Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 33 of 284
Found at i:11683045 original size:126 final size:126
Alignment explanation
Indices: 11682819--11683200 Score: 586
Period size: 126 Copynumber: 3.0 Consensus size: 126
11682809 TTTCTACAAG
* * *
11682819 AATAATTTTGAGCAGACGTTTCTGGAA-AAATAGTGTCGGAAAAGGCTTCAAGCAGGATGCACTG
1 AATAATTTTGAGTAGACGTTTCT-GAACAAATAGTG-CCGAAAACGCTTCAAGCAGGATGCACTG
* * * * * * *
11682883 TCAGTAAAATTTTTGGAAAAAGCCCCCACATGGACGCACTTTTGCTACAGTAGTTAGTAGAAA
64 TCAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
11682946 AATAATTCTGAGTAGACGTTTCTGAACAAATAATGCCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
11683011 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
11683072 AATAATTTTGAGTAGACATTTCTAAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTT
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
**
11683137 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGATTCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
11683198 AAT
1 AAT
11683201 GAGGCTATAA
Statistics
Matches: 235, Mismatches: 19, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
126 207 0.88
127 28 0.12
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:11691460 original size:180 final size:179
Alignment explanation
Indices: 11691064--11691411 Score: 509
Period size: 181 Copynumber: 1.9 Consensus size: 179
11691054 AAGAAAGAAT
* * * *
11691064 AACTCAAACTTGAATCTTCAAAAGAGAATGAACCAATAATATGCTACAAATGTAAGAAACCAGGA
1 AACTCAAACTTG-ACCTT-AAAGGAGAATGAACCAATAATATGCTACAAATGCAAAAAACCAGGA
11691129 CACATCAAGTTTGATTGTCCCCAATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTC
64 CACATCAAGTTTGATTGTCCCCAATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTC
*
11691194 ATGTTGCTACTTGGAATGATGAGGATTCATCCGATAATGATAATGACAAAG
129 ATGTTGCTACTTGGAATGATGAGGATTCATCCAATAATGATAATGACAAAG
* * * * **
11691245 GACTCAAACTTGAATCTTTAAAGGAGAAGGAACCAATAATATGCTACGAATGCAAAAAATTAGGA
1 AACTCAAACTTG-A-CCTTAAAGGAGAATGAACCAATAATATGCTACAAATGCAAAAAACCAGGA
* * *
11691310 CACATCAAGTTTGATTGTCCTCAATGGAAG-AAAAATAGGTCAAGCAAACAAAAACTCAAGGCTC
64 CACATCAAGTTTGATTGTCCCCAATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTC
* *
11691374 ATGTTGCTACTTGGAGTGATGAGGATTCATCTAATAAT
129 ATGTTGCTACTTGGAATGATGAGGATTCATCCAATAAT
11691412 TATGATGAAG
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
180 68 0.45
181 80 0.53
182 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.23
Consensus pattern (179 bp):
AACTCAAACTTGACCTTAAAGGAGAATGAACCAATAATATGCTACAAATGCAAAAAACCAGGACA
CATCAAGTTTGATTGTCCCCAATGAAAGAAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTCAT
GTTGCTACTTGGAATGATGAGGATTCATCCAATAATGATAATGACAAAG
Found at i:11708772 original size:55 final size:55
Alignment explanation
Indices: 11708668--11708782 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 55
11708658 CAAAGTTGTA
* * *
11708668 CACGGGTAGGCCACACGGGCGTGCACCATGGCCTTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGGCCACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAGTGTCGCC
* * * * * *
11708723 CACGGGCAGG-CAGCACGGGTGTGTACCATGGCCGTGTTGATAAGTCAGTGTTGCC
1 CACGGGCAGGCCA-CACGGGCGTGCACCATGGCCGTGTTAAAAAGACAGTGTCGCC
11708778 CACGG
1 CACGG
11708783 CTGAAGGGCA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 2 0.04
55 48 0.96
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.19
Consensus pattern (55 bp):
CACGGGCAGGCCACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAGTGTCGCC
Found at i:11716981 original size:146 final size:146
Alignment explanation
Indices: 11716714--11717136 Score: 404
Period size: 146 Copynumber: 2.9 Consensus size: 146
11716704 TACACATATG
* * * *
11716714 GTGTTACTGAGTGCAAACCGTGATGTGAGAAGCTCCGGGCCTTGTAAAGGGGACACTATGGTGTT
1 GTGTTACTGAGTGCAAACCGTGATGT--G-CGCTTCGGGCCTTGTAGAGGGGACAATATGGTGTT
* * * * *
11716779 CGAGCATTAAGATTAGAAATGGCA-AAATGGAGGAATGAACGGATGGATAGGGAAATGAAATTTC
63 TGAGCATCAAGGTTAGAAATGG-AGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTC
* *
11716843 CATTAAGATT-C-TAACATCAT
127 CATTAAAATTCCGT-A-ATCAA
* * * * *
11716863 GTGTTGCTAAGTGCAAACCGTGATGTGCGCTTCAGGCTTTGTAGAGGGGACATTATGGTGTTTGA
1 GTGTTACTGAGTGCAAACCGTGATGTGCGCTTCGGGCCTTGTAGAGGGGACAATATGGTGTTTGA
* * * * * * *
11716928 GCATCAAGGTTAGAAATGGTGAAATGGAGGATTGGGCTGATGGATAGGAAAATGAAATTACTATT
66 GCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTCCATT
11716993 AAAATTCCGTAATCAA
131 AAAATTCCGTAATCAA
** * * * * * * *
11717009 GTGTTTTTGAGTGTAAACTGTGATGTGCGAAGCTTTGGGCCATATGGAGGGGACAATGTGGT-TT
1 GTGTTACTGAGTGCAAACCGTGATGTGC---GCTTCGGGCCTTGTAGAGGGGACAATATGGTGTT
* * * *
11717073 TCAAACATCAAGGTTAGAATTGGAGAAATGGAGGAATGGCCAGATGGATAGGGAAATGAAATTT
63 T-GAGCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTT
11717137 TTGCTAAGAT
Statistics
Matches: 224, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
146 117 0.52
147 3 0.01
148 4 0.02
149 100 0.45
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (146 bp):
GTGTTACTGAGTGCAAACCGTGATGTGCGCTTCGGGCCTTGTAGAGGGGACAATATGGTGTTTGA
GCATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTCCATT
AAAATTCCGTAATCAA
Found at i:11717176 original size:149 final size:148
Alignment explanation
Indices: 11716714--11717243 Score: 395
Period size: 149 Copynumber: 3.6 Consensus size: 148
11716704 TACACATATG
* * * * ** * * * *
11716714 GTGTTACTGAGTGCAAACCGTGATGTGAGAAGCTCCGGGCCTTGTAAAGGGGACACTATGGTGTT
1 GTGTTGCTAAGTGCAAACTGTGATGTG-CAAGCTTTGGGCCATATAGAGGGGACAATATGGTGTT
** * * * * *
11716779 CGAGCATTAAGATTAGAAATGGCA-AAATGGAGGAATGAACGGATGGATAGGGAAATGAAATTTC
65 TAAACATCAAGGTTAGAAATGG-AGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTC
* *
11716843 CATTAAGATTCT-AACATCAT
129 TATTAAGATTCTGAA-ATCAA
* ** ** * *
11716863 GTGTTGCTAAGTGCAAACCGTGATGTGC--GCTTCAGGCTTTGTAGAGGGGACATTATGGTGTTT
1 GTGTTGCTAAGTGCAAACTGTGATGTGCAAGCTTTGGGCCATATAGAGGGGACAATATGGTGTTT
* * * * * * * *
11716926 GAGCATCAAGGTTAGAAATGGTGAAATGGAGGATTGGGCTGATGGATAGGAAAATGAAATTACTA
66 AAACATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTCTA
* * *
11716991 TTAAAATTCCGTAATCAA
131 TTAAGATTCTGAAATCAA
** * * * *
11717009 GTGTTTTTGAGTGTAAACTGTGATGTGCGAAGCTTTGGGCCATATGGAGGGGACAATGTGGT-TT
1 GTGTTGCTAAGTGCAAACTGTGATGTGC-AAGCTTTGGGCCATATAGAGGGGACAATATGGTGTT
* * *
11717073 TCAAACATCAAGGTTAGAATTGGAGAAATGGAGGAATGGCCAGATGGATAGGGAAATGAAATTTT
65 T-AAACATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTC
** * *
11717138 TGCTAAGATTTTGCAATCAA
129 TATTAAGATTCTGAAATCAA
* * * * * *** * * * *
11717158 GTGTTGCTAAGTACAAACTGTTATATGCAAAGCTCTGGGCCTTGCGGATGGGACATTACGATGTT
1 GTGTTGCTAAGTGCAAACTGTGATGTGC-AAGCTTTGGGCCATATAGAGGGGACAATATGGTGTT
* *
11717223 TGAGCATCAAGGTTAGAAATG
65 TAAACATCAAGGTTAGAAATG
11717244 TATTGGAATG
Statistics
Matches: 302, Mismatches: 72, Indels: 14
0.78 0.19 0.04
Matches are distributed among these distances:
146 118 0.39
147 1 0.00
148 3 0.01
149 177 0.59
150 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (148 bp):
GTGTTGCTAAGTGCAAACTGTGATGTGCAAGCTTTGGGCCATATAGAGGGGACAATATGGTGTTT
AAACATCAAGGTTAGAAATGGAGAAATGGAGGAATGGACAGATGGATAGGGAAATGAAATTTCTA
TTAAGATTCTGAAATCAA
Found at i:11719143 original size:31 final size:31
Alignment explanation
Indices: 11719108--11719230 Score: 79
Period size: 33 Copynumber: 3.9 Consensus size: 31
11719098 TACCATTTGA
* *
11719108 AAAGGTTATGTACACCTTGTGTGTACACTTG
1 AAAGGTAAGGTACACCTTGTGTGTACACTTG
* * * *
11719139 AAAGGTTAGGTAGACTTTGTGTATAC-CATATG
1 AAAGGTAAGGTACACCTTGTGTGTACAC-T-TG
* * *
11719171 AAAAGGAAAGGTATACTTTGTGTGTACCACTTGG
1 -AAAGGTAAGGTACACCTTGTGTGTA-CACTT-G
* **
11719205 AAAGG-AATGTACACCTTAAGTGTACA
1 AAAGGTAAGGTACACCTTGTGTGTACA
11719231 GCTGGAAAAG
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
30 1 0.01
31 25 0.34
32 16 0.22
33 27 0.37
34 3 0.04
35 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (31 bp):
AAAGGTAAGGTACACCTTGTGTGTACACTTG
Found at i:11719209 original size:33 final size:33
Alignment explanation
Indices: 11719124--11719211 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
11719114 TATGTACACC
**
11719124 TTGTGTGTA-CACTT-GAAAGGTTAGGTAGACT
1 TTGTGTGTACCACTTGGAAAGGAAAGGTAGACT
* * *
11719155 TTGTGTATACCA-TATGAAAAGGAAAGGTATACT
1 TTGTGTGTACCACT-TGGAAAGGAAAGGTAGACT
11719188 TTGTGTGTACCACTTGGAAAGGAA
1 TTGTGTGTACCACTTGGAAAGGAA
11719212 TGTACACCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
31 9 0.20
32 3 0.07
33 33 0.72
34 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (33 bp):
TTGTGTGTACCACTTGGAAAGGAAAGGTAGACT
Found at i:11723173 original size:46 final size:46
Alignment explanation
Indices: 11722996--11723203 Score: 149
Period size: 46 Copynumber: 4.5 Consensus size: 46
11722986 TTCTGCGATT
* * *
11722996 GTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCCA
*** * * *
11723042 GTGTAAGACCATGTCTGGGACATGGCATTAAC-ATTGAGACGAGAGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGCCA
* * * ** *
11723090 GTTTAAGACGTGTCTGGGATATGCAGGGGCCT-TGAGATGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-AGAGCCA
* *
11723136 GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT--GTGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCA
*
11723180 GTGTAAGACCATGTCCGGGACATG
1 GTGTAAGA-CATGTCTGGGACATG
11723204 GCATTAGCAC
Statistics
Matches: 126, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.09
45 16 0.13
46 50 0.40
47 28 0.22
48 20 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCA
Found at i:11723201 original size:45 final size:46
Alignment explanation
Indices: 11723134--11723247 Score: 135
Period size: 48 Copynumber: 2.5 Consensus size: 46
11723124 AGATGTAAGC
* *
11723134 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACTGAGAGGTGT
* * *
11723178 CAGTGTAAGACCATGTCCGGGACATGGCATTAGCACTTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-T-GAGAGGTGT
11723226 CAGTGTAAGACCATGTCTGGGA
1 CAGTGTAAGACCATGTCTGGGA
11723248 TGTGTTATCG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
44 10 0.17
45 15 0.25
46 6 0.10
48 28 0.47
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACTGAGAGGTGT
Found at i:11729334 original size:94 final size:94
Alignment explanation
Indices: 11729154--11729337 Score: 217
Period size: 94 Copynumber: 2.0 Consensus size: 94
11729144 GTTACGTGCG
* * * * * * *
11729154 TAAGACCATAGCTCAGTTATGGCAACATAGAGAGTTTGTCGGGACAGTAGATACGGGGTAGCCCG
1 TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTCGGCACAGTAAACACGAGGTAGCACA
* ** *
11729219 TTAGGACATTGAACATAGGGTTACATGTA
66 TCAGGACATAAAACACAGGGTTACATGTA
* * *
11729248 TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTTGGCTCAGTAAACACGAGGTAGTACA
1 TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTCGGCACAGTAAACACGAGGTAGCACA
*
11729313 TCAGGA-AGTAAAACACGGGGTTACA
66 TCAGGACA-TAAAACACAGGGTTACA
11729338 CGTGTGAAGT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
93 1 0.01
94 73 0.99
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (94 bp):
TAAGACCATAGCTCAATTATGGCAACATAGAGAGTTTGTCGGCACAGTAAACACGAGGTAGCACA
TCAGGACATAAAACACAGGGTTACATGTA
Found at i:11731245 original size:25 final size:26
Alignment explanation
Indices: 11731217--11731265 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
11731207 GAACATCCCA
*
11731217 ATTAA-AGGTTCTTTGTGAACTTCTT
1 ATTAATAGGCTCTTTGTGAACTTCTT
* *
11731242 ATTAATTGGCTCTTTGTGAGCTTC
1 ATTAATAGGCTCTTTGTGAACTTC
11731266 CCGATAGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (26 bp):
ATTAATAGGCTCTTTGTGAACTTCTT
Found at i:11733175 original size:26 final size:24
Alignment explanation
Indices: 11733128--11733175 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
11733118 GGACTAAATT
*
11733128 GAATGAAAATATAGTTTAGATCAA
1 GAATGAAAAAATAGTTTAGATCAA
*
11733152 GAATGAAAGAAATCAGTTTGGATC
1 GAATGAAA-AAAT-AGTTTAGATC
11733176 GGGGGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 3 0.15
26 9 0.45
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (24 bp):
GAATGAAAAAATAGTTTAGATCAA
Found at i:11737116 original size:23 final size:23
Alignment explanation
Indices: 11737090--11737147 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
11737080 TTTTATATGC
**
11737090 GCAAGTGATAGTGGCACTATGGT
1 GCAAGTGATAGTGGCACTACAGT
11737113 GCAAGTG-TCAGTGGCACTACAGT
1 GCAAGTGAT-AGTGGCACTACAGT
11737136 GCAAGTGATAGT
1 GCAAGTGATAGT
11737148 AGCATTTCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.24
Consensus pattern (23 bp):
GCAAGTGATAGTGGCACTACAGT
Found at i:11737160 original size:23 final size:23
Alignment explanation
Indices: 11737090--11737162 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
11737080 TTTTATATGC
*
11737090 GCAAGTGATAGTGGCACTAT-GGT
1 GCAAGTGATAGTGGCA-TTTCGGT
* * *
11737113 GCAAGTG-TCAGTGGCACTACAGT
1 GCAAGTGAT-AGTGGCATTTCGGT
*
11737136 GCAAGTGATAGTAGCATTTCGGT
1 GCAAGTGATAGTGGCATTTCGGT
11737159 GCAA
1 GCAA
11737163 ATTATTGACT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 1 0.03
23 37 0.95
24 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (23 bp):
GCAAGTGATAGTGGCATTTCGGT
Found at i:11746617 original size:12 final size:12
Alignment explanation
Indices: 11746597--11746627 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11746587 CTAAAGTTTT
11746597 CACACGGCCTAG
1 CACACGGCCTAG
*
11746609 CACATGGCCTAG
1 CACACGGCCTAG
11746621 CACACGG
1 CACACGG
11746628 GCATGTGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11748226 original size:39 final size:40
Alignment explanation
Indices: 11748183--11748260 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 40
11748173 CTTCCAAGCT
**
11748183 CAATTGTAAGTCCATTCTA-CCCTTTTTTTAATGATTTTA
1 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTTA
11748222 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTT
1 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTT
11748261 TATGTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.46
Consensus pattern (40 bp):
CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTTA
Found at i:11756638 original size:40 final size:40
Alignment explanation
Indices: 11756583--11756804 Score: 385
Period size: 40 Copynumber: 5.6 Consensus size: 40
11756573 TATTCGGATG
*
11756583 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
11756623 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
11756663 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
11756703 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11756743 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
11756783 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
11756805 TACTTGGGTT
Statistics
Matches: 176, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
39 14 0.08
40 160 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:11761196 original size:217 final size:217
Alignment explanation
Indices: 11760819--11761258 Score: 790
Period size: 217 Copynumber: 2.0 Consensus size: 217
11760809 TTTTGCCCTT
*
11760819 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCGTAAAATGAACGCATGCAATTTCTACCTT
1 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCATAAAATGAACGCATGCAATTTCTACCTT
11760884 ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
66 ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
*
11760949 TACCACATACTTTACACCTTTTGCAAAAAGGTCATTTTAGGGGGTTTTCATGAAAATCACCTAGA
131 TACCACATACTTTACACCTTTTGCAAAAAGGTCATTTTAGGGGGTTTTCATAAAAATCACCTAGA
11761014 AAAAGATGTTTAACACACATCC
196 AAAAGATGTTTAACACACATCC
*
11761036 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCATAAAATGAATGCATGCAATTTCTACCTT
1 AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCATAAAATGAACGCATGCAATTTCTACCTT
* * *
11761101 ACCCAGTCCTAGCTGAATGTTTTTCCCTTTTATGGCAGCCCACCTTTTCCATTATTTCACATTTT
66 ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
* * * *
11761166 TACCACATATTTTACACTTTTTGGAAAAAGGTCATTTTAGGGGTTTTTCATAAAAATCACCTAGA
131 TACCACATACTTTACACCTTTTGCAAAAAGGTCATTTTAGGGGGTTTTCATAAAAATCACCTAGA
11761231 AAAAGATGTTTAACACACATCC
196 AAAAGATGTTTAACACACATCC
11761253 AACTTT
1 AACTTT
11761259 CATATTCCTC
Statistics
Matches: 213, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 213 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (217 bp):
AACTTTTCACATTTTTACGTTTTAGGCCCTAGGCTCATAAAATGAACGCATGCAATTTCTACCTT
ACCCAGTCCTAGCCGAATGTTTTTCCCTCTTATGGCAGCCCACATTTTCCATTATTTCACATTTT
TACCACATACTTTACACCTTTTGCAAAAAGGTCATTTTAGGGGGTTTTCATAAAAATCACCTAGA
AAAAGATGTTTAACACACATCC
Found at i:11765167 original size:40 final size:40
Alignment explanation
Indices: 11765069--11765331 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
11765059 TCCTCGTTCA
* * * * *
11765069 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11765108 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11765148 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11765188 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11765228 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
11765268 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11765308 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11765332 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11773119 original size:40 final size:40
Alignment explanation
Indices: 11773021--11773283 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
11773011 TCCTCGTTCA
* * * * *
11773021 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11773060 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11773100 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11773140 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11773180 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
11773220 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11773260 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11773284 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11778399 original size:48 final size:47
Alignment explanation
Indices: 11778327--11778451 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
11778317 GTCAGAGGAT
* *
11778327 GATGCATATCCCAGACATGTCTTACACTAGCACTCATCTTAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTC-TCATAAGTGGCC
* *
11778373 GATGCCATGTCCCAGATATAGTCTTACACT-G-TCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCATAA-GTGGCC
11778421 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
11778452 TCACACAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
45 5 0.07
46 17 0.25
47 28 0.42
48 17 0.25
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCTCATAAGTGGCC
Found at i:11788604 original size:38 final size:33
Alignment explanation
Indices: 11788530--11788593 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
11788520 TTTAGCATAC
11788530 ATAACACCAAATATGATCATGATTAGCCATTGG
1 ATAACACCAAATATGATCATGATTAGCCATTGG
11788563 ATAACACCAAATATGATCATGATTAGCCATT
1 ATAACACCAAATATGATCATGATTAGCCATT
11788594 CCAATGGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (33 bp):
ATAACACCAAATATGATCATGATTAGCCATTGG
Found at i:11789215 original size:46 final size:45
Alignment explanation
Indices: 11789148--11789320 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
11789138 TAAACCGTCC
11789148 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTT-GCATCT
* *
11789194 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC--A-GGC--GTTGCATCT
* * * * * *
11789244 CT---CGAACTCGGACTCAACTTAACGAGTTC-GGACATTTGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-C-GTTGCATCT
*
11789287 ATAAGTGAACTCGGACTCAACTCAACGAGTTCAG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAG
11789321 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
43 9 0.09
44 1 0.01
46 57 0.55
47 25 0.24
48 1 0.01
49 2 0.02
50 6 0.06
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTGCATCT
Found at i:11789268 original size:93 final size:93
Alignment explanation
Indices: 11789154--11789325 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
11789144 GTCCATAAGT
* *
11789154 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
11789218 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCAGATGCCTAGTTACATCTCTC
* * *
11789247 GAACTCGGACTCAACTTAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
11789312 CGAGTTCAGATGCC
66 CGAGCTCAGATGCC
11789326 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:11790426 original size:51 final size:51
Alignment explanation
Indices: 11789551--11790415 Score: 1730
Period size: 51 Copynumber: 17.0 Consensus size: 51
11789541 ACATTAAAAC
11789551 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789602 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789653 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789704 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789755 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789806 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789857 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789908 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11789959 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790010 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790061 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790112 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790163 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790214 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790265 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790316 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11790367 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTG
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTG
11790416 TATGCGAAAA
Statistics
Matches: 814, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 814 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (51 bp):
ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
Found at i:11796283 original size:51 final size:51
Alignment explanation
Indices: 11795408--11796272 Score: 1730
Period size: 51 Copynumber: 17.0 Consensus size: 51
11795398 ACATTAAAAC
11795408 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795459 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795510 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795561 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795612 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795663 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795714 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795765 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795816 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795867 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795918 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11795969 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11796020 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11796071 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11796122 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11796173 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
11796224 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTG
1 ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTG
11796273 TATGCGAAAA
Statistics
Matches: 814, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 814 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (51 bp):
ATTTAAAATAATAACTATGTTACCAACATTTACATATGAACTTACCTTGAT
Found at i:11804411 original size:19 final size:18
Alignment explanation
Indices: 11804387--11804422 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11804377 GCTACAGGAG
*
11804387 CCACACGGGTTGGACCATT
1 CCACACGGCTTGG-CCATT
11804406 CCACACGGCTTGGCCAT
1 CCACACGGCTTGGCCAT
11804423 ATTGCTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.19
Consensus pattern (18 bp):
CCACACGGCTTGGCCATT
Found at i:11805533 original size:19 final size:19
Alignment explanation
Indices: 11805489--11805544 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
11805479 TTAGGAAATT
*
11805489 TTTTTTTATATTAA-TTTA
1 TTTTTTTATTTTAATTTTA
11805507 TCCATTTTTTATTTTAATTTTA
1 T---TTTTTTATTTTAATTTTA
*
11805529 TTTTTTTAATTTAATT
1 TTTTTTTATTTTAATT
11805545 GTTACATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 1 0.03
19 14 0.44
21 12 0.38
22 5 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTTATTTTAATTTTA
Found at i:11805535 original size:21 final size:20
Alignment explanation
Indices: 11805486--11805535 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
11805476 ATATTAGGAA
11805486 ATTTTTTTTTATATTAATTT
1 ATTTTTTTTTATATTAATTT
** *
11805506 ATCCATTTTTTATTTTAATTTT
1 AT-TTTTTTTTATATTAA-TTT
11805528 ATTTTTTT
1 ATTTTTTT
11805536 AATTTAATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 5 0.22
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTTTTTATATTAATTT
Found at i:11806885 original size:36 final size:36
Alignment explanation
Indices: 11806838--11806909 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
11806828 CAAGTACACA
11806838 AATATTCATGCAAAATCGGCTTATAAAAACTTCCTT
1 AATATTCATGCAAAATCGGCTTATAAAAACTTCCTT
11806874 AATATTCATGCAAAATCGGCTTATAAAAACTTCCTT
1 AATATTCATGCAAAATCGGCTTATAAAAACTTCCTT
11806910 TCAAACCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (36 bp):
AATATTCATGCAAAATCGGCTTATAAAAACTTCCTT
Found at i:11807072 original size:22 final size:22
Alignment explanation
Indices: 11807047--11807095 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11807037 GAACTGAGTC
* *
11807047 ACACGCCCGTGTGAGACTGGGG
1 ACACGCCCATGTGAGACCGGGG
*
11807069 ACACACCCATGTGAGACCGGGG
1 ACACGCCCATGTGAGACCGGGG
11807091 ACACG
1 ACACG
11807096 ACCCTGTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.35, T:0.10
Consensus pattern (22 bp):
ACACGCCCATGTGAGACCGGGG
Found at i:11812714 original size:40 final size:39
Alignment explanation
Indices: 11812677--11812854 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
11812667 ATATCCGGAC
11812677 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
11812717 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
11812757 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
11812797 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
11812836 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
11812855 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:11812767 original size:80 final size:79
Alignment explanation
Indices: 11812683--11812854 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
11812673 GGACTAAGAT
*
11812683 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
11812747 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
11812763 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
11812828 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
11812842 CCGAAGGCATTTG
1 CCGAAGGCATTTG
11812855 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:11812872 original size:79 final size:80
Alignment explanation
Indices: 11812710--11812887 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
11812700 AGATACAAAT
* * * *
11812710 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
11812775 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
11812790 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
11812854 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
11812869 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
11812888 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:11820624 original size:40 final size:39
Alignment explanation
Indices: 11820593--11820802 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
11820583 GGACTAAGAT
* *
11820593 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
11820633 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
11820673 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
11820713 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
11820753 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
11820792 CCGAAGGCATT
1 CCGAAGGCATT
11820803 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:11820756 original size:120 final size:120
Alignment explanation
Indices: 11820540--11820802 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
11820530 TTGAATGCTG
* *
11820540 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
11820604 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
11820660 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
11820723 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
11820779 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
11820803 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:11820822 original size:79 final size:80
Alignment explanation
Indices: 11820541--11820837 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
11820531 TGAATGCTGT
* ** * * * **
11820541 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
11820604 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
11820621 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
11820685 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
11820701 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
11820765 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
11820780 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
11820838 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:11832560 original size:23 final size:23
Alignment explanation
Indices: 11832530--11832626 Score: 76
Period size: 23 Copynumber: 4.3 Consensus size: 23
11832520 AGCCATGATC
11832530 AGTAAGCTCTAATGAGCTGAAAT
1 AGTAAGCTCTAATGAGCTGAAAT
* *
11832553 AGTAAGCTCT-ATCGAACTG-AAC
1 AGTAAGCTCTAAT-GAGCTGAAAT
* *
11832575 AGTAAGCTC-ATACGAGTTGAAAT
1 AGTAAGCTCTA-ATGAGCTGAAAT
* * *
11832598 GGTAAGCTCCAA-GAGCTTAAAAT
1 AGTAAGCTCTAATGAGC-TGAAAT
11832621 AGTAAG
1 AGTAAG
11832627 ATCTTACGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
22 20 0.34
23 37 0.64
24 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAT
Found at i:11849137 original size:6 final size:6
Alignment explanation
Indices: 11849126--11849317 Score: 168
Period size: 6 Copynumber: 31.8 Consensus size: 6
11849116 AACCAAAATG
*
11849126 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
11849174 AGTAA-C AGAATC AGAATC AGAATC AGAATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
11849222 AGAATC A-ATATT AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
* * *
11849270 AAAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
11849318 NNNNNNNNNN
Statistics
Matches: 153, Mismatches: 14, Indels: 38
0.75 0.07 0.19
Matches are distributed among these distances:
5 14 0.09
6 126 0.82
7 9 0.06
8 4 0.03
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:11849141 original size:30 final size:30
Alignment explanation
Indices: 11849126--11849317 Score: 300
Period size: 30 Copynumber: 6.4 Consensus size: 30
11849116 AACCAAAATG
*
11849126 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
11849156 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
11849186 AGAATCAGAATCAGAATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
11849216 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
11849246 AGAATCAGAATCA-ATATTAGTAACAAAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
11849276 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
11849307 AGAATCAGAAT
1 AGAATCAGAAT
11849318 NNNNNNNNNN
Statistics
Matches: 153, Mismatches: 4, Indels: 9
0.92 0.02 0.05
Matches are distributed among these distances:
29 2 0.01
30 129 0.84
31 22 0.14
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:11849525 original size:22 final size:21
Alignment explanation
Indices: 11849497--11849561 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
11849487 GCAAATACGT
11849497 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
11849519 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
11849541 TTGACACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
11849562 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:11850042 original size:27 final size:27
Alignment explanation
Indices: 11850014--11850228 Score: 367
Period size: 27 Copynumber: 8.0 Consensus size: 27
11850004 AGGTATCTTA
* **
11850014 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
11850041 GTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
11850068 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
11850095 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
11850122 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
11850149 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
11850176 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
11850203 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
11850229 NNNNNNNNNN
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 181 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:11850069 original size:54 final size:54
Alignment explanation
Indices: 11849987--11850228 Score: 362
Period size: 54 Copynumber: 4.5 Consensus size: 54
11849977 AGGACAAAAT
* * * * *
11849987 GGTAATTTTACCCCACA-AGGTATCTT-AGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTAT-TTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
11850040 AGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
11850094 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
11850148 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
11850202 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
11850229 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
53 14 0.08
54 160 0.92
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:11859322 original size:22 final size:19
Alignment explanation
Indices: 11859297--11859338 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
11859287 TGATAATCAT
11859297 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
11859319 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
11859338 T
1 T
11859339 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:11861581 original size:387 final size:387
Alignment explanation
Indices: 11860862--11861633 Score: 1427
Period size: 387 Copynumber: 2.0 Consensus size: 387
11860852 TTACGATAAC
* *
11860862 AATTTTGTGCTTGAAAGCTAAAATTCTTGCAAACTTAAAGAAGATAGGTTATAGTCAGGGCACAA
1 AATTCTGTGCTTGAAAGCTAAAATTCTTGCAAACTTAAAGAAGACAGGTTATAGTCAGGGCACAA
*
11860927 TCACAGATTGGGACCTCTACCGAAGAGCTAGAAACTATGTTCTACAGCAACGGCTTGAAGAGAGC
66 TCACAGATTGGGACCTCTACCGAAGAGCTAGAAACTATGTTCTACAGCAACGACTTGAAGAGAGC
* *
11860992 AATGATCCTGAAGAAGAAGAAGAAGATCCCACAGAGATCGAACCAAGGTAGTTAGCTAAAATCCC
131 AATGATCCTGAAGAAGAAGAAGAAGATCCCACAGACATCGAACCAAGGTAGTCAGCTAAAATCCC
* *
11861057 TGATAAGGCAGAACCAATGGAATCAGTAACCGAACCTGATGTTGCAACTTCAATGTTCAGGACTC
196 TGATAAGGCAGAACCAATGGAATCAATAACCAAACCTGATGTTGCAACTTCAATGTTCAGGACTC
11861122 AATCACCTCACCCAAATCTTCGAGATGAGCTATAAAAATTGATGGACATTATGCAACATATGCAG
261 AATCACCTCACCCAAATCTTCGAGATGAGCTATAAAAATTGATGGACATTATGCAACATATGCAG
11861187 TGGCAGCAACAAGCTTACTGGAGATATTCAAAAATACGGGATGACTCAATGAGAAGCGCTAA
326 TGGCAGCAACAAGCTTACTGGAGATATTCAAAAATACGGGATGACTCAATGAGAAGCGCTAA
*
11861249 AATTCTGTGCTTGAAAGCTAAAATTCTTTCAAACTTAAAGAAGACAGGTTATAGTCAGGGCACAA
1 AATTCTGTGCTTGAAAGCTAAAATTCTTGCAAACTTAAAGAAGACAGGTTATAGTCAGGGCACAA
* *
11861314 TCATAGATTGGGACCTCTACCGAAGAGCTAGAGACTATGTTCTACAGCAACGACTTGAAGAGAGC
66 TCACAGATTGGGACCTCTACCGAAGAGCTAGAAACTATGTTCTACAGCAACGACTTGAAGAGAGC
11861379 AATGATCCTGAAGAAGAAGAAGAAGATCCCACAGACATCGAACCAAGGTAGTCAGCTAAAATCCC
131 AATGATCCTGAAGAAGAAGAAGAAGATCCCACAGACATCGAACCAAGGTAGTCAGCTAAAATCCC
*
11861444 TGATAAGGCAGAACCAATGGAATCAATAACCAAACCTGATGTTGCAACTTCAATGTTTAGGACTC
196 TGATAAGGCAGAACCAATGGAATCAATAACCAAACCTGATGTTGCAACTTCAATGTTCAGGACTC
*
11861509 AATCACCTCACCCAAATCTTCGAGGTGAGCTATAAAAATTGATGGACATTATGCAACATATGCAG
261 AATCACCTCACCCAAATCTTCGAGATGAGCTATAAAAATTGATGGACATTATGCAACATATGCAG
*
11861574 TGGCAGCAACAAGCTTACTGGAGATATTCAAAGATACGGGATGACTCAATGAGAAGCGCT
326 TGGCAGCAACAAGCTTACTGGAGATATTCAAAAATACGGGATGACTCAATGAGAAGCGCT
11861634 CTTATGAAAA
Statistics
Matches: 372, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
387 372 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (387 bp):
AATTCTGTGCTTGAAAGCTAAAATTCTTGCAAACTTAAAGAAGACAGGTTATAGTCAGGGCACAA
TCACAGATTGGGACCTCTACCGAAGAGCTAGAAACTATGTTCTACAGCAACGACTTGAAGAGAGC
AATGATCCTGAAGAAGAAGAAGAAGATCCCACAGACATCGAACCAAGGTAGTCAGCTAAAATCCC
TGATAAGGCAGAACCAATGGAATCAATAACCAAACCTGATGTTGCAACTTCAATGTTCAGGACTC
AATCACCTCACCCAAATCTTCGAGATGAGCTATAAAAATTGATGGACATTATGCAACATATGCAG
TGGCAGCAACAAGCTTACTGGAGATATTCAAAAATACGGGATGACTCAATGAGAAGCGCTAA
Found at i:11863996 original size:24 final size:25
Alignment explanation
Indices: 11863947--11864009 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
11863937 ACCCTTCTCA
* *
11863947 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTGTTC
11863972 TCTCTTCA-TTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTCT-CATTGTTC
*
11863996 T-TCATTTACTTCCC
1 TCTC-TTCACTTCCC
11864010 CTATTCCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 3 0.09
24 16 0.50
25 13 0.41
ACGTcount: A:0.10, C:0.37, G:0.02, T:0.52
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTGTTC
Found at i:11865067 original size:16 final size:16
Alignment explanation
Indices: 11865025--11865060 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11865015 AAGTGTTTTA
11865025 AATTAATTTCATAAAT
1 AATTAATTTCATAAAT
11865041 AATTAATTTCATAAAT
1 AATTAATTTCATAAAT
11865057 AATT
1 AATT
11865061 CTTTTCACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAATTTCATAAAT
Found at i:11868604 original size:44 final size:44
Alignment explanation
Indices: 11868502--11868664 Score: 168
Period size: 44 Copynumber: 3.7 Consensus size: 44
11868492 AAAGCTCGTA
** * * *
11868502 CAATGCCAACGTCCCTGACATGGTCTTACATGT-AATCA-AATAT
1 CAATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAA-GT
* ***
11868545 CGATGCCATTATCCCAAACGTGGTCTTACACGTAAATCATAAGT
1 CAATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGT
* *
11868589 CAATTCCAACGTCCCAAACGTGGTCTTACATGTAAATCATAAGT
1 CAATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGT
* * * *
11868633 CGATGCCAACGTCCCAGACCTAGTCTTACACG
1 CAATGCCAACGTCCCAAACGTGGTCTTACACG
11868665 ATAACACATA
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
43 25 0.26
44 70 0.72
45 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (44 bp):
CAATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGT
Found at i:11868660 original size:88 final size:87
Alignment explanation
Indices: 11868502--11868664 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 87
11868492 AAAGCTCGTA
** ** * *
11868502 CAATGCCAACGTCCCTGACATGGTCTTACATGTAATCAAATATCGATGCCATTATCCCAAACGTG
1 CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCAACATCCCAAACCTA
11868567 GTCTTACACGTAAATCATAAGT
66 GTCTTACACGTAAATCATAAGT
* * * * *
11868589 CAATTCCAACGTCCCAAACGTGGTCTTACATGTAAATCATAA-GTCGATGCCAACGTCCCAGACC
1 CAATGCCAACGTCCCAAACATGGTCTTACATGT-AATCA-AATATCGATGCCAACATCCCAAACC
11868653 TAGTCTTACACG
64 TAGTCTTACACG
11868665 ATAACACATA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
87 29 0.46
88 32 0.51
89 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (87 bp):
CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCAACATCCCAAACCTA
GTCTTACACGTAAATCATAAGT
Found at i:11871805 original size:50 final size:50
Alignment explanation
Indices: 11871740--11871979 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
11871730 ACCGAAGCTC
* * *
11871740 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
** * * *
11871790 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * * ** *
11871840 TCTGATACATGTAATAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* * * *
11871892 -CAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* *
11871941 TCTGGTACACGTAATAGCCTACACTTAGTACTACACACG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG
11871980 TGACTCACAA
Statistics
Matches: 153, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.02
50 114 0.75
51 35 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:11871944 original size:101 final size:101
Alignment explanation
Indices: 11871801--11871982 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
11871791 CTGGTACACG
* * * * *
11871801 TAGTAGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACATGTAATAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACGTAATAGCCTACACTT
11871866 AGTACTACACACGTGATCGAAGTTAACAGGTACGCA
66 AGTACTACACACGTGATCGAAGTTAACAGGTACGCA
** * *
11871902 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAATAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACGTAATAGCCTACACTT
11871967 AGTACTACACACGTGA
66 AGTACTACACACGTGA
11871983 CTCACAACGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACGTAATAGCCTACACTT
AGTACTACACACGTGATCGAAGTTAACAGGTACGCA
Found at i:11872361 original size:19 final size:20
Alignment explanation
Indices: 11872331--11872377 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
11872321 AAGAACAGGT
11872331 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
11872352 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
11872371 TATATAT
1 TATATAT
11872378 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:11876452 original size:39 final size:40
Alignment explanation
Indices: 11876407--11876591 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
11876397 GCTCCTCGTT
* * *
11876407 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
11876447 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
11876486 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
11876526 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
11876567 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
11876592 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:11876507 original size:40 final size:39
Alignment explanation
Indices: 11876374--11876591 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
11876364 AAATCACGTA
* * **
11876374 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
11876413 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
11876452 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
11876492 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
11876532 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
11876572 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
11876592 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:11881925 original size:207 final size:207
Alignment explanation
Indices: 11881570--11881980 Score: 723
Period size: 207 Copynumber: 2.0 Consensus size: 207
11881560 ATCCTCTCTG
*
11881570 ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCC
1 ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCC
* * *
11881635 CACTCTGATTTTCATTCTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCCACTGATCCG
66 CACTCTGATTTGCATTCTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCG
*
11881700 CATTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACA
131 CACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACA
11881765 TTCCGTTCTGTC
196 TTCCGTTCTGTC
* *
11881777 ACCACCACTAGCATTGCCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCC
1 ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCC
**
11881842 CACTCTGATTTGCATTCTGTCCCGACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCG
66 CACTCTGATTTGCATTCTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCG
*
11881907 CACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACA
131 CACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACA
*
11881972 TTTCGTTCT
196 TTCCGTTCT
11881981 ATCTCGACGT
Statistics
Matches: 193, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
207 193 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (207 bp):
ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCC
CACTCTGATTTGCATTCTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCG
CACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACA
TTCCGTTCTGTC
Found at i:11884526 original size:39 final size:40
Alignment explanation
Indices: 11884481--11884652 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
11884471 GCTCCTCGTT
* * *
11884481 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
11884521 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
11884560 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
11884600 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
11884640 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11884653 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:11884581 original size:40 final size:39
Alignment explanation
Indices: 11884483--11884705 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
11884473 TCCTCGTTCA
* * * *
11884483 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
11884522 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
11884561 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
11884601 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
11884641 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
11884682 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11884706 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:11884665 original size:80 final size:79
Alignment explanation
Indices: 11884481--11884705 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
11884471 GCTCCTCGTT
* * * * *
11884481 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
11884545 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
11884560 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
11884625 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
11884640 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
11884704 GA
63 GA
11884706 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:11884714 original size:41 final size:41
Alignment explanation
Indices: 11884637--11884714 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11884627 TTTGTATCTC
* * *
11884637 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11884678 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11884715 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11888153 original size:17 final size:18
Alignment explanation
Indices: 11888131--11888169 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11888121 TGTTTTATTA
11888131 TTATTTT-ATT-TAATGTT
1 TTATTTTAATTATAAT-TT
11888148 TTATTTTAATTATAATTT
1 TTATTTTAATTATAATTT
11888166 TTAT
1 TTAT
11888170 AACATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTTTAATTATAATTT
Found at i:11889788 original size:19 final size:19
Alignment explanation
Indices: 11889764--11889801 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11889754 TGGGCCTCGA
11889764 TGGGCCAAAATAGGC-CGTG
1 TGGGCC-AAATAGGCTCGTG
*
11889783 TGGGCCTAATAGGCTCGTG
1 TGGGCCAAATAGGCTCGTG
11889802 GGCCCACGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.21, C:0.21, G:0.37, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATAGGCTCGTG
Found at i:11890279 original size:27 final size:27
