Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold290
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: 591627
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 4
Found at i:340717 original size:31 final size:31
Alignment explanation
Indices: 340664--340725 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
340654 TGTCGCTGGC
* *
340664 CTTGAATCAGCACATTCACACCTTTATCATA
1 CTTGAATCAACACATGCACACCTTTATCATA
** *
340695 CTTGAATCAACACATGGGCACCTTTTTCATA
1 CTTGAATCAACACATGCACACCTTTATCATA
340726 TTTATGTCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (31 bp):
CTTGAATCAACACATGCACACCTTTATCATA
Found at i:340789 original size:52 final size:52
Alignment explanation
Indices: 340695--341128 Score: 324
Period size: 52 Copynumber: 8.4 Consensus size: 52
340685 CTTTATCATA
* * * * * * *
340695 CTTGAATCAACACATGGGCACCTTTTTCATATT-TATGTCCAATATCGCTGGC
1 CTTGGATCAACACATTGGCACCTTTATCAT-TTCTAAGACCAATGTCACTGGC
* * * *
340747 CTTGGATCAACACATTCGCACCTTTGTCATTTCTAAGACCAATGCCACTAGC
1 CTTGGATCAACACATTGGCACCTTTATCATTTCTAAGACCAATGTCACTGGC
* * * * * *
340799 CTTCGATCAACACATTGGTACCATTGTCATTTCTAAGACCAATGTCATTGGG
1 CTTGGATCAACACATTGGCACCTTTATCATTTCTAAGACCAATGTCACTGGC
* ** * * * * * ** **
340851 CTTCGATCAGTACATTGGTACCTTTGTCATCTCTAAAACTAATGTTTCTAAC
1 CTTGGATCAACACATTGGCACCTTTATCATTTCTAAGACCAATGTCACTGGC
** * * * * * ***
340903 CTTAAATCAGCATAGTGGCACCCTTATCACCTT-TAAGACCAATGTTGTTGGC
1 CTTGGATCAACACATTGGCACCTTTATCA-TTTCTAAGACCAATGTCACTGGC
* * * ***
340955 CATGGATCAGCACATTGGCACCCTTATCATCTT-TAAGACCAATGTTGTTGGC
1 CTTGGATCAACACATTGGCACCTTTATCAT-TTCTAAGACCAATGTCACTGGC
* * *
341007 CATGGATC-A-GC--TAGCACCTTTATCATTTCTAAGACCAATGTCACTGGC
1 CTTGGATCAACACATTGGCACCTTTATCATTTCTAAGACCAATGTCACTGGC
* * * *
341055 CTTGGATCAGCACATTGGCACCTTTATCATTTCGAAGGCCAATGTCACTAGC
1 CTTGGATCAACACATTGGCACCTTTATCATTTCTAAGACCAATGTCACTGGC
341107 CTTGGATCAACACATTGGCACC
1 CTTGGATCAACACATTGGCACC
341129 AATAAGGGAT
Statistics
Matches: 307, Mismatches: 67, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
47 2 0.01
48 36 0.12
50 2 0.01
51 2 0.01
52 264 0.86
53 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (52 bp):
CTTGGATCAACACATTGGCACCTTTATCATTTCTAAGACCAATGTCACTGGC
Found at i:340813 original size:135 final size:135
Alignment explanation
Indices: 340570--340814 Score: 339
Period size: 135 Copynumber: 1.8 Consensus size: 135
340560 ATGGATCAGC
* * * * *
340570 CACATTGGCACCTTTATCATATTTAAGTCTAATATCGTTGGCCTTAGATCAGCATATTAGCACCT
1 CACATGGGCACCTTTATCATATTTAAGTCCAATATCGCTGGCCTTAGATCAACACATTAGCACCT
* * * * * *
340635 TTGTCATTTCTGAGACTAATGTCGCTGGCCTTGAATCAGCACATTCACACCTTTATCATACTTGA
66 TTGTCATTTCTAAGACCAATGCCACTAGCCTTGAATCAACACATTCACACCTTTATCATACTTGA
340700 ATCAA
131 ATCAA
* * * *
340705 CACATGGGCACCTTTTTCATATTTATGTCCAATATCGCTGGCCTTGGATCAACACATTCGCACCT
1 CACATGGGCACCTTTATCATATTTAAGTCCAATATCGCTGGCCTTAGATCAACACATTAGCACCT
340770 TTGTCATTTCTAAGACCAATGCCACTAGCCTTCG-ATCAACACATT
66 TTGTCATTTCTAAGACCAATGCCACTAGCCTT-GAATCAACACATT
340815 GGTACCATTG
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
135 93 0.99
136 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (135 bp):
CACATGGGCACCTTTATCATATTTAAGTCCAATATCGCTGGCCTTAGATCAACACATTAGCACCT
TTGTCATTTCTAAGACCAATGCCACTAGCCTTGAATCAACACATTCACACCTTTATCATACTTGA
ATCAA
Found at i:343362 original size:23 final size:22
Alignment explanation
Indices: 343336--343384 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
343326 AAATACTTAT
*
343336 AATTACATATCTTTTCTTTCTCA
1 AATT-CATAGCTTTTCTTTCTCA
**
343359 AATTGGTAGCTTTTCTTTCTCA
1 AATTCATAGCTTTTCTTTCTCA
343381 AATT
1 AATT
343385 GAACCTAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.51
Consensus pattern (22 bp):
AATTCATAGCTTTTCTTTCTCA
Found at i:347663 original size:22 final size:22
Alignment explanation
Indices: 347620--347663 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
347610 AATATTCATA
*
347620 TTTAGAATATTTTTTAGACAAG
1 TTTAGAATATTTTTAAGACAAG
*
347642 TTTA-AATGATTTTTAAGCCAAG
1 TTTAGAAT-ATTTTTAAGACAAG
347664 AAAAATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (22 bp):
TTTAGAATATTTTTAAGACAAG
Found at i:347769 original size:20 final size:21
Alignment explanation
Indices: 347744--347796 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
347734 AGCCCTCATT
347744 TGTATCGATACATATCA-A-AA
1 TGTATCGATACATA-CACACAA
347764 TGTATCGATACA-ACACACAA
1 TGTATCGATACATACACACAA
347784 TGTATCGATACAT
1 TGTATCGATACAT
347797 TACATGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 26 0.87
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATACACACAA
Found at i:347907 original size:112 final size:112
Alignment explanation
Indices: 347689--347908 Score: 323
Period size: 112 Copynumber: 2.0 Consensus size: 112
347679 AGTTTAGGAT
* * *
347689 TGAATGTATTGATACATCTACTGGAAGTAGCTAAAGAAATCCTGAAGCCCTCATTTGTATCGATA
1 TGAATGTATTAACACATCTACTGGAAGTAGCTAAAGAAATCCTGAAACCCTCATTTGTATCGATA
* * *
347754 CATATCAAAATGTATCGATACAACACACAATGTATCGATACATTACA
66 CATATCAAAATGCATCGATACAACACACAATATATCAATACATTACA
* * *
347801 TGAATGTATTAACACATCTATTGGTAGTAGCTAAAGAAATCTTGAAACCCTCATTTGTATCGATA
1 TGAATGTATTAACACATCTACTGGAAGTAGCTAAAGAAATCCTGAAACCCTCATTTGTATCGATA
* * * *
347866 CATATCAAAGTGCATCGATACAATACATACTATATCAATACAT
66 CATATCAAAATGCATCGATACAACACACAATATATCAATACAT
347909 CTAAAAATGT
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 95 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (112 bp):
TGAATGTATTAACACATCTACTGGAAGTAGCTAAAGAAATCCTGAAACCCTCATTTGTATCGATA
CATATCAAAATGCATCGATACAACACACAATATATCAATACATTACA
Found at i:348544 original size:20 final size:20
Alignment explanation
Indices: 348519--348556 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
348509 AACCTCTATC
348519 TATCACTTGTTTATTATTCT
1 TATCACTTGTTTATTATTCT
348539 TATCACTTGTTTATTATT
1 TATCACTTGTTTATTATT
348557 ATTTTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.13, G:0.05, T:0.61
Consensus pattern (20 bp):
TATCACTTGTTTATTATTCT
Found at i:349822 original size:158 final size:156
Alignment explanation
Indices: 349348--349827 Score: 387
Period size: 158 Copynumber: 3.0 Consensus size: 156
349338 TTTGTCATTA
* * * * * * *
349348 GGATAAACAATATTGATGATTTGCTTTCGTAGGGAAATCTTTTCTTTGCCCCATTTTTCTTACAA
1 GGATACACAACATTGATGCTTTGC-TTCGTAAGAAAAT-TTTTCTTTGCCCCATTTTCCTTAAAA
* * * * *
349413 TCAAAATTCATCCCTAAAATG-GATAAGCATAGACTTTCATAACAGTCTCCATTCTTTTCAAGAC
64 TCAAAATTCATCCCTAAAATGAGACAAACATAGATTTTCATAACAGTCTCCATTCTTTTTAAGAT
* * **
349477 TGGGAACCAAAAACACATTTCCTTCAGTG
129 TAGGAACTAAAAACACA-TTCCTTCTTTG
* ** * * * * ** *
349506 GGACACATGACATTGAAGCTTCAG-TGTCATAAGAAAAATTTTTC-TT-CCACTATTTTCAATAG
1 GGATACACAACATTGATGCTT-TGCT-TCGTAAG-AAAATTTTTCTTTGCC-CCATTTTCCTTAA
* * * * * * * * **
349568 AATCAAAATTCATCCCTCAAATAAGACAAACATTGATTGTCGTAGCAATCTCCA-TCTTTTCACT
62 AATCAAAATTCATCCCTAAAATGAGACAAACATAGATTTTCATAACAGTCTCCATTCTTTTTAAG
* * * * *
349632 ATTTGGAACTACATACCCATT-TTTCTCATTG
127 ATTAGGAACTAAAAACACATTCCTTCT--TTG
349663 GGATACACAACATTGATGCTTTGGCTTCGTAAGAAAACTTTTTCTTTGCCCCATTTTCCTTAAAA
1 GGATACACAACATTGATGCTTT-GCTTCGTAAGAAAA-TTTTTCTTTGCCCCATTTTCCTTAAAA
* * * * * * *
349728 TCAAATTTCATCTCTTAAATGAGACAAACATGGATTTTCATAATAGTTTCCATTCTTTTTGAGAT
64 TCAAAATTCATCCCTAAAATGAGACAAACATAGATTTTCATAACAGTCTCCATTCTTTTTAAGAT
349793 TAGGAACTAAAAACACATTCCTTCTTTG
129 TAGGAACTAAAAACACATTCCTTCTTTG
349821 GGATACA
1 GGATACA
349828 TGGCACTGAT
Statistics
Matches: 241, Mismatches: 67, Indels: 28
0.72 0.20 0.08
Matches are distributed among these distances:
155 3 0.01
156 8 0.03
157 85 0.35
158 111 0.46
159 30 0.12
160 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (156 bp):
GGATACACAACATTGATGCTTTGCTTCGTAAGAAAATTTTTCTTTGCCCCATTTTCCTTAAAATC
AAAATTCATCCCTAAAATGAGACAAACATAGATTTTCATAACAGTCTCCATTCTTTTTAAGATTA
GGAACTAAAAACACATTCCTTCTTTG
Found at i:349838 original size:158 final size:158
Alignment explanation
Indices: 349382--350188 Score: 435
Period size: 157 Copynumber: 5.1 Consensus size: 158
349372 TTTCGTAGGG
* * * *
349382 AAATCTTTTCTTTGCCCCATTTTTCTTACAATCAAAATTCATCCCTAAAATG-GATAAGCATAGA
1 AAAT-TTTTCTTTGCCCCATTTTCCTTAAAATCAAAATTCATCCCTAAAATGAGACAAACATAGA
* * * * * ** *
349446 CTTTCATAACAGTCTCCATTCTTTTCAAGACTGGGAACCAAAAACACATTTCCTTCAGTGGGACA
65 TTTTCATAACAGTCTCCATTCTTTTTAAGATTAGGAACTAAAAACACA-TTCCTTCTTTGGGATA
* **
349511 CATGACATTGAAGCTTCAGTGTCATAAGAA
129 CATGACATTGATGCTTTGGTGTCATAAGAA
* ** * * * *
349541 AAATTTTTC-TT-CCACTATTTTCAATAGAATCAAAATTCATCCCTCAAATAAGACAAACATTGA
1 AAATTTTTCTTTGCC-CCATTTTCCTTAAAATCAAAATTCATCCCTAAAATGAGACAAACATAGA
* * * * * ** * * * * *
349604 TTGTCGTAGCAATCTCCA-TCTTTTCACTATTTGGAACTACATACCCATT-TTTCTCATTGGGAT
65 TTTTCATAACAGTCTCCATTCTTTTTAAGATTAGGAACTAAAAACACATTCCTTCT--TTGGGAT
** *
349667 ACACAACATTGATGCTTTGGCT-TCGTAAGAA
128 ACATGACATTGATGCTTTGG-TGTCATAAGAA
* * * * *
349698 AACTTTTTCTTTGCCCCATTTTCCTTAAAATCAAATTTCATCTCTTAAATGAGACAAACATGGAT
1 AAATTTTTCTTTGCCCCATTTTCCTTAAAATCAAAATTCATCCCTAAAATGAGACAAACATAGAT
* * *
349763 TTTCATAATAGTTTCCATTCTTTTTGAGATTAGGAACTAAAAACACATTCCTTCTTTGGGATACA
66 TTTCATAACAGTCTCCATTCTTTTTAAGATTAGGAACTAAAAACACATTCCTTCTTTGGGATACA
* * *
349828 TGGCACTGATGCTTTGGTGTCACAAG--
131 TGACATTGATGCTTTGGTGTCATAAGAA
** ** * * * ** * *
349854 ---TTTTTCTTT-CTATCATTTTCGATAGAATCAAAGTTCATCCTTCTAAGGAGACAAACATGGA
1 AAATTTTTCTTTGC-CCCATTTTCCTTAAAATCAAAATTCATCCCTAAAATGAGACAAACATAGA
* * * **** ** * * * * ** * ** *
349915 TTGTCGTAACCA-TCTCC-GTCTACACATTATTAGGCACCATAAATATGTTCTCCTCACTAGG-T
65 TTTTCATAA-CAGTCTCCATTCTTTTTAAGATTAGGAACTAAAAACACATTC-CTTCTTTGGGAT
* * * *
349977 ACATGATATTAATGCTTTGACT-TCGTAAGAA
128 ACATGACATTGATGCTTTG-GTGTCATAAGAA
** * * * * *
350008 AAGCTTTTCTTTGACCCATTTTCCTTAAAATCAAAGTTCATCCATTAAATGAGACAAACATGGAT
1 AAATTTTTCTTTGCCCCATTTTCCTTAAAATCAAAATTCATCCCTAAAATGAGACAAACATAGAT
** * * * * ** * * *
350073 TCTT-ATAGTAGTCTCCATTCTTTTCAATATTGGGAGCTAAAAACATGTTCCCATCATTAGGATA
66 T-TTCATAACAGTCTCCATTCTTTTTAAGATTAGGAACTAAAAACACATT-CCTTCTTTGGGATA
* *
350137 CATGACATTGATGCTTTGGTGTTACAAGAA
129 CATGACATTGATGCTTTGGTGTCATAAGAA
* *
350167 AAACTTCTCTTT-CCACCATTTT
1 AAATTTTTCTTTGCC-CCATTTT
350189 TGATGGAATC
Statistics
Matches: 480, Mismatches: 141, Indels: 54
0.71 0.21 0.08
Matches are distributed among these distances:
152 41 0.09
153 66 0.14
154 1 0.00
155 3 0.01
156 5 0.01
157 147 0.31
158 142 0.30
159 71 0.15
160 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (158 bp):
AAATTTTTCTTTGCCCCATTTTCCTTAAAATCAAAATTCATCCCTAAAATGAGACAAACATAGAT
TTTCATAACAGTCTCCATTCTTTTTAAGATTAGGAACTAAAAACACATTCCTTCTTTGGGATACA
TGACATTGATGCTTTGGTGTCATAAGAA
Found at i:350199 original size:159 final size:155
Alignment explanation
Indices: 349726--350526 Score: 420
Period size: 159 Copynumber: 5.1 Consensus size: 155
349716 TTTTCCTTAA
* * * * * ** *
349726 AATCAAATTTCATCTCTTAAATGAGACAAACATGGATTTTCATAATAGTTTCCATTCTTTTTGAG
1 AATCAAAGTTCATC-CTTAAATGAGACAAAAATGGATTCTCATAATAATCTCCATTCTTTTCAAT
* * ** * * * * * *
349791 ATTAGGAACTAAAAACACATTCCTTCTTTGGGATACATGGCACTGATGCTTTGGTG-T-C---AC
65 ATT-GGGACCAAAAACATGTTCCCTCATT-AGATACATGACATTGATGCTTTGGTGTTGCAAGAA
** * * * *
349851 AAGTTTTTCTTTCTATCATTTTCGATAG
128 AAACTTCTCTTTCCACCATTTTTGATAG
* * * * * ** * *** *
349879 AATCAAAGTTCATCCTTCTAAGGAGACAAACATGGATTGTCGTAACCATCTCC-GTCTACACATT
1 AATCAAAGTTCATCCTT-AAATGAGACAAAAATGGATTCTCATAATAATCTCCATTCTTTTCAAT
* * * * * * * * * *
349943 ATTAGGCACCATAAATATGTTCTCCTCACTAGGTACATGATATTAATGCTTTGACT-TCGTAAGA
65 ATT-GGGACCAAAAACATGTTC-CCTCATTAGATACATGACATTGATGCTTTG-GTGTTGCAAGA
* * * *** *
350007 AAAGCTTTTCTTT-GACCCATTTTCCTTAA
127 AAAACTTCTCTTTCCA-CCATTTTTGATAG
* * * *
350036 AATCAAAGTTCATCCATTAAATGAGACAAACATGGATTCTTATAGTAGTCTCCATTCTTTTCAAT
1 AATCAAAGTTCATCC-TTAAATGAGACAAAAATGGATTCTCATAATAATCTCCATTCTTTTCAAT
* *
350101 ATTGGGAGCTAAAAACATGTTCCCATCATTAGGATACATGACATTGATGCTTTGGTGTTACAAGA
65 ATTGGGA-CCAAAAACATGTTCCC-TCATTA-GATACATGACATTGATGCTTTGGTGTTGCAAGA
*
350166 AAAACTTCTCTTTCCACCATTTTTGATGG
127 AAAACTTCTCTTTCCACCATTTTTGATAG
* * ** ** * *
350195 AATCAAAGTTTATCCTTCAAATGACATGAATTTGGATTATCATAATAATCTCCA-CCTTTTC-AT
1 AATCAAAGTTCATCCTT-AAATGAGACAAAAATGGATTCTCATAATAATCTCCATTCTTTTCAAT
* * * *
350258 GATTGGGCACCATAAACACGTTTTCCTCA-T---TA-AT---ATTGATGCTTTGGCT-TTGGAAG
65 -ATTGGG-ACCAAAAACATG-TTCCCTCATTAGATACATGACATTGATGCTTTGG-TGTTGCAAG
* * * *** *
350314 AAAAGCTTTTCTTT-GACTCATTTTCCTTAA
126 AAAAACTTCTCTTTCCAC-CATTTTTGATAG
* * *
350344 AATCAAAGTTCATCCCTCAAATGAGACAAAAATGGATTCTCGTAATAATCTCCATTCTTTTCAAG
1 AATCAAAGTTCAT-CCTTAAATGAGACAAAAATGGATTCTCATAATAATCTCCATTCTTTTCAAT
* * * * * *
350409 ATTAAGAACCAGAAACATGTTCCGTTCTTTAAGATACATGACATTGATGCTTTAGTAG-TGCAAG
65 ATT-GGGACCAAAAACATGTTCC-CTCATT-AGATACATGACATTGATGCTTTGGT-GTTGCAAG
*
350473 AAAAACTTCTCTTTCCACTATTTTTGATAG
126 AAAAACTTCTCTTTCCACCATTTTTGATAG
* *
350503 AATCAAAGTTTATCTTTCAAATGA
1 AATCAAAGTTCATCCTT-AAATGA
350527 CATGAATTTG
Statistics
Matches: 476, Mismatches: 132, Indels: 74
0.70 0.19 0.11
Matches are distributed among these distances:
148 2 0.00
149 81 0.17
150 25 0.05
151 3 0.01
152 41 0.09
153 47 0.10
155 2 0.00
156 3 0.01
157 70 0.15
158 56 0.12
159 143 0.30
160 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (155 bp):
AATCAAAGTTCATCCTTAAATGAGACAAAAATGGATTCTCATAATAATCTCCATTCTTTTCAATA
TTGGGACCAAAAACATGTTCCCTCATTAGATACATGACATTGATGCTTTGGTGTTGCAAGAAAAA
CTTCTCTTTCCACCATTTTTGATAG
Found at i:350352 original size:308 final size:308
Alignment explanation
Indices: 349674--350688 Score: 1079
Period size: 308 Copynumber: 3.3 Consensus size: 308
349664 GATACACAAC
* * * *
349674 ATTGATGCTTTGGCTTCGTAAGAAAA-CTTTTTCTTTGCCCCATTTTCCTTAAAATCAAATTTCA
1 ATTGATGCTTTGACTTCGGAAGAAAAGC-TTTTCTTTGACCCATTTTCCTTAAAATCAAAGTTCA
* * **
349738 TCTC-TTAAATGAGACAAACATGGATT-TTCATAATAGTTTCCATTCTTTTTGAGATTAGGAACT
65 TC-CATCAAATGAGACAAACATGGATTCTT-ATAATAGTCTCCATTCTTTTCAAGATTAGGAACT
** * * * * * *
349801 AAAAACACATT-CCTTCTTTGGGATACATGGCACTGATGCTTTGGTGTCACAAG-----TTTTTC
128 AAAAACATGTTCCCTTCTTTAGGATACATGACATTGATGCTTTGGTGTTACAAGAAAAACTTCTC
* * * * * * * ** ** *
349860 TTTCTATCATTTTCGATAGAATCAAAGTTCATCCTTCTAAGGAGACAAACATGGATTGTCGTAAC
193 TTTCCACCATTTTTGATAGAATCAAAGTTTATCCTTCAAATGACATGAATTTGGATTGTCATAAC
* * *** * * *
349925 CATCTCCGTCTACACATTATTAGGCACCATAAATATGTTCTCCTCACTAGGTACATGAT
258 AATCTCCATCTTTTCATGATTAGGCACCATAAACACGTTCTCCTCA-T---T--A--AT
* *
349984 ATTAATGCTTTGACTTCGTAAGAAAAGCTTTTCTTTGACCCATTTTCCTTAAAATCAAAGTTCAT
1 ATTGATGCTTTGACTTCGGAAGAAAAGCTTTTCTTTGACCCATTTTCCTTAAAATCAAAGTTCAT
* * * * *
350049 CCATTAAATGAGACAAACATGGATTCTTATAGTAGTCTCCATTCTTTTCAATATTGGGAGCTAAA
66 CCATCAAATGAGACAAACATGGATTCTTATAATAGTCTCCATTCTTTTCAAGATTAGGAACTAAA
* *
350114 AACATGTTCCCATCATTAGGATACATGACATTGATGCTTTGGTGTTACAAGAAAAACTTCTCTTT
131 AACATGTTCCCTTCTTTAGGATACATGACATTGATGCTTTGGTGTTACAAGAAAAACTTCTCTTT
* * *
350179 CCACCATTTTTGATGGAATCAAAGTTTATCCTTCAAATGACATGAATTTGGATTATCATAATAAT
196 CCACCATTTTTGATAGAATCAAAGTTTATCCTTCAAATGACATGAATTTGGATTGTCATAACAAT
* * *
350244 CTCCACCTTTTCATGATTGGGCACCATAAACACGTTTTCCTCATTAAT
261 CTCCATCTTTTCATGATTAGGCACCATAAACACGTTCTCCTCATTAAT
* * *
350292 ATTGATGCTTTGGCTTTGGAAGAAAAGCTTTTCTTTGACTCATTTTCCTTAAAATCAAAGTTCAT
1 ATTGATGCTTTGACTTCGGAAGAAAAGCTTTTCTTTGACCCATTTTCCTTAAAATCAAAGTTCAT
* * ** * * * *
350357 CCCTCAAATGAGACAAAAATGGATTCTCGTAATAATCTCCATTCTTTTCAAGATTAAGAACCAGA
66 CCATCAAATGAGACAAACATGGATTCTTATAATAGTCTCCATTCTTTTCAAGATTAGGAACTAAA
* * * *
350422 AACATGTTCCGTTCTTTAAGATACATGACATTGATGCTTTAGTAG-TGCAAGAAAAACTTCTCTT
131 AACATGTTCCCTTCTTTAGGATACATGACATTGATGCTTTGGT-GTTACAAGAAAAACTTCTCTT
* *
350486 TCCACTATTTTTGATAGAATCAAAGTTTATCTTTCAAATGACATGAATTTGGATTGTCATAACAA
195 TCCACCATTTTTGATAGAATCAAAGTTTATCCTTCAAATGACATGAATTTGGATTGTCATAACAA
* * * * *
350551 TCTCTATTTTTTTATGATTAGGCA-TATAAACCAC--TCTCCTCATTGAT
260 TCTCCATCTTTTCATGATTAGGCACCATAAA-CACGTTCTCCTCATTAAT
* * * *
350598 ATTGATGCTTTGAC-TCTGAAGGAAAAGTTTTTCTTTGA-CCTTTTTTCTTAAAATCAAAGTTCA
1 ATTGATGCTTTGACTTCGGAA-GAAAAGCTTTTCTTTGACCCATTTTCCTTAAAATCAAAGTTCA
* * *
350661 TCCATCAAATAAAACAAATATGGATTCT
65 TCCATCAAATGAGACAAACATGGATTCT
350689 AGTATAGTTT
Statistics
Matches: 598, Mismatches: 95, Indels: 29
0.83 0.13 0.04
Matches are distributed among these distances:
305 50 0.08
306 40 0.07
307 5 0.01
308 252 0.42
309 2 0.00
310 119 0.20
311 39 0.07
312 1 0.00
315 1 0.00
316 89 0.15
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (308 bp):
ATTGATGCTTTGACTTCGGAAGAAAAGCTTTTCTTTGACCCATTTTCCTTAAAATCAAAGTTCAT
CCATCAAATGAGACAAACATGGATTCTTATAATAGTCTCCATTCTTTTCAAGATTAGGAACTAAA
AACATGTTCCCTTCTTTAGGATACATGACATTGATGCTTTGGTGTTACAAGAAAAACTTCTCTTT
CCACCATTTTTGATAGAATCAAAGTTTATCCTTCAAATGACATGAATTTGGATTGTCATAACAAT
CTCCATCTTTTCATGATTAGGCACCATAAACACGTTCTCCTCATTAAT
Found at i:352220 original size:29 final size:28
Alignment explanation
Indices: 352166--352235 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
352156 TTCCTATTCA
*
352166 TTGATTTCTCTT-CCTTTATATTTCTTG
1 TTGATTTCACTTCCCTTTATATTTCTTG
*
352193 CTT-ATTTCATTTCCCTTTCATATTTCTTG
1 -TTGATTTCACTTCCCTTT-ATATTTCTTG
352222 TTGATTTCACTTCC
1 TTGATTTCACTTCC
352236 TTGATCTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.19
28 9 0.25
29 20 0.56
ACGTcount: A:0.13, C:0.23, G:0.06, T:0.59
Consensus pattern (28 bp):
TTGATTTCACTTCCCTTTATATTTCTTG
Found at i:362546 original size:52 final size:52
Alignment explanation
Indices: 362450--362871 Score: 263
Period size: 52 Copynumber: 7.8 Consensus size: 52
362440 AACAATAAAC
* * * * * *
362450 ATGCCAATATGCTGATTCAAGGCCAACGATATCGGTCTTAAAGATGACAAAG
1 ATGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAAAG
* * * *
362502 ATACCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTCAAGATGAGAAGAATG
1 ATGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGA-AA-AA-G
* * * ** * *
362557 ATAAAGGTGTCGATATGCTGATTTAAGGCTAGCGGTATTAGACTTAAAGATGACAAAG
1 ----A--TGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAAAG
** * * *
362615 GCGCCAATGTGCTGATTCAAAGCTAGTGACATTGGACTTAAAGATGAAAAGAATG
1 ATGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATG-AAA-AA-G
* * * * *
362670 ATAAAGGTGCCGATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGACAAAG
1 ----A--TGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAAAG
* * * * * * *
362728 GTGTCAATATACTAATTTAAGGCCAGCGACATTGGACTT-AAGAAAGAAAAAG
1 ATGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAG-ATGAAAAAG
* * * * * * **
362780 GTGCTAATATGGTGATTCAAGGCTAGTGATATTAGACTT-AAGAAAAAAAAAG
1 ATGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAG-ATGAAAAAG
*
362832 ATGCCAATATGCTGATTCAAGGCTAGCGACATTAGACTTA
1 ATGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTA
362872 GAAAGAGATG
Statistics
Matches: 283, Mismatches: 67, Indels: 39
0.73 0.17 0.10
Matches are distributed among these distances:
51 3 0.01
52 186 0.66
53 3 0.01
54 4 0.01
55 2 0.01
58 2 0.01
59 5 0.02
60 3 0.01
61 75 0.27
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (52 bp):
ATGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAAAAG
Found at i:362603 original size:113 final size:110
Alignment explanation
Indices: 362456--362871 Score: 425
Period size: 113 Copynumber: 3.8 Consensus size: 110
362446 AAACATGCCA
* ** ** * * *
362456 ATATGCTGATTCAAGGCCAACGATATCGGTCTTAAAGATGACAAAGATACCAATGTGCTGATTCA
1 ATATGCTGATTCAAGGCTAGTGATATTAGACTTAAAGATGACAAAGATGCCAATATGCTGATTCA
*
362521 AGGCTAGTGACATTGGACTTCAAGATGAGAAGAATGATAAAGGTGTCG
66 AGGCTAGCGACATTGGACTT-AAGATGA-AAGAATGATAAAGGTG-CG
* * * ** *
362569 ATATGCTGATTTAAGGCTAGCGGTATTAGACTTAAAGATGACAAAGGCGCCAATGTGCTGATTCA
1 ATATGCTGATTCAAGGCTAGTGATATTAGACTTAAAGATGACAAAGATGCCAATATGCTGATTCA
* *
362634 AAGCTAGTGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGCCG
66 AGGCTAGCGACATTGGACTT-AAGATG-AAAGAATGATAAAGGTG-CG
* * * * * * *
362682 ATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGACAAAGGTGTCAATATACTAATTTA
1 ATATGCTGATTCAAGGCTAGTGATATTAGACTTAAAGATGACAAAGATGCCAATATGCTGATTCA
* *
362747 AGGCCAGCGACATTGGACTT-A-A-GAAAG-A--A-AAAGGTGCTA
66 AGGCTAGCGACATTGGACTTAAGATGAAAGAATGATAAAGGTGC-G
* ** *
362786 ATATGGTGATTCAAGGCTAGTGATATTAGACTT-AAGAAAAAAAAAGATGCCAATATGCTGATTC
1 ATATGCTGATTCAAGGCTAGTGATATTAGACTTAAAG-ATGACAAAGATGCCAATATGCTGATTC
*
362850 AAGGCTAGCGACATTAGACTTA
65 AAGGCTAGCGACATTGGACTTA
362872 GAAAGAGATG
Statistics
Matches: 258, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
103 4 0.02
104 75 0.29
105 1 0.00
107 1 0.00
108 4 0.02
109 1 0.00
110 1 0.00
111 1 0.00
113 169 0.66
114 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (110 bp):
ATATGCTGATTCAAGGCTAGTGATATTAGACTTAAAGATGACAAAGATGCCAATATGCTGATTCA
AGGCTAGCGACATTGGACTTAAGATGAAAGAATGATAAAGGTGCG
Found at i:362607 original size:61 final size:60
Alignment explanation
Indices: 362511--362722 Score: 224
Period size: 61 Copynumber: 3.6 Consensus size: 60
362501 GATACCAATG
* *
362511 TGCTGATTCAAGGCTAGTGACATTGGACTTCAAGATGAGAAGAATGATAAAGGTGTCGATA
1 TGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGA-AAGAATGATAAAGGTGCCGATA
* * ** * * * * *
362572 TGCTGATTTAAGGCTAGCGGTATTAGAC-T-----T-AAAG-ATGACAAAGGCGCCAATG
1 TGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGAAAGAATGATAAAGGTGCCGATA
*
362624 TGCTGATTCAAAGCTAGTGACATTGGACTTAAAGATGAAAAGAATGATAAAGGTGCCGATA
1 TGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATG-AAAGAATGATAAAGGTGCCGATA
* *
362685 TGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGA
1 TGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGA
362723 CAAAGGTGTC
Statistics
Matches: 119, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
52 35 0.29
53 4 0.03
54 1 0.01
55 1 0.01
58 1 0.01
60 6 0.05
61 71 0.60
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (60 bp):
TGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGAAAGAATGATAAAGGTGCCGATA
Found at i:362983 original size:32 final size:32
Alignment explanation
Indices: 362923--363202 Score: 142
Period size: 32 Copynumber: 9.0 Consensus size: 32
362913 CCAATGACAT
* *
362923 TGGGC-TTAGA-AGGAGATGCCACCAACTTGTG
1 TGGGCTTTAGAGAGG-GTTGCCACCGACTTGTG
* * *
362954 CGGGCTTTTGAGAGGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
362986 TGGGATTTAGAG-GTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAG-GGTTGCCACCGACTTGTG
* * *
363018 TAGGCTTTCA-AAAGGGTTGCCACC-AGCTTATG
1 TGGGCTTT-AGAGAGGGTTGCCACCGA-CTTGTG
* * * * * * *
363050 TGGGCTTTAAAAATGGTTACCACC-AGTTTATA
1 TGGGCTTTAGAGAGGGTTGCCACCGA-CTTGTG
* * * * *
363082 TGGGCTTTAAAAAGGGTTACCA-CTAGCTTTTG
1 TGGGCTTTAGAGAGGGTTGCCACCGA-CTTGTG
* *
363114 TGGGCTTTCAAAG-GGGTTGCCACCGAC-T-TA
1 TGGGCTTT-AGAGAGGGTTGCCACCGACTTGTG
* * *
363144 TGGGCCTT-GAAAGGG-TGCCACCAAC-T-TG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
363172 TGGGCTTT-GAGAGGGGTTGCC-CCGACTTGTG
1 TGGGCTTTAGAGA-GGGTTGCCACCGACTTGTG
363203 GGGTTTGAAA
Statistics
Matches: 200, Mismatches: 34, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
28 22 0.11
29 10 0.05
30 13 0.06
31 11 0.05
32 134 0.67
33 10 0.05
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:363034 original size:64 final size:60
Alignment explanation
Indices: 362939--363661 Score: 263
Period size: 57 Copynumber: 12.3 Consensus size: 60
362929 TAGAAGGAGA
* * * * *
362939 TGCCACCAACTTGTGCGGGCTTTTGAGAGGGTTGCCACTGACTTGTGTGGGATTT-AGAGGTGGT
1 TGCCACCGACTTGT--GGGC-TTTAAAAGGGTTGCCACTGACTT-TGTGGGCTTTCAAAGG-GGT
* * **
363003 TGCCACCGACTTGTGTAGGCTTTCAAAAGGGTTGCCAC-CAGCTTATGTGGGCTTTAAAAATGGT
1 TGCCACCGACTTGTG--GGCTTT-AAAAGGGTTGCCACTGA-CTT-TGTGGGCTTTCAAAGGGGT
* ** * *
363067 TACCACCAGTTTATATGGGCTTTAAAAAGGGTTACCACT-AGCTTTTGTGGGCTTTCAAAGGGGT
1 TGCCACC-GACT-TGTGGGCTTT-AAAAGGGTTGCCACTGA-C-TTTGTGGGCTTTCAAAGGGGT
* * * ** * *
363131 TGCCACCGACTTATGGGCCTTGAAAGGG-TGCCACCAAC-TTGTGGGCTTTGAGAGGGGT
1 TGCCACCGACTTGTGGGCTTTAAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
* * * **
363189 TGCC-CCGACTTGTGGGGTTTGAAAA-GG-TGCCACTGAC-TCGTGGGCTTTGAAA-ATG-
1 TGCCACCGACTTGTGGGCTTT-AAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
** * * * ** *
363244 TGCCACTAACTTGT-GGCTTTAAAA-GGATGCCACTAAC-TTGTGGGCTTTAAAAAAGGA
1 TGCCACCGACTTGTGGGCTTTAAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
* ** * * * * * *
363301 TGCCGCTAACTTGTGGGCTTTTGAAA-GGATGCCGCTGAC-TCGTGGGCTTTGAAA--GGA
1 TGCCACCGACTTGTGGGC-TTTAAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
* * *** * *
363358 TGCCACTGACTTGTGGGCTTTTGAAA-CAATGCCATTGAC-TTGTGGGCTTTTGAAA-GGG-
1 TGCCACCGACTTGTGGGC-TTTAAAAGGGTTGCCACTGACTTTGTGGGC-TTTCAAAGGGGT
** * * * * **
363416 TGCCACTAACTCGTGGGCTTTAAAAGAG-TGCCACTAAC-TTGTGGGCTTTGAAA--GAA
1 TGCCACCGACTTGTGGGCTTTAAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
** * * ** * * *
363472 TGCCATTGACTTGTGGGCTTTAAAA-AGATGCTGCTGAC-TTGTGAGCTTTGAAA-GAG-
1 TGCCACCGACTTGTGGGCTTTAAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
* * * *
363528 TGCC-CCAGACTTATGGGCTTTGAAAA-GG-TGCCCCTCAC-TTGTGGGCTTTGAAA-GGG-
1 TGCCACC-GACTTGTGGGCTTT-AAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
* *
363584 TGCC-CCTGACTTGTGGGCTTTGAAGAA-GG-TGCCACTGA-ATTGTGGGCTTTGAAA-GGG-
1 TGCCACC-GACTTGTGGGCTTT-AA-AAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
363641 TGCC-CCTGACTTGTGGGCTTT
1 TGCCACC-GACTTGTGGGCTTT
363662 GAAGAAGGAA
Statistics
Matches: 545, Mismatches: 87, Indels: 61
0.79 0.13 0.09
Matches are distributed among these distances:
54 6 0.01
55 34 0.06
56 122 0.22
57 169 0.31
58 51 0.09
59 32 0.06
60 6 0.01
61 7 0.01
62 10 0.02
63 6 0.01
64 93 0.17
65 6 0.01
66 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (60 bp):
TGCCACCGACTTGTGGGCTTTAAAAGGGTTGCCACTGACTTTGTGGGCTTTCAAAGGGGT
Found at i:363170 original size:28 final size:28
Alignment explanation
Indices: 363111--363664 Score: 518
Period size: 28 Copynumber: 19.5 Consensus size: 28
363101 CCACTAGCTT
* *
363111 TTGTGGGCTTTCAAAGGGGTTGCCACCGAC
1 TTGTGGGCTTTGAAA-GGG-TGCCACTGAC
* * **
363141 TTATGGGCCTTGAAAGGGTGCCACCAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
363169 TTGTGGGCTTTGAGAGGGGTTGCC-CCGAC
1 TTGTGGGCTTTGA-AAGGG-TGCCACTGAC
* *
363198 TTGTGGGGTTTGAAAAGGTGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* ** *
363226 TCGTGGGCTTTGAAAATGTGCCACTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * *
363254 TTGT-GGCTTTAAAAGGATGCCACTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * *
363281 TTGTGGGCTTTAAAAAAGGATGCCGCTAAC
1 TTGTGGGCTTT--GAAAGGGTGCCACTGAC
* *
363311 TTGTGGGCTTTTGAAAGGATGCCGCTGAC
1 TTGTGGGC-TTTGAAAGGGTGCCACTGAC
* *
363340 TCGTGGGCTTTGAAAGGATGCCACTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*** *
363368 TTGTGGGCTTTTGAAACAATGCCATTGAC
1 TTGTGGGC-TTTGAAAGGGTGCCACTGAC
*
363397 TTGTGGGCTTTTGAAAGGGTGCCACTAAC
1 TTGTGGGC-TTTGAAAGGGTGCCACTGAC
* * * *
363426 TCGTGGGCTTTAAAAGAGTGCCACTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
** *
363454 TTGTGGGCTTTGAAAGAATGCCATTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * **
363482 TTGTGGGCTTTAAAAAGATGCTGCTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * *
363510 TTGTGAGCTTTGAAAGAGTGCCCCAGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* * * *
363538 TTATGGGCTTTGAAAAGGTGCCCCTCAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
*
363566 TTGTGGGCTTTGAAAGGGTGCCCCTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
* *
363594 TTGTGGGCTTTGAAGAAGGTGCCACTGAA
1 TTGTGGGCTTTGAA-AGGGTGCCACTGAC
*
363623 TTGTGGGCTTTGAAAGGGTGCCCCTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACTGAC
363651 TTGTGGGCTTTGAA
1 TTGTGGGCTTTGAA
363665 GAAGGAAAAA
Statistics
Matches: 443, Mismatches: 72, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
27 27 0.06
28 255 0.58
29 118 0.27
30 40 0.09
31 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (28 bp):
TTGTGGGCTTTGAAAGGGTGCCACTGAC
Found at i:363232 original size:57 final size:56
Alignment explanation
Indices: 363111--363669 Score: 506
Period size: 57 Copynumber: 9.8 Consensus size: 56
363101 CCACTAGCTT
* * * * **
363111 TTGTGGGCTTTCAAAGGGGTTGCCACCGACTTATGGGCCTTGAAAGGGTGCCACCAAC
1 TTGTGGGCTTTGAAA-GGG-TGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGAC
* *
363169 TTGTGGGCTTTGAGAGGGGTTGCC-CCGACTTGTGGGGTTTGAAAAGGTGCCACTGAC
1 TTGTGGGCTTTGA-AAGGG-TGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGAC
* ** ** *
363226 TCGTGGGCTTTGAAAATGTGCCACTAACTTGT-GGCTTT-AAAAGGATGCCACTAAC
1 TTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAAGG-TGCCACTGAC
* * * ** *
363281 TTGTGGGCTTTAAAAAAGGATGCCGCTAACTTGTGGGCTTTTG-AAAGGATGCCGCTGAC
1 TTGTGGGCTTT--GAAAGGGTGCCACCGACTTGTGGGC-TTTGAAAAGG-TGCCACTGAC
* * * * *
363340 TCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAACA-ATGCCATTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGC-TTTGAAA-AGGTGCCACTGAC
** * *
363397 TTGTGGGCTTTTGAAAGGGTGCCACTAACTCGTGGGCTTT-AAAAGAGTGCCACTAAC
1 TTGTGGGC-TTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAAG-GTGCCACTGAC
** ** * * **
363454 TTGTGGGCTTTGAAAGAATGCCATTGACTTGTGGGCTTTAAAAAGATGCTGCTGAC
1 TTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGAC
* * * * *
363510 TTGTGAGCTTTGAAAGAGTGCC-CCAGACTTATGGGCTTTGAAAAGGTGCCCCTCAC
1 TTGTGGGCTTTGAAAGGGTGCCACC-GACTTGTGGGCTTTGAAAAGGTGCCACTGAC
*
363566 TTGTGGGCTTTGAAAGGGTGCC-CCTGACTTGTGGGCTTTGAAGAAGGTGCCACTGAA
1 TTGTGGGCTTTGAAAGGGTGCCACC-GACTTGTGGGCTTTGAA-AAGGTGCCACTGAC
363623 TTGTGGGCTTTGAAAGGGTGCC-CCTGACTTGTGGGCTTTGAAGAAGG
1 TTGTGGGCTTTGAAAGGGTGCCACC-GACTTGTGGGCTTTGAA-AAGG
363670 AAAAAAAACT
Statistics
Matches: 421, Mismatches: 64, Indels: 33
0.81 0.12 0.06
Matches are distributed among these distances:
54 6 0.01
55 29 0.07
56 128 0.30
57 179 0.43
58 50 0.12
59 29 0.07
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (56 bp):
TTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAAGGTGCCACTGAC
Found at i:364921 original size:16 final size:15
Alignment explanation
Indices: 364902--364946 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
364892 GCCTTTGCAC
*
364902 TTTTTTTCTATTTTTT
1 TTTTTTTCT-TTTTAT
*
364918 TTTTTTTGCTTTTCAT
1 TTTTTTT-CTTTTTAT
364934 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
364947 CTAAAGGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.20
16 18 0.72
17 2 0.08
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTTTTTAT
Found at i:367511 original size:79 final size:77
Alignment explanation
Indices: 367308--367540 Score: 236
Period size: 79 Copynumber: 2.9 Consensus size: 77
367298 ATAGGTCCCG
* * *
367308 ATGAAAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTT
1 ATGAAAAA-TCAATATTTTGGAAATAA-AACGGGGTTGGAGTATCCCCTAG-AAATAACGGGGTT
**
367373 GGAGTAT-CCCGGTT
63 GGAGTATCCCCCATT
* * * * * *
367387 GTGAAAAATCGATGA-TTGGGAAATAAATTCGGGATTAGAGTATCCCCATAGAAATAACGGGGTT
1 ATGAAAAATCAAT-ATTTTGGAAATAAA-ACGGGGTTGGAGTATCCCC-TAGAAATAACGGGGTT
367451 GGAGTATCCCCCATT
63 GGAGTATCCCCCATT
* * * **
367466 ATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTG
1 ATGAAAAATCAATATTTTGGAAATAAA-ACGGGGTTGGAGTATCCCCT-AGAAATAACGGGGTTG
367531 GAGTATCCCC
64 GAGTATCCCC
367541 GATGAAATAA
Statistics
Matches: 126, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
77 1 0.01
78 50 0.40
79 75 0.60
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (77 bp):
ATGAAAAATCAATATTTTGGAAATAAAACGGGGTTGGAGTATCCCCTAGAAATAACGGGGTTGGA
GTATCCCCCATT
Found at i:367551 original size:28 final size:28
Alignment explanation
Indices: 367495--367571 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
367485 GAAATAAAGC
*** **
367495 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
367523 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
367551 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
367572 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:367666 original size:51 final size:52
Alignment explanation
Indices: 367578--367676 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
367568 CGATTGTGAA
* *
367578 AAATTGGTGTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGG
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
* *
367630 AAATTGGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTA
367677 TGATCAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 34 0.79
52 9 0.21
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (52 bp):
AAATTGGTGTTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
Found at i:367686 original size:51 final size:50
Alignment explanation
Indices: 367554--367679 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 50
367544 GAAATAACGA
* * * *
367554 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATG--AAATTGGTGTTTTTGAAAATAAAACCGG
* * *
367606 AGTTAGAGTATCCCCGATTAAAGGAAATTGGTG-TTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAATTGGTGTTTTTGAAAATAAAACCGG
367657 GGTTGGAGTATCCCCGATTATGA
1 GGTTGGAGTATCCCCGATTATGA
367680 TCAATTGAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
49 3 0.05
51 33 0.53
52 25 0.40
54 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAATTGGTGTTTTTGAAAATAAAACCGG
Found at i:368964 original size:35 final size:35
Alignment explanation
Indices: 368899--369063 Score: 243
Period size: 35 Copynumber: 4.9 Consensus size: 35
368889 TCATTTTTAT
368899 CCATCATTCCATGCCTTCA-TTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
368933 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
368968 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
369003 CCATCATCCCATG---T--TTTTTTTATTTCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
369033 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTTTATTCC
369064 TTGATTTTCA
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
30 26 0.22
32 1 0.01
33 1 0.01
34 18 0.16
35 70 0.60
ACGTcount: A:0.18, C:0.30, G:0.05, T:0.46
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:369041 original size:65 final size:67
Alignment explanation
Indices: 368899--369063 Score: 255
Period size: 65 Copynumber: 2.5 Consensus size: 67
368889 TCATTTTTAT
* *
368899 CCATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-C-T-ATTTTTTTATTC
368963 CATGC
63 CATGC
*
368968 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-T-TTTTTTTATTTCAT
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTATTTTTTTATTCCAT
369031 GC
66 GC
369033 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTATATTCC
369064 TTGATTTTCA
Statistics
Matches: 92, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
65 46 0.50
67 1 0.01
69 24 0.26
70 21 0.23
ACGTcount: A:0.18, C:0.30, G:0.05, T:0.46
Consensus pattern (67 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTATTTTTTTATTCCAT
GC
Found at i:369788 original size:42 final size:40
Alignment explanation
Indices: 369683--369803 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 40
369673 TGAGGATAGA
* * *
369683 GAAAAAGGGAATGAAATAG-GTCTTGCTCCTTGAGGACAAAG
1 GAAAAAGGGAAAG-AAT-GTGTCCTGCTTCTTGAGGACAAAG
* * *
369724 GAAAAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAG
1 GAAAA-AGGGAAA-GAATGTGTCCTGCTTCTTGAGGACAAAG
369766 TGAAAAAGGGAAAGAAGTGTGTCCTGC-TCTTTGAGGAC
1 -GAAAAAGGGAAAGAA-TGTGTCCTGCTTC-TTGAGGAC
369804 TAAAAAGTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
41 11 0.17
42 48 0.74
43 6 0.09
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (40 bp):
GAAAAAGGGAAAGAATGTGTCCTGCTTCTTGAGGACAAAG
Found at i:369988 original size:59 final size:59
Alignment explanation
Indices: 369787--370098 Score: 463
Period size: 59 Copynumber: 5.3 Consensus size: 59
369777 AAGAAGTGTG
* * * * *
369787 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAA-GCA
* * *
369848 TCCTGCTCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTT--AAAAAGAAAGCA
369909 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
369968 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
370027 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG---GCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
*
370082 TCCTGCTCCTTGAGGAC
1 TCCTGCTCTTTGAGGAC
370099 AAAAAGGTGA
Statistics
Matches: 236, Mismatches: 11, Indels: 14
0.90 0.04 0.05
Matches are distributed among these distances:
55 19 0.08
58 5 0.02
59 118 0.50
60 3 0.01
61 80 0.34
62 6 0.03
63 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
Found at i:370276 original size:59 final size:59
Alignment explanation
Indices: 370118--370312 Score: 258
Period size: 58 Copynumber: 3.3 Consensus size: 59
370108 AAAGGAGAGA
*
370118 GCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAGAAA
1 GCGTCCTGCTCTTTGAGGACTGAA-AAGTGCCACCAACTTGTGTGGGC--TT-AAAAGAGAAG
* * * *
370180 GCGTCCTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTATGGGCTTAAAAGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAG
*
370238 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT---TGA-AAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAG
370293 GCGTCCTGCTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
370313 AAAAAGGCGA
Statistics
Matches: 121, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
55 23 0.19
56 2 0.02
58 29 0.24
59 26 0.21
61 21 0.17
62 20 0.17
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (59 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAG
Found at i:370276 original size:214 final size:213
Alignment explanation
Indices: 369909--370521 Score: 940
Period size: 214 Copynumber: 2.9 Consensus size: 213
369899 AAAGAAAGCA
369909 TCCTGCTCTTTGAGGACTGAA-AAGTGCCACCAACTTGTGTGGGCTTT-AAAAAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCATCCT
* *
369972 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAAAGCATCCTGCTCT
65 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TTAAAAGAGAAGGCGTCCTGCTCT
* *
370036 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCCTTGAGGACAA
129 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACAA
* *
370101 AAAGGTGAAAGGAGAGAGCG
194 AAAGGCGAAAGGAGAGAACG
*
370121 TCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAGAAAGCGTCC
1 TCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGC-TTTAAAAA-AGAAAGCATCC
* * * *
370186 TACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTATGGGCTTAAAAGAGAAGGCGTCCTGCTCT
64 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAGGCGTCCTGCTCT
*
370250 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAA
129 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACAA
370315 AAAGGCGAAAGGAGAGAACG
194 AAAGGCGAAAGGAGAGAACG
* * *
370335 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTA-AAAAAGAAAGCATCCT
* *
370400 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT---TGA-AAGGCGTCCTACT-TT
65 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAGGCGTCCTGCTCTT
*
370460 TGAGGACTGGAAAA-TGCCACCAACTAGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
130 TGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
370522 TGAATGGTGC
Statistics
Matches: 369, Mismatches: 24, Indels: 19
0.90 0.06 0.05
Matches are distributed among these distances:
209 56 0.15
210 17 0.05
211 4 0.01
212 41 0.11
213 36 0.10
214 191 0.52
215 24 0.07
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (213 bp):
TCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCATCCTG
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAGGCGTCCTGCTCTTT
GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACAAAA
AGGCGAAAGGAGAGAACG
Found at i:370311 original size:55 final size:55
Alignment explanation
Indices: 370175--370312 Score: 181
Period size: 59 Copynumber: 2.5 Consensus size: 55
370165 TTTTAAAAAG
* * *
370175 AGAAA-GCGTCCTACTTTTTGAGGACTGAAGGTGCCACCAACTTGTATGGGCTTAAA
1 AGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTATGGGCTT--A
*
370231 AGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT-
1 AGA-AAGGCGTCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTATGGGCTTA
*
370287 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 AGAAAGGCGTCCTGCTCTTTGAGGAC
370313 AAAAAGGCGA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
55 23 0.31
56 5 0.07
57 2 0.03
58 20 0.27
59 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (55 bp):
AGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTATGGGCTTA
Found at i:370414 original size:155 final size:152
Alignment explanation
Indices: 370181--370764 Score: 613
Period size: 155 Copynumber: 3.7 Consensus size: 152
370171 AAAGAGAAAG
* * * *
370181 CGTCCTACTTTTTGAGGACTGAAGGTGCCACCAACTTGTATGGGCTTAAAAGAGAAGGCGTCCTG
1 CGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAAGCGTCCTG
*
370246 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
66 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGG
370311 ACAAAAAGGCGAAAGGAGAGAA
131 ACAAAAAGGCGAAAGGAGAGAA
* * *
370333 CGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAGCAT
1 CGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTT-A-AAAGAGAAAGCGT
370397 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT-TTT
62 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTT
* * * * *
370461 GAGGACTGGAAAATGCCACCAACTAGTGTGGGCTTTAAAA
127 GAGGAC---AAAAAG--GCGAA--A--G-GAG----AGAA
* *
370501 GGCGTCCTGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATG-GAAAAGG
1 --CGTCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGC-TT-AAAAGAG-AAA-G
* * *
370565 CGTCTTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTC
59 CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTC
* * * * * * *
370629 TTTAAGGACTAAAGGGTGAGAGAAGAGAG
124 TTTGAGGACAAAAAGGCGAAAGGAGAGAA
*
370658 TGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGCGTC
1 CGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGC-TTAAAAGAGAAAGCGTC
* * *
370722 CTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTT
63 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT
370765 AAAAGGAGAA
Statistics
Matches: 363, Mismatches: 39, Indels: 59
0.79 0.08 0.13
Matches are distributed among these distances:
152 18 0.05
153 65 0.18
154 20 0.06
155 113 0.31
157 10 0.03
159 3 0.01
161 2 0.01
162 1 0.00
163 1 0.00
164 3 0.01
166 1 0.00
168 10 0.03
169 1 0.00
170 85 0.23
171 30 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (152 bp):
CGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAGAAAGCGTCCTG
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGG
ACAAAAAGGCGAAAGGAGAGAA
Found at i:370430 original size:61 final size:55
Alignment explanation
Indices: 370333--370638 Score: 287
Period size: 54 Copynumber: 5.4 Consensus size: 55
370323 AAGGAGAGAA
* *
370333 CGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAG
1 CGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTT---AAAAAG---G
* **
370394 CATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAAGG
* * *
370449 CGTCCTACT-TTTGAGGACTGGAAAA-TGCCACCAACTAGTGTGGGCTTTAAAAGG
1 CGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTAAAAAGG
** *
370503 CGTCCTGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TT---A---AAAAGG
* * **
370565 CGTCTTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAAGG
* * *
370619 CATCCTACTCTTTAAGGACT
1 CGTCCTGCTCTTTGAGGACT
370639 AAAGGGTGAG
Statistics
Matches: 210, Mismatches: 24, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
54 69 0.33
55 41 0.20
56 2 0.01
58 4 0.02
60 2 0.01
61 66 0.31
62 26 0.12
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTAAAAAGG
Found at i:370540 original size:109 final size:112
Alignment explanation
Indices: 370333--371247 Score: 453
Period size: 116 Copynumber: 8.2 Consensus size: 112
370323 AAGGAGAGAA
* * *
370333 CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAGCATC
1 CGTCCTACTCTTTGAGGACTAGGAAATGCCACCAACTAGTGTGGGCTT--CAAAAAG--AGCATC
*
370398 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
62 CTGCTCTTTGAGGACTGAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGG
* *
370449 CGTCCTACT-TTTGAGGACT-GGAAAATGCCACCAACTAGTGTGGGCTT-TAAAAG-GCGTCCTG
1 CGTCCTACTCTTTGAGGACTAGG-AAATGCCACCAACTAGTGTGGGCTTCAAAAAGAGCATCCTG
**
370510 CTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGG
65 CTCTTTGAGGACTGAAAAGTGCCAACAACTTGTGTGGGC-TT----T-G-AAAGG
* * * * ** *
370565 CGTCTTGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTT-TGAAAG-GCATCCTA
1 CGTCCTACTCTTTGAGGACTAGGAA-ATGCCACCAACTAGTGTGGGCTTCAAAAAGAGCATCCTG
* * ** ** * **
370626 CTCTTTAAGGACT-AAAGGGTGAGAGA-AGAGAGTGTCCTGCTCTTTG--A-G
65 CTCTTTGAGGACTGAAA-AGTGCCA-ACA-A-CTTGT-GTGGGCTTTGAAAGG
** * *** * *** ** *
370674 -G----A--C--T-AGGA--AGTGCCA--CCAACTTGT-GTGGGCTTTAAAAGAGAA-AGCGTCC
1 CGTCCTACTCTTTGAGGACTAG-GAAATGCCACCAACTAGTGTGGGCTTCAA-A-AAGAGCATCC
* * * * *
370723 TACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTAAAAGGAGAAGG
63 TGCTCTTTGAGGACTGAAAAGTGCCAACAACTTGTGTGGGCTT----TGA-AAGG
* * * **
370777 CGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTT-TGAAAG-GCATCCTG
1 CGTCCTACTCTTTGAGGACTAGGAAA-TGCCACCAACTAGTGTGGGCTTCAAAAAGAGCATCCTG
* * * * *
370839 CT-TTTGAGGACTGGAAAA-TGCCACCAACTAGTGTGGGCATTAAAAGA
65 CTCTTTGAGGACT-GAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGG
* * * * * *
370886 CGTCCTGCTCTTTGAGGACT--GAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGC
1 CGTCCTACTCTTTGAGGACTAGGAA--ATGCCACCAACTAGTGTGGGC-TT-CAA---AAAGAGC
* *
370949 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
59 ATCCTGCTCTTTGAGGACTGAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGG
* * * * *
371002 CGTCCTGCTTTTTGAAGACTA--AAAGGTACCACCAACTTA-TGTGGGCTTTGAAAAAAGAAAGC
1 CGTCCTACTCTTTGAGGACTAGGAAA--TGCCACCAAC-TAGTGTGGGC-TT-CAAAAAG--AGC
* *
371064 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
59 ATCCTGCTCTTTGAGGACTGAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGG
* * * *
371117 CATCCTACTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTT-TAAAAG-GCGTCCTG
1 CGTCCTACTCTTTGAGGACTAGG-AAATGCCACCAACTAGTGTGGGCTTCAAAAAGAGCATCCTG
** * *
371179 CTCTTTGAGGACTGAATGGTGCCACCAACTTCTGTGGGCTTTGAAAGG
65 CTCTTTGAGGACTGAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGG
371227 CGTCCTACTCTTTGAGGACTA
1 CGTCCTACTCTTTGAGGACTA
371248 AAGGGCTAAA
Statistics
Matches: 621, Mismatches: 103, Indels: 155
0.71 0.12 0.18
Matches are distributed among these distances:
95 5 0.01
96 8 0.01
97 7 0.01
98 7 0.01
99 27 0.04
100 1 0.00
102 2 0.00
103 1 0.00
104 1 0.00
108 3 0.00
109 107 0.17
110 57 0.09
112 11 0.02
113 19 0.03
114 39 0.06
115 134 0.22
116 153 0.25
117 31 0.05
118 5 0.01
119 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (112 bp):
CGTCCTACTCTTTGAGGACTAGGAAATGCCACCAACTAGTGTGGGCTTCAAAAAGAGCATCCTGC
TCTTTGAGGACTGAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGG
Found at i:370615 original size:170 final size:167
Alignment explanation
Indices: 370333--371251 Score: 935
Period size: 170 Copynumber: 5.5 Consensus size: 167
370323 AAGGAGAGAA
* ** * *
370333 CGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAGCAT
1 CGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTT-TGAAAGA-AAAGCGT
* *
370397 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT-TTT
63 CCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTT
*
370461 GAGGACTGGAAAATGCCACCAACTAGTGTGGGCTTTAAAAGG
127 GAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
*
370503 CGTCCTGCTCTTTGAGGACT-GAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGGCG
1 CGTCCTGCTCTTTGAGGACTGGAA-GGTGCCACCAACTTGTGTGGGCTTTGAAA--GAAAA-GCG
*
370567 TCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTT
62 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTT
* * ** *
370632 AAGGACT--AAA-G----------G-GTGAG--AGAAGAGAG
127 GAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG-G
* *
370658 TGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGCGTC
1 CGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGA-AAAGCGTC
* * * * * *
370722 CTACTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTAAAAGGAGAAGGCGTCCTGCTC
64 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT----TGA-AAGGCATCCTACTC
*
370787 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
124 TTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGG
* ** * * *
370832 CATCCTGCT-TTTGAGGACTGGAAAATGCCACCAACTAGTGTGGGCATT--AA-AAGA-CGTCCT
1 CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGCGTCCT
* * *
370892 GCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGCATCCTGCT
66 GCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAA--G-----GCATCCTACT
** *
370957 CTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
123 CTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
* * ** * * * *
371002 CGTCCTGCTTTTTGAAGACTAAAAGGTACCACCAACTTATGTGGGCTTTGAAAAAAGAAAGCATC
1 CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGA-AAAGCGTC
*
371067 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGA
64 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGA
371132 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
129 GGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
*
371172 CGTCCