30738631 original size:14 final size:14
Alignment explanation
Indices: 30738612--30738639 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30738602 TACAATACAA
30738612 TTCACAATAGTCAT
1 TTCACAATAGTCAT
30738626 TTCACAATAGTCAT
1 TTCACAATAGTCAT
30738640 CACATGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
TTCACAATAGTCAT
Found at i:30740052 original size:37 final size:37
Alignment explanation
Indices: 30740002--30740080 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30739992 TTATTACGAA
* * *
30740002 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
*
30740039 GTCTTACCCGAACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
30740076 GTCTT
1 GTCTT
30740081 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:30740515 original size:27 final size:27
Alignment explanation
Indices: 30740484--30740566 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 27
30740474 ATTAGGCCTT
30740484 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
** *** *
30740511 ATCAC--AT-CAGCCA-TTAGGCCTT-
1 ATCACATATACATACACTTTCACATTC
30740533 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
30740560 ATCACAT
1 ATCACAT
30740567 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
22 5 0.13
23 5 0.13
24 6 0.15
25 6 0.15
26 5 0.13
27 12 0.31
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:30740524 original size:49 final size:47
Alignment explanation
Indices: 30740199--30740743 Score: 874
Period size: 47 Copynumber: 11.5 Consensus size: 47
30740189 CCCTTCGGGA
* * * * * * * *
30740199 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30740246 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30740293 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30740340 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30740387 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30740434 CTTATCACACATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30740481 CTTATCACATATACATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
30740530 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30740579 CTTATCACATATATACACTGTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30740626 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
30740675 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30740722 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
30740744 TTGGATGAAT
Statistics
Matches: 470, Mismatches: 24, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 331 0.70
49 139 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30743159 original size:27 final size:27
Alignment explanation
Indices: 30743128--30743305 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30743118 TAAATTGTAC
*
30743128 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30743155 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30743181 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
30743209 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30743236 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
30743264 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30743291 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30743306 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30743189 original size:54 final size:55
Alignment explanation
Indices: 30743128--30743305 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
30743118 TAAATTGTAC
* **
30743128 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
30743183 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
30743236 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
30743291 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30743306 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:30751237 original size:27 final size:27
Alignment explanation
Indices: 30751206--30751383 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30751196 TAAATTGTAC
30751206 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30751233 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30751259 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30751287 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30751315 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30751342 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30751369 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30751384 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30751320 original size:82 final size:81
Alignment explanation
Indices: 30751207--30751362 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30751197 AAATTGTACA
* *
30751207 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30751271 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30751288 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30751353 TGCGAGTTGA
65 TGCGAATTGA
30751363 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30751374 original size:82 final size:81
Alignment explanation
Indices: 30751203--30751383 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30751193 GATTAAATTG
* *
30751203 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30751268 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30751284 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30751348 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30751366 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30751384 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30759997 original size:14 final size:14
Alignment explanation
Indices: 30759980--30760009 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30759970 AGTGAGAGAG
*
30759980 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
30759994 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
30760008 GA
1 GA
30760010 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:30760579 original size:20 final size:22
Alignment explanation
Indices: 30760556--30760603 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
30760546 GAAATCTGTC
30760556 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
30760576 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
30760598 AAAAAT
1 AAAAAT
30760604 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:30760829 original size:24 final size:25
Alignment explanation
Indices: 30760788--30760834 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
30760778 AAATTTCGAA
*
30760788 AAGAATTTCTTAGAAAC-ACTTTTG
1 AAGAATTCCTTAGAAACAACTTTTG
30760812 AAGAATTCCTTCAG-AACAACTTT
1 AAGAATTCCTT-AGAAACAACTTT
30760835 CTTCTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (25 bp):
AAGAATTCCTTAGAAACAACTTTTG
Found at i:30762917 original size:20 final size:19
Alignment explanation
Indices: 30762888--30762944 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
30762878 AGCTAATAAC
30762888 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
**
30762907 GAGCTCGAATGAGCTGGCTT
1 GAGCTC-AATGAGCTGAATT
30762927 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
30762945 CCATATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.23
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:30763214 original size:14 final size:14
Alignment explanation
Indices: 30763192--30763225 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30763182 TTAGGGAAAA
*
30763192 AAATGTTATGGTAC
1 AAATTTTATGGTAC
30763206 AAATTTTATGGTAC
1 AAATTTTATGGTAC
*
30763220 GAATTT
1 AAATTT
30763226 GCATGCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (14 bp):
AAATTTTATGGTAC
Found at i:30785368 original size:20 final size:20
Alignment explanation
Indices: 30785343--30785450 Score: 78
Period size: 20 Copynumber: 5.3 Consensus size: 20
30785333 CTTGTACATG
30785343 ATTTGCA-TTCGGTGCCCCCT
1 ATTTGCACTTCGGTG-CCCCT
*
30785363 ATTTGCACTTTGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCT
* * *
30785383 ATTTCCACTACGGTGCTCC-
1 ATTTGCACTTCGGTGCCCCT
* *
30785402 AGTTTTCACATT-TGTGCCCCT
1 A-TTTGCAC-TTCGGTGCCCCT
* * *
30785423 GTCTGCACTTTGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCT
30785443 ATTATGCA
1 ATT-TGCA
30785451 TCTATGATGC
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
19 3 0.04
20 53 0.79
21 11 0.16
ACGTcount: A:0.13, C:0.31, G:0.19, T:0.37
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCCCT
Found at i:30788825 original size:27 final size:28
Alignment explanation
Indices: 30788741--30788838 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
30788731 CATGAGATTG
* * * *
30788741 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
30788770 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
30788798 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30788825 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
30788839 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30788849 original size:27 final size:27
Alignment explanation
Indices: 30788769--30788851 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
30788759 TAAATTGTAC
* *
30788769 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30788797 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
30788824 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
30788851 A
1 A
30788852 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:30788852 original size:29 final size:27
Alignment explanation
Indices: 30788741--30788852 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
30788731 CATGAGATTG
** * *
30788741 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
30788770 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
30788798 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
30788825 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
30788853 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:30796610 original size:27 final size:28
Alignment explanation
Indices: 30796526--30796623 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
30796516 CATGAGATTG
* * * *
30796526 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
30796555 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