Alignment explanation
Indices: 11890247--11890298 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11890237 TACTGTACTA
11890247 GTGGCTCTGCCACA-ATTACTGTTACCG
1 GTGGCTCTGCCACATA-TACTGTTACCG
*
11890274 GTGGCTTTGCCACATATACTGTTAC
1 GTGGCTCTGCCACATATACTGTTAC
11890299 TGCCAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (27 bp):
GTGGCTCTGCCACATATACTGTTACCG
Found at i:11895790 original size:193 final size:193
Alignment explanation
Indices: 11895461--11895848 Score: 776
Period size: 193 Copynumber: 2.0 Consensus size: 193
11895451 AGTCCACTAG
11895461 GGTAATCGGTTAGGGTGGATAAGTTGTTCAAAGAAGTGCCTTTAGAAGTTCAAGGGGTCGTATTT
1 GGTAATCGGTTAGGGTGGATAAGTTGTTCAAAGAAGTGCCTTTAGAAGTTCAAGGGGTCGTATTT
11895526 CCTTCAAATTTGATGGAATTGCCATTCGGGGAATTTGATATTATTTTAGGCATGGATTGGCTAGT
66 CCTTCAAATTTGATGGAATTGCCATTCGGGGAATTTGATATTATTTTAGGCATGGATTGGCTAGT
11895591 GAAGCATCGTGTGAAATTGGATTGTGCTGCTAAGCGATTGGTGTTGAAGACTTCAGAGGATGA
131 GAAGCATCGTGTGAAATTGGATTGTGCTGCTAAGCGATTGGTGTTGAAGACTTCAGAGGATGA
11895654 GGTAATCGGTTAGGGTGGATAAGTTGTTCAAAGAAGTGCCTTTAGAAGTTCAAGGGGTCGTATTT
1 GGTAATCGGTTAGGGTGGATAAGTTGTTCAAAGAAGTGCCTTTAGAAGTTCAAGGGGTCGTATTT
11895719 CCTTCAAATTTGATGGAATTGCCATTCGGGGAATTTGATATTATTTTAGGCATGGATTGGCTAGT
66 CCTTCAAATTTGATGGAATTGCCATTCGGGGAATTTGATATTATTTTAGGCATGGATTGGCTAGT
11895784 GAAGCATCGTGTGAAATTGGATTGTGCTGCTAAGCGATTGGTGTTGAAGACTTCAGAGGATGA
131 GAAGCATCGTGTGAAATTGGATTGTGCTGCTAAGCGATTGGTGTTGAAGACTTCAGAGGATGA
11895847 GG
1 GG
11895849 AGGTGGCCAT
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 195 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (193 bp):
GGTAATCGGTTAGGGTGGATAAGTTGTTCAAAGAAGTGCCTTTAGAAGTTCAAGGGGTCGTATTT
CCTTCAAATTTGATGGAATTGCCATTCGGGGAATTTGATATTATTTTAGGCATGGATTGGCTAGT
GAAGCATCGTGTGAAATTGGATTGTGCTGCTAAGCGATTGGTGTTGAAGACTTCAGAGGATGA
Found at i:11900051 original size:14 final size:14
Alignment explanation
Indices: 11900032--11900060 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11900022 TAGGGGTAAA
11900032 ATGGTCATTTTGCT
1 ATGGTCATTTTGCT
11900046 ATGGTCATTTTGCT
1 ATGGTCATTTTGCT
11900060 A
1 A
11900061 AGGCATAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (14 bp):
ATGGTCATTTTGCT
Found at i:11900543 original size:47 final size:46
Alignment explanation
Indices: 11900433--11900692 Score: 163
Period size: 47 Copynumber: 5.6 Consensus size: 46
11900423 TGATTTGTGC
* ** *
11900433 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGTCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACAAAATAAGA
* *
11900479 GCTAGTGTAAGATCATGTCTGGGACATGGCATCGGT-ACAAAAATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTCAC-AAAATAAGA
* * * * * * * * *
11900527 GCCAGAGTAAGACATGTTTAGGACATGCATCGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACAAAATA-AGA
* * * * * *
11900574 GCCAGTGTAAGACGTGTCTAGGACATGCATCAG-C-CAAGAGTTA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACAA-AATAAGA
* * * * *
11900618 GCTAGTGTAAGACATGTCTAGGA-ATGCATCAG-CATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTCA--CA-AAATAAGA
11900665 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
11900693 GCATTGCCAA
Statistics
Matches: 166, Mismatches: 35, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
43 10 0.06
44 21 0.13
45 3 0.02
46 26 0.16
47 71 0.43
48 32 0.19
49 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGTCACAAAATAAGA
Found at i:11908012 original size:47 final size:46
Alignment explanation
Indices: 11907944--11908829 Score: 573
Period size: 48 Copynumber: 18.6 Consensus size: 46
11907934 TTTGTGCACC
* * * **
11907944 AGTGTAAGACATGTTTGGGACATGCTTCGGTCACA-TTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACAGAGATGAGAGCT
* *
11907990 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAGCT
* *
11908038 AGAGTAAGACATGTCTGGGACATGCATCAGTCTCGACAGAGAT-A-A-CC
1 AGTGTAAGACATGTCTGGGACATGCATCAG---C-ACAGAGATGAGAGCT
* * * *
11908085 AGTGTAAGACATGTCTGGGACACGCATCGGCTA-AGAG-T-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACAGAGATGAGAGCT
** * * * *
11908129 AGTGTAAGACATGTCTGGGACATGCATCATTATGCATATATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGAGCT
* * * *
11908177 GGTGGAAGACCATGTCTGGGACATGGCATC-GACATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CACAGAGATGAGAGCT
* ** * * * *
11908225 AGAGTAAGACATGTCTGGGACATGCATCATTATGCATATATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGAGCT
* * * *
11908273 GGTGGAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAGCT
* ** * * * *
11908321 AGAGTAAGACATGTCTGGGACATGCATCATTATGCATATATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGAGCT
* * * *
11908369 GGTGGAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAGCT
* ** * * * *
11908417 AGAGTAAGACATGTCTGGGACATGCATCATTATGCATATATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGAGCT
* * * *
11908465 GGTGGAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAGCT
* ** * * * *
11908513 AGAGTAAGACATGTCTGGGACATGCATCATTATGCATATATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGAGCT
* * * *
11908561 GGTGGAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAGCT
* ** * * * *
11908609 AGAGTAAGACATGTCTGGGACATGCATCATTATGCATATATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGAGCT
* * * *
11908657 GGTGGAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAGCT
* ** * * * *
11908705 AGAGTAAGACATGTCTGGGACATGCATCATTATGCATATATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAGATGAGAGCT
* * * *
11908753 GGTGGAAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAGCT
*
11908801 AGAGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGTCTGGGACATGCATCA
11908830 TTATGCATAT
Statistics
Matches: 625, Mismatches: 173, Indels: 84
0.71 0.20 0.10
Matches are distributed among these distances:
42 1 0.00
43 5 0.01
44 30 0.05
46 65 0.10
47 157 0.25
48 212 0.34
49 100 0.16
50 55 0.09
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACAGAGATGAGAGCT
Found at i:11908148 original size:44 final size:45
Alignment explanation
Indices: 11907944--11908156 Score: 166
Period size: 47 Copynumber: 4.6 Consensus size: 45
11907934 TTTGTGCACC
* * * * *
11907944 AGTGTAAGACATGTTTGGGACATGCTTCGG-TCACATTA-TGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-ACA-GAGT-TGTGCT
* * *
11907990 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ATAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAGAG-T-TGTGCT
* * * ** *
11908038 AGAGTAAGACATGTCTGGGACATGCATCAGTCTCGACAGAGAT-AACC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCT--ACAGAGTTGTGCT
*
11908085 AGTGTAAGACATGTCTGGGACACGCATCGGCTA-AGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGTGCT
11908129 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
11908157 ATTATGCATA
Statistics
Matches: 134, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
43 5 0.04
44 29 0.22
46 18 0.13
47 57 0.43
48 20 0.15
50 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGTGCT
Found at i:11908246 original size:96 final size:96
Alignment explanation
Indices: 11907995--11908878 Score: 1586
Period size: 96 Copynumber: 9.3 Consensus size: 96
11907985 GAGCTAGTGT
11907995 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
* * * * * * *
11908060 TGCATCAGTCT-CGACAGA-GATAACCAGTGT
66 TGCATCATTATGC-ATATATGAGAACCGGTGG
* * * *
11908090 AAGA-CATGTCTGGGACA-CGCATCGGC-TA-AGA-GTTGTGCTAGTGTAAGACATGTCTGGGAC
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATG-AGTGCTAGAGTAAGACATGTCTGGGAC
11908150 ATGCATCATTATGCATATATGAGAACCGGTGG
65 ATGCATCATTATGCATATATGAGAACCGGTGG
11908182 AAGACCATGTCTGGGACATGGCATC-GACATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGAC
1 AAGACCATGTCTGGGACATGGCATCAG-CATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGAC
11908246 ATGCATCATTATGCATATATGAGAACCGGTGG
65 ATGCATCATTATGCATATATGAGAACCGGTGG
11908278 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
11908343 TGCATCATTATGCATATATGAGAACCGGTGG
66 TGCATCATTATGCATATATGAGAACCGGTGG
11908374 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
11908439 TGCATCATTATGCATATATGAGAACCGGTGG
66 TGCATCATTATGCATATATGAGAACCGGTGG
11908470 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
11908535 TGCATCATTATGCATATATGAGAACCGGTGG
66 TGCATCATTATGCATATATGAGAACCGGTGG
11908566 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
11908631 TGCATCATTATGCATATATGAGAACCGGTGG
66 TGCATCATTATGCATATATGAGAACCGGTGG
11908662 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
11908727 TGCATCATTATGCATATATGAGAACCGGTGG
66 TGCATCATTATGCATATATGAGAACCGGTGG
11908758 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
11908823 TGCATCATTATGCATATATGAGAACCGGTGG
66 TGCATCATTATGCATATATGAGAACCGGTGG
11908854 AAGACCATGTCTGGGACATGGCATC
1 AAGACCATGTCTGGGACATGGCATC
11908879 GACAATATAT
Statistics
Matches: 765, Mismatches: 14, Indels: 19
0.96 0.02 0.02
Matches are distributed among these distances:
90 1 0.00
91 41 0.05
92 16 0.02
93 21 0.03
94 19 0.02
95 6 0.01
96 659 0.86
97 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (96 bp):
AAGACCATGTCTGGGACATGGCATCAGCATAGAGATGAGTGCTAGAGTAAGACATGTCTGGGACA
TGCATCATTATGCATATATGAGAACCGGTGG
Found at i:11911181 original size:30 final size:30
Alignment explanation
Indices: 11911147--11911226 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
11911137 AGTCGAAGCT
*
11911147 ATCCCTTTTCATAATTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCATAACC
** * *
11911177 ATCCCTTTTCATTGTTCGATGGTCGTAACC
1 ATCCCTTTTCATAATTTGATGGTCATAACC
11911207 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
11911227 AGCCGAATCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCATAACC
Found at i:11911246 original size:60 final size:59
Alignment explanation
Indices: 11911147--11911337 Score: 163
Period size: 60 Copynumber: 3.2 Consensus size: 59
11911137 AGTCGAAGCT
* * * *
11911147 ATCCCTTTTCATAATTTGATGGTC--ATCACCATCCCTTTTCATTGTTCGATGGTCGTAACC
1 ATCCCTTTTCATAATTTGATAGCCGAAT--CCATCCCTTTTCATAGTTAGATGG-CGTAACC
* * * *
11911207 ATCCCTTTTCATAATTTGATAGCCGAATCTATCCTTTTTCATAGTTTGATAGCCG-AAGCC
1 ATCCCTTTTCATAATTTGATAGCCGAATCCATCCCTTTTCATAGTTAGAT-GGCGTAA-CC
* * ** * * * *
11911267 ATCCCTATTCATAGTTCAATAGCTGAAGCCATCCCTTTTCATAGTTAGATGGCTGTCACA
1 ATCCCTTTTCATAATTTGATAGCCGAATCCATCCCTTTTCATAGTTAGATGGC-GTAACC
11911327 ATCCCTTTTCA
1 ATCCCTTTTCA
11911338 CTGTTGATGG
Statistics
Matches: 105, Mismatches: 20, Indels: 12
0.77 0.15 0.09
Matches are distributed among these distances:
59 4 0.04
60 97 0.92
61 2 0.02
62 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.38
Consensus pattern (59 bp):
ATCCCTTTTCATAATTTGATAGCCGAATCCATCCCTTTTCATAGTTAGATGGCGTAACC
Found at i:11911310 original size:30 final size:30
Alignment explanation
Indices: 11911175--11911312 Score: 152
Period size: 30 Copynumber: 4.6 Consensus size: 30
11911165 ATGGTCATCA
* * *
11911175 CCATCCCTTTTCATTGTTCGATGGTCGTAA-
1 CCATCCCTTTTCATAGTTCGATAGCCG-AAG
* * *
11911205 CCATCCCTTTTCATAATTTGATAGCCGAAT
1 CCATCCCTTTTCATAGTTCGATAGCCGAAG
* * *
11911235 CTATCCTTTTTCATAGTTTGATAGCCGAAG
1 CCATCCCTTTTCATAGTTCGATAGCCGAAG
* * *
11911265 CCATCCCTATTCATAGTTCAATAGCTGAAG
1 CCATCCCTTTTCATAGTTCGATAGCCGAAG
11911295 CCATCCCTTTTCATAGTT
1 CCATCCCTTTTCATAGTT
11911313 AGATGGCTGT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 2 0.02
30 89 0.98
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTCGATAGCCGAAG
Found at i:11911359 original size:29 final size:30
Alignment explanation
Indices: 11911147--11911359 Score: 102
Period size: 30 Copynumber: 7.1 Consensus size: 30
11911137 AGTCGAAGCT
* * *
11911147 ATCCCTTTTCATAATTTGATGG-TCATCACC
1 ATCCCTTTTCATAGTTAGATGGCT-GTCACC
* * *
11911177 ATCCCTTTTCATTGTTCGATGG-TCGTAACC
1 ATCCCTTTTCATAGTTAGATGGCT-GTCACC
* * * * * *
11911207 ATCCCTTTTCATAATTTGATAGCCG-AATCT
1 ATCCCTTTTCATAGTTAGATGGCTGTCA-CC
* * * * *
11911237 ATCCTTTTTCATAGTTTGATAGCCG-AAGCC
1 ATCCCTTTTCATAGTTAGATGGCTGTCA-CC
* * *
11911267 ATCCCTATTCATAGTTCA-ATAGCTG-AAGCC
1 ATCCCTTTTCATAGTT-AGATGGCTGTCA-CC
*
11911297 ATCCCTTTTCATAGTTAGATGGCTGTCACA
1 ATCCCTTTTCATAGTTAGATGGCTGTCACC
11911327 ATCCCTTTTCACT-GTT-GATGG-TCGTCACC
1 ATCCCTTTTCA-TAGTTAGATGGCT-GTCACC
11911356 ATCC
1 ATCC
11911360 ACTACACCAA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 17 0.11
30 132 0.87
31 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTAGATGGCTGTCACC
Found at i:11911460 original size:40 final size:40
Alignment explanation
Indices: 11911416--11911572 Score: 138
Period size: 40 Copynumber: 4.0 Consensus size: 40
11911406 GAAAAAATTG
* *
11911416 AATAGATGGAGTTTTAGCGGCGTTTTTTTAAAAACGCCAC
1 AATAGATCGAGTTTTAGCGGCGTTTTTGTAAAAACGCCAC
* * * *
11911456 AATAGATCGAGTTTTAGCGACGTTTTAGAAAAAACCGCCGC
1 AATAGATCGAGTTTTAGCGGCGTTTTTGTAAAAA-CGCCAC
* * * ** * *
11911497 TATAGGTCGAGCTTTAGCGGCG-TTTTACAAAAAAGCTAC
1 AATAGATCGAGTTTTAGCGGCGTTTTTGTAAAAACGCCAC
* * * *
11911536 TATAGGTTGAGGTTTAGCGGCGTTTTTGT-AAAACGCC
1 AATAGATCGAGTTTTAGCGGCGTTTTTGTAAAAACGCC
11911573 GCTAAAAGGT
Statistics
Matches: 93, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
39 29 0.31
40 41 0.44
41 23 0.25
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (40 bp):
AATAGATCGAGTTTTAGCGGCGTTTTTGTAAAAACGCCAC
Found at i:11911515 original size:41 final size:39
Alignment explanation
Indices: 11911428--11911561 Score: 133
Period size: 39 Copynumber: 3.4 Consensus size: 39
11911418 TAGATGGAGT
** * * * *
11911428 TTTAGCGGCGTTTTTTTAAAAACGCCACAATAGATCGAGT
1 TTTAGCGGCG-TTTTACAAAAAAGCCACTATAGGTCGAGC
* * *
11911468 TTTAGCGACGTTTTAGAAAAAACCGCCGCTATAGGTCGAGC
1 TTTAGCGGCGTTTTACAAAAAA--GCCACTATAGGTCGAGC
* * *
11911509 TTTAGCGGCGTTTTACAAAAAAGCTACTATAGGTTGAGG
1 TTTAGCGGCGTTTTACAAAAAAGCCACTATAGGTCGAGC
11911548 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
11911562 TGTAAAACGC
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 36 0.46
40 9 0.12
41 33 0.42
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (39 bp):
TTTAGCGGCGTTTTACAAAAAAGCCACTATAGGTCGAGC
Found at i:11911552 original size:39 final size:40
Alignment explanation
Indices: 11911428--11911561 Score: 144
Period size: 41 Copynumber: 3.4 Consensus size: 40
11911418 TAGATGGAGT
*** * * *
11911428 TTTAGCGGCGTTTTTTTAAAAACGCCACAATAGATCGAGT
1 TTTAGCGGCGTTTTACAAAAAACGCCACTATAGGTCGAGC
* * *
11911468 TTTAGCGACGTTTTAGAAAAAACCGCCGCTATAGGTCGAGC
1 TTTAGCGGCGTTTTACAAAAAA-CGCCACTATAGGTCGAGC
* * *
11911509 TTTAGCGGCGTTTTACAAAAAA-GCTACTATAGGTTGAGG
1 TTTAGCGGCGTTTTACAAAAAACGCCACTATAGGTCGAGC
11911548 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
11911562 TGTAAAACGC
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 27 0.34
40 18 0.23
41 34 0.43
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (40 bp):
TTTAGCGGCGTTTTACAAAAAACGCCACTATAGGTCGAGC
Found at i:11911757 original size:92 final size:92
Alignment explanation
Indices: 11911582--11911767 Score: 228
Period size: 92 Copynumber: 2.0 Consensus size: 92
11911572 CGCTAAAAGG
* * * * * *
11911582 TTAAGCAAAACGGCGCCGTTTTATATGAGCTTCATTGGCAATAGCGGCGTTTTCCCAAAAACGCC
1 TTAAGCAAAACGACGCCATTTTATATGAGCTTCAATGACAATAGCGGCGCTGTCCCAAAAACGCC
*
11911647 GCAATAGATCAAAATTTAGCGGCGTTT
66 GCAATAGATCAAAATTTAGCGGCATTT
* * * * *
11911674 TTAAGCAAAACGACGTCATTTTTTATGAGCTTCAATGACATTAGCGGCGCTGTCCTAAAAATGCC
1 TTAAGCAAAACGACGCCATTTTATATGAGCTTCAATGACAATAGCGGCGCTGTCCCAAAAACGCC
* ** *
11911739 GCAATAGCTCGCACTTTAGCGGCATTT
66 GCAATAGATCAAAATTTAGCGGCATTT
11911766 TT
1 TT
11911768 GTAAAAAACG
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (92 bp):
TTAAGCAAAACGACGCCATTTTATATGAGCTTCAATGACAATAGCGGCGCTGTCCCAAAAACGCC
GCAATAGATCAAAATTTAGCGGCATTT
Found at i:11911773 original size:40 final size:40
Alignment explanation
Indices: 11911729--11911842 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 40
11911719 GGCGCTGTCC
* *
11911729 TAAAAATGCCGCAATAG-CTCGCACTTTAGCGGCATTTTTG
1 TAAAAATGCCGCTATAGTCTC-CACATTAGCGGCATTTTTG
* * *
11911769 TAAAAAACGCCGCTATAGTTCTCCCCATTAGTGGCATTTTTG
1 T-AAAAATGCCGCTATAG-TCTCCACATTAGCGGCATTTTTG
* *
11911811 -GAAAATGCCGCTATAGGTCTCCCCATTAGCGG
1 TAAAAATGCCGCTATA-GTCTCCACATTAGCGG
11911843 TGTTTTTGGA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
40 28 0.45
41 15 0.24
42 16 0.26
43 3 0.05
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
TAAAAATGCCGCTATAGTCTCCACATTAGCGGCATTTTTG
Found at i:11911849 original size:40 final size:40
Alignment explanation
Indices: 11911754--11911869 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 40
11911744 AGCTCGCACT
* *
11911754 TTAGCGGCATTTTTGTAAAAAACGCCGCTATAGTTCTCCCCA
1 TTAGCGGCATTTTTG--GAAAACGCCGCTATAGGTCTCCCCA
* *
11911796 TTAGTGGCATTTTTGGAAAATGCCGCTATAGGTCTCCCCA
1 TTAGCGGCATTTTTGGAAAACGCCGCTATAGGTCTCCCCA
** *
11911836 TTAGCGGTGTTTTTGGAAAACGTCGCTAATAGGT
1 TTAGCGGCATTTTTGGAAAACGCCGCT-ATAGGT
11911870 TAATCAAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 44 0.69
41 6 0.09
42 14 0.22
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (40 bp):
TTAGCGGCATTTTTGGAAAACGCCGCTATAGGTCTCCCCA
Found at i:11912673 original size:7 final size:7
Alignment explanation
Indices: 11912652--11912696 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
11912642 AAGATTTTAT
11912652 TTTAGGG
1 TTTAGGG
11912659 TGTTAGGG
1 T-TTAGGG
11912667 TTTAGGG
1 TTTAGGG
*
11912674 TTTAAGG
1 TTTAGGG
*
11912681 TTTAGAG
1 TTTAGGG
11912688 TTTAGGG
1 TTTAGGG
11912695 TT
1 TT
11912697 ATTTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:11912845 original size:21 final size:21
Alignment explanation
Indices: 11912820--11912901 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
11912810 TGTGGTTTAT
* *
11912820 GGTTTGGGGCTTAGGGTTTGG
1 GGTTTGGAGTTTAGGGTTTGG
*
11912841 TGTTT-GAGATTT-GAGGTTTGG
1 GGTTTGGAG-TTTAG-GGTTTGG
* *
11912862 GGTTTAGAGTTTAGAGTTTGG
1 GGTTTGGAGTTTAGGGTTTGG
*
11912883 GGTTTGGGGTTTAGGGTTT
1 GGTTTGGAGTTTAGGGTTT
11912902 AATTTTGGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 3 0.06
21 42 0.86
22 4 0.08
ACGTcount: A:0.11, C:0.01, G:0.44, T:0.44
Consensus pattern (21 bp):
GGTTTGGAGTTTAGGGTTTGG
Found at i:11912853 original size:28 final size:28
Alignment explanation
Indices: 11912821--11912902 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
11912811 GTGGTTTATG
* * * *
11912821 GTTTGGGGCTTAGGGTTTGGTGTTT-GA
1 GTTTGGGGTTTGGGGTTTAGAGTTTAGA
*
11912848 GATTTGAGGTTTGGGGTTTAGAGTTTAGA
1 G-TTTGGGGTTTGGGGTTTAGAGTTTAGA
*
11912877 GTTTGGGGTTTGGGGTTTAGGGTTTA
1 GTTTGGGGTTTGGGGTTTAGAGTTTA
11912903 ATTTTGGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.02
28 42 0.91
29 3 0.07
ACGTcount: A:0.12, C:0.01, G:0.43, T:0.44
Consensus pattern (28 bp):
GTTTGGGGTTTGGGGTTTAGAGTTTAGA
Found at i:11912902 original size:7 final size:7
Alignment explanation
Indices: 11912774--11912902 Score: 68
Period size: 7 Copynumber: 18.3 Consensus size: 7
11912764 TAGGGAGATA
11912774 TAGGGTTT
1 TAGGG-TT
11912782 TAGGGTT
1 TAGGGTT
*
11912789 TAGAGTT
1 TAGGGTT
* *
11912796 TATGGAT
1 TAGGGTT
11912803 T-GGGTT
1 TAGGGTT
*
11912809 TTGTGGTT
1 TAG-GGTT
*
11912817 TATGGTT
1 TAGGGTT
* *
11912824 TGGGGCT
1 TAGGGTT
11912831 TAGGGTT
1 TAGGGTT
11912838 T-GGTGTT
1 TAGG-GTT
*
11912845 T-GAGATT
1 TAG-GGTT
11912852 T-GAGGTT
1 TAG-GGTT
*
11912859 TGGGGTT
1 TAGGGTT
*
11912866 TAGAGTT
1 TAGGGTT
*
11912873 TAGAGTT
1 TAGGGTT
*
11912880 TGGGGTT
1 TAGGGTT
*
11912887 TGGGGTT
1 TAGGGTT
11912894 TAGGGTT
1 TAGGGTT
11912901 TA
1 TA
11912903 ATTTTGGAAT
Statistics
Matches: 96, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
6 6 0.06
7 78 0.81
8 12 0.12
ACGTcount: A:0.13, C:0.01, G:0.40, T:0.46
Consensus pattern (7 bp):
TAGGGTT
Found at i:11918170 original size:240 final size:241
Alignment explanation
Indices: 11917522--11918489 Score: 1758
Period size: 241 Copynumber: 4.0 Consensus size: 241
11917512 ATGAATTAAT
11917522 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* **
11917587 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGATGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
*
11917652 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
11917717 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* *
11917763 TTTATTACGATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTTACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
11917828 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATTGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
11917893 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
11917958 AAAAAGACTTGAAAAAAGTTTTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
11918004 TTTATTACCATGTAGCTTGCTTGTTCATTAAAATTACAACAATAG-TGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
11918068 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATTGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
11918133 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
11918198 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* *
11918244 TTTATTACGATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTTACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
**
11918309 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
* *
11918374 CTGTAAGAAATAATGGATCCTCCCTATGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
* **
11918439 AAAAAGACTTGGAAAAAGTTCTATCGATTTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
11918485 TTTAT
1 TTTAT
11918490 ATAACCTTAA
Statistics
Matches: 703, Mismatches: 23, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
240 236 0.34
241 467 0.66
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:11918474 original size:481 final size:482
Alignment explanation
Indices: 11917522--11918489 Score: 1794
Period size: 481 Copynumber: 2.0 Consensus size: 482
11917512 ATGAATTAAT
11917522 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
**
11917587 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGATGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCCTTATATCGAG
11917652 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTC
11917717 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACGATGTAGCTTG
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACGATGTAGCTTG
11917782 CTTGTCCATTAAAATTACAACAATAGCTTACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTTACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
* *
11917847 TTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATTGAGCTGTAAGATATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAGCTGTAAGAAATAATGGATC
11917912 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGT
391 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGT
*
11917977 TTTATCGAGCTCATTTACTATTGAATA
456 TCTATCGAGCTCATTTACTATTGAATA
*
11918004 TTTATTACCATGTAGCTTGCTTGTTCATTAAAATTACAACAATAG-TGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
11918068 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATTGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCCTTATATCGAG
*
11918133 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTC
11918198 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACGATGTAGCTTG
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACGATGTAGCTTG
11918263 CTTGTCCATTAAAATTACAACAATAGCTTACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTTACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
**
11918328 TTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAGCTGTAAGAAATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAGCTGTAAGAAATAATGGATC
* *
11918393 CTCCCTATGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGGAAAAAGT
391 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGT
**
11918458 TCTATCGATTTCATTTACTATTGAATA
456 TCTATCGAGCTCATTTACTATTGAATA
11918485 TTTAT
1 TTTAT
11918490 ATAACCTTAA
Statistics
Matches: 471, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
481 427 0.91
482 44 0.09
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (482 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACGATGTAGCTTG
CTTGTCCATTAAAATTACAACAATAGCTTACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
TTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAGCTGTAAGAAATAATGGATC
CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGT
TCTATCGAGCTCATTTACTATTGAATA
Found at i:11918693 original size:9 final size:9
Alignment explanation
Indices: 11918670--11918773 Score: 100
Period size: 9 Copynumber: 11.2 Consensus size: 9
11918660 ATTGATCATT
*
11918670 ACTTAAATA
1 ACTTACATA
*
11918679 AATTACATA
1 ACTTACATA
11918688 ACTTACATA
1 ACTTACATA
* *
11918697 ACTCATATA
1 ACTTACATA
11918706 ACTTACATA
1 ACTTACATA
* *
11918715 ATTTACGTAACA
1 ACTTAC---ATA
11918727 ACTTACATA
1 ACTTACATA
*
11918736 ACTCACATA
1 ACTTACATA
11918745 ACTTACATA
1 ACTTACATA
*
11918754 ATTTACATA
1 ACTTACATA
*
11918763 ACTCACATA
1 ACTTACATA
11918772 AC
1 AC
11918774 GCTCATAACA
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
9 69 0.91
12 7 0.09
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:11918730 original size:39 final size:39
Alignment explanation
Indices: 11918687--11918764 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
11918677 TAAATTACAT
* *
11918687 AACTTACATAACTCATATAACTTACATAATTTACGTAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
11918726 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
11918765 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:11918764 original size:57 final size:57
Alignment explanation
Indices: 11918683--11918795 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
11918673 TAAATAAATT
* * ** *
11918683 ACATAACTTACATAACTCATATAACTTACATAA-TTTACGTAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGCT-CATAACAACTTACATAACTC
* *
11918740 ACATAACTTACATAATTTACATAACTCACATAACGCTCATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGCTCATAACAACTTACATAACT
11918796 TAACTAATAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
57 47 0.98
58 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGCTCATAACAACTTACATAACTC
Found at i:11924371 original size:21 final size:21
Alignment explanation
Indices: 11924345--11924384 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11924335 CTTAGAGCAA
*
11924345 AGGCAGCAGCGCGGGAGGCGG
1 AGGCAGCAGCGAGGGAGGCGG
11924366 AGGCAGCAGCGAGGGAGGC
1 AGGCAGCAGCGAGGGAGGC
11924385 AGAGCAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.55, T:0.00
Consensus pattern (21 bp):
AGGCAGCAGCGAGGGAGGCGG
Found at i:11924615 original size:97 final size:97
Alignment explanation
Indices: 11924449--11924642 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
11924439 TATGTTCCAG
11924449 CAATTTCAAAATCCGCCATCTTAGACATTTGTTTTCTTGTAACTTTTAATATTATTGTAAGAATA
1 CAATTTCAAAATCCGCCATCTTAGACATTTGTTTTCTTGTAACTTTTAATATTATTGTAAGAATA
11924514 TTTTGAATATTCATTTACAATTTATATAATAT
66 TTTTGAATATTCATTTACAATTTATATAATAT
11924546 CAATTTCAAAATCCGCCATCTTAGACATTTGTTTTCTTGTAACTTTTAATATTATTGTAAGAATA
1 CAATTTCAAAATCCGCCATCTTAGACATTTGTTTTCTTGTAACTTTTAATATTATTGTAAGAATA
11924611 TTTTGAATATTCATTTACAATTTATATAATAT
66 TTTTGAATATTCATTTACAATTTATATAATAT
11924643 ATTTTTTTGT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (97 bp):
CAATTTCAAAATCCGCCATCTTAGACATTTGTTTTCTTGTAACTTTTAATATTATTGTAAGAATA
TTTTGAATATTCATTTACAATTTATATAATAT
Found at i:11924882 original size:44 final size:43
Alignment explanation
Indices: 11924765--11924970 Score: 265
Period size: 43 Copynumber: 4.8 Consensus size: 43
11924755 AACTGGGCAA
* * *
11924765 ATTAGCGGCGTTTTTTATAAAAGCGCTGCTAAAGGTCCCTGTC
1 ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTC
* *
11924808 TTTAGCGGCGTTTTTTAAAAAAGCGTCGCTAAAAGT-CCTGGTC
1 ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCCT-GTC
* *
11924851 ATTCGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGT-CCTGGTC
1 ATTAGCGGCGTTTTTT-AAAAAAGCGCCGCTAAAAGTCCCT-GTC
*
11924895 ATTAGCGGCGTGTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTC
1 ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTC
* *
11924938 TTTAGCGGCGTTTTTTTAAAAAA-TGCCGCTAAA
1 ATTAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAA
11924971 GACAAGGACC
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.02
43 88 0.61
44 53 0.37
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTC
Found at i:11924914 original size:87 final size:86
Alignment explanation
Indices: 11924765--11924971 Score: 285
Period size: 87 Copynumber: 2.4 Consensus size: 86
11924755 AACTGGGCAA
* * * *
11924765 ATTAGCGGCGTTTTTTATAAAAGCGCTGCTAAAGGTCCCTGTCTTTAGCGGCGTTTTTTAAAAAA
1 ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCCTGTCATTAGCGGCGTGTTTTAAAAAA
*
11924830 GCGTCGCTAAAAGT-CCTGGTC
66 GCGCCGCTAAAAGTCCCT-GTC
*
11924851 ATTCGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGT-CCTGGTCATTAGCGGCGTGTTTTAAAA
1 ATTAGCGGCGTTTTTT-AAAAAAGCGCCGCTAAAGGTCCCT-GTCATTAGCGGCGTGTTTTAAAA
11924915 AAGCGCCGCTAAAAGTCCCTGTC
64 AAGCGCCGCTAAAAGTCCCTGTC
* *
11924938 TTTAGCGGCGTTTTTTTAAAAAA-TGCCGCTAAAG
1 ATTAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAG
11924972 ACAAGGACCT
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
86 28 0.26
87 71 0.66
88 9 0.08
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (86 bp):
ATTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCCTGTCATTAGCGGCGTGTTTTAAAAAA
GCGCCGCTAAAAGTCCCTGTC
Found at i:11925002 original size:87 final size:86
Alignment explanation
Indices: 11924765--11925013 Score: 245
Period size: 87 Copynumber: 2.9 Consensus size: 86
11924755 AACTGGGCAA
* * * *** *
11924765 ATTAGCGGCGTTTTTT-ATAAAAGCGCTGCTAAAGGTCCCTGTCTTTAGCGGCGTTTTTTAAAAA
1 ATTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGACAAGGCCTTTAGCGGCG-TTTTTAAAAA
*
11924829 AGCGTCGCTAAAAGTCCTGGTC
65 AGCGCCGCTAAAAGTCCTGGTC
* * ** * *
11924851 ATTCGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGTCCTGGTCATTAGCGGCGTGTTTTAAAAA
1 ATTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGACAAGGCCTTTAGCGGCGT-TTTTAAAAA
11924916 AGCGCCGCTAAAAGTCCCT-GTC
65 AGCGCCGCTAAAAGT-CCTGGTC
* * *
11924938 TTTAGCGGCGTTTTTTTAAAAAA-TGCCGCTAAA-GACAAGGACCTTTAGCGGCGCTTTTTCAAA
1 ATTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGACAAGG-CCTTTAGCGGCG-TTTTT-AAA
**
11925001 AAAATGCCGCTAA
63 AAAGCGCCGCTAA
11925014 TTTTAGCGAC
Statistics
Matches: 139, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
85 4 0.03
86 39 0.28
87 93 0.67
88 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (86 bp):
ATTAGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGACAAGGCCTTTAGCGGCGTTTTTAAAAAA
GCGCCGCTAAAAGTCCTGGTC
Found at i:11925002 original size:130 final size:129
Alignment explanation
Indices: 11924765--11925013 Score: 322
Period size: 130 Copynumber: 1.9 Consensus size: 129
11924755 AACTGGGCAA
* * * *
11924765 ATTAGCGGCGTTTTTTATAAAAGCGCTGCTAAAGGTCCCTGTCTTTAGCGGCGTTTTTTAAAAAA
1 ATTAGCGGCGTGTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTCTTTAGCGGCGTTTTTTAAAAAA
* ** * * * *
11924830 GCGTCGCTAAAAGTCCTGGTCATTCGCGGCGTTTTTTAAAAAAAGCGCCGCTAAAGGTCCTGGTC
66 GCG-CGCTAAAAGACAAGGCCATTAGCGGCGCTTTTTAAAAAAAACGCCGCTAAAGGTCCTGGTC
11924895 ATTAGCGGCGTGTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTCTTTAGCGGCGTTTTTTTAAAAA
1 ATTAGCGGCGTGTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTCTTTAGCGGCG-TTTTTTAAAAA
* * *
11924960 ATGC-CGCT-AAAGACAAGGACCTTTAGCGGCGCTTTTTCAAAAAAATGCCGCTAA
65 A-GCGCGCTAAAAGACAAGG-CCATTAGCGGCGCTTTTTAAAAAAAACGCCGCTAA
11925014 TTTTAGCGAC
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
129 7 0.07
130 81 0.79
131 12 0.12
132 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (129 bp):
ATTAGCGGCGTGTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTCTTTAGCGGCGTTTTTTAAAAAA
GCGCGCTAAAAGACAAGGCCATTAGCGGCGCTTTTTAAAAAAAACGCCGCTAAAGGTCCTGGTC
Found at i:11927244 original size:40 final size:39
Alignment explanation
Indices: 11927146--11927328 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
11927136 TCCTCGTTCA
* * *
11927146 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
11927185 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
11927224 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
11927264 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
11927305 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
11927329 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:11927337 original size:41 final size:41
Alignment explanation
Indices: 11927260--11927337 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11927250 TTAGTATCTC
* * *
11927260 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11927301 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11927338 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11935150 original size:40 final size:39
Alignment explanation
Indices: 11935052--11935158 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
11935042 TCCTCGTTCA
* * *
11935052 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC
**
11935091 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGTAC
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC
*
11935130 GAATGCCTTCGGGACTTAACCCGGATTTA
1 -AATGCCTTCGGGACATAACCCGGATTTA
11935159 GTATCTCGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.56
40 27 0.44
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC
Found at i:11935178 original size:40 final size:40
Alignment explanation
Indices: 11935050--11935180 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
11935040 GCTCCTCGTT
* * *
11935050 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
11935090 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGTA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
11935129 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
11935169 CAAAGGCCTTCG
1 CAAATGCCTTCG
11935181 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 45 0.57
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:11952195 original size:24 final size:25
Alignment explanation
Indices: 11952153--11952199 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
11952143 TTAAAATATG
*
11952153 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
11952178 AAAATGACCA-TTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
11952200 GTTTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:11952250 original size:9 final size:9
Alignment explanation
Indices: 11952238--11952294 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11952228 TTTGATAAAC
11952238 ATGATATGT
1 ATGATATGT
*
11952247 ATGATATGCAC
1 ATGATATG--T
*
11952258 ATGAAATGT
1 ATGATATGT
*
11952267 ATGATATGCAC
1 ATGATATG--T
11952278 ATGATATGT
1 ATGATATGT
11952287 ATGATATG
1 ATGATATG
11952295 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:11952261 original size:20 final size:20
Alignment explanation
Indices: 11952236--11952298 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
11952226 ATTTTGATAA
11952236 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11952256 ACATGAAATGTATGATATGC
1 ACATGATATGTATGATATGC
11952276 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
11952296 ACA
1 ACA
11952299 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:11952408 original size:24 final size:24
Alignment explanation
Indices: 11952352--11952494 Score: 195
Period size: 23 Copynumber: 6.0 Consensus size: 24
11952342 GAGGAAGTGC
11952352 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
11952376 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
11952399 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
11952423 -AAAGGGCTTATGCTCCAGTTAGTAA
1 AAAAGGGCTTATGCCCCAGTTA-T-T
11952448 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
11952471 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
11952495 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
23 49 0.46
24 31 0.29
25 18 0.17
26 9 0.08
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:11952421 original size:47 final size:49
Alignment explanation
Indices: 11952352--11952473 Score: 205
Period size: 47 Copynumber: 2.6 Consensus size: 49
11952342 GAGGAAGTGC
*
11952352 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA-T-T
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAGTAA
*
11952399 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCTCCAGTTAGTAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAGTAA
11952448 AAAAGGGCTT-TGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
11952474 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
47 44 0.62
48 17 0.24
49 10 0.14
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAGTAA
Found at i:11952722 original size:31 final size:31
Alignment explanation
Indices: 11952687--11952750 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11952677 CGTTTACAGT
11952687 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
11952718 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
11952749 AA
1 AA
11952751 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:11953040 original size:72 final size:72
Alignment explanation
Indices: 11952923--11953062 Score: 271
Period size: 72 Copynumber: 1.9 Consensus size: 72
11952913 GGCCGGAGGG
11952923 GATTCAGAGTAGCCACGGTGATTATCTTTGGACTTTTAAATAAGCGTTGGTTTTCATTAGTTTCC
1 GATTCAGAGTAGCCACGGTGATTATCTTTGGACTTTTAAATAAGCGTTGGTTTTCATTAGTTTCC
11952988 CTTTAAA
66 CTTTAAA
*
11952995 GATTCAGAGTAGCCACGGTGATTGTCTTTGGACTTTTAAATAAGCGTTGGTTTTCATTAGTTTCC
1 GATTCAGAGTAGCCACGGTGATTATCTTTGGACTTTTAAATAAGCGTTGGTTTTCATTAGTTTCC
11953060 CTT
66 CTT
11953063 CAATTATTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.41
Consensus pattern (72 bp):
GATTCAGAGTAGCCACGGTGATTATCTTTGGACTTTTAAATAAGCGTTGGTTTTCATTAGTTTCC
CTTTAAA
Found at i:11960443 original size:9 final size:9
Alignment explanation
Indices: 11960431--11960487 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11960421 TTTGATAAAC
11960431 ATGATATGT
1 ATGATATGT
*
11960440 ATGATATGCAC
1 ATGATATG--T
*
11960451 ATGACATGT
1 ATGATATGT
*
11960460 ATGATATGCAC
1 ATGATATG--T
11960471 ATGATATGT
1 ATGATATGT
11960480 ATGATATG
1 ATGATATG
11960488 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:11960454 original size:20 final size:20
Alignment explanation
Indices: 11960429--11960491 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
11960419 ATTTTGATAA
11960429 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
11960449 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
11960469 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
11960489 ACA
1 ACA
11960492 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:11962064 original size:40 final size:40
Alignment explanation
Indices: 11961994--11962292 Score: 408
Period size: 40 Copynumber: 7.5 Consensus size: 40
11961984 AAGCCAAGTA
* * *
11961994 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
11962033 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
11962073 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
11962113 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
11962153 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
11962193 CCTTCGGGACTTAGCCCGGATGTAATAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
11962233 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
11962274 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
11962293 TTATCATCCA
Statistics
Matches: 235, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
39 12 0.05
40 196 0.83
41 24 0.10
42 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:11964204 original size:31 final size:31
Alignment explanation
Indices: 11964169--11964232 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11964159 CATTTACAGT
11964169 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
11964200 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
11964231 AA
1 AA
11964233 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:11972572 original size:32 final size:32
Alignment explanation
Indices: 11972498--11972574 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
11972488 AGGGGACTAT
* *
11972498 TTTCCTATAACGAAACCGTGTAAGCAAAAGAA
1 TTTCCTATAATGAAACCGTGTAAACAAAAGAA
11972530 TTTCCTATAATGAAACCGTGTAAACAAAAGAA
1 TTTCCTATAATGAAACCGTGTAAACAAAAGAA
11972562 TTTCCTATAATGA
1 TTTCCTATAATGA
11972575 GATATTTGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (32 bp):
TTTCCTATAATGAAACCGTGTAAACAAAAGAA
Found at i:11972730 original size:20 final size:20
Alignment explanation
Indices: 11972705--11972745 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11972695 CTTAATGAGT
11972705 CTATTTACAAAAGAAATAGA
1 CTATTTACAAAAGAAATAGA
*
11972725 CTATTTTCAAAAGAAATAGA
1 CTATTTACAAAAGAAATAGA
11972745 C
1 C
11972746 GGAAACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (20 bp):
CTATTTACAAAAGAAATAGA
Found at i:11976659 original size:39 final size:40
Alignment explanation
Indices: 11976616--11976783 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
11976606 CTCGTTCAAG
* * * *
11976616 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
11976655 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
11976695 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
11976735 GGCCTTCGGGACTTGACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
11976775 TGCCTTCGG
1 TGCCTTCGG
11976784 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 80 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:11976796 original size:40 final size:40
Alignment explanation
Indices: 11976653--11976783 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
11976643 TAACTCATAC
* *
11976653 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
11976693 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
11976733 AAGGCCTTCGGGACTTGACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
11976773 AATGCCTTCGG
1 AATGCCTTCGG
11976784 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.04
40 78 0.96
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:11976820 original size:80 final size:78
Alignment explanation
Indices: 11976651--11976836 Score: 200
Period size: 80 Copynumber: 2.3 Consensus size: 78
11976641 AGTAACTCAT
* * *
11976651 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 ACAAAGCCTTCGGGACTT-ACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
11976716 AATTAGTATCTCGC
65 AATTAGTATCTAGC
**
11976730 ACAAAGGCCTTCGGGACTTGACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 ACAAA-GCCTTCGGGACTT-ACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACC
11976793 CGG-ATATAGTCA-CTTAGC
62 CGGAAT-TAGT-ATC-TAGC
*
11976811 ACAAAGCCTTTGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTA-CCCGGA
11976837 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
79 14 0.15
80 69 0.75
81 9 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (78 bp):
ACAAAGCCTTCGGGACTTACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTATCTAGC
Found at i:11989217 original size:55 final size:54
Alignment explanation
Indices: 11989122--11989271 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
11989112 CTACTTTGTT
* ** * *
11989122 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
11989176 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
11989231 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
11989272 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:11989234 original size:27 final size:27
Alignment explanation
Indices: 11989094--11989271 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
11989084 TAAATTGTAC
11989094 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
11989121 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
11989147 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
11989175 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
11989203 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
11989230 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
11989257 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11989272 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:11989235 original size:82 final size:81
Alignment explanation
Indices: 11989095--11989250 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
11989085 AAATTGTACA
* * * *
11989095 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
11989160 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
11989176 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
11989239 TGTGCGAGTTGA
63 TGTGCGAATTGA
11989251 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:11995628 original size:76 final size:76
Alignment explanation
Indices: 11995500--11995643 Score: 243
Period size: 76 Copynumber: 1.9 Consensus size: 76
11995490 TCACTAAAAT
*
11995500 GTTTGAATGTGATACTTATTGTCTAGAATATGTAATAATGAATGTGTGAAAATTTCAAGCTTCAA
1 GTTTGAATGTGATACTTATTGTCTAGAATATGTAATAATGAATGTGTAAAAATTTCAAGCTTCAA
11995565 TTTGGCGAAAG
66 TTTGGCGAAAG
** * *
11995576 GTTTGAATGTGATGTTTATTGTCTAGAATATGTAATCATGAATGTGTAAAAATTTCAAGCTTCGA
1 GTTTGAATGTGATACTTATTGTCTAGAATATGTAATAATGAATGTGTAAAAATTTCAAGCTTCAA
11995641 TTT
66 TTT
11995644 AGTCGATTGC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (76 bp):
GTTTGAATGTGATACTTATTGTCTAGAATATGTAATAATGAATGTGTAAAAATTTCAAGCTTCAA
TTTGGCGAAAG
Found at i:11995948 original size:44 final size:46
Alignment explanation
Indices: 11995881--11995969 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 46
11995871 ATTAAATAAG
11995881 GAAAGGAAGGGTGATGG-AAAAAAAAAAAAAGTACATGGTCTCCCT
1 GAAAGGAAGGGTGATGGAAAAAAAAAAAAAAGTACATGGTCTCCCT
11995926 GAAA-GAAGGGTGATGGAGAAAAAAAAAAAAAAGTACATGGTCTC
1 GAAAGGAAGGGTGAT-G-GAAAAAAAAAAAAAAGTACATGGTCTC
11995970 ACCCCCCCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
44 10 0.24
45 5 0.12
46 1 0.02
47 25 0.61
ACGTcount: A:0.49, C:0.09, G:0.27, T:0.15
Consensus pattern (46 bp):
GAAAGGAAGGGTGATGGAAAAAAAAAAAAAAGTACATGGTCTCCCT
Found at i:11997347 original size:55 final size:54
Alignment explanation
Indices: 11997252--11997401 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
11997242 CTACTTTGTT
* ** * *
11997252 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
11997306 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
11997361 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
11997402 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:11997364 original size:27 final size:27
Alignment explanation
Indices: 11997224--11997401 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
11997214 TAAATTGTAC
11997224 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
11997251 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
11997277 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
11997305 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
11997333 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
11997360 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
11997387 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11997402 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Done.