Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold308
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: 505154
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 3 of 4
Found at i:294424 original size:18 final size:19
Alignment explanation
Indices: 294389--294423 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
294379 AATTTTCTCT
294389 AAAAAAGAAATAGAAAAAC
1 AAAAAAGAAATAGAAAAAC
294408 AAAAAA-AAAT-GAAAAA
1 AAAAAAGAAATAGAAAAA
294424 ATGAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.06
Consensus pattern (19 bp):
AAAAAAGAAATAGAAAAAC
Found at i:294424 original size:31 final size:30
Alignment explanation
Indices: 294389--294446 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
294379 AATTTTCTCT
*
294389 AAAAAAGAAATAGAAAAACAAAAAAAAATGA
1 AAAAAAGAAAAAGAAAAA-AAAAAAAAATGA
* *
294420 AAAAATGAAAAAGAAAAAAGAAAAAAA
1 AAAAAAGAAAAAGAAAAAAAAAAAAAA
294447 GCATGAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (30 bp):
AAAAAAGAAAAAGAAAAAAAAAAAAAATGA
Found at i:295485 original size:14 final size:14
Alignment explanation
Indices: 295449--295487 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
295439 TAGTAATACA
*
295449 TGAACAATGATATG
1 TGAACAGTGATATG
295463 TGAACAGTGATATG
1 TGAACAGTGATATG
*
295477 TGAATAGTGAT
1 TGAACAGTGAT
295488 GAACAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (14 bp):
TGAACAGTGATATG
Found at i:295592 original size:13 final size:13
Alignment explanation
Indices: 295576--295600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
295566 TATCAAGAAC
295576 ATGTATCGATACA
1 ATGTATCGATACA
295589 ATGTATCGATAC
1 ATGTATCGATAC
295601 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:296522 original size:29 final size:30
Alignment explanation
Indices: 296483--296567 Score: 111
Period size: 29 Copynumber: 2.9 Consensus size: 30
296473 ATACCAAAAG
*
296483 TTTATGCAAGCTCTCCCCTTTAGTACAAAT
1 TTTATGCAAGCTCTCCCCTTTAATACAAAT
* *
296513 TTTAT-CAAGCTCTCCCCCTTAATAGAAAT
1 TTTATGCAAGCTCTCCCCTTTAATACAAAT
*
296542 TTTATGCAAACTCTCCACC-TTAATAC
1 TTTATGCAAGCTCTCC-CCTTTAATAC
296568 GTTCTCACCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 26 0.54
30 20 0.42
31 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.35
Consensus pattern (30 bp):
TTTATGCAAGCTCTCCCCTTTAATACAAAT
Found at i:298792 original size:21 final size:21
Alignment explanation
Indices: 298766--298825 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
298756 TTTTTATTAG
298766 CTAACTCA-TCATTTTCATTTT
1 CTAACTCATTCATTTTC-TTTT
298787 GC-AACTCATTTC-TTTTCTTTT
1 -CTAACTCA-TTCATTTTCTTTT
298808 CTAACTCATTCATTTTCT
1 CTAACTCATTCATTTTCT
298826 CCTCTAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.12
21 22 0.65
22 6 0.18
23 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.02, T:0.53
Consensus pattern (21 bp):
CTAACTCATTCATTTTCTTTT
Found at i:298831 original size:21 final size:21
Alignment explanation
Indices: 298789--298832 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
298779 TTCATTTTGC
**
298789 AACTCATTTCTTTTCTTTTCT
1 AACTCATTTCTTTTCTCCTCT
298810 AACTCA-TTCATTTTCTCCTCT
1 AACTCATTTC-TTTTCTCCTCT
298831 AA
1 AA
298833 TTCACTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.52
Consensus pattern (21 bp):
AACTCATTTCTTTTCTCCTCT
Found at i:302065 original size:88 final size:88
Alignment explanation
Indices: 301856--302066 Score: 244
Period size: 88 Copynumber: 2.4 Consensus size: 88
301846 CCACATTCGT
** * *
301856 ATTTGCATCATTTCATATGCATTTGTTTCTTTATTGATATTTGCATTTGCATCACTTCATTAACA
1 ATTTGCATCATTTCATATGCATTTGCCTCTTTATTGATACTTGCATTTGCATCACTTCATGAACA
* *
301921 TCTGCATTTTAGATAACATTAGT
66 TCAGCATTTTAGATAACATTAGC
* * * * * * * *
301944 ATTTGCATCATTCTC-TATACATTTTCCTTTTTATTGATGCTTGTATTTGCATCATTTCATGCAT
1 ATTTGCATCATT-TCATATGCATTTGCCTCTTTATTGATACTTGCATTTGCATCACTTCATGAAC
* * *
302008 ATCAGCATTTTAGATGACGTTGGC
65 ATCAGCATTTTAGATAACATTAGC
*
302032 ATTTGCATCATTTCATATGCATTTGCCACTTTATT
1 ATTTGCATCATTTCATATGCATTTGCCTCTTTATT
302067 AGTGGATGCA
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
87 2 0.02
88 96 0.96
89 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (88 bp):
ATTTGCATCATTTCATATGCATTTGCCTCTTTATTGATACTTGCATTTGCATCACTTCATGAACA
TCAGCATTTTAGATAACATTAGC
Found at i:302910 original size:78 final size:78
Alignment explanation
Indices: 302781--302989 Score: 314
Period size: 78 Copynumber: 2.7 Consensus size: 78
302771 CTGCCCATAT
* * *
302781 ATTCTCGATCATA-CCTCATTCATTTAACCACTAGATGGTTTTGATGCATCACATGACCATAAAG
1 ATTCTCAATCATATCCTC-TTCATTCAACCACTAGATGGTATTGATGCATCACATGACCATAAAG
*
302845 GGTATAGACCACAC
65 GGTACAGACCACAC
* *
302859 ATTCTCAATCATATCCTCTTTATTCAACCACTAGATGGTATTAATGCATCACATGACCATAAAGG
1 ATTCTCAATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACATGACCATAAAGG
302924 GTACAGACCACAC
66 GTACAGACCACAC
* *
302937 ATTC-CTAATCATATCCTCATCAATCAACCACTAGATGGTATTGATGCATCACA
1 ATTCTC-AATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACA
302990 AAACCTAATT
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 1 0.01
78 114 0.96
79 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (78 bp):
ATTCTCAATCATATCCTCTTCATTCAACCACTAGATGGTATTGATGCATCACATGACCATAAAGG
GTACAGACCACAC
Found at i:303087 original size:92 final size:91
Alignment explanation
Indices: 302930--303262 Score: 416
Period size: 92 Copynumber: 3.6 Consensus size: 91
302920 AAGGGTACAG
* *
302930 ACCACACATTCCTAATCATATCCTCATCAAT-CAACCACTAGATGGTATTGATGCATCACAAAAC
1 ACCACACATTCCTAATCATATCCCCTTC-ATCCAACCACTAGATGGTATTGATGCATCACAAAAC
* *
302994 CTAATTTCCTTGGGGCAAGGATATCTCA
65 CTGATTTCCTTGGGGCAAAGATATC-CA
* *
303022 ACCACATATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTAATGCATCACAAAACC
1 ACCACACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAACC
* *
303087 TGATTTCCTTAGGGCAAAGATATCCTT
66 TGATTTCCTTGGGGCAAAGATATCC-A
* * *
303114 ACCACACATTCCCAATCATATCCCTTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCC
1 ACCACACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAACC
* *
303179 TGATTTTCTTGGGGCAATGATATCCCA
66 TGATTTCCTTGGGGCAAAGATAT-CCA
** * * * * ** * *
303206 ACCATTCATTCCTAATGATATCTCTTTCTTTTAGCCATTAGATGGTATTGATGCATC
1 ACCACACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATC
303263 TCATGATCAC
Statistics
Matches: 211, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
91 3 0.01
92 206 0.98
93 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (91 bp):
ACCACACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAACC
TGATTTCCTTGGGGCAAAGATATCCA
Found at i:303487 original size:44 final size:43
Alignment explanation
Indices: 303421--303521 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 43
303411 ATTTTACTTG
*
303421 GTCAAACTCCTTTCACTATCGTTTTACATGATGGTTCTACCCTA
1 GTCAAACT-CTTTCACTATCGTTTGACATGATGGTTCTACCCTA
* * * * *
303465 GTCAAACTCTATTCACTTTCGTTTGACATGATGGTTTTGCCTTG
1 GTCAAACTCT-TTCACTATCGTTTGACATGATGGTTCTACCCTA
303509 GTCAAACTCTTTC
1 GTCAAACTCTTTC
303522 TTTGTTCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 5 0.10
44 45 0.90
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (43 bp):
GTCAAACTCTTTCACTATCGTTTGACATGATGGTTCTACCCTA
Found at i:303625 original size:94 final size:93
Alignment explanation
Indices: 303449--303625 Score: 207
Period size: 94 Copynumber: 1.9 Consensus size: 93
303439 TCGTTTTACA
* * **
303449 TGATGGTTCTACCCTAGTCAAACTCTATTCACTTTCGTTTGACATGATGGTTTTGCCTTGGTCAA
1 TGATGGTTCTACCCTAGTCAAACACTATTCACTTTCGTTTGACATGATAGTTTAACCTTGGTCAA
* **
303514 ACTCTTTCTTTGTTCATTCCATTTGATG
66 ACTCTTTCTATCCTCATTCCATTTGATG
* * *
303542 TGATGGTTCTCACCCTAGTTAAACACTTTTCA-TTTCGGTTTGACGTGATAGTTTAAACC-TGGT
1 TGATGGTTCT-ACCCTAGTCAAACACTATTCACTTTC-GTTTGACATGATAGTTT-AACCTTGGT
303605 CAAACTCTTT-TCATCCTCATT
63 CAAACTCTTTCT-ATCCTCATT
303626 TAACATGGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
93 15 0.21
94 53 0.76
95 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.42
Consensus pattern (93 bp):
TGATGGTTCTACCCTAGTCAAACACTATTCACTTTCGTTTGACATGATAGTTTAACCTTGGTCAA
ACTCTTTCTATCCTCATTCCATTTGATG
Found at i:304952 original size:21 final size:21
Alignment explanation
Indices: 304928--304978 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
304918 TAAATTGGTT
304928 TTGAAAATTTT-ATTTATTTTC
1 TTGAAAATTTTCATTT-TTTTC
**
304949 TTG-AGTTTTTCATTTTTTTC
1 TTGAAAATTTTCATTTTTTTC
304969 TT-AAAATTTT
1 TTGAAAATTTT
304979 TCTATTCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (21 bp):
TTGAAAATTTTCATTTTTTTC
Found at i:305134 original size:167 final size:166
Alignment explanation
Indices: 304735--305272 Score: 598
Period size: 162 Copynumber: 3.3 Consensus size: 166
304725 AAATTCTTTA
* * * * * *
304735 AATATTATTATTTAATT-ACATTAAATCAGTTTTGAAAATTTTATTTATTTTCATGAGTTTTTCA
1 AATATTATCATTAAATTAATATTAAATTAGTTTTGAAAAATTTATTTATTTTCTTGAGTTTTTCA
* * *
304799 TTTTTTGCTTAAAA---TTC-ACTTCTCGAAAAATAGAGTTTTCTATTCCATAAATGTTTTCGAG
66 TTTTTTTCTTAAAATTTTTCTA-TTCTCGAAAAATCGAGTTTTCTATTCCATAAATATTTTCGAG
* *
304860 GGGATTTTT-TGAGTTTAAAATTTTTAAAATTCATCT
130 GAGATTTTTCTTAGTTTAAAATTTTTAAAATTCATCT
* * * * *
304896 AATATCGA-CATTACATTCATATTAAATTGGTTTTGAAAATTTTATTTATTTTCTTGAGTTTTTC
1 AATAT-TATCATTAAATTAATATTAAATTAGTTTTGAAAAATTTATTTATTTTCTTGAGTTTTTC
*
304960 ATTTTTTTCTTAAAATTTTTCTATTCTCAAAAAATCGAGTTTTCTATTCCATAAATATTTTCGAG
65 ATTTTTTTCTTAAAATTTTTCTATTCTCGAAAAATCGAGTTTTCTATTCCATAAATATTTTCGAG
305025 GAGATTTTTCTTAGTTTAAAATTTTTAAAATTCAGTCT
130 GAGATTTTTCTTAGTTTAAAATTTTTAAAATTCA-TCT
* * *
305063 AATATTATCATTAAATTAATACTAAATTAGATTTAAAAAATTTATTTATTTTCTTGAGTTTTTCC
1 AATATTATCATTAAATTAATATTAAATTAGTTTTGAAAAATTTATTTATTTTCTTGAGTTTTT-C
* * * *
305128 TTTTTTTTTCCTTGAAATTCTCTTACT-TT-T-GAAAAA-CAGAGTTTTCT-TCTCCAT-TATTT
65 -ATTTTTTT-CTTAAAATT-T-TT-CTATTCTCGAAAAATC-GAGTTTTCTAT-TCCATAAATAT
* * * *
305187 TTTCGAGAAGATTTTTCCTGGTTTAAAATTTTTAAAATTCCTCT
123 TTTCGAGGAGATTTTTCTTAGTTTAAAATTTTTAAAATTCATCT
* * * *
305231 AATATTGTTATTAAATTTACATTAAATTAGTTTTGAAAAATT
1 AATATTATCATTAAATTAATATTAAATTAGTTTTGAAAAATT
305273 CAAATTATTT
Statistics
Matches: 322, Mismatches: 38, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
161 11 0.03
162 57 0.18
165 50 0.16
166 25 0.08
167 56 0.17
168 39 0.12
169 49 0.15
170 27 0.08
171 2 0.01
172 4 0.01
173 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (166 bp):
AATATTATCATTAAATTAATATTAAATTAGTTTTGAAAAATTTATTTATTTTCTTGAGTTTTTCA
TTTTTTTCTTAAAATTTTTCTATTCTCGAAAAATCGAGTTTTCTATTCCATAAATATTTTCGAGG
AGATTTTTCTTAGTTTAAAATTTTTAAAATTCATCT
Found at i:307747 original size:22 final size:20
Alignment explanation
Indices: 307719--307774 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
307709 CATAAGAAAA
307719 TGTATCGATACATGCTTAC-AAT
1 TGTATCGATACAT--TT-CTAAT
*
307741 TGTATCGATACATTTCTTAT
1 TGTATCGATACATTTCTAAT
307761 TGTATCGATACATT
1 TGTATCGATACATT
307775 ATGGGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 18 0.56
22 13 0.41
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:309344 original size:146 final size:145
Alignment explanation
Indices: 309129--309549 Score: 469
Period size: 146 Copynumber: 2.9 Consensus size: 145
309119 TTAGGGTTGT
**** * * **
309129 CGAGATACTTCTACATCGAAGGTACTTTTTA-AGGGTATTTTTGTAATTTTAATAGGATCGAGTC
1 CGAGATACTTCTACATCGAAGGTACCCCCTAGA-GGCATTTTCGTAATTTTTCTAGGATCGAGTC
309193 CTAGGTTGTCACTCTTATGCCAAAGGTGTACACATAGGATAGATCCAATCTTTTCAATCCTTTTC
65 CTAGGTTGTCACTCTTATGCCAAAGGTGTACACATAGGATAGATCCAATCTTTTCAA-CCTTTTC
*
309258 AAGTCCTTTAAGGTTAC
129 AAGTCCTTTAAGGGTAC
*
309275 CGAGATACTTCTACATCGAAGGTACCCCCTAGAGGCATTTTCATAATTTTTCTAGGATCGAGTCC
1 CGAGATACTTCTACATCGAAGGTACCCCCTAGAGGCATTTTCGTAATTTTTCTAGGATCGAGTCC
* *
309340 TAGGTTGTCCCTCTTATGCCAAAGGTGTACACATAGGATAAATCCAATCTTTTCAACCCTTTTCA
66 TAGGTTGTCACTCTTATGCCAAAGGTGTACACATAGGATAGATCCAATCTTTTCAA-CCTTTTCA
*
309405 AGTCCTTTAGGGGTAC
130 AGTCCTTTAAGGGTAC
* * * * * * * * * *
309421 CAAG-TACTTTTACGTTGAAGGTATCCCCTTGGGGCATTTTCGT--TCTTTCTAGAATTGAGTCC
1 CGAGATACTTCTACATCGAAGGTACCCCCTAGAGGCATTTTCGTAATTTTTCTAGGATCGAGTCC
** ** * ** * *
309483 TAGGTTAACACTCTTACACCAAAGGT-T--ATATAGGATAGATTTATTCTTTACAACCTTTTTCA
66 TAGGTTGTCACTCTTATGCCAAAGGTGTACACATAGGATAGATCCAATCTTTTCAACC-TTTTCA
309545 AGTCC
130 AGTCC
309550 CTTAGGATCA
Statistics
Matches: 237, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
139 2 0.01
140 31 0.13
142 1 0.00
143 37 0.16
145 32 0.14
146 133 0.56
147 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (145 bp):
CGAGATACTTCTACATCGAAGGTACCCCCTAGAGGCATTTTCGTAATTTTTCTAGGATCGAGTCC
TAGGTTGTCACTCTTATGCCAAAGGTGTACACATAGGATAGATCCAATCTTTTCAACCTTTTCAA
GTCCTTTAAGGGTAC
Found at i:309982 original size:151 final size:150
Alignment explanation
Indices: 309537--310388 Score: 778
Period size: 149 Copynumber: 5.7 Consensus size: 150
309527 TCTTTACAAC
* * * * * * * *
309537 CTTTTTCAAGTCCCTTAGGATCA-TCAGGCACTTCTAAGTCGATAGTACACCATAGGGAGCTGTT
1 CTTTTCCAAGTCCTTTAGGATCACT-AGGCACTTCTAAGTCGATGGTAGACCTTAAGGAACTTTT
* * * * * *
309601 AGCA-TTTTCCCCAAAACCTAGTCTTATAAGACTACTGAGTTTGCTTCTACGCTGAAGGTATAAA
65 AGCATTTTTCCCCAAAACCTAGTCCTATAAAACTACCGAGTTCGCTTCTACACTGAAGGTATGAA
*
309665 TTAGGAATGGGTTTGTTTTTA
130 TTAGGAGTGGGTTTGTTTTTA
* * * * * * * *
309686 CTTTTTCAAATCCTTTAGGATC-CTCGAGTACTTCTAAGCCGATGGTAAACCTTAGGGATA-TGT
1 CTTTTCCAAGTCCTTTAGGATCACTAG-GCACTTCTAAGTCGATGGTAGACCTTAAGGA-ACTTT
* * * *
309749 TAGCA-TTTTCCTCCAAAA-CTAGTCTTATAAAACTACC-A-TCTCCGGTTCTACACCGAAGTTA
64 TAGCATTTTTCC-CCAAAACCTAGTCCTATAAAACTACCGAGT-T-CGCTTCTACACTGAAGGTA
* *
309810 TGAATTAGGAGTGGGTCTGTTTATA
126 TGAATTAGGAGTGGGTTTGTTTTTA
*
309835 TCTTTTCCAAGTCCTTTAGAATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAAGGAACTTTT
1 -CTTTTCCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAAGGAACTTTT
* * * * * * * *
309900 TGCATTTTTTCCCAAAATCTAGTCCTATAAAACTACCGGGTTTGTTTCTACACCGAAGTTATGAA
65 AGCATTTTTCCCCAAAACCTAGTCCTATAAAACTACCGAGTTCGCTTCTACACTGAAGGTATGAA
**
309965 TTAGGAGCAGGTTTG--TTTA
130 TTAGGAGTGGGTTTGTTTTTA
* * *
309984 -TTTTCCAAGTCCTCTAGGATCACTAGGCACTTCTAAATCGATGGTAGACCTT-AGGGACATTTT
1 CTTTTCCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAAGGAAC-TTTT
* ** * * *
310047 AGCATTTTTTTCCTGAAACCTAGTCCTAAAAAACTATCGGGTTCGCTTCTACACTGAAGGTATGA
65 AGCA-TTTTTCCCCAAAACCTAGTCCTATAAAACTACCGAGTTCGCTTCTACACTGAAGGTATGA
*
310112 ATCAGGAGTGGGTTTGTTTTTA
129 ATTAGGAGTGGGTTTGTTTTTA
* * * ** * *
310134 CTTTTTCAAGTCCTTTAGGATTACTAGGCACTTTTAAGTTAATAGTAGACCTT-AGAGACCTTTT
1 CTTTTCCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAAG-GAACTTTT
* * * * * * *
310198 AGCATTTTATCCCCTGAAACCCAGTCCTATAAAACTACTGAGTCCACTTCTACGCTGAAGGCATG
65 AGCATTTT-TCCCC-AAAACCTAGTCCTATAAAACTACCGAGTTCGCTTCTACACTGAAGGTATG
*
310263 AATTAGGAGTAGGTTTGTTTTTA
128 AATTAGGAGTGGGTTTGTTTTTA
* * * ** * *
310286 TCTTTTCCAAGTCCTTTAGGATCTC-CGAGCACTTCTAAGTCAATTATAGACCTTAGGGACCTTT
1 -CTTTTCCAAGTCCTTTAGGATCACTAG-GCACTTCTAAGTCGATGGTAGACCTTAAGGAACTTT
** * * *
310350 TAAGTGTTTTTCTCCAAAACCTAGCCCTATGAAACTACC
64 T-AGCATTTTTCCCCAAAACCTAGTCCTATAAAACTACC
310389 AAGTAACTTT
Statistics
Matches: 582, Mismatches: 96, Indels: 47
0.80 0.13 0.06
Matches are distributed among these distances:
146 5 0.01
147 57 0.10
148 67 0.12
149 117 0.20
150 72 0.12
151 116 0.20
152 85 0.15
153 56 0.10
154 7 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (150 bp):
CTTTTCCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAAGGAACTTTTA
GCATTTTTCCCCAAAACCTAGTCCTATAAAACTACCGAGTTCGCTTCTACACTGAAGGTATGAAT
TAGGAGTGGGTTTGTTTTTA
Found at i:310099 original size:299 final size:298
Alignment explanation
Indices: 309537--310389 Score: 892
Period size: 299 Copynumber: 2.8 Consensus size: 298
309527 TCTTTACAAC
* * * * * *
309537 CTTTTTCAAGTCCCTTAGGATCA-TCAGGCACTTCTAAGTCGATAGTACACCATAGGGAGCTGTT
1 CTTTTTCAAGTCCTTTAGGATCACT-AGGCACTTCTAAGTCGATAGTAGACCTTAAGGAACTTTT
* * *
309601 AGCA-TTTTCCCCAAAACCTAGTCTTATAAGACTACTGAGTTTGCTTCTACGCTGAAGGTATAAA
65 AGCATTTTTCCCCAAAACCTAGTCCTATAAAACTACTGAGTTTGCTTCTACGCTGAAGGTATGAA
* * * * * *
309665 TTAGGAATGGGTTTGTTTTTACTTTTTCAAATCCTTTAGGATCCTCGAGTACTTCTAAGCCGATG
130 TTAGGAGTAGGTTTG-TTTTACTTTTCCAAGTCCTTTAGGATCCTCGAGCACTTCTAAGTCGATG
* * * * * * *
309730 GTAAACCTTAGGGATATGTTAGCATTTTCCTCCAAAACTAGTCTTATAAAACTACCATCTCCGGT
194 GTAGACCTTAGGGACATTTTAGCATTTTCCTCCAAAACTAGTCCTAAAAAACTACCAGCTCCGCT
* *
309795 TCTACACCGAAGTTATGAATTAGGAGTGGGTCTGTTTATA
259 TCTACACCGAAGGTATGAATCAGGAGTGGGTCTGTTTATA
* * *
309835 TCTTTTCCAAGTCCTTTAGAATCACTAGGCACTTCTAAGTCGATGGTAGACCTTAAGGAACTTTT
1 -CTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATAGTAGACCTTAAGGAACTTTT
* * * * * * * * *
309900 TGCATTTTTTCCCAAAATCTAGTCCTATAAAACTACCGGGTTTGTTTCTACACCGAAGTTATGAA
65 AGCATTTTTCCCCAAAACCTAGTCCTATAAAACTACTGAGTTTGCTTCTACGCTGAAGGTATGAA
* * * *
309965 TTAGGAGCAGGTTTG-TTTA-TTTTCCAAGTCCTCTAGGATCACTAG-GCACTTCTAAATCGATG
130 TTAGGAGTAGGTTTGTTTTACTTTTCCAAGTCCTTTAGGATC-CTCGAGCACTTCTAAGTCGATG
** * * * * *
310027 GTAGACCTTAGGGACATTTTAGCATTTTTTTCCTGAAACCTAGTCCTAAAAAACTATCGGGTTCG
194 GTAGACCTTAGGGACATTTTAGCATTTTCCTCC--AAAACTAGTCCTAAAAAACTACCAGCTCCG
* * *
310092 CTTCTACACTGAAGGTATGAATCAGGAGTGGGTTTGTTTTTA
257 CTTCTACACCGAAGGTATGAATCAGGAGTGGGTCTGTTTATA
* * ** *
310134 CTTTTTCAAGTCCTTTAGGATTACTAGGCACTTTTAAGTTAATAGTAGACCTT-AGAGACCTTTT
1 CTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATAGTAGACCTTAAG-GAACTTTT
* * *** *
310198 AGCATTTTATCCCCTGAAACCCAGTCCTATAAAACTACTGAGTCCACTTCTACGCTGAAGGCATG
65 AGCATTTT-TCCCC-AAAACCTAGTCCTATAAAACTACTGAGTTTGCTTCTACGCTGAAGGTATG
310263 AATTAGGAGTAGGTTTGTTTTTATCTTTTCCAAGTCCTTTAGGAT-CTCCGAGCACTTCTAAGTC
128 AATTAGGAGTAGGTTTG-TTTTA-CTTTTCCAAGTCCTTTAGGATCCT-CGAGCACTTCTAAGTC
* ** * ** * * **
310327 AATTATAGACCTTAGGGACCTTTTAAGTGTTTTTCTCCAAAACCTAGCCCTATGAAACTACCA
190 GATGGTAGACCTTAGGGACATTTT-AGCATTTTCCTCCAAAA-CTAGTCCTAAAAAACTACCA
310390 AGTAACTTTT
Statistics
Matches: 448, Mismatches: 90, Indels: 27
0.79 0.16 0.05
Matches are distributed among these distances:
297 62 0.14
298 67 0.15
299 118 0.26
300 115 0.26
302 6 0.01
303 4 0.01
304 66 0.15
305 10 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (298 bp):
CTTTTTCAAGTCCTTTAGGATCACTAGGCACTTCTAAGTCGATAGTAGACCTTAAGGAACTTTTA
GCATTTTTCCCCAAAACCTAGTCCTATAAAACTACTGAGTTTGCTTCTACGCTGAAGGTATGAAT
TAGGAGTAGGTTTGTTTTACTTTTCCAAGTCCTTTAGGATCCTCGAGCACTTCTAAGTCGATGGT
AGACCTTAGGGACATTTTAGCATTTTCCTCCAAAACTAGTCCTAAAAAACTACCAGCTCCGCTTC
TACACCGAAGGTATGAATCAGGAGTGGGTCTGTTTATA
Found at i:314477 original size:20 final size:20
Alignment explanation
Indices: 314452--314530 Score: 113
Period size: 20 Copynumber: 4.0 Consensus size: 20
314442 ATTTGGGTAA
314452 AAAAAATGTATCGATACATT
1 AAAAAATGTATCGATACATT
*
314472 AAAAAATGTATCAATACATT
1 AAAAAATGTATCGATACATT
* * *
314492 TATACATGTATCGATACATT
1 AAAAAATGTATCGATACATT
*
314512 AAAAAATATATCGATACAT
1 AAAAAATGTATCGATACAT
314531 CTAGGAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAAAATGTATCGATACATT
Found at i:315847 original size:57 final size:56
Alignment explanation
Indices: 315603--316018 Score: 466
Period size: 57 Copynumber: 7.3 Consensus size: 56
315593 CACTAACTTG
* * * *
315603 TGTGGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTTG-AAAGGATGCCAATAACT
1 TGTGGGCTTT-GAG-AAGATGCCACTGAC-T-TGTGGGCTTTGAAAAGG-TGCCACTGACT
** * * *
315663 TGTGCACTTTGAAAAAATGCCATTGACTTGTGGGCTTTG-AAAGGATGCCACT-AGCT
1 TGTGGGCTTTGAGAAGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGA-CT
* * *
315719 TGTGGGCTTTGAGAAGGTGCCACT-AGCTTGTGGGCTTTAAAAAGATGCCACTGACT
1 TGTGGGCTTTGAGAAGATGCCACTGA-CTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * **
315775 TATGGGCTTTGAGAAGATGCCACTAACTTGTGGGCTTTGAAAGAGGTGCCGTTGACT
1 TGTGGGCTTTGAGAAGATGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGACT
* *
315832 TGTGGGCTTTGAGAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAGAAGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACT
*
315889 TGTGGGCTTTGAGAATG-TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAGAA-GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
315945 TGTGGGCTTT-AAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGGCT
1 TGTGGGCTTTGAGAA--GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
*
316002 TGTGGGCTTTGAAAAGA
1 TGTGGGCTTTGAGAAGA
316019 GGTCGTATTG
Statistics
Matches: 312, Mismatches: 33, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
55 5 0.02
56 126 0.40
57 156 0.50
58 15 0.05
59 2 0.01
60 8 0.03
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTGAGAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:315869 original size:85 final size:85
Alignment explanation
Indices: 315590--316018 Score: 494
Period size: 85 Copynumber: 5.0 Consensus size: 85
315580 TTTGAAGGGT
* *
315590 TGCCACTAACTTGTGTGGGCTTTAGAGAAA-GTTGCCACCGACTTGTGTGGGCTTTG-AAAGGAT
1 TGCCACTAAC-T-TGTGGGCTTT-GA-AAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAAGG-T
* * ** *
315653 GCCAATAACTTGTGCACTTTGAAAAAA
59 GCCACTGACTTGTGGGCTTTGAAAAGA
* * *
315680 TGCCATTGACTTGTGGGCTTTG-AAAGGATGCCACT-AGCTTGTGGGCTTTGAGAAGGTGCCACT
1 TGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGA-CTTGTGGGCTTTGAAAAGGTGCCACT
*
315743 -AGCTTGTGGGCTTTAAAAAGA
65 GA-CTTGTGGGCTTTGAAAAGA
* * * * **
315764 TGCCACTGACTTATGGGCTTTGAGAA-GATGCCACTAACTTGTGGGCTTTGAAAGAGGTGCCGTT
1 TGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACT
* *
315828 GACTTGTGGGCTTTGAGAAGG
65 GACTTGTGGGCTTTGAAAAGA
* *
315849 TGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAGAATGTGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTG
*
315914 ACTTGTGGGCTTTGAAAAGG
66 ACTTGTGGGCTTTGAAAAGA
*
315934 TGCCACTAACTTGTGGGCTTT-AAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACT
1 TGCCACTAACTTGTGGGCTTTGAAAA-GGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACT
*
315998 GGCTTGTGGGCTTTGAAAAGA
65 GACTTGTGGGCTTTGAAAAGA
316019 GGTCGTATTG
Statistics
Matches: 296, Mismatches: 33, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
83 1 0.00
84 80 0.27
85 161 0.54
86 34 0.11
87 1 0.00
88 10 0.03
89 1 0.00
90 8 0.03
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (85 bp):
TGCCACTAACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTG
ACTTGTGGGCTTTGAAAAGA
Found at i:316016 original size:28 final size:28
Alignment explanation
Indices: 315603--316017 Score: 471
Period size: 28 Copynumber: 14.6 Consensus size: 28
315593 CACTAACTTG
* *
315603 TGTGGGCTTTAGAGAAAGTTGCCACCGACTT
1 TGTGGGCTTT-GA-AAAGGTGCCACTGAC-T
* *
315634 GTGTGGGCTTTG-AAAGGATGCCAATAACT
1 -TGTGGGCTTTGAAAAGG-TGCCACTGACT
** ** *
315663 TGTGCACTTTGAAAAAATGCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
315691 TGTGGGCTTTG-AAAGGATGCCACT-AGCT
1 TGTGGGCTTTGAAAAGG-TGCCACTGA-CT
*
315719 TGTGGGCTTTGAGAAGGTGCCACT-AGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGA-CT
* *
315747 TGTGGGCTTTAAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
315775 TATGGGCTTTGAGAAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
**
315803 TGTGGGCTTTGAAAGAGGTGCCGTTGACT
1 TGTGGGCTTTGAAA-AGGTGCCACTGACT
* *
315832 TGTGGGCTTTGAGAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
315860 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
315889 TGTGGGCTTTGAGAATGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
315917 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
315945 TGTGGGCTTT-AAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA--GGTGCCACTGACT
*
315974 TGTGGGCTTTGAAAAGGTGCCACTGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
316002 TGTGGGCTTTGAAAAG
1 TGTGGGCTTTGAAAAG
316018 AGGTCGTATT
Statistics
Matches: 330, Mismatches: 42, Indels: 26
0.83 0.11 0.07
Matches are distributed among these distances:
27 8 0.02
28 217 0.66
29 83 0.25
30 11 0.03
31 1 0.00
32 10 0.03
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:316083 original size:13 final size:13
Alignment explanation
Indices: 316032--316099 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
316022 CGTATTGATA
316032 AAAATTTCTTGAC
1 AAAATTTCTTGAC
* *
316045 AAAGTTTC-TGATG
1 AAAATTTCTTGA-C
* *
316058 AACA-TTCTCGAC
1 AAAATTTCTTGAC
316070 AAAATTTCTTGAC
1 AAAATTTCTTGAC
*
316083 AACTATTTCTTGAC
1 AA-AATTTCTTGAC
316097 AAA
1 AAA
316100 TGGTGAATTG
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
12 9 0.22
13 20 0.49
14 12 0.29
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (13 bp):
AAAATTTCTTGAC
Found at i:317239 original size:13 final size:13
Alignment explanation
Indices: 317221--317245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
317211 ATAATGCACA
317221 GTATCGATACATT
1 GTATCGATACATT
317234 GTATCGATACAT
1 GTATCGATACAT
317246 GACGAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:317258 original size:20 final size:21
Alignment explanation
Indices: 317233--317285 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
317223 ATCGATACAT
*
317233 TGTATCGATACATG--ACGAAA
1 TGTATCGATACATGCAAAG-AA
*
317253 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
317274 TGTATCGATACA
1 TGTATCGATACA
317286 AGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.46
21 13 0.46
22 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:317353 original size:13 final size:13
Alignment explanation
Indices: 317335--317360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
317325 ACATACAAGA
317335 TGTATCGATAAAT
1 TGTATCGATAAAT
317348 TGTATCGATAAAT
1 TGTATCGATAAAT
317361 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATAAAT
Found at i:317376 original size:33 final size:32
Alignment explanation
Indices: 317315--317382 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
317305 CCTTAACTGT
*
317315 TTGTATCGATACATACAAGATGTATCGATAAA
1 TTGTATCGATAAATACAAGATGTATCGATAAA
*
317347 TTGTATCGATAAATGACCAA-ATGTATCGATACA
1 TTGTATCGATAAAT-A-CAAGATGTATCGATAAA
317380 TTG
1 TTG
317383 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATAAATACAAGATGTATCGATAAA
Found at i:318916 original size:3 final size:3
Alignment explanation
Indices: 318902--318932 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
318892 CATCAAGGAC
*
318902 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
318933 GTGACTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:323245 original size:8 final size:8
Alignment explanation
Indices: 323232--323262 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
323222 ATTTAATTAA
323232 ATTTTGTG
1 ATTTTGTG
323240 ATTTTGTG
1 ATTTTGTG
323248 ATTTTGTG
1 ATTTTGTG
323256 ATGTTTG
1 AT-TTTG
323263 ATGTTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:323459 original size:13 final size:13
Alignment explanation
Indices: 323441--323491 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
323431 CAGCATTCTC
323441 TGTATCGATACAT
1 TGTATCGATACAT
323454 TGTATCGATACAT
1 TGTATCGATACAT
* *
323467 TGTATCGATATAG
1 TGTATCGATACAT
323480 TGTATCGATACA
1 TGTATCGATACA
323492 AAGGCTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:323980 original size:22 final size:20
Alignment explanation
Indices: 323936--323980 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
323926 GCAGCACTCA
*
323936 CCAGGTCACGACCGGCACCC
1 CCAGGTCACAACCGGCACCC
*
323956 CCAGGTCGCAACCAGGCAACCC
1 CCAGGTCACAACC-GGC-ACCC
323978 CCA
1 CCA
323981 CACTTACAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.24, C:0.49, G:0.22, T:0.04
Consensus pattern (20 bp):
CCAGGTCACAACCGGCACCC
Found at i:325464 original size:23 final size:22
Alignment explanation
Indices: 325418--325461 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
325408 TGATTAAAGA
325418 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
325440 AAATT-TTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
325461 A
1 A
325462 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:326035 original size:13 final size:13
Alignment explanation
Indices: 326017--326041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
326007 ATAATGCACA
326017 GTATCGATACATT
1 GTATCGATACATT
326030 GTATCGATACAT
1 GTATCGATACAT
326042 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:326054 original size:20 final size:21
Alignment explanation
Indices: 326029--326122 Score: 106
Period size: 20 Copynumber: 4.6 Consensus size: 21
326019 ATCGATACAT
*
326029 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
326049 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
*
326070 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
326090 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
326111 TGTATCGATACA
1 TGTATCGATACA
326123 GGTGATTGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
20 31 0.50
21 31 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:326073 original size:21 final size:21
Alignment explanation
Indices: 326047--326121 Score: 109
Period size: 21 Copynumber: 3.6 Consensus size: 21
326037 TACATGACCA
326047 AATGTATCGATACTTGCAAAG
1 AATGTATCGATACTTGCAAAG
* *
326068 AATGTATCGATACATG-ACCA-
1 AATGTATCGATACTTGCA-AAG
326088 AATGTATCGATACTTGCAAAG
1 AATGTATCGATACTTGCAAAG
326109 AATGTATCGATAC
1 AATGTATCGATAC
326122 AGGTGATTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (21 bp):
AATGTATCGATACTTGCAAAG
Found at i:326086 original size:41 final size:41
Alignment explanation
Indices: 326029--326122 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
326019 ATCGATACAT
326029 TGTATCGATACATGACCAAATGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGACCAAATGTATCGATACTTGCAAAGAA
326070 TGTATCGATACATGACCAAATGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGACCAAATGTATCGATACTTGCAAAGAA
326111 TGTATCGATACA
1 TGTATCGATACA
326123 GGTGATTGGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (41 bp):
TGTATCGATACATGACCAAATGTATCGATACTTGCAAAGAA
Found at i:326227 original size:33 final size:32
Alignment explanation
Indices: 326163--326230 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
326153 CCTTAACTGT
*
326163 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCAATACA
*
326195 TTGTATCGATACGTGACCAA-ATGTATCAATACA
1 TTGTATCGATACAT-A-CAAGATGTATCAATACA
326228 TTG
1 TTG
326231 GCTTGTAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCAATACA
Found at i:326755 original size:13 final size:13
Alignment explanation
Indices: 326737--326794 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
326727 ACACACAGTA
326737 TGTATCGATACAT
1 TGTATCGATACAT
326750 TGTATCGATACACCAT
1 TGTATCGAT--A-CAT
326766 AAAATGTATCGATACAT
1 ----TGTATCGATACAT
326783 TGTATCGATACA
1 TGTATCGATACA
326795 CCATAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 9 0.24
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:326775 original size:20 final size:20
Alignment explanation
Indices: 326750--326814 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
326740 ATCGATACAT
326750 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
326770 TGTATCGAT--A-CAT----
1 TGTATCGATACACCATAAAA
326783 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
326803 TGTATCGATACA
1 TGTATCGATACA
326815 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 21 0.55
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:326778 original size:33 final size:33
Alignment explanation
Indices: 326717--326817 Score: 168
Period size: 33 Copynumber: 3.1 Consensus size: 33
326707 GTAGCCAAAC
* **
326717 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
326749 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
326782 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
326815 TTG
1 TTG
326818 GCTTGTAACA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 13 0.20
33 52 0.80
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:332999 original size:13 final size:13
Alignment explanation
Indices: 332980--333018 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
332970 ACAGCATTCT
332980 CTGTATCGATACA
1 CTGTATCGATACA
*
332993 TTGTATCGATACA
1 CTGTATCGATACA
333006 CTGTATCGATACA
1 CTGTATCGATACA
333019 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:333175 original size:22 final size:19
Alignment explanation
Indices: 333140--333186 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
333130 AAATCTTTTG
*
333140 CAAAATTCTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCA--T
333161 CAAAATACATTGTTTTTCAT
1 CAAAATAC-TTGTTTTTCAT
333181 CAAAAT
1 CAAAAT
333187 CATCATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (19 bp):
CAAAATACTTGTTTTTCAT
Found at i:334896 original size:37 final size:37
Alignment explanation
Indices: 334850--334936 Score: 156
Period size: 37 Copynumber: 2.4 Consensus size: 37
334840 GTGCTTATGT
*
334850 TTAAGGGGGAGAATGCGAATTTGTTAAAATTACCTTA
1 TTAAGGGGGAGAATGCGAATTTATTAAAATTACCTTA
*
334887 TTAAGGGGGAGAATGCGAATTTATTAAAATTACTTTA
1 TTAAGGGGGAGAATGCGAATTTATTAAAATTACCTTA
334924 TTAAGGGGGAGAA
1 TTAAGGGGGAGAA
334937 ATGTTTGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (37 bp):
TTAAGGGGGAGAATGCGAATTTATTAAAATTACCTTA
Found at i:335530 original size:13 final size:13
Alignment explanation
Indices: 335512--335536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
335502 ATGTTGCATA
335512 GTATCGATACATT
1 GTATCGATACATT
335525 GTATCGATACAT
1 GTATCGATACAT
335537 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:335549 original size:20 final size:21
Alignment explanation
Indices: 335524--335576 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
335514 ATCGATACAT
**
335524 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
335544 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
335565 TGTATCGATACA
1 TGTATCGATACA
335577 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:335646 original size:13 final size:13
Alignment explanation
Indices: 335628--335652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
335618 ACACACAGTA
335628 TGTATCGATACAT
1 TGTATCGATACAT
335641 TGTATCGATACA
1 TGTATCGATACA
335653 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:349363 original size:61 final size:60
Alignment explanation
Indices: 349140--350086 Score: 954
Period size: 61 Copynumber: 15.4 Consensus size: 60
349130 CTATTTTAGC
* * *
349140 CCTTTAGTCCTCAAAGAGTAGG-ACGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGCAC--CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * *
349201 CCATTTAGTCCTTAAAGAGTAGG-ATGTCTTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGCA---CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
349264 CCCTTTTAGTCCTCAAAGAGCAGG-ATGCCTTTTTCTTTTCAAAGCCTACCCGAGTTGGTGGCA
1 -CC-TTTAGTCCTCAAAGAGCAGGCA--CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * *
349327 GCTTTAGTCCTCAAATAGCAGTGCACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAG-GCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* ** *
349387 CCTTTTAGTCCTCAAAGAGTA-AAACGTCTTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGCAC--C-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
349450 CCCTTTTATTCCTTAAAGAGTAGGAAGTCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
1 -CC-TTTAGTCCTCAAAGAGCAGGCA-CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
349513 CCTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGATGGCA
1 CCTTTAGTCCTCAAAGAGCAGG-CACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
349573 CCTTTTAGTCCTTAAAGAACTAGACACCTTTTTTTTTTCAAAGCCCACACGAGTAGGTGGCA
1 CC-TTTAGTCCTCAAAGAGC-AGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
349635 CCCTTTAGTCCTCAAAGAGCAGG-ATGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGCA--CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
349697 CCCTTCTAG-CCTTCAAAGAGTAGG-ACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -CCTT-TAGTCC-TCAAAGAGCAGGCAC--CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
349760 CCTTTAGTCTTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACAC-ACGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGG-CACCTTTTTCTTTTCAAAGCCCACACGA-GTTGGTGGCA
*
349820 CCTTTTAGTCCTCAAAGGGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGG-CACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
349882 CCCTTTAGTCCTCAAAGAGCAAG-ATGCCTTTTTCTTTTC-AAGCCCACACAAGTTGGTGGTA
1 -CCTTTAGTCCTCAAAGAGCAGGCA--CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
349943 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCGCACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGG-CACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
350004 CCTTCTAGTCCTCAAAGAGCAGG-ACGCCTTCTCCTTT-AAAGCCCAGACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGCAC-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
350064 CCTCCTAGTCCTCAAAAAGCAGG
1 CCT-TTAGTCCTCAAAGAGCAGG
350087 ACGCACTTCA
Statistics
Matches: 761, Mismatches: 83, Indels: 85
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.01
60 119 0.16
61 251 0.33
62 168 0.22
63 175 0.23
64 41 0.05
65 3 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGCACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:349488 original size:186 final size:184
Alignment explanation
Indices: 349139--350088 Score: 1077
Period size: 186 Copynumber: 5.1 Consensus size: 184
349129 CCTATTTTAG
* * *
349139 CCCTTTAGTCCTCAAAGAGTAGGACGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCA
1 CCCTTTAGTCCTCAAAGAGCAGGAC--C-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * *
349204 TTTAGTCCTTAAAGAGTAGGATGTCTTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCCTT
63 TTTAGTCCTCAAAGAGTAAGA-CTCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT
* * * *
349269 TTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCTACCCGAGTTGGTGGCA
127 TTAGTCCTCAAAGAGCAGGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
* *
349327 -GCTTTAGTCCTCAAATAGCAGTGCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCCTTTAGTCCTCAAAGAGCAG-G-ACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
349391 TTAGTCCTCAAAGAGTAAAACGTCTTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCCTTT
64 TTAGTCCTCAAAGAGTAAGAC-TCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
* * * *
349456 TATTCCTTAAAGAGTAGGAAGTCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
128 TAGTCCTCAAAGAGCAGGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
*
349513 -CCTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTT
1 CCCTTTAGTCCTCAAAGAGCAGG--ACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
349577 TTAGTCCTTAAAGAACT-AGACACCTTTTTT-TTTTCAAAGCCCACACGAGTAGGTGGCACCC-T
64 TTAGTCCTCAAAG-AGTAAGAC-TCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT
*
349639 TTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
127 TTAGTCCTCAAAGAGCAGGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
* * *
349697 CCCTTCTAG-CCTTCAAAGAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CCCTT-TAGTCC-TCAAAGAGCAGGAC--CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCAC
* * * * * *
349761 C-TTTAGTCTTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACAC-ACGTTGGTGGCA-CC
61 CTTTTAGTCCTCAAAGAGTAAGACTCTTTTTTCTTTTCAAAGCCCACACGA-GTTGGTGGCACCC
* *
349822 TTTTAGTCCTCAAAGGGCAGGACA-CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
125 TTTTAGTCCTCAAAGAGCAGGA-AGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
* * * *
349882 CCCTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAGCCCACACAAGTTGGTGGTACCTT
1 CCCTTTAGTCCTCAAAGAGCAGGA--CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * * * * *
349947 CTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCGCACAAGTTGGTGGCA-CCTTCT
64 TTAGTCCTCAAAGAGTAAGACTCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTT
* * * * * *
350010 AGTCCTCAAAGAGCAGGACGCC-TTCTCCTTT-AAAGCCCAGACAAGTTGGTGGCA
129 AGTCCTCAAAGAGCAGGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
* *
350064 -CCTCCTAGTCCTCAAAAAGCAGGAC
1 CCCT-TTAGTCCTCAAAGAGCAGGAC
350089 GCACTTCATT
Statistics
Matches: 669, Mismatches: 70, Indels: 54
0.84 0.09 0.07
Matches are distributed among these distances:
180 1 0.00
181 3 0.00
182 38 0.06
183 29 0.04
184 159 0.24
185 125 0.19
186 267 0.40
187 44 0.07
188 1 0.00
189 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (184 bp):
CCCTTTAGTCCTCAAAGAGCAGGACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
AGTCCTCAAAGAGTAAGACTCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTTAG
TCCTCAAAGAGCAGGAAGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
Found at i:349674 original size:247 final size:245
Alignment explanation
Indices: 349139--350085 Score: 1242
Period size: 247 Copynumber: 3.8 Consensus size: 245
349129 CCTATTTTAG
* * * *
349139 CCCTTTAGTCCTCAAAGAGTAGGACGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCA
1 CCCTTTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-
* *
349204 TT-TAGTCCTTAAAGAGTAGGATGTCTTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCCT
65 TTCTAGTCCTTAAAGAGTAGGACGTC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CC-
** * * * * *
349268 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCTACCCGAGTTGGTGGCAGC-TTT
127 TTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
* * * *
349332 AGTCCTCAAATAGCAGTGCACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
191 AGTCCTCAAAGAGCAG-ACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
349387 CCTTTTAGTCCTCAAAGAGTAAAACGTCTTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACC
1 CCCTTTAGTCCTCAAAGAGCAAGACG-CCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-C
* * * *
349452 CTTTTATTCCTTAAAGAGTAGGAAGTCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACCTT
64 CTTCTAGTCCTTAAAGAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
*
349517 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACCTTTTAGT
129 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* * * *
349582 CCTTAAAGAACTAGACACCTTTTTTTTTTCAAAGCCCACACGAGTAGGTGGCA
194 CCTCAAAGAGC-AGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * *
349635 CCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACCC
1 CCCTTTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CC
349700 TTCTAG-CCTTCAAAGAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
65 TTCTAGTCCTT-AAAGAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
* *
349764 TAGTCTTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACACGTTGGTGGCACCTTTTAGT
129 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
*
349829 CCTCAAAGGGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
194 CCTCAAAGAGCA-GACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
349882 CCCTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTC-AAGCCCACACAAGTTGGTGGTACCT
1 CCCTTTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * * * * *
349946 TCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCGCACAAGTTGGTGGCACCTTCT
66 TCTAGTCCTTAAAGAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT-T
* * * **
350010 AGTCCTCAAAGAGCAGGACGCCTTCTCC-TTTAAAGCCCAGACAAGTTGGTGGCACCTCCTAGTC
130 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
*
350074 CTCAAAAAGCAG
195 CTCAAAGAGCAG
350086 GACGCACTTC
Statistics
Matches: 621, Mismatches: 68, Indels: 25
0.87 0.10 0.04
Matches are distributed among these distances:
243 1 0.00
244 66 0.11
245 55 0.09
246 47 0.08
247 295 0.48
248 69 0.11
249 65 0.10
250 23 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (245 bp):
CCCTTTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
TCTAGTCCTTAAAGAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTA
GTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
TCAAAGAGCAGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:350198 original size:105 final size:105
Alignment explanation
Indices: 350011--350240 Score: 388
Period size: 105 Copynumber: 2.2 Consensus size: 105
350001 GCACCTTCTA
* * *
350011 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTAAAGCCCAGACAAGTTGGTGGCACCTCCTAGTCCT
1 GTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCATAGTCCT
350076 CAAAAAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTT
66 CAAAAAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTT
*
350116 GTCCTCAAAGAGCAGGATGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCATAGTCCT
1 GTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCATAGTCCT
* ** *
350181 GAAAGGGCAGGATGCACTTCATTTCCTTCTTTTCCCTTTT
66 CAAAAAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTT
350221 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
350241 ACTTTATTTT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 116 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (105 bp):
GTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCATAGTCCT
CAAAAAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTT
Found at i:350320 original size:46 final size:45
Alignment explanation
Indices: 350176--350775 Score: 495
Period size: 45 Copynumber: 13.4 Consensus size: 45
350166 GCACCTCATA
* * *
350176 GTCCTGAAAGGGCAGGATGCACTTCATTTCCTTCTTTT-CCCTTTT
1 GTCCTCAAAGAGCAGGA-CCACTTCATTTCCTTCTTTTCCCCTTTT
* * *
350221 GTCCTCAAAGAGCAGGACGCACTTTATTT--TCCTTTTCCCC-CTT
1 GTCCTCAAAGAGCAGGAC-CACTTCATTTCCTTCTTTTCCCCTTTT
* *
350264 GTCCTCAAAGAGCAAGA-CACGTTCCATTTCCTTATTTTCCCCTTTT
1 GTCCTCAAAGAGCAGGACCAC-TT-CATTTCCTTCTTTTCCCCTTTT
* * * *
350310 ATCCTCAAAGAGTAGGACGTACTTCATTTTCTTCTTTT-CCCTTTT
1 GTCCTCAAAGAGCAGGAC-CACTTCATTTCCTTCTTTTCCCCTTTT
* * **
350355 GTCCTCAAAGAGCAAGACGCACTTTATTTTCC-T-TTTTCTGC-TTT
1 GTCCTCAAAGAGCAGGAC-CACTTCA-TTTCCTTCTTTTCCCCTTTT
* *
350399 GTCCTCAAAGAGCAGGA-CACGTTCTATTCCCTTCTTTTCTCCTTTT
1 GTCCTCAAAGAGCAGGACCAC-TTC-ATTTCCTTCTTTTCCCCTTTT
* *
350445 GTCCTCAAAGAGCAAGACGCACTTCATTTCCTTCTTTT-CTCTTTT
1 GTCCTCAAAGAGCAGGAC-CACTTCATTTCCTTCTTTTCCCCTTTT
* * * **
350490 GTCCTCAAAGAGCAGGGCACACTTTATTT--TCCTTTTCTTC-TTT
1 GTCCTCAAAGAGCAGGAC-CACTTCATTTCCTTCTTTTCCCCTTTT
* * *
350533 ATCCTCAAAGAGCAGGA-CACGTTCCATTTCTTTCTTTTCTCCTTTT
1 GTCCTCAAAGAGCAGGACCAC-TT-CATTTCCTTCTTTTCCCCTTTT
* *
350579 GTCCTCAAAGAGTAGGACCCACTTCATTTCTTTC-TTTCCCCTTTT
1 GTCCTCAAAGAGCAGGA-CCACTTCATTTCCTTCTTTTCCCCTTTT
* ** * * * *
350624 GTCTTCAAAGAGCAGGATGTACTTTATTT--TCCTTTT-CTCATTT
1 GTCCTCAAAGAGCAGGA-CCACTTCATTTCCTTCTTTTCCCCTTTT
* *
350667 GTCCTCAAAGAGCAAGA-CACGTTCCATTTCCTTATTTTCCCCTTTT
1 GTCCTCAAAGAGCAGGACCAC-TT-CATTTCCTTCTTTTCCCCTTTT
* * *
350713 TTCCTCAAAGAGCAGGATGCACTTCATTTTCTTCTTTT-CCCTTTT
1 GTCCTCAAAGAGCAGGA-CCACTTCATTTCCTTCTTTTCCCCTTTT
* *
350758 ATCCTCAAAGAGTAGGAC
1 GTCCTCAAAGAGCAGGAC
350776 GTACTTTATT
Statistics
Matches: 450, Mismatches: 71, Indels: 69
0.76 0.12 0.12
Matches are distributed among these distances:
41 8 0.02
42 9 0.02
43 88 0.20
44 33 0.07
45 169 0.38
46 123 0.27
47 9 0.02
48 11 0.02
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.40
Consensus pattern (45 bp):
GTCCTCAAAGAGCAGGACCACTTCATTTCCTTCTTTTCCCCTTTT
Found at i:350602 original size:134 final size:134
Alignment explanation
Indices: 350176--350817 Score: 876
Period size: 134 Copynumber: 4.8 Consensus size: 134
350166 GCACCTCATA
* * *
350176 GTCCTGAAAGGGCAGGATGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
** *
350241 ACTTTATTTTCCTTTTCCCCCTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCC
66 ACTTTATTTTCCTTTTCTTCTTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCC
350306 TTTT
131 TTTT
* * * * *
350310 ATCCTCAAAGAGTAGGACGTACTTCATTTTCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGC
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
* * * * * *
350375 ACTTTATTTTCCTTTTTCTGCTTTGTCCTCAAAGAGCAGGACACGTTCTATTCCCTTCTTTTCTC
66 ACTTTATTTTCC-TTTTCTTCTTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCC
350440 CTTTT
130 CTTTT
* * * *
350445 GTCCTCAAAGAGCAAGACGCACTTCATTTCCTTCTTTTCTCTTTTGTCCTCAAAGAGCAGGGCAC
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
* * * * *
350510 ACTTTATTTTCCTTTTCTTCTTTATCCTCAAAGAGCAGGACACGTTCCATTTCTTTCTTTTCTCC
66 ACTTTATTTTCCTTTTCTTCTTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCC
350575 TTTT
131 TTTT
* * * * * * *
350579 GTCCTCAAAGAGTAGGACCCACTTCATTTCTTTCTTTCCCCTTTTGTCTTCAAAGAGCAGGATGT
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
350644 ACTTTATTTTCCTTTTC-TCATTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCC
66 ACTTTATTTTCCTTTTCTTC-TTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCC
350708 CTTTT
130 CTTTT
* * * * * *
350713 TTCCTCAAAGAGCAGGATGCACTTCATTTTCTTCTTTTCCCTTTTATCCTCAAAGAGTAGGACGT
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
*
350778 ACTTTATTTTCC-TTT-TTCTTTTGTCCTCAAAAAGCAAGAC
66 ACTTTATTTTCCTTTTCTTC-TTTGTCCTCAAAGAGCAAGAC
350818 GCATTTCGTT
Statistics
Matches: 446, Mismatches: 59, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
133 27 0.06
134 302 0.68
135 117 0.26
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (134 bp):
GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
ACTTTATTTTCCTTTTCTTCTTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCC
TTTT
Found at i:350797 original size:269 final size:268
Alignment explanation
Indices: 350176--350817 Score: 914
Period size: 269 Copynumber: 2.4 Consensus size: 268
350166 GCACCTCATA
* *
350176 GTCCTGAAAGGGCAGGATGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGATGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
* *
350241 ACTTTATTTTCCTTTTCCCCCTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCC
66 ACTTTATTTTCCTTTT-CTCTTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCC
** *
350306 TTTTATCCTCAAAGAGTAGGACGTACTTCATTTTCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAG
130 TTTTATCCTCAAAGAGTAGGACCCACTTCATTTTCTTCTTTCCCCTTTTGTCCTCAAAGAGCAAG
* * *
350371 ACGCACTTTATTTTCCTTTTTCTGCTTTGTCCTCAAAGAGCAGGACACGTTCTATTCCCTTCTTT
195 ACGCACTTTATTTTCCTTTTTCTGCTTTGTCCTCAAAGAGCAAGACACGTTCCATTCCCTTATTT
*
350436 TCTCCTTTT
260 TCCCCTTTT
* * * * *
350445 GTCCTCAAAGAGCAAGACGCACTTCATTTCCTTCTTTTCTCTTTTGTCCTCAAAGAGCAGGGCAC
1 GTCCTCAAAGAGCAGGATGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
* * * * *
350510 ACTTTATTTTCCTTTTCTTCTTTATCCTCAAAGAGCAGGACACGTTCCATTTCTTTCTTTTCTCC
66 ACTTTATTTTCCTTTTC-TCTTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCC
* * *
350575 TTTTGTCCTCAAAGAGTAGGACCCACTTCA-TTTCTTTCTTTCCCCTTTTGTCTTCAAAGAGCAG
130 TTTTATCCTCAAAGAGTAGGACCCACTTCATTTTC-TTCTTTCCCCTTTTGTCCTCAAAGAGCAA
* * *
350639 GATGTACTTTATTTTCC-TTTTCT-CATTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTAT
194 GACGCACTTTATTTTCCTTTTTCTGC-TTTGTCCTCAAAGAGCAAGACACGTTCCATTCCCTTAT
350702 TTTCCCCTTTT
258 TTTCCCCTTTT
* * * * *
350713 TTCCTCAAAGAGCAGGATGCACTTCATTTTCTTCTTTTCCCTTTTATCCTCAAAGAGTAGGACGT
1 GTCCTCAAAGAGCAGGATGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
*
350778 ACTTTATTTTCCTTTT-TCTTTTGTCCTCAAAAAGCAAGAC
66 ACTTTATTTTCCTTTTCTC-TTTGTCCTCAAAGAGCAAGAC
350818 GCATTTCGTT
Statistics
Matches: 329, Mismatches: 40, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
266 2 0.01
267 19 0.06
268 126 0.38
269 182 0.55
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (268 bp):
GTCCTCAAAGAGCAGGATGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGC
ACTTTATTTTCCTTTTCTCTTTGTCCTCAAAGAGCAAGACACGTTCCATTTCCTTATTTTCCCCT
TTTATCCTCAAAGAGTAGGACCCACTTCATTTTCTTCTTTCCCCTTTTGTCCTCAAAGAGCAAGA
CGCACTTTATTTTCCTTTTTCTGCTTTGTCCTCAAAGAGCAAGACACGTTCCATTCCCTTATTTT
CCCCTTTT
Found at i:351512 original size:21 final size:21
Alignment explanation
Indices: 351488--351543 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
351478 TTTTTGCCAA
351488 AATGTATCGATACATGCCCTC
1 AATGTATCGATACATGCCCTC
351509 AATGTATCGATACATGCCCTC
1 AATGTATCGATACATGCCCTC
351530 AATGTATCGATACA
1 AATGTATCGATACA
351544 AGATCCGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGCCCTC
Found at i:352978 original size:521 final size:521
Alignment explanation
Indices: 351997--353004 Score: 2016
Period size: 521 Copynumber: 1.9 Consensus size: 521
351987 TGGTTTGTCC
351997 CTTAATCCTATTGGCCAAGCATGATGATAAGTAGGGGAAGTTGGCTCAGCAAAAGGATCCTTTTT
1 CTTAATCCTATTGGCCAAGCATGATGATAAGTAGGGGAAGTTGGCTCAGCAAAAGGATCCTTTTT
352062 TTGGGGAGAAAAAAATTTCCAACAGCAGAAAACCCTTAGGGAATCCTTCAGCAACAAAAAACCAA
66 TTGGGGAGAAAAAAATTTCCAACAGCAGAAAACCCTTAGGGAATCCTTCAGCAACAAAAAACCAA
352127 AAAAAAAACAAAGAAAAACACTATTCCATTGGTTTCAAAACCCCATTCCCGTAGTTCCATTGGTT
131 AAAAAAAACAAAGAAAAACACTATTCCATTGGTTTCAAAACCCCATTCCCGTAGTTCCATTGGTT
352192 TCAAAATGTATCGATACATGCCCTCAAAGGATCCTTTCGGATTCTTTTCTGGCCATTGATGTCAT
196 TCAAAATGTATCGATACATGCCCTCAAAGGATCCTTTCGGATTCTTTTCTGGCCATTGATGTCAT
352257 CTTAGAAGTCCCTTTCTATGCTCATAAACACCTTAGGACTCCCATGCGTTCTTGTGGTTTTTGTT
261 CTTAGAAGTCCCTTTCTATGCTCATAAACACCTTAGGACTCCCATGCGTTCTTGTGGTTTTTGTT
352322 TGTGGTAGTTTAGGACTTTGTTGTTCCTTGGTTTTGTTTGCATTTTCATCACCATAATAGCCTAT
326 TGTGGTAGTTTAGGACTTTGTTGTTCCTTGGTTTTGTTTGCATTTTCATCACCATAATAGCCTAT
352387 GATTTTGCATCTTTTGTTCATTCTTTCCATATTCACATCTTCATCTCATATTTTGATGTCATTTC
391 GATTTTGCATCTTTTGTTCATTCTTTCCATATTCACATCTTCATCTCATATTTTGATGTCATTTC
352452 AACACATCTTCAGCATGTTCATGCATGATTAAGTAGGGGAAGATGTTCAACACATCTTCAACACA
456 AACACATCTTCAGCATGTTCATGCATGATTAAGTAGGGGAAGATGTTCAACACATCTTCAACACA
352517 T
521 T
352518 CTTAATCCTATTGGCCAAGCATGATGATAAGTAGGGGAAGTTGGCTCAGCAAAAGGATCCTTTTT
1 CTTAATCCTATTGGCCAAGCATGATGATAAGTAGGGGAAGTTGGCTCAGCAAAAGGATCCTTTTT
352583 TTGGGGAGAAAAAAATTTCCAACAGCAGAAAACCCTTAGGGAATCCTTCAGCAACAAAAAACCAA
66 TTGGGGAGAAAAAAATTTCCAACAGCAGAAAACCCTTAGGGAATCCTTCAGCAACAAAAAACCAA
352648 AAAAAAAACAAAGAAAAACACTATTCCATTGGTTTCAAAACCCCATTCCCGTAGTTCCATTGGTT
131 AAAAAAAACAAAGAAAAACACTATTCCATTGGTTTCAAAACCCCATTCCCGTAGTTCCATTGGTT
352713 TCAAAATGTATCGATACATGCCCTCAAAGGATCCTTTCGGATTCTTTTCTGGCCATTGATGTCAT
196 TCAAAATGTATCGATACATGCCCTCAAAGGATCCTTTCGGATTCTTTTCTGGCCATTGATGTCAT
352778 CTTAGAAGTCCCTTTCTATGCTCATAAACACCTTAGGACTCCCATGCGTTCTTGTGGTTTTTGTT
261 CTTAGAAGTCCCTTTCTATGCTCATAAACACCTTAGGACTCCCATGCGTTCTTGTGGTTTTTGTT
352843 TGTGGTAGTTTAGGACTTTGTTGTTCCTTGGTTTTGTTTGCATTTTCATCACCATAATAGCCTAT
326 TGTGGTAGTTTAGGACTTTGTTGTTCCTTGGTTTTGTTTGCATTTTCATCACCATAATAGCCTAT
352908 GATTTTGCATCTTTTGTTCATTCTTTCCATATTCACATCTTCATCTCATATTTTGATGTCATTTC
391 GATTTTGCATCTTTTGTTCATTCTTTCCATATTCACATCTTCATCTCATATTTTGATGTCATTTC
352973 AACACATCTTCAGCATGTTCATGCATGATTAA
456 AACACATCTTCAGCATGTTCATGCATGATTAA
353005 TAGCTTGATA
Statistics
Matches: 487, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
521 487 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (521 bp):
CTTAATCCTATTGGCCAAGCATGATGATAAGTAGGGGAAGTTGGCTCAGCAAAAGGATCCTTTTT
TTGGGGAGAAAAAAATTTCCAACAGCAGAAAACCCTTAGGGAATCCTTCAGCAACAAAAAACCAA
AAAAAAAACAAAGAAAAACACTATTCCATTGGTTTCAAAACCCCATTCCCGTAGTTCCATTGGTT
TCAAAATGTATCGATACATGCCCTCAAAGGATCCTTTCGGATTCTTTTCTGGCCATTGATGTCAT
CTTAGAAGTCCCTTTCTATGCTCATAAACACCTTAGGACTCCCATGCGTTCTTGTGGTTTTTGTT
TGTGGTAGTTTAGGACTTTGTTGTTCCTTGGTTTTGTTTGCATTTTCATCACCATAATAGCCTAT
GATTTTGCATCTTTTGTTCATTCTTTCCATATTCACATCTTCATCTCATATTTTGATGTCATTTC
AACACATCTTCAGCATGTTCATGCATGATTAAGTAGGGGAAGATGTTCAACACATCTTCAACACA
T
Found at i:354441 original size:79 final size:79
Alignment explanation
Indices: 354301--354522 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 79
354291 TTTCATCTCG
* * * * * ** **
354301 GGGACACTCCAA-CCCGGTTTTATTTCCAAAACA-TCAATTTTTCATAACCAAGGATTTTCCAAT
1 GGGATACTCCAACCCCGATTTTATTTCCAAAATACT-AATTTTTCACAATCGGGGATACTCCAA-
*
354364 CC-CATTATTTCTGAT
64 CCTCATTATTTCTGAA
*
354379 GGGATACTCCAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATCGGGGATACTCCAACC
**
354444 TTGTTATTTCTGAA
66 TCATTATTTCTGAA
* *
354458 GGGATACTCCAACCCC-AGTTTTATTTCTAAAATACAAATTTTTCACAATCGGGGGATACTCCAA
1 GGGATACTCCAACCCCGA-TTTTATTTCCAAAATACTAATTTTTCACAATC-GGGGATACTCCAA
354522 C
64 C
354523 TCCGATTTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
78 14 0.11
79 94 0.76
80 15 0.12
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAATACTAATTTTTCACAATCGGGGATACTCCAACC
TCATTATTTCTGAA
Found at i:354536 original size:52 final size:51
Alignment explanation
Indices: 354458--354576 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 51
354448 TATTTCTGAA
*
354458 GGGATACTCCAACCCCAGTTTTATTTCTAAAATA-CAAATTTTTCACAATCGG
1 GGGATACTCCAACCCCAGTTTTATTTCTAAAACATC-AATTTTTCACAATC-G
*
354510 GGGATACTCCAACTCC-GATTTTATTTCTAAAACATCAATTTTTCACAATCG
1 GGGATACTCCAACCCCAG-TTTTATTTCTAAAACATCAATTTTTCACAATCG
*
354561 AGGATACTCCAACCCC
1 GGGATACTCCAACCCC
354577 GTTATTTCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
51 16 0.26
52 44 0.72
53 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCACAATCG
Found at i:354593 original size:28 final size:27
Alignment explanation
Indices: 354557--354633 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
354547 ATTTTTCACA
*
354557 ATCGAGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
* *
354584 CATCGGGGATACTCCAATCCCATTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
*
354612 -TTGAGGAGATACTCCAACCCCG
1 ATCG-GG-GATACTCCAACCCCG
354634 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 37 0.90
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:354794 original size:79 final size:78
Alignment explanation
Indices: 354661--354895 Score: 260
Period size: 79 Copynumber: 3.0 Consensus size: 78
354651 TTAATTTCTC
* * * *** *
354661 ACCCCGTTATTTTC-ATGGGGATACTCCAACCTCGGCCTTATTTCTAAAGCATCGATTTTCCACA
1 ACCCTGTTATTTTCGA-AGGGATACTCCAACCCCGATTTTATTTCTAAA-CATCGATTTTCCATA
354725 ATTGGGGATACTCCA
64 ATTGGGGATACTCCA
* *
354740 AGCCC-GTTATTTTCG-AGGAGATACTCTAACCCCGATTTTATTTTCTAAACATCGATTTTCTAT
1 A-CCCTGTTATTTTCGAAGG-GATACTCCAACCCCGATTTTA-TTTCTAAACATCGATTTTCCAT
** *
354803 AATCAGGGACACTCCA
63 AATTGGGGATACTCCA
* *
354819 ACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAGAACATCGATTTTTCATAA
1 ACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTA-AACATCGATTTTCCATAA
*
354884 TTGGGGGTACTC
65 TTGGGGATACTC
354896 TAGCCCCATT
Statistics
Matches: 130, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
78 10 0.08
79 106 0.82
80 14 0.11
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (78 bp):
ACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAACATCGATTTTCCATAAT
TGGGGATACTCCA
Found at i:355981 original size:22 final size:22
Alignment explanation
Indices: 355929--356014 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 22
355919 GCGACAATGT
*
355929 ACATATGACTATAACTAATTGA
1 ACATATGATTATAACTAATTGA
* *
355951 ATATATGATTATAACTAATTGT
1 ACATATGATTATAACTAATTGA
* * * * *
355973 GCATGTGATAATAACTAAATGT
1 ACATATGATTATAACTAATTGA
* *
355995 ACATATAACTATAA-TAATTG
1 ACATATGATTATAACTAATTG
356015 CAGTTTTTAC
Statistics
Matches: 50, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
21 5 0.10
22 45 0.90
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.36
Consensus pattern (22 bp):
ACATATGATTATAACTAATTGA
Found at i:360892 original size:22 final size:22
Alignment explanation
Indices: 360864--360925 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
360854 GCGACAATGT
*
360864 ACATATGACTATAACTAATTGA
1 ACATATGATTATAACTAATTGA
* *
360886 ATATATGATTATAACTAATTGT
1 ACATATGATTATAACTAATTGA
*
360908 ACATGTGATTATAACTAA
1 ACATATGATTATAACTAA
360926 ATGTGCATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (22 bp):
ACATATGATTATAACTAATTGA
Found at i:361386 original size:33 final size:32
Alignment explanation
Indices: 361344--361406 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
361334 AAGCCCAGAA
*
361344 GTATCGATACATATTGCTTTGTATCCATACAAT
1 GTATCGATACATATT-CATTGTATCCATACAAT
* *
361377 GTATCGATACATGTTCATTGTATCGATACA
1 GTATCGATACATATTCATTGTATCCATACA
361407 TAAAGAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (32 bp):
GTATCGATACATATTCATTGTATCCATACAAT
Found at i:362612 original size:22 final size:22
Alignment explanation
Indices: 362598--362651 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
362588 ATAATTAAAC
362598 GTACATATCACTATAACTGAAT
1 GTACATATCACTATAACTGAAT
*
362620 GTACATATAACTATAACTGAAT
1 GTACATATCACTATAACTGAAT
362642 GTACATATCA
1 GTACATATCA
362652 ATCAGATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (22 bp):
GTACATATCACTATAACTGAAT
Found at i:365272 original size:79 final size:79
Alignment explanation
Indices: 365173--365515 Score: 379
Period size: 79 Copynumber: 4.3 Consensus size: 79
365163 GGTGTTCAAG
* * *
365173 AAATAAAATCGGGGTTGGAGTATCTCCTTGAAAATAACAGGGTTGGAGTATCCCTGATTATAGAA
1 AAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATAGAA
*
365238 AATTGATGTTTTGA
66 AATCGATGTTTTGA
* * * *
365252 AAATAAAATCAGGGTTGGAGTATCCCTTC-AAAATAACAGGGTTGGAGTATCCGTGATTGTGGAA
1 AAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATAGAA
*
365316 AATCGATGCTTT-A
66 AATCGATGTTTTGA
*** * * * * *
365329 GAAATAAGGCCAGAGTTGGAATATCCCCACGAAAATAACGGGGTTGGAGTATCCCCGATTATGAG
1 -AAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTAT-AG
*
365394 AAAATCGATGTTTTAA
64 AAAATCGATGTTTTGA
* * * *
365410 AAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAATAGGGGTGGAGTAT-CCTCGATTGT-GA
1 AAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCT-GATTATAGA
* *
365473 AAATTTGATGTTTTGG
65 AAA-TCGATGTTTTGA
* * *
365489 AAATAAAACCGGGGTTAGAGTATCCCC
1 AAATAAAATCAGGGTTGGAGTATCCCC
365516 GATCGTGAGA
Statistics
Matches: 218, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
77 1 0.00
78 69 0.32
79 87 0.40
80 60 0.28
81 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
AAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATAGAA
AATCGATGTTTTGA
Found at i:365475 original size:158 final size:158
Alignment explanation
Indices: 365202--365494 Score: 448
Period size: 158 Copynumber: 1.9 Consensus size: 158
365192 GTATCTCCTT
* * *
365202 GAAAATAACAGGGTTGGAGTATCCCTGATTATAGAAAATTGATGTTTTGAAAATAAAATCAGGGT
1 GAAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGGT
* *
365267 TGGAGTATCCCTTCAAAATAACAGGGTTGGAGTATCCGTGATTGTGGAAAA-TCGATGCTTTAGA
66 TGGAGTATCCCCTCAAAATAACAGGGGTGGAGTATCCGTGATTGTGGAAAATTCGATGCTTTAGA
365331 AATAAGGCCAGAGTTGGAATATCCCCAC
131 AATAAGGCCAGAGTTGGAATATCCCCAC
*
365359 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAAATCGATGTTTTAAAAATAAAATCAGGG
1 GAAAATAACAGGGTTGGAGTATCCCCGATTAT-AGAAAATCGATGTTTTAAAAATAAAATCAGGG
* * *
365424 TTGGAGTATCCCCTCAAAAATAATAGGGGTGGAGTATCC-TCGATTGT-GAAAATTTGATGTTTT
65 TTGGAGTATCCCCTC-AAAATAACAGGGGTGGAGTATCCGT-GATTGTGGAAAATTCGATGCTTT
*
365487 GGAAATAA
128 AGAAATAA
365495 AACCGGGGTT
Statistics
Matches: 122, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
157 30 0.25
158 50 0.41
159 42 0.34
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (158 bp):
GAAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGGT
TGGAGTATCCCCTCAAAATAACAGGGGTGGAGTATCCGTGATTGTGGAAAATTCGATGCTTTAGA
AATAAGGCCAGAGTTGGAATATCCCCAC
Found at i:368785 original size:42 final size:41
Alignment explanation
Indices: 368717--368837 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 41
368707 GCATCTTGCT
* * * *
368717 CTTTGAGGATTAAGGAAAAAGAAAATGAAATGGGTCTTACTC
1 CTTTGAAGACTAAGGAAAAAGGAAATGAAATGCGTCTTAC-C
* * *
368759 C-TTGAAGACTAAGGAAAAAAGGAAATGAAATGCATCCTGCC
1 CTTTGAAGACTAAGG-AAAAAGGAAATGAAATGCGTCTTACC
* * *
368800 CTTTGAAGACAAAGGAAAAAGGAAATTAAATGTGTCTT
1 CTTTGAAGACTAAGGAAAAAGGAAATGAAATGCGTCTT
368838 GCTTTTTAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 32 0.49
42 33 0.51
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (41 bp):
CTTTGAAGACTAAGGAAAAAGGAAATGAAATGCGTCTTACC
Found at i:368816 original size:83 final size:84
Alignment explanation
Indices: 368728--368889 Score: 204
Period size: 83 Copynumber: 1.9 Consensus size: 84
368718 TTTGAGGATT
* *
368728 AAGGAAAAAGAAAATGAAATGGGTCTTACTCCTTGAA-GACTAAGGAAAAAAGGA-AATGAAA-T
1 AAGGAAAAAGAAAATGAAATGGGTCTTACT-CTTGAAGGACAAAGGAAAAAAAGAGAAT-AAAGT
368790 GCATCCTGCCCTTTGAAGACA
64 GCATCCTGCCCTTTGAAGACA
* * * * * *
368811 AAGGAAAAAGGAAATTAAATGTGTCTTGCTTTTTAAGGACAAAGGAAAAAAAGAGAATAAAGTGC
1 AAGGAAAAAGAAAATGAAATGGGTCTTACTCTTGAAGGACAAAGGAAAAAAAGAGAATAAAGTGC
*
368876 ATCCTGCTCTTTGA
66 ATCCTGCCCTTTGA
368890 GAACTAGAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
82 4 0.06
83 44 0.66
84 19 0.28
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (84 bp):
AAGGAAAAAGAAAATGAAATGGGTCTTACTCTTGAAGGACAAAGGAAAAAAAGAGAATAAAGTGC
ATCCTGCCCTTTGAAGACA
Found at i:368852 original size:41 final size:40
Alignment explanation
Indices: 368710--368949 Score: 133
Period size: 41 Copynumber: 5.7 Consensus size: 40
368700 GAAGAGGGCA
* ** * *
368710 TCTTGCTCTTTGAGGATTAAGGAAAAAGAAAATGAAATGGG
1 TCTTGCTC-TTGAAGACAAAGGAAAAAGGAAATGAAATGCG
* * *
368751 TCTTACTCCTTGAAGACTAAGGAAAAAAGGAAATGAAATGCA
1 TCTTGCT-CTTGAAGACAAAGG-AAAAAGGAAATGAAATGCG
* * * *
368793 TCCTGCCCTTTGAAGACAAAGGAAAAAGGAAATTAAATGTG
1 TCTTGCTC-TTGAAGACAAAGGAAAAAGGAAATGAAATGCG
* * * *
368834 TCTTGCTTTTTAAGGACAAAGGAAAAAAAGAGAAT-AAAGTGCA
1 TCTTGCTCTTGAA-GACAAAGG-AAAAAGGA-AATGAAA-TGCG
* *
368877 TCCTGCTCTTTG-AGAACTAGAAGGGAAAAGAAGGAAATGAAGTGCG
1 TCTTGCTC-TTGAAG-AC-A-AA-GG-AAA-AAGGAAATGAAATGCG
** *
368923 TCCCGCTCTTTGAGGACAAAGGAAAAA
1 TCTTGCTC-TTGAAGACAAAGGAAAAA
368950 AAAAAGCATC
Statistics
Matches: 156, Mismatches: 28, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
40 4 0.03
41 49 0.31
42 47 0.30
43 16 0.10
44 5 0.03
45 3 0.02
46 25 0.16
47 7 0.04
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (40 bp):
TCTTGCTCTTGAAGACAAAGGAAAAAGGAAATGAAATGCG
Found at i:368921 original size:46 final size:44
Alignment explanation
Indices: 368771--369024 Score: 187
Period size: 41 Copynumber: 6.0 Consensus size: 44
368761 TGAAGACTAA
* * *
368771 GGAAAA-AAGGAAATGAAATGCATCCTGCCCTTTGAAGACAAA-
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAG
* * ** * * *
368813 GG-AAA-AAGGAAATTAAATGTGTCTTGCTTTTTAAGGACAAA-
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAG
* * *
368854 GGAAAA-AAAGAGAATAAAGTGCATCCTGCTCTTTGAGAACTAGAAG
1 GGAAAAGAAGGA-AATGAAGTGCATCCTGCTCTTTGAGGAC-A-AAG
* *
368900 GGAAAAGAAGGAAATGAAGTGCGTCCCGCTCTTTGAGGACAAA-
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAG
368943 GG-AAA-AA--AAA--AA--GCATCCTGCTCTTTGAGGACAAAAG
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGAC-AAAG
* * ** *
368980 GGAAATGAAGGAAATGAAATGTGTCCTGCACTTTGAGGACAAAG
1 GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAG
369024 G
1 G
369025 AGAGAAGGAA
Statistics
Matches: 168, Mismatches: 28, Indels: 30
0.74 0.12 0.13
Matches are distributed among these distances:
35 18 0.11
36 3 0.02
37 4 0.02
38 2 0.01
39 5 0.03
41 38 0.23
42 12 0.07
43 24 0.14
44 8 0.05
45 20 0.12
46 30 0.18
47 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (44 bp):
GGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAG
Found at i:368994 original size:80 final size:81
Alignment explanation
Indices: 368874--369025 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 81
368864 AGAATAAAGT
* * *
368874 GCATCCTGCTCTTTGAGAACTAGAAGGGAAAAGAAGGAAATGAAGTGCGTCCCGCTCTTTGAGGA
1 GCATCCTGCTCTTTGAGAACTAAAAGGGAAAAGAAGGAAATGAAATGCGTCCCGCACTTTGAGGA
368939 CAAAGGAAAAAAAAAA
66 CAAAGGAAAAAAAAAA
* * * *
368955 GCATCCTGCTCTTTGAGGAC-AAAAGGGAAATGAAGGAAATGAAATGTGTCCTGCACTTTGAGGA
1 GCATCCTGCTCTTTGAGAACTAAAAGGGAAAAGAAGGAAATGAAATGCGTCCCGCACTTTGAGGA
369019 CAAAGGA
66 CAAAGGA
369026 GAGAAGGAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 45 0.70
81 19 0.30
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (81 bp):
GCATCCTGCTCTTTGAGAACTAAAAGGGAAAAGAAGGAAATGAAATGCGTCCCGCACTTTGAGGA
CAAAGGAAAAAAAAAA
Found at i:369231 original size:125 final size:123
Alignment explanation
Indices: 369029--369362 Score: 406
Period size: 125 Copynumber: 2.7 Consensus size: 123
369019 CAAAGGAGAG
* *
369029 AAGGAAAAGTTGTCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAAAA-
1 AAGGAAAAGGTGTCTT-CTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG
* * **
369093 GAAAAGGTGTCCTGCTCTTTGAAGACTGGAA-GGTGCCACCAACTTTTGTGGGCTTTGCAA
65 GAAAAGGCGTCCTGCTCTTTGAAGA-TGAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AA
* * *
369153 AAGGAAAAGGCGTCATTCTCTTTGAGGACTAGAAATGTGCCACCAACTTGTGTGGGCTTT-AAAA
1 AAGGAAAAGGTGTC-TTCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
* * * *
369217 GGAAAAGGCATCCTGCTTTTTGAGGATTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
64 GGAAAAGGCGTCCTGCTCTTTGAAGATGAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * * *
369277 AAGAAAAAAGGTGTCCTGCTTTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGAGCTTTGAAAA
1 AAG-GAAAAGGTGT-CTTCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
369341 GAGAAAAGGCGTCCTGCTCTTT
64 G-GAAAAGGCGTCCTGCTCTTT
369363 AAGGACTAAA
Statistics
Matches: 180, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
123 25 0.14
124 43 0.24
125 111 0.62
126 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (123 bp):
AAGGAAAAGGTGTCTTCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGG
AAAAGGCGTCCTGCTCTTTGAAGATGAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
Found at i:369239 original size:62 final size:62
Alignment explanation
Indices: 369029--369373 Score: 417
Period size: 62 Copynumber: 5.5 Consensus size: 62
369019 CAAAGGAGAG
** * * *
369029 AAGGAAAAGTTGTCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
* * ** **
369091 AA-GAAAAGGTGTCCTGCTCTTTGAAGACTGGAAGGTGCCACCAACTTTTGTGGGCTTTGCAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AA
* * * *
369153 AAGGAAAAGGCGTCATTCTCTTTGAGGACTAGAAATGTGCCACCAACTTGTGTGGGCTTT-AA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * *
369215 AAGGAAAAGGCATCCTGCTTTTTGAGGATTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
* * * *
369277 AAGAAAAAAGGTGTCCTGCTTTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGAGCTTTGAA
1 AAG-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
*
369339 AAGAGAAAAGGCGTCCTGCTCTTTAAGGACTAAAA
1 AAG-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAA
369374 AGAGCTAAAA
Statistics
Matches: 242, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
61 73 0.30
62 95 0.39
63 49 0.20
64 25 0.10
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (62 bp):
AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA
Found at i:375722 original size:79 final size:79
Alignment explanation
Indices: 375589--375968 Score: 279
Period size: 79 Copynumber: 4.8 Consensus size: 79
375579 ACAACGAGGC
* * * * *
375589 TGGAGTATCCCCT-ATTATGGAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTAT-CCCTGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGGTTGGAGTATCCCCT
* *
375653 TGAAAATAACAAGGT
65 TAAAAATAACAGGGT
* *
375668 CGGAGTATCCCTGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGTTTGGAGTAT-CCCTT
1 TGGAGTATCCCTGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGGTTGGAGTATCCCCTT
*
375732 CAAAAATAACGGGGT
66 -AAAAATAACAGGGT
* * * ** * *
375747 TGGAGTAT-CCTCGATTGT-GAAAAATCGATGCTTTAGAAAT-AAGGCCGGAGTTGGAGTATCCT
1 TGGAGTATCCCT-GATTATAG-AAAATCGATGTTTTAAAAATAAAATCAGG-GTTGGAGTATCCC
**
375809 CGCAAAAATAACAGGGT
63 CTTAAAAATAACAGGGT
* * * * * * * * *
375826 TAGAGTATCCCCGATTGTGAGAAAATTGGTGTTTTAAAAATAAAATCGGGGTTCGATTATCCTCT
1 TGGAGTATCCCTGATTAT-AGAAAATCGATGTTTTAAAAATAAAATCAGGGTTGGAGTATCCCCT
* * * *
375891 CAGAACTAA-TGAGGT
65 TAAAAATAACAG-GGT
* * * * * * * *
375906 TGGAGTATCCCCGATTGT-GAAAAATTGATATTTTGAAAATAAAACCGGGGTTAGAGTATCCCC
1 TGGAGTATCCCTGATTATAG-AAAATCGATGTTTTAAAAATAAAATCAGGGTTGGAGTATCCCC
375969 GATCGTGAGA
Statistics
Matches: 244, Mismatches: 45, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
78 19 0.08
79 160 0.66
80 59 0.24
81 6 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCTGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGGTTGGAGTATCCCCTT
AAAAATAACAGGGT
Found at i:375946 original size:159 final size:158
Alignment explanation
Indices: 375655--375966 Score: 376
Period size: 159 Copynumber: 2.0 Consensus size: 158
375645 TATCCCCTTG
* * *
375655 AAAATAACAAGGTCGGAGTATCCCTGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGTTT
1 AAAATAACAAGGTCAGAGTATCCCCGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGGTT
* * * *
375720 GGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGCTTTAGAA
66 CGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAGAA
** *
375785 ATAAGGCCGGAGTTGGAGTATCCTCGCA
131 ATAAAACCGGAGTTAGAGTATCCTCGCA
* * * * * *
375813 AAAATAACAGGGTTAGAGTATCCCCGATTGTGAGAAAATTGGTGTTTTAAAAATAAAATCGGGGT
1 AAAATAACAAGGTCAGAGTATCCCCGATTAT-AGAAAATCGATGTTTTAAAAATAAAATCAGGGT
* * * * * *
375878 TCGATTAT-CCTCTCAGAACTAATGAGGTTGGAGTATCCCCGATTGTGAAAAATTGATA-TTTTG
65 TCGAGTATCCCT-TCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAG
*
375941 AAAATAAAACCGGGGTTAGAGTATCC
129 -AAATAAAACCGGAGTTAGAGTATCC
375967 CCGATCGTGA
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
158 33 0.26
159 95 0.74
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (158 bp):
AAAATAACAAGGTCAGAGTATCCCCGATTATAGAAAATCGATGTTTTAAAAATAAAATCAGGGTT
CGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAGAA
ATAAAACCGGAGTTAGAGTATCCTCGCA
Found at i:376006 original size:51 final size:51
Alignment explanation
Indices: 375903--376015 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
375893 GAACTAATGA
* *
375903 GGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATCGTGAAAAATTCATATTTTGAAAATAAAACCGG
* * **
375954 GGTTAGAGTATCCCCGATCGTGAGAAA-TCATTATTTT-AGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATCGTGAAAAATTCA-TATTTTGA-AAATAAAACCGG
*
376005 GGCTGGAGTAT
1 GGTTGGAGTAT
376016 TCCTTCGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
50 3 0.06
51 49 0.94
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATCGTGAAAAATTCATATTTTGAAAATAAAACCGG
Found at i:376121 original size:79 final size:80
Alignment explanation
Indices: 376052--376206 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 80
376042 ATCCCCAATG
* * * * *
376052 AAATAATAGGG-TTGGAGTATCCCCGATTGTGAAAAGTTGGT-GTTTT-GAGAATAAAATCGGGG
1 AAATAA-AGGGATTGGAGAATCCCCGATTATGAAAAATTGATAGTTTTAGA-AATAAAACCGGGG
376114 TTGGAGTATCCCCTCGA
64 TTGGAGTATCCCCTCGA
*
376131 AAATAACGGGATTGGAGAATCCCCGATTATGAAAAATTGATAGTTTTAGAAATAAAACCGGGGTT
1 AAATAAAGGGATTGGAGAATCCCCGATTATGAAAAATTGATAGTTTTAGAAATAAAACCGGGGTT
376196 GGAGTATCCCC
66 GGAGTATCCCC
376207 GAGATAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 3 0.04
79 32 0.48
80 30 0.45
81 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (80 bp):
AAATAAAGGGATTGGAGAATCCCCGATTATGAAAAATTGATAGTTTTAGAAATAAAACCGGGGTT
GGAGTATCCCCTCGA
Found at i:378532 original size:20 final size:20
Alignment explanation
Indices: 378507--378561 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
378497 AAAAGGTTTG
*
378507 AATGTATCGATACATTGCAA-
1 AATGTATCGATACAATG-AAC
378527 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
378547 AATGTATCGATACAA
1 AATGTATCGATACAA
378562 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:378613 original size:21 final size:21
Alignment explanation
Indices: 378587--378632 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
378577 AAATTTTTAC
*
378587 CATTAAGACCTTGTATCGATA
1 CATTAAGACCATGTATCGATA
**
378608 CATTAAGGGCATGTATCGATA
1 CATTAAGACCATGTATCGATA
378629 CATT
1 CATT
378633 TTGGCAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (21 bp):
CATTAAGACCATGTATCGATA
Found at i:385220 original size:13 final size:13
Alignment explanation
Indices: 385202--385227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
385192 ACATTTTGGG
385202 ATGTATCGATACA
1 ATGTATCGATACA
385215 ATGTATCGATACA
1 ATGTATCGATACA
385228 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:385222 original size:33 final size:32
Alignment explanation
Indices: 385180--385247 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
385170 CGTTACAAGC
*
385180 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
385213 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
385245 CAA
1 CAA
385248 ACAGTTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:385335 original size:13 final size:12
Alignment explanation
Indices: 385316--385374 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 12
385306 TGCATTTGGT
385316 CATGTATCGATA
1 CATGTATCGATA
*
385328 CAATGTATCGAAA
1 C-ATGTATCGATA
*
385341 CAT-T-T-GGT-
1 CATGTATCGATA
385349 CATGTATCGATA
1 CATGTATCGATA
385361 CAATGTATCGATA
1 C-ATGTATCGATA
385374 C
1 C
385375 TGTGCAATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 2 0.05
11 3 0.08
12 4 0.11
13 23 0.62
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:385345 original size:33 final size:33
Alignment explanation
Indices: 385299--385371 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
385289 TTCTTTATAA
**
385299 GTATCGATGCATTTGGTCATGTATCGATACAAT
1 GTATCGAAACATTTGGTCATGTATCGATACAAT
385332 GTATCGAAACATTTGGTCATGTATCGATACAAT
1 GTATCGAAACATTTGGTCATGTATCGATACAAT
385365 GTATCGA
1 GTATCGA
385372 TACTGTGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (33 bp):
GTATCGAAACATTTGGTCATGTATCGATACAAT
Found at i:385388 original size:33 final size:33
Alignment explanation
Indices: 385315--385395 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
385305 ATGCATTTGG
* *
385315 TCATGTATCGATACAATGTATCGAAACATTTGG
1 TCATGTATCGATACAATGTATCGAAACATGTGA
*
385348 TCATGTATCGATACAATGTATCGATAC-TGTGCAA
1 TCATGTATCGATACAATGTATCGAAACATGTG--A
385382 TC-TGTATCGATACA
1 TCATGTATCGATACA
385396 TTTGAAGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 3 0.07
33 38 0.88
34 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (33 bp):
TCATGTATCGATACAATGTATCGAAACATGTGA
Found at i:385957 original size:22 final size:22
Alignment explanation
Indices: 385929--385973 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
385919 TTTTCTTATC
385929 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAACAATT
385951 TCTCCCCCTTAATAAAACAATT
1 TCTCCCCCTTAATAAAACAATT
385973 T
1 T
385974 AACAATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAACAATT
Found at i:387836 original size:13 final size:13
Alignment explanation
Indices: 387818--387842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
387808 ATAAACCGTT
387818 TGTATCGATACAA
1 TGTATCGATACAA
387831 TGTATCGATACA
1 TGTATCGATACA
387843 GAGAATGCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:390502 original size:13 final size:13
Alignment explanation
Indices: 390484--390509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
390474 TACAGCAAGT
390484 ATGTATCGATACA
1 ATGTATCGATACA
390497 ATGTATCGATACA
1 ATGTATCGATACA
390510 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:392757 original size:21 final size:21
Alignment explanation
Indices: 392724--392768 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
392714 TTGCAAGTTG
*
392724 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
392746 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
392766 AAA
1 AAA
392769 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:394592 original size:15 final size:15
Alignment explanation
Indices: 394572--394602 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
394562 TAAAAATGTC
*
394572 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
394587 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
394602 C
1 C
394603 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:396695 original size:20 final size:20
Alignment explanation
Indices: 396616--396695 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
396606 AATGTCCAAA
*
396616 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
396636 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
396661 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
396681 TTGTATCGATACATT
1 ATGTATCGATACATT
396696 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:396699 original size:13 final size:13
Alignment explanation
Indices: 396681--396719 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
396671 ACATTTTTCT
396681 TTGTATCGATACA
1 TTGTATCGATACA
396694 TTGTATCGATACA
1 TTGTATCGATACA
*
396707 CTGTATCGATACA
1 TTGTATCGATACA
396720 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:397547 original size:86 final size:86
Alignment explanation
Indices: 397402--397583 Score: 364
Period size: 86 Copynumber: 2.1 Consensus size: 86
397392 GAACCTTTTC
397402 TCGGTTGGCTATCCGACCATGTCGCGCTGTCGACATGAAATATCTCAGATCCTTCGACTTCATCT
1 TCGGTTGGCTATCCGACCATGTCGCGCTGTCGACATGAAATATCTCAGATCCTTCGACTTCATCT
397467 ATTATCCAACATTTGAGATAT
66 ATTATCCAACATTTGAGATAT
397488 TCGGTTGGCTATCCGACCATGTCGCGCTGTCGACATGAAATATCTCAGATCCTTCGACTTCATCT
1 TCGGTTGGCTATCCGACCATGTCGCGCTGTCGACATGAAATATCTCAGATCCTTCGACTTCATCT
397553 ATTATCCAACATTTGAGATAT
66 ATTATCCAACATTTGAGATAT
397574 TCGGTTGGCT
1 TCGGTTGGCT
397584 CACGCTTTTG
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 96 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (86 bp):
TCGGTTGGCTATCCGACCATGTCGCGCTGTCGACATGAAATATCTCAGATCCTTCGACTTCATCT
ATTATCCAACATTTGAGATAT
Found at i:399366 original size:13 final size:13
Alignment explanation
Indices: 399348--399373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
399338 TACAGCAAGT
399348 ATGTATCGATACA
1 ATGTATCGATACA
399361 ATGTATCGATACA
1 ATGTATCGATACA
399374 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:404094 original size:20 final size:21
Alignment explanation
Indices: 404043--404095 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
404033 GCCAATGACC
*
404043 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
* *
404064 AGTATCAATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
404084 TGTATCGATACA
1 TGTATCGATACA
404096 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:404101 original size:13 final size:13
Alignment explanation
Indices: 404083--404107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
404073 ACATTTGGTC
404083 ATGTATCGATACA
1 ATGTATCGATACA
404096 ATGTATCGATAC
1 ATGTATCGATAC
404108 TATGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:404140 original size:20 final size:19
Alignment explanation
Indices: 404117--404155 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
404107 CTATGCAATC
404117 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
404137 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
404156 GTTTTGGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:408299 original size:13 final size:13
Alignment explanation
Indices: 408269--408299 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
408259 CGATGCATTG
*
408269 TACAATGTATCGA
1 TACATTGTATCGA
408282 TACATTGTATCGA
1 TACATTGTATCGA
408295 TACAT
1 TACAT
408300 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:408878 original size:298 final size:298
Alignment explanation
Indices: 408342--408928 Score: 1129
Period size: 298 Copynumber: 2.0 Consensus size: 298
408332 CTATAAACGG
408342 CTATAATTTCAAATTAATGTATCGATACATTATGAAATGTATCGATACATGGCTACAGAAAAGCA
1 CTATAATTTCAAATTAATGTATCGATACATTATGAAATGTATCGATACATGGCTACAGAAAAGCA
408407 GGAAAACAAGCACCAATCAAGCTTGTAACGGCTAGTAACTCAATCATTCAACCTCTAACGACTAC
66 GGAAAACAAGCACCAATCAAGCTTGTAACGGCTAGTAACTCAATCATTCAACCTCTAACGACTAC
408472 ATCAGCATTCAAGCCTATAAATATGAGCTTCCAGCACCTAAACATGAAGAGAACCAAGCAAGAAA
131 ATCAGCATTCAAGCCTATAAATATGAGCTTCCAGCACCTAAACATGAAGAGAACCAAGCAAGAAA
408537 CATCTAGAGATCAAAGCTTTCAAAGTTCAAAGAATTTTCACATTTCCAAGAACTTTTGTTTTCAT
196 CATCTAGAGATCAAAGCTTTCAAAGTTCAAAGAATTTTCACATTTCCAAGAACTTTTGTTTTCAT
408602 TCTTATCATTTTCAAAGCTCTTTTGTATTGTTTTCATT
261 TCTTATCATTTTCAAAGCTCTTTTGTATTGTTTTCATT
408640 CTATAATTTCAAATTAATGTATCGATACATTATGAAATGTATCGATACATGGCTACAGAAAAGCA
1 CTATAATTTCAAATTAATGTATCGATACATTATGAAATGTATCGATACATGGCTACAGAAAAGCA
* **
408705 TGAAAACAAGCACCAATCAAGCTTGTAACGGCTAGTAACTCAATCATTCAACCTCTAACGGTTAC
66 GGAAAACAAGCACCAATCAAGCTTGTAACGGCTAGTAACTCAATCATTCAACCTCTAACGACTAC
408770 ATCAGCATTCAAGCCTATAAATATGAGCTTCCAGCACCTAAACATGAAGAGAACCAAGCAAGAAA
131 ATCAGCATTCAAGCCTATAAATATGAGCTTCCAGCACCTAAACATGAAGAGAACCAAGCAAGAAA
*
408835 CATCTAGAGATCAAAGTTTTCAAAGTTCAAAGAATTTTCACATTTCCAAGAACTTTTGTTTTCAT
196 CATCTAGAGATCAAAGCTTTCAAAGTTCAAAGAATTTTCACATTTCCAAGAACTTTTGTTTTCAT
*
408900 TCTTATTATTTTCAAAGCTCTTTTGTATT
261 TCTTATCATTTTCAAAGCTCTTTTGTATT
408929 TGATTTTGAG
Statistics
Matches: 284, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
298 284 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (298 bp):
CTATAATTTCAAATTAATGTATCGATACATTATGAAATGTATCGATACATGGCTACAGAAAAGCA
GGAAAACAAGCACCAATCAAGCTTGTAACGGCTAGTAACTCAATCATTCAACCTCTAACGACTAC
ATCAGCATTCAAGCCTATAAATATGAGCTTCCAGCACCTAAACATGAAGAGAACCAAGCAAGAAA
CATCTAGAGATCAAAGCTTTCAAAGTTCAAAGAATTTTCACATTTCCAAGAACTTTTGTTTTCAT
TCTTATCATTTTCAAAGCTCTTTTGTATTGTTTTCATT
Found at i:411747 original size:21 final size:21
Alignment explanation
Indices: 411713--411755 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
411703 GTTCTTTAGC
*
411713 TTTTAACATATTTTTATATTT
1 TTTTAACATATTTTCATATTT
* *
411734 TTTTATCATTTTTTCATATTT
1 TTTTAACATATTTTCATATTT
411755 T
1 T
411756 ATATTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTAACATATTTTCATATTT
Found at i:412194 original size:21 final size:20
Alignment explanation
Indices: 412165--412221 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
412155 AAAACCCTGA
**
412165 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
412185 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
412206 ATAGTATCGATACACA
1 AAAGTATCGATACACA
412222 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:412292 original size:53 final size:53
Alignment explanation
Indices: 412209--412345 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
412199 AGATTGCATA
*
412209 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
412263 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
412316 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
412346 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:412388 original size:10 final size:10
Alignment explanation
Indices: 412369--412399 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
412359 AATCTCATTT
412369 TCACTGTTCA
1 TCACTGTTCA
*
412379 TCACTATTCA
1 TCACTGTTCA
412389 TCACTGTTCA
1 TCACTGTTCA
412399 T
1 T
412400 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:412428 original size:13 final size:14
Alignment explanation
Indices: 412410--412439 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
412400 GTATCGATAC
412410 ATCACT-TTCATGT
1 ATCACTATTCATGT
412423 ATCACTATTCATGT
1 ATCACTATTCATGT
412437 ATC
1 ATC
412440 GTTAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (14 bp):
ATCACTATTCATGT
Found at i:416917 original size:81 final size:81
Alignment explanation
Indices: 416797--417119 Score: 239
Period size: 81 Copynumber: 4.0 Consensus size: 81
416787 ATGCTGTTTA
* * **
416797 TACTTCCAAAACATTGAATTTCTTCATCTTTAGCAATACTTTAACTCC-ATCATTTCCAAGGGGA
1 TACTTCTAAAACATTGAATTTCTTCATCTTAAGCAATACTCCAAC-CCTATCATTTCCAAGGGGA
* *
416861 TATTCCAACCTCATTTT
65 TACTCCAACCCCATTTT
* * * *
416878 TACTTCTAAAACATTGAATTTCTTCATCTCTAAG-GATACTCCAACCCTATCATTTTCGAGGGTA
1 TACTTCTAAAACATTGAATTTCTTCATCT-TAAGCAATACTCCAACCCTATCATTTCCAAGGGGA
*
416942 TACTCCAGCCCCATTTT
65 TACTCCAACCCCATTTT
* ** ** * * * * *
416959 TACTTCTAAAATATTGAA--T-TTCATCTTTGGGGATACTCCAACCCCACCGTTTCTGAA-GGGC
1 TACTTCTAAAACATTGAATTTCTTCATCTTAAGCAATACTCCAACCCTATCATTTC-CAAGGGGA
* *
417020 TACTTCAACCCCATTTC
65 TACTCCAACCCCATTTT
* *** * * ** * *
417037 TACTTTTAAAACACCAAAATT-TTCAGTCTTAGGGGATACTCCAA-CCTCACCATTTCCGAGGGG
1 TACTTCTAAAACATTGAATTTCTTCA-TCTTAAGCAATACTCCAACCCT-ATCATTTCCAAGGGG
*
417100 ATACTCCAACCCTATTTT
64 ATACTCCAACCCCATTTT
417118 TA
1 TA
417120 TTTCCCAAAC
Statistics
Matches: 194, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
77 2 0.01
78 54 0.28
79 2 0.01
80 10 0.05
81 123 0.63
82 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.35
Consensus pattern (81 bp):
TACTTCTAAAACATTGAATTTCTTCATCTTAAGCAATACTCCAACCCTATCATTTCCAAGGGGAT
ACTCCAACCCCATTTT
Found at i:417233 original size:80 final size:80
Alignment explanation
Indices: 416847--417242 Score: 304
Period size: 81 Copynumber: 5.0 Consensus size: 80
416837 TTAACTCCAT
* * * * * *
416847 CATTTCCAAGGGGATATTCCAA-CCTCATTTTTACTTCTAAAACATTGAATTTCTTCATCTCTA-
1 CATTTCCGAGGGGATACTCCAACCCT-ATTATTACTTCTAAAACACTAAAATT-TTCATCT-TAG
* *
416910 AGGATACTCCAACC-CTAT
63 GGGATACTCCAACCTC-AC
* * * * * * ** *
416928 CATTTTCGAGGGTATACTCCAGCCCCATTTTTACTTCTAAAATA-TTGAA-TTTCATCTTTGGGG
1 CATTTCCGAGGGGATACTCCAACCCTATTATTACTTCTAAAACACTAAAATTTTCATCTTAGGGG
*
416991 ATACTCCAACCCCAC
66 ATACTCCAACCTCAC
* * * * * * * *
417006 CGTTTCTGAAGGGCTACTTCAACCCCATT-TCTACTTTTAAAACACCAAAATTTTCAGTCTTAGG
1 CATTTCCGAGGGGATACTCCAACCCTATTAT-TACTTCTAAAACACTAAAATTTTCA-TCTTAGG
417070 GGATACTCCAACCTCAC
64 GGATACTCCAACCTCAC
* * ** * * *
417087 CATTTCCGAGGGGATACTCCAACCCTATTTTTATTTCCCAAACA-TCAAAATTTTCACCTCAAGG
1 CATTTCCGAGGGGATACTCCAACCCTATTATTACTTCTAAAACACT-AAAATTTTCATCTTAGGG
*
417151 GATACTTCAA-CTCCAC
65 GATACTCCAACCT-CAC
** * * *
417167 CATTTTTGAGGGGATACTCCAACCTTGTTATTACTTCTAAAACACTAAAATTTTGATCTTAGGGG
1 CATTTCCGAGGGGATACTCCAACCCTATTATTACTTCTAAAACACTAAAATTTTCATCTTAGGGG
*
417232 ATACTCTAACC
66 ATACTCCAACC
417243 CTATGTTTAC
Statistics
Matches: 246, Mismatches: 57, Indels: 24
0.75 0.17 0.07
Matches are distributed among these distances:
77 2 0.01
78 53 0.22
79 6 0.02
80 82 0.33
81 100 0.41
82 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (80 bp):
CATTTCCGAGGGGATACTCCAACCCTATTATTACTTCTAAAACACTAAAATTTTCATCTTAGGGG
ATACTCCAACCTCAC
Found at i:417253 original size:52 final size:54
Alignment explanation
Indices: 417175--417297 Score: 182
Period size: 52 Copynumber: 2.4 Consensus size: 54
417165 ACCATTTTTG
* * *
417175 AGGGGATACTCCAA-CCT-TGTTATTACTTCTAAAACACTAAAATTTTGATCTT
1 AGGGGATACTCCAACCCTATGTTATTACTTCTAAAACACCAAAATTTTCATCTC
*
417227 AGGGGATACTCTAACCCTATG-T-TTACTTCTAAAACACCAAAATTTTCATCTC
1 AGGGGATACTCCAACCCTATGTTATTACTTCTAAAACACCAAAATTTTCATCTC
417279 AGGGGATACTCCAACCCTA
1 AGGGGATACTCCAACCCTA
417298 CCATTTTCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
52 58 0.91
53 4 0.06
54 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (54 bp):
AGGGGATACTCCAACCCTATGTTATTACTTCTAAAACACCAAAATTTTCATCTC
Found at i:417269 original size:132 final size:132
Alignment explanation
Indices: 417095--417374 Score: 373
Period size: 132 Copynumber: 2.1 Consensus size: 132
417085 ACCATTTCCG
* * * * *
417095 AGGGGATACTCCAACCCTATTTTTATTTCCCAAACATCAAAATTTTCACCTCAAGGGATACTTCA
1 AGGGGATACTCCAACCCTATGTTTACTTCCAAAACACCAAAATTTTCACCTCAAGGGATACTCCA
* * * * *
417160 ACTCC-ACCATTTTTGAGGGGATACTCCAACCTTGTTATTACTTCTAAAACACTAAAATTTTGAT
66 AC-CCTACCATTTTCGAAGGGATACTCCAAACTCGTTATTACTTCTAAAACACTAAAATTTTCAT
*
417224 CTT
130 CTC
* * * *
417227 AGGGGATACTCTAACCCTATGTTTACTTCTAAAACACCAAAATTTTCATCTCAGGGGATACTCCA
1 AGGGGATACTCCAACCCTATGTTTACTTCCAAAACACCAAAATTTTCACCTCAAGGGATACTCCA
* *
417292 ACCCTACCATTTTCGAAGGGATACTCCAAACTCGTTTTTACTTCTAAAACATTAAAATTTTCATC
66 ACCCTACCATTTTCGAAGGGATACTCCAAACTCGTTATTACTTCTAAAACACTAAAATTTTCATC
417357 TC
131 TC
* *
417359 AAGGGATATTCCAACC
1 AGGGGATACTCCAACC
417375 TCACAATTTT
Statistics
Matches: 127, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
131 2 0.02
132 125 0.98
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (132 bp):
AGGGGATACTCCAACCCTATGTTTACTTCCAAAACACCAAAATTTTCACCTCAAGGGATACTCCA
ACCCTACCATTTTCGAAGGGATACTCCAAACTCGTTATTACTTCTAAAACACTAAAATTTTCATC
TC
Found at i:417365 original size:80 final size:80
Alignment explanation
Indices: 417248--417415 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 80
417238 TAACCCTATG
* *
417248 TTTACTTCTAAAACACCAAAATTTTCATCTCAGGGGATACTCCAACC-CTACCATTTTCGAAGGG
1 TTTACTTCTAAAACACCAAAATTTTCATCTCAAGGGATACTCCAACCTC-ACAATTTTCGAAGGG
*
417312 ATACTCCAAACTCGTT
65 ATACTCCAAACCCGTT
** * ** *
417328 TTTACTTCTAAAACATTAAAATTTTCATCTCAAGGGATATTCCAACCTCACAATTTTTTAGGGGA
1 TTTACTTCTAAAACACCAAAATTTTCATCTCAAGGGATACTCCAACCTCACAATTTTCGAAGGGA
* *
417393 TACTCTAACCCCGTT
66 TACTCCAAACCCGTT
417408 TTTACTTC
1 TTTACTTC
417416 CAAACATCGT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
80 75 0.99
81 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (80 bp):
TTTACTTCTAAAACACCAAAATTTTCATCTCAAGGGATACTCCAACCTCACAATTTTCGAAGGGA
TACTCCAAACCCGTT
Found at i:418535 original size:3 final size:3
Alignment explanation
Indices: 418527--418583 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
418517 CATTCTACTG
* *
418527 TTA TTA TTA TTA GTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
418575 TTA TTA TTA
1 TTA TTA TTA
418584 GTAGTGGTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:418588 original size:3 final size:3
Alignment explanation
Indices: 418582--418633 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
418572 TTATTATTAT
* * *
418582 TAG TAG TGG TAG TAG TAG AAG TAG TAG TAG TAG TAG TAG TAG TAG CAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
418630 TAG T
1 TAG T
418634 TTGGCATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.35, T:0.31
Consensus pattern (3 bp):
TAG
Found at i:419740 original size:32 final size:33
Alignment explanation
Indices: 419699--419766 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
419689 CCTTAACTGT
*
419699 TTGTATCGATACA-CACAAGATGTATAGATACA
1 TTGTATCGATACATCACAAAATGTATAGATACA
* *
419731 TTGTATCGATACATCGCAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATAGATACA
419764 TTG
1 TTG
419767 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATAGATACA
Found at i:425684 original size:8 final size:8
Alignment explanation
Indices: 425671--425701 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
425661 ATTTGATTAA
425671 ATTTTGTG
1 ATTTTGTG
425679 ATTTTGTG
1 ATTTTGTG
425687 ATTTTGTG
1 ATTTTGTG
425695 ATATTTG
1 AT-TTTG
425702 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:425919 original size:13 final size:13
Alignment explanation
Indices: 425901--425936 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
425891 GCATTCTCTG
*
425901 TATCGATACATTA
1 TATCGATACAGTA
*
425914 TATCGATACAGTG
1 TATCGATACAGTA
425927 TATCGATACA
1 TATCGATACA
425937 AAGGGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTA
Found at i:430146 original size:13 final size:13
Alignment explanation
Indices: 430128--430158 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
430118 ACATTTGGTC
430128 ATGTATCGATACA
1 ATGTATCGATACA
430141 ATGTATCGATACA
1 ATGTATCGATACA
430154 ATGTA
1 ATGTA
430159 ATCTGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:430167 original size:20 final size:20
Alignment explanation
Indices: 430142--430192 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
430132 ATCGATACAA
430142 TGTATCGATACAATGT-AATC
1 TGTATCGATAC-ATGTAAATC
* *
430162 TGTATCGATACATTTAAATG
1 TGTATCGATACATGTAAATC
430182 TGTATCGATAC
1 TGTATCGATAC
430193 TTTTAAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGTAAATC
Found at i:431311 original size:26 final size:26
Alignment explanation
Indices: 431275--431326 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
431265 ATTGATTCAA
*
431275 ATAAGTATGGTGATATGGAGTAAAAC
1 ATAAGTATGGTAATATGGAGTAAAAC
431301 ATAAGTATGGTAATATGGAGTAAAAC
1 ATAAGTATGGTAATATGGAGTAAAAC
431327 CAAGGATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (26 bp):
ATAAGTATGGTAATATGGAGTAAAAC
Found at i:436112 original size:30 final size:30
Alignment explanation
Indices: 435984--436323 Score: 182
Period size: 29 Copynumber: 11.4 Consensus size: 30
435974 TCAAACTTAG
*
435984 TGGCACCCTTTT-TAAAGCCCACAACTCCA
1 TGGCACCCTTTTCTAAAGTCCACAACTCCA
* *
436013 TGGCACCCTTTTC-AAAGTCCACAATTTCA
1 TGGCACCCTTTTCTAAAGTCCACAACTCCA
** * **
436042 TGGCA-TATTTT-TTAAGTCCACAACTCTG
1 TGGCACCCTTTTCTAAAGTCCACAACTCCA
* * * *
436070 TTGCATCTTTTTCAAAAGTCCACAACTCCA
1 TGGCACCCTTTTCTAAAGTCCACAACTCCA
**
436100 TGGCACCCTTTTCTAAAAGTCCATGACT-CA
1 TGGCACCCTTTTCT-AAAGTCCACAACTCCA
* * *
436130 GTGGCATTCC-TTCCTAAAGTCCACAACTCAA
1 -TGGCA-CCCTTTTCTAAAGTCCACAACTCCA
*
436161 TGGCATCCCTTTTC-AAAGTCCACGACT-CA
1 TGGCA-CCCTTTTCTAAAGTCCACAACTCCA
* * ** *
436190 GTGGCATCCTTCTC-AAAGTCCATGACT-TA
1 -TGGCACCCTTTTCTAAAGTCCACAACTCCA
* * * *
436219 GTGGCATCCTTCTC-AAAGTCCACGACT-TA
1 -TGGCACCCTTTTCTAAAGTCCACAACTCCA
* ** * **
436248 GTGGCATCCATTCCCTAATGTCCACAACTCTG
1 -TGGCA-CCCTTTTCTAAAGTCCACAACTCCA
* * *
436280 TGGCACCCTTTCTTTAAAGTCCATAACTCCG
1 TGGCACCCTTT-TCTAAAGTCCACAACTCCA
*
436311 TAGCACCCTTTTC
1 TGGCACCCTTTTC
436324 AAATGCCTTT
Statistics
Matches: 245, Mismatches: 52, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
28 19 0.08
29 88 0.36
30 71 0.29
31 64 0.26
32 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.30
Consensus pattern (30 bp):
TGGCACCCTTTTCTAAAGTCCACAACTCCA
Found at i:436253 original size:58 final size:59
Alignment explanation
Indices: 436084--436277 Score: 223
Period size: 60 Copynumber: 3.2 Consensus size: 59
436074 ATCTTTTTCA
* * *
436084 AAAGTCCACAACTCCATGGCA-CCCTTTTCTAAAAGTCCATGACTCAGTGGCATTCCTTCCT
1 AAAGTCCACAACTCAATGGCATCCC--TTCTCAAAGTCCACGACTCAGTGGCA-TCCTTCCT
*
436145 AAAGTCCACAACTCAATGGCATCCCTTTTCAAAGTCCACGACTCAGTGGCATCCTT-CT
1 AAAGTCCACAACTCAATGGCATCCCTTCTCAAAGTCCACGACTCAGTGGCATCCTTCCT
** * * *
436203 CAAAGTCCATGACTTAGTGGCAT-CCTTCTCAAAGTCCACGACTTAGTGGCATCCATTCCCT
1 -AAAGTCCACAACTCAATGGCATCCCTTCTCAAAGTCCACGACTCAGTGGCATCC-TT-CCT
*
436264 AATGTCCACAACTC
1 AAAGTCCACAACTC
436278 TGTGGCACCC
Statistics
Matches: 114, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
58 31 0.27
59 25 0.22
60 33 0.29
61 22 0.19
62 3 0.03
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (59 bp):
AAAGTCCACAACTCAATGGCATCCCTTCTCAAAGTCCACGACTCAGTGGCATCCTTCCT
Found at i:436271 original size:89 final size:90
Alignment explanation
Indices: 436084--436308 Score: 251
Period size: 89 Copynumber: 2.5 Consensus size: 90
436074 ATCTTTTTCA
436084 AAAGTCCACAACTCCA-TGGCACCCTTTTCTAAAAGTCCATGACTCAGTGGCATTCCTTCCTAAA
1 AAAGTCCACAACT-CAGTGGCACCC-TTTCTAAAAGTCCATGACTCAGTGGCATTCCTTCCTAAA
* **
436148 GTCCACAACTCAATGGCATCCCTTTTC
64 GTCCACAACTCAATGGCATCCATTCCC
* * * *
436175 AAAGTCCACGACTCAGTGGCATCC-TTCTCAAAGTCCATGACTTAGTGGCA-TCCTT-CTCAAAG
1 AAAGTCCACAACTCAGTGGCACCCTTTCTAAAAGTCCATGACTCAGTGGCATTCCTTCCT-AAAG
* * *
436237 TCCACGACTTAGTGGCATCCATTCCC
65 TCCACAACTCAATGGCATCCATTCCC
* * * *
436263 TAATGTCCACAACTCTGTGGCACCCTTTCTTTAAAGTCCATAACTC
1 -AAAGTCCACAACTCAGTGGCACCCTTTC-TAAAAGTCCATGACTC
436309 CGTAGCACCC
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
87 2 0.02
88 29 0.26
89 44 0.39
90 5 0.04
91 32 0.29
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (90 bp):
AAAGTCCACAACTCAGTGGCACCCTTTCTAAAAGTCCATGACTCAGTGGCATTCCTTCCTAAAGT
CCACAACTCAATGGCATCCATTCCC
Found at i:436501 original size:61 final size:62
Alignment explanation
Indices: 436328--437051 Score: 696
Period size: 62 Copynumber: 11.6 Consensus size: 62
436318 CTTTTCAAAT
* * * *
436328 GCCTTTTTCTTTTCTAAA-CCCTACACATGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGAT
1 GCCTTTTTCTTTT-TAAAGCCC-ACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
* *
436391 GCCTTTATTTTTTCCTTTTTAAAGCTCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAG
1 GCC-----TTTTT-CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAG
436456 GAC
60 GAC
* * * * *
436459 GCCTGTTT-TTTTTAAA-CCTTACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGAC
1 GCCTTTTTCTTTTTAAAGCC-CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
* * * * * * *
436520 -TCATTTTCTTTTTAAAGCCCACATAAGTTAGTGGCACATTTTAGTCCTTAAAGAGTAGAAC
1 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
*
436581 GCTTTTCTTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGA
1 GC----CTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGA
*
436646 A
62 C
* * * * *
436647 GCTTTTTTTTCCTTTTAAAGCCCACACAGGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGAT
1 GC--CTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
* * * * *
436711 GCC--TTT-TTTTTAAAGCCCACACTAGTTGGTGGCATCTTTTAGTCCTCAAAAAGCAGGGC
1 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
* * ** * *
436770 ACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTCGTCCTTGAAGAGTAAGAT
1 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
** * ** * * * *
436832 GCC--TTT-TTTTT-AAGCCCACGTATGTTGGTGGCATATTTTAATCCTCAAAAAGTTGGAA
1 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
* * * * * *
436890 GCCTTTTTCTTTTAAAAGCCTACCCAAGTTGGTAGCACCGTTTAGTCCTCAAAGAGTAAGAC
1 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
* * * * ** * * *
436952 ACATTTTTCTTTTTAAAGCTCACACAAGTTAGTGATACCTTTTAGTCCTCAAAAAGAAGGAT
1 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
437014 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
437052 TTCCTTTTTC
Statistics
Matches: 531, Mismatches: 108, Indels: 45
0.78 0.16 0.07
Matches are distributed among these distances:
58 37 0.07
59 51 0.10
60 14 0.03
61 95 0.18
62 160 0.30
63 7 0.01
64 58 0.11
66 54 0.10
68 48 0.09
69 7 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (62 bp):
GCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
Found at i:436895 original size:120 final size:121
Alignment explanation
Indices: 436399--437207 Score: 646
Period size: 120 Copynumber: 6.4 Consensus size: 121
436389 ATGCCTTTAT
* * * *
436399 TTTTTCCTTTTTAAAGCTCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTG
1 TTTTT-CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCC--
* * *
436464 TTTTTTTTAAA-CCTTACATAAGTTGGTGGCACCTTTTAGTCCTC--AAAG-AGCAAGACTC
63 TTTTTTTTAAAGCC-CACATAAGTTGGTGGCATCTTTTAGTCCTCAAAAAGAAGGAAG-C-C
* * * *
436522 ATTTTCTTTTTAAAGCCCACATAAGTTAGTGGCACATTTTAGTCCTTAAAGAGT-AGAACGCTTT
1 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAG-ACGC---
* * * * *
436586 TCTTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAAGCTT
62 -C--TTT-TTTTTAAAGCCCACATAAGTTGGTGGCATCTTTTAGTCCTCAAAAAGAAGGAAGC--
*
436651 T
121 C
* * * *
436652 TTTTTCCTTTTAAAGCCCACACAGGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATGCCTTT
1 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTT
* *
436717 TTTTTAAAGCCCACACT-AGTTGGTGGCATCTTTTAGTCCTCAAAAAGCAGGGCA-CC
66 TTTTTAAAGCCCACA-TAAGTTGGTGGCATCTTTTAGTCCTCAAAAAG-AAGGAAGCC
* * *
436773 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTCGTCCTTGAAGAGTAAGATGCCTTT
1 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTT
* * * * **
436838 TTTTT-AAGCCCACGTATGTTGGTGGCATATTTTAATCCTCAAAAAGTTGGAAGCC
66 TTTTTAAAGCCCACATAAGTTGGTGGCATCTTTTAGTCCTCAAAAAGAAGGAAGCC
* * * * * * * *
436893 TTTTTCTTTTAAAAGCCTACCCAAGTTGGTAGCACCGTTTAGTCCTCAAAGAGTAAGACACATTT
1 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGC--CT
* * * ** * *
436958 TTCTTTTTAAAGCTCACACAAGTTAGTGATACCTTTTAGTCCTCAAAAAGAAGGATGCC
64 TT-TTTTTAAAGCCCACATAAGTTGGTGGCATCTTTTAGTCCTCAAAAAGAAGGAAGCC
** **
437017 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTTTTTCTTTTTAAAGCCCACACAAGT
1 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA---CCTTTTAGTCCTTAAAG--------AGT
** ** * * * * *
437082 TGGTGGCACCTTTTTTTAAAGCCTACATAAGTTGGTGTCACCTTTTAG-CCTTCAAAAAGCAGGA
55 AAGACGC-CTTTTTTTTAAAGCCCACATAAGTTGGTGGCATCTTTTAGTCC-TCAAAAAGAAGGA
*
437146 TGCCTTTCC
118 AG-----CC
*
437155 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTTAAAGAG
1 TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAG
437208 CAGGACGTCT
Statistics
Matches: 554, Mismatches: 95, Indels: 70
0.77 0.13 0.10
Matches are distributed among these distances:
119 4 0.01
120 88 0.16
121 66 0.12
122 50 0.09
123 52 0.09
124 73 0.13
126 6 0.01
127 50 0.09
128 2 0.00
129 4 0.01
130 57 0.10
131 1 0.00
132 2 0.00
133 44 0.08
134 2 0.00
135 18 0.03
138 35 0.06
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (121 bp):
TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTT
TTTTTAAAGCCCACATAAGTTGGTGGCATCTTTTAGTCCTCAAAAAGAAGGAAGCC
Done.