30796583 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30796610 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
30796624 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30796634 original size:27 final size:27
Alignment explanation
Indices: 30796554--30796636 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
30796544 TAAATTGTAC
* *
30796554 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30796582 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
30796609 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
30796636 A
1 A
30796637 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:30796637 original size:29 final size:27
Alignment explanation
Indices: 30796526--30796637 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
30796516 CATGAGATTG
** * *
30796526 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
30796555 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
30796583 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
30796610 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
30796638 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:30804649 original size:40 final size:40
Alignment explanation
Indices: 30804605--30804756 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
30804595 AAGGTTACCA
* * **
30804605 AAGTACTAACAGGGGCACATATGTGCATTCAGTTGTATCG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAGAAGTATCG
* *
30804645 AAGTACAAACAGGGGCACGTATGTGCATTCAGCAGTATTG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAGAAGTATCG
* * * * * *
30804685 GAGTACAAACAGGGGCATGTATGTGCATTTAGAGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCATTCAGAAGTATCG
*
30804725 AAGTACAAACAGGGGCGCGTATGTGCATTCAG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAG
30804757 GCAATAATTA
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGCATTCAGAAGTATCG
Found at i:30804729 original size:80 final size:80
Alignment explanation
Indices: 30804606--30804756 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 80
30804596 AGGTTACCAA
* ** * *
30804606 AGTACTAACAGGGGCACATATGTGCATTCAGTTGTATCGAAGTACAAACAGGGGCACGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGAGGTACCAAAGTACAAACAGGGGCACGTATGTGC
30804671 ATTCAGCAGTATTGG
66 ATTCAGCAGTATTGG
** * *
30804686 AGTACAAACAGGGGCATGTATGTGCATTTAGAGGTACCAAAGTACAAACAGGGGCGCGTATGTGC
1 AGTACAAACAGGGGCACATATGTGCATTCAGAGGTACCAAAGTACAAACAGGGGCACGTATGTGC
30804751 ATTCAG
66 ATTCAG
30804757 GCAATAATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.23
Consensus pattern (80 bp):
AGTACAAACAGGGGCACATATGTGCATTCAGAGGTACCAAAGTACAAACAGGGGCACGTATGTGC
ATTCAGCAGTATTGG
Found at i:30810044 original size:40 final size:40
Alignment explanation
Indices: 30809898--30810119 Score: 199
Period size: 40 Copynumber: 5.7 Consensus size: 40
30809888 TTGAATGCTG
* * * *
30809898 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ATTAAA
** * *
30809938 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATA-CAAG
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATATTAAA
* *
30809977 TTCGGGTT-AG-CCCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
*
30810015 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGAT-ATTAAA
* * *
30810055 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
* * *
30810094 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
30810120 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
37 21 0.14
38 11 0.07
39 40 0.26
40 69 0.45
41 10 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
Found at i:30817452 original size:39 final size:38
Alignment explanation
Indices: 30817402--30817531 Score: 131
Period size: 39 Copynumber: 3.3 Consensus size: 38
30817392 GATAAGATCA
30817402 AAGGCATTTGTGCGAGATA-CAAGTTCCGGGTTAAGCCCG
1 AAGGCATTTGTGCGAGATATCAA--TCCGGGTTAAGCCCG
* * *
30817441 AAGCGC-TTTGTGCGAGTTATTAATCCGGGTTAAGTCCG
1 AAG-GCATTTGTGCGAGATATCAATCCGGGTTAAGCCCG
* *
30817479 AAGGCATTCGTGCGAG-TCATTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGAT-A-TCAATCCGGGTTAAG-CCCG
30817519 AAGTGCATTTGTG
1 AAG-GCATTTGTG
30817532 TGCAGTTACT
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
37 3 0.04
38 27 0.35
39 29 0.38
40 10 0.13
41 8 0.10
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (38 bp):
AAGGCATTTGTGCGAGATATCAATCCGGGTTAAGCCCG
Found at i:30817473 original size:38 final size:39
Alignment explanation
Indices: 30817402--30817531 Score: 144
Period size: 38 Copynumber: 3.3 Consensus size: 39
30817392 GATAAGATCA
30817402 AAGGCATTTGTGCGAG--A-TACAAGTTCCGGGTTAAGCCCG
1 AAGGCATTTGTGCGAGTCATTA-AA--TCCGGGTTAAGCCCG
* *
30817441 AAGCGC-TTTGTGCGAGTTATT-AATCCGGGTTAAGTCCG
1 AAG-GCATTTGTGCGAGTCATTAAATCCGGGTTAAGCCCG
*
30817479 AAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTCATTAAATCCGGGTTAAG-CCCG
30817519 AAGTGCATTTGTG
1 AAG-GCATTTGTG
30817532 TGCAGTTACT
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
37 2 0.03
38 30 0.38
39 26 0.33
40 10 0.13
41 9 0.12
42 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (39 bp):
AAGGCATTTGTGCGAGTCATTAAATCCGGGTTAAGCCCG
Found at i:30817483 original size:77 final size:80
Alignment explanation
Indices: 30817402--30817569 Score: 186
Period size: 77 Copynumber: 2.1 Consensus size: 80
30817392 GATAAGATCA
*
30817402 AAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAG-CCCGAAGCGC-TTTGTGCG-AGTTATT
1 AAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGTCCCGAAGCGCATTTGTGCGCAGTTACT
** *
30817462 AATCCGGGTTAAGT-CCG
63 AAAACGGGCTAAGTCCCG
* * *
30817479 AAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGTGCATTTGTGTGCAGTTACTAA
1 AAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGTCCCGAAGCGCATTTGTGCGCAGTTACTAA
*
30817544 AACGGGCTATGTCCCG
65 AACGGGCTAAGTCCCG
30817560 AAGGCATTTG
1 AAGGCATTTG
30817570 AACGAGGAGC
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
77 26 0.35
78 9 0.12
79 10 0.13
80 18 0.24
81 12 0.16
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
AAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGTCCCGAAGCGCATTTGTGCGCAGTTACTAAA
ACGGGCTAAGTCCCG
Found at i:30821060 original size:27 final size:27
Alignment explanation
Indices: 30821030--30821204 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30821020 ATATTGAGTC
* *
30821030 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
30821057 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
30821083 CGCACACTTAGTGCTACAT-ATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** *
30821110 CGCACACTTAGTGC-ACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30821136 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
30821163 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
30821190 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30821205 GTACAATTTA
Statistics
Matches: 130, Mismatches: 13, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
25 3 0.02
26 43 0.33
27 83 0.64
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30821110 original size:53 final size:51
Alignment explanation
Indices: 30821030--30821204 Score: 208
Period size: 53 Copynumber: 3.3 Consensus size: 51
30821020 ATATTGAGTC
* * * *
30821030 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACAT-ATCAACTCGCACACTTAGTGC-ACATAGTCAAT
*
30821083 CGCACACTTAGTGCTACATATCAAACTCGCACACTTAGTGCACATGGTCAATT
1 CGCACACTTAGTGCTACATATC-AACTCGCACACTTAGTGCACATAGTCAA-T
**
30821136 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATA-TCAACTCGCACACTTAGTGC-ACATAGTC-AAT
30821190 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30821205 GTACAATTTA
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
52 11 0.10
53 70 0.65
54 24 0.22
55 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (51 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCACATAGTCAAT
Found at i:30829022 original size:26 final size:27
Alignment explanation
Indices: 30828960--30829134 Score: 196
Period size: 26 Copynumber: 6.6 Consensus size: 27
30828950 ATATTGAGTC
* *
30828960 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
30828987 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
30829013 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
30829041 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30829068 CGCACAC-TAGTGC-ATCATATTC-ATT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
30829093 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
30829120 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30829135 GTACAATTTA
Statistics
Matches: 129, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.09
26 48 0.37
27 47 0.36
28 23 0.18
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30836028 original size:21 final size:20
Alignment explanation
Indices: 30835990--30836028 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30835980 TTATTGAATG
* *
30835990 TAAATAAAAGTAAGAAAACT
1 TAAATAAAAATAACAAAACT
30836010 TAAATAAAAAATAACAAAA
1 TAAAT-AAAAATAACAAAA
30836029 ATGCTTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (20 bp):
TAAATAAAAATAACAAAACT
Found at i:30843701 original size:23 final size:23
Alignment explanation
Indices: 30843675--30843719 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
30843665 CGGAATGGTT
*
30843675 ATGATTTAGGTTTAGGTTCGAAA
1 ATGATTTAGGTTTAGGTGCGAAA
30843698 ATGATTTAGGTTTAGGTGCGAA
1 ATGATTTAGGTTTAGGTGCGAA
30843720 TTGGTTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (23 bp):
ATGATTTAGGTTTAGGTGCGAAA
Found at i:30848761 original size:23 final size:23
Alignment explanation
Indices: 30848735--30848779 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
30848725 CGGAATGGTT
*
30848735 ATGATTTAGGTTTAGGTTCGAAA
1 ATGATTTAGGTTTAGGTGCGAAA
30848758 ATGATTTAGGTTTAGGTGCGAA
1 ATGATTTAGGTTTAGGTGCGAA
30848780 TTGGTTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (23 bp):
ATGATTTAGGTTTAGGTGCGAAA
Found at i:30851564 original size:25 final size:25
Alignment explanation
Indices: 30851527--30851578 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
30851517 TCCTAGTAAG
*
30851527 TTAAAATCTCGATGGTCAAGACCTT
1 TTAAAATCCCGATGGTCAAGACCTT
30851552 TTAAAATCCCGATGGTCAAGACCTT
1 TTAAAATCCCGATGGTCAAGACCTT
30851577 TT
1 TT
30851579 GAAGTAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (25 bp):
TTAAAATCCCGATGGTCAAGACCTT
Found at i:30856779 original size:23 final size:23
Alignment explanation
Indices: 30856752--30856850 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
30856742 AGTGTTATTG
*
30856752 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
30856775 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
30856798 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
30856821 ATGAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30856844 ATCAGTG
1 ATCAGTG
30856851 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:30859070 original size:11 final size:11
Alignment explanation
Indices: 30859054--30859080 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30859044 ATAAGACCCT
30859054 CTCAATCATCC
1 CTCAATCATCC
30859065 CTCAATCATCC
1 CTCAATCATCC
30859076 CTCAA
1 CTCAA
30859081 GCATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.44, G:0.00, T:0.26
Consensus pattern (11 bp):
CTCAATCATCC
Found at i:30864162 original size:3 final size:3
Alignment explanation
Indices: 30864154--30864181 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30864144 CTTCCAATTT
30864154 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
30864182 TTTCATTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:30865073 original size:45 final size:45
Alignment explanation
Indices: 30865001--30865086 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
30864991 CTCGGTAGAT
*
30865001 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
* *
30865046 TCAGCACATAGCAACCACTTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGT
30865087 TCATATAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
Found at i:30865158 original size:51 final size:50
Alignment explanation
Indices: 30865092--30865278 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 50
30865082 TCGGTTCATA
* * *
30865092 TAGTTGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACG
* * * * * * *
30865143 TAGTAGCTTGCACATAGTACTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTACACG
* * * *
30865194 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACG
30865244 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
30865279 CACTTTCACT
Statistics
Matches: 110, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 67 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACACG
Found at i:30865271 original size:101 final size:101
Alignment explanation
Indices: 30865091--30865274 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 101
30865081 TTCGGTTCAT
* * *
30865091 ATAGTTGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCTTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCAC
30865156 ATAGTACTACACACGTGATCGAAACTATCTGGTACGC
65 ATAGTACTACACACGTGATCGAAACTATCTGGTACGC
* * *
30865193 ATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACATGTAGTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCAC
30865257 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
30865275 CCATCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (101 bp):
ATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATCGAAACTATCTGGTACGC
Found at i:30868791 original size:15 final size:15
Alignment explanation
Indices: 30868767--30868802 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
30868757 TTTTTATAAT
30868767 AATAAAATAAAAGAA
1 AATAAAATAAAAGAA
*
30868782 AATAACATAAAAG-A
1 AATAAAATAAAAGAA
30868796 AATAAAA
1 AATAAAA
30868803 GTTCAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (15 bp):
AATAAAATAAAAGAA
Found at i:30874646 original size:101 final size:102
Alignment explanation
Indices: 30874525--30874709 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
30874515 AAAGTGATGG
* * * *
30874525 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGGAATGAT-A-GGTCGCATGTGTAG
1 TCACGTGTGTAATACTATGTGCAGGCTACTACATGTATC-GG-ATGATAATGGCCACATGTGTAG
*
30874587 TGCTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
64 TACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
*
30874626 TCACGTGTGTAATACTATGTGCAGGCTACTACATGTATCGGATGGTAATGGCCACATGTGTAGTA
1 TCACGTGTGTAATACTATGTGCAGGCTACTACATGTATCGGATGATAATGGCCACATGTGTAGTA
30874691 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
30874710 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAATACTATGTGCAGGCTACTACATGTATCGGATGATAATGGCCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
Found at i:30874769 original size:45 final size:45
Alignment explanation
Indices: 30874713--30874807 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
30874703 TACTATGTGA
* * *
30874713 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGATATGTGCTGAATCC
*
30874758 ACCGGACATCATTGATTAATAAGGTGGTTGATATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGATATGTGCTGAATCC
30874803 ACCGA
1 ACCGA
30874808 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGATATGTGCTGAATCC
Found at i:30890618 original size:14 final size:14
Alignment explanation
Indices: 30890599--30890626 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30890589 ATAAAAGTTA
30890599 AACTATTTTAACAT
1 AACTATTTTAACAT
30890613 AACTATTTTAACAT
1 AACTATTTTAACAT
30890627 TTTAACTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
AACTATTTTAACAT
Found at i:30895873 original size:3 final size:3
Alignment explanation
Indices: 30895865--30895890 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30895855 AACAAAGAGA
30895865 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
30895891 CTTTCTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:30897306 original size:3 final size:3
Alignment explanation
Indices: 30897298--30897328 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30897288 GCCCATTTTC
30897298 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30897329 GCACCTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30900552 original size:54 final size:52
Alignment explanation
Indices: 30900494--30900621 Score: 159
Period size: 52 Copynumber: 2.4 Consensus size: 52
30900484 TAAATTATTG
*
30900494 AAATACCCTCGAAGGGTAAAATTATCAAAATACCCTCGAAGGGTAAAATTACCA
1 AAATACCCTCGAAGGGTAAAATTATCAAAATA-CCTC-AAAGGTAAAATTACCA
* ** * *
30900548 AAATACCTTCGAAGGGTAAAATTATTGAAATACCTCAAAGGTTAAATTACCG
1 AAATACCCTCGAAGGGTAAAATTATCAAAATACCTCAAAGGTAAAATTACCA
*
30900600 AAATACTCCT-GAAGGGGAAAAT
1 AAATAC-CCTCGAAGGGTAAAAT
30900622 AACCATAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
52 30 0.46
53 6 0.09
54 29 0.45
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (52 bp):
AAATACCCTCGAAGGGTAAAATTATCAAAATACCTCAAAGGTAAAATTACCA
Found at i:30900614 original size:26 final size:27
Alignment explanation
Indices: 30900485--30900621 Score: 154
Period size: 27 Copynumber: 5.1 Consensus size: 27
30900475 AAAGGTTGTT
*
30900485 AAATTATTGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
*
30900512 AAATTATCAAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
30900539 AAATTACCAAAATACCTTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
30900566 AAATTATTGAAATA-CCTC-AAAGGTT
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
30900591 AAATTACCGAAATACTCCT-GAAGGGGA
1 AAATTATCGAAATAC-CCTCGAAGGGTA
30900618 AAAT
1 AAAT
30900622 AACCATAATG
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
25 17 0.18
26 3 0.03
27 72 0.78
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGAAGGGTA
Found at i:30900643 original size:79 final size:81
Alignment explanation
Indices: 30900485--30900648 Score: 192
Period size: 79 Copynumber: 2.0 Consensus size: 81
30900475 AAAGGTTGTT
* * * *
30900485 AAATTATTGAAATACCCTCGAAGGGTAAAATTATCAAAATACCCTCGAAGGGTAAAATTACCAAA
1 AAATTATTGAAATACCCTCGAAAGGTAAAATTACCAAAATACCCTCGAAGGGGAAAATAACCAAA
*
30900550 ATACCTTCGAAGGGTA
66 ATACCCTCGAAGGGTA
* * *
30900566 AAATTATTGAAATA-CCTC-AAAGGTTAAATTACCGAAATACTCCT-GAAGGGGAAAATAACCAT
1 AAATTATTGAAATACCCTCGAAAGGTAAAATTACCAAAATAC-CCTCGAAGGGGAAAATAACCAA
* *
30900628 AATGCCACT-GTAGGGTA
65 AATACC-CTCGAAGGGTA
30900645 AAAT
1 AAAT
30900649 GACCGTACTA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 49 0.69
80 8 0.11
81 14 0.20
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (81 bp):
AAATTATTGAAATACCCTCGAAAGGTAAAATTACCAAAATACCCTCGAAGGGGAAAATAACCAAA
ATACCCTCGAAGGGTA
Found at i:30900708 original size:42 final size:42
Alignment explanation
Indices: 30900651--30900730 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
30900641 GGTAAAATGA
* * * *
30900651 CCGTACTACCTCTGTAGGGTAAAGTGACTGTAATGCCCTTGT
1 CCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCTTGT
30900693 CCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCC
1 CCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCC
30900731 CTGTAGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (42 bp):
CCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCTTGT
Found at i:30900724 original size:27 final size:27
Alignment explanation
Indices: 30900693--30900914 Score: 338
Period size: 27 Copynumber: 8.3 Consensus size: 27
30900683 ATGCCCTTGT
30900693 CCGTAATACCCCTGTAGGGTAAAATGA
1 CCGTAATACCCCTGTAGGGTAAAATGA
* *
30900720 CCGTAATGCCCCTGTAGGGTAATAT-A
1 CCGTAATACCCCTGTAGGGTAAAATGA
*
30900746 CCGTAATGCCCCTGTAGGGTAAAATGA
1 CCGTAATACCCCTGTAGGGTAAAATGA
30900773 CCGTAATACCCCTGTAGGGTAAAATGA
1 CCGTAATACCCCTGTAGGGTAAAATGA
*
30900800 CCGTAATGCCCCTGTAGGGTAAAATGA
1 CCGTAATACCCCTGTAGGGTAAAATGA
** **
30900827 CCGTAATACATCTGTAGAATAAAATGA
1 CCGTAATACCCCTGTAGGGTAAAATGA
* *
30900854 CTGTAATACCCCTGTAGGGTAAAATAA
1 CCGTAATACCCCTGTAGGGTAAAATGA
*
30900881 CCGTAAGACCCCTGTAGGGTAAAATGA
1 CCGTAATACCCCTGTAGGGTAAAATGA
30900908 CCGTAAT
1 CCGTAAT
30900915 GCCTTGGTGG
Statistics
Matches: 174, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 25 0.14
27 149 0.86
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
CCGTAATACCCCTGTAGGGTAAAATGA
Found at i:30901030 original size:24 final size:24
Alignment explanation
Indices: 30900955--30901036 Score: 60
Period size: 24 Copynumber: 3.5 Consensus size: 24
30900945 CTCGAGGTCA
* * * *
30900955 AATGATTGTTTTGTCTGTGGTT-A
1 AATGAATGATTTGTCTGTGTTTGG
* *
30900978 AATGACTTATTTGTCTGTGTTTGG
1 AATGAATGATTTGTCTGTGTTTGG
* *
30901002 TATGAATGATTTGTTTGTGATTT-G
1 AATGAATGATTTGTCTGTG-TTTGG
*
30901026 AATGATTGATT
1 AATGAATGATT
30901037 CTGAGCATGG
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 18 0.39
24 25 0.54
25 3 0.07
ACGTcount: A:0.21, C:0.04, G:0.24, T:0.51
Consensus pattern (24 bp):
AATGAATGATTTGTCTGTGTTTGG
Found at i:30901140 original size:27 final size:27
Alignment explanation
Indices: 30901100--30901164 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
30901090 ATGGAGGAAG
*
30901100 TACTA-TACTGGTGGCTCT-ACCACA-A
1 TACTATTACTAGTGGCT-TGACCACATA
*
30901125 TCACTATTACTAGTGGCTTGGCCACATA
1 T-ACTATTACTAGTGGCTTGACCACATA
30901153 TACTATTACTAG
1 TACTATTACTAG
30901165 AAGATATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 26 0.76
28 2 0.06
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (27 bp):
TACTATTACTAGTGGCTTGACCACATA
Found at i:30902582 original size:10 final size:10
Alignment explanation
Indices: 30902567--30902617 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
30902557 TTGGGTTAAG
30902567 ATTGAGCTGA
1 ATTGAGCTGA
30902577 ATTGAGCTCGA
1 ATTGAGCT-GA
30902588 A-TGAGCTGA
1 ATTGAGCTGA
* *
30902597 CTTAAGCTCGA
1 ATTGAGCT-GA
30902608 A-TGAGCTGA
1 ATTGAGCTGA
30902617 A
1 A
30902618 CTAAGTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 24 0.71
11 5 0.15
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:30902592 original size:20 final size:20
Alignment explanation
Indices: 30902569--30902622 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
30902559 GGGTTAAGAT
*
30902569 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTAAGCTCGAA
*
30902589 TGAGCTGACTTAAGCTCGAA
1 TGAGCTGAATTAAGCTCGAA
*
30902609 TGAGCTGAACTAAG
1 TGAGCTGAATTAAG
30902623 TTAAATTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAA
Found at i:30902877 original size:32 final size:32
Alignment explanation
Indices: 30902836--30903046 Score: 219
Period size: 32 Copynumber: 6.6 Consensus size: 32
30902826 GCTCACATCA
* * *
30902836 GATGGCTTTGTGCCGATCATAGT-ACCGTTAGT
1 GATGGCTTTGTGCCGATCATA-TCACTGCTACT
* * * *
30902868 GATGGCTTTGTGCCAATCATATTACAGATACT
1 GATGGCTTTGTGCCGATCATATCACTGCTACT
* * * * * *
30902900 AATGG-TTGTATGCTGATCATTTCACTGTTATT
1 GATGGCTT-TGTGCCGATCATATCACTGCTACT
* * *
30902932 AATGGCTATGTGCTGATCATATCACTGCTACT
1 GATGGCTTTGTGCCGATCATATCACTGCTACT
*
30902964 GATGGCTGTGTGCCGATCATATCACTGCTACT
1 GATGGCTTTGTGCCGATCATATCACTGCTACT
*
30902996 GATGGCTGTGTGCCGATCATATCACTGCTACT
1 GATGGCTTTGTGCCGATCATATCACTGCTACT
*
30903028 GATGGCTTTGTGCCAATCA
1 GATGGCTTTGTGCCGATCA
30903047 CATTATTGTA
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
31 3 0.02
32 149 0.97
33 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (32 bp):
GATGGCTTTGTGCCGATCATATCACTGCTACT
Found at i:30903083 original size:22 final size:21
Alignment explanation
Indices: 30903058--30903122 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
30903048 ATTATTGTAC
30903058 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
30903080 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTC-TGT
*
30903102 TTACGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
30903123 ACTACTAGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:30903145 original size:26 final size:26
Alignment explanation
Indices: 30903116--30903168 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30903106 GGCTCTTAGC
* *
30903116 CATTCTGACTACTAGCAGCTCTGCTG
1 CATTATGACTACTAGCAGCTATGCTG
* *
30903142 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTAGCAGCTATGCTG
30903168 C
1 C
30903169 GATATTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (26 bp):
CATTATGACTACTAGCAGCTATGCTG
Found at i:30907117 original size:15 final size:17
Alignment explanation
Indices: 30907087--30907118 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
30907077 TTGCCTTGTA
30907087 GTTGTATATGTTATATT
1 GTTGTATATGTTATATT
30907104 GTTGT-TAT-TTATATT
1 GTTGTATATGTTATATT
30907119 TTCTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (17 bp):
GTTGTATATGTTATATT
Found at i:30913092 original size:20 final size:20
Alignment explanation
Indices: 30913067--30913104 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30913057 TGAGCTGAAC
*
30913067 TAAGCTCAAACTTAGCTCAA
1 TAAGCTCAAACCTAGCTCAA
30913087 TAAGCTCAAACCTAGCTC
1 TAAGCTCAAACCTAGCTC
30913105 GGTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (20 bp):
TAAGCTCAAACCTAGCTCAA
Found at i:30916342 original size:24 final size:21
Alignment explanation
Indices: 30916309--30916355 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
30916299 TCAAATGAGT
*
30916309 GATTTAAGGAGTGGATCATGGAG
1 GATTTAAGGAGAGGAT--TGGAG
30916332 GATTTCAAGGAGAGGATTGGAG
1 GATTT-AAGGAGAGGATTGGAG
30916354 GA
1 GA
30916356 GTGATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (21 bp):
GATTTAAGGAGAGGATTGGAG
Found at i:30917744 original size:23 final size:23
Alignment explanation
Indices: 30917714--30917802 Score: 151
Period size: 23 Copynumber: 3.9 Consensus size: 23
30917704 ATGGTTTGGG
*
30917714 TTTGGTACGAAATGGTAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
30917737 TTTGGTACGAAATGGAAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
*
30917760 TTTGGTACAAAATGGAAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
*
30917783 TTTGGTTCGAAATGGAAATG
1 TTTGGTACGAAATGGAAATG
30917803 GTTCAAAAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (23 bp):
TTTGGTACGAAATGGAAATGTAA
Found at i:30918918 original size:29 final size:31
Alignment explanation
Indices: 30918856--30918920 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
30918846 AGCAAAAATT
*
30918856 AATTGAGCTGAATTTGTAAGTATTTGAGCTA
1 AATTGAGCTGAATTTGTAACTATTTGAGCTA
30918887 AATTGAGCTG-ATTTG-AACTCA-TTGAGCTA
1 AATTGAGCTGAATTTGTAACT-ATTTGAGCTA
30918916 AATTG
1 AATTG
30918921 GAAGTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 16 0.50
30 6 0.19
31 10 0.31
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (31 bp):
AATTGAGCTGAATTTGTAACTATTTGAGCTA
Found at i:30919405 original size:15 final size:15
Alignment explanation
Indices: 30919385--30919414 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30919375 CCTGATGGGT
30919385 AAAATTACAGAAATA
1 AAAATTACAGAAATA
*
30919400 AAAATTACCGAAATA
1 AAAATTACAGAAATA
30919415 CACTCAATGG
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:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAATTACAGAAATA
Found at i:30919540 original size:26 final size:27
Alignment explanation
Indices: 30919400--30919596 Score: 105
Period size: 27 Copynumber: 7.3 Consensus size: 27
30919390 TACAGAAATA
* * *
30919400 AAAATTACCGAAATACACTCAAT-GGGT
1 AAAATGACCGAAATAC-CCCTATAGGGT
* * **
30919427 AAAATTATCGAAATACCTTTGAT-GGGT
1 AAAATGACCGAAATACCCCT-ATAGGGT
* * *
30919454 AAAATTATCGAAAAAACCCCTATAGGGT
1 AAAATGACCG-AAATACCCCTATAGGGT
* * *
30919482 AAAATTACTGAAATACCCCTGTAGGGT
1 AAAATGACCGAAATACCCCTATAGGGT
** *
30919509 AAAATGACCGTGATGCCCCTATA-GGT
1 AAAATGACCGAAATACCCCTATAGGGT
* * * * **
30919535 AAAATGACTGTAATACCTCTGTTTGGT
1 AAAATGACCGAAATACCCCTATAGGGT
* * *
30919562 AAATTGACC-AATATACCCCTAAAAGGT
1 AAAATGACCGAA-ATACCCCTATAGGGT
30919589 AAAATGAC
1 AAAATGAC
30919597 TATTTTGCCC
Statistics
Matches: 134, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
26 23 0.17
27 92 0.69
28 19 0.14
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCTATAGGGT
Found at i:30919563 original size:53 final size:53
Alignment explanation
Indices: 30919469--30919597 Score: 143
Period size: 53 Copynumber: 2.4 Consensus size: 53
30919459 TATCGAAAAA
* *
30919469 ACCCCTATAGGGTAAAATTACTGAAATACCCCTGTAGGGTAAAATGACC-GTGAT
1 ACCCCTATA-GGTAAAATGACTGAAATACCCCTGTAGGGTAAAATGACCAAT-AT
* * * ** *
30919523 GCCCCTATAGGTAAAATGACTGTAATACCTCTGTTTGGTAAATTGACCAATAT
1 ACCCCTATAGGTAAAATGACTGAAATACCCCTGTAGGGTAAAATGACCAATAT
*
30919576 ACCCCTAAAAGGTAAAATGACT
1 ACCCCT-ATAGGTAAAATGACT
30919598 ATTTTGCCCC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 40 0.63
54 23 0.37
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (53 bp):
ACCCCTATAGGTAAAATGACTGAAATACCCCTGTAGGGTAAAATGACCAATAT
Found at i:30919702 original size:16 final size:16
Alignment explanation
Indices: 30919678--30919708 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30919668 TGATTCTAAG
*
30919678 CATGGCATACTGCATA
1 CATGACATACTGCATA
30919694 CATGACATACTGCAT
1 CATGACATACTGCAT
30919709 GGGGTTGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:30920632 original size:23 final size:23
Alignment explanation
Indices: 30920602--30920647 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30920592 ACAAGCAAGG
* *
30920602 TTGTAATATCTCGAAAATTACTA
1 TTGTAATACCCCGAAAATTACTA
30920625 TTGTAATACCCCGAAAATTACTA
1 TTGTAATACCCCGAAAATTACTA
30920648 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (23 bp):
TTGTAATACCCCGAAAATTACTA
Found at i:30920653 original size:23 final size:23
Alignment explanation
Indices: 30920604--30920653 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
30920594 AAGCAAGGTT
* * **
30920604 GTAATATCTCGAAAATTACTATT
1 GTAATACCCCGAAAATTACTACA
30920627 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
30920650 GTAA
1 GTAA
30920654 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:30923350 original size:15 final size:16
Alignment explanation
Indices: 30923330--30923386 Score: 75
Period size: 15 Copynumber: 3.6 Consensus size: 16
30923320 TGTTTAGATG
30923330 TGAAACTATAGAATT-
1 TGAAACTATAGAATTA
30923345 TGAAACTATAGAATTA
1 TGAAACTATAGAATTA
30923361 TGAAAACTATAG-ATTA
1 TG-AAACTATAGAATTA
30923377 T-AAGACTATA
1 TGAA-ACTATA
30923387 AGAAACTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.05
15 21 0.54
16 7 0.18
17 9 0.23
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (16 bp):
TGAAACTATAGAATTA
Done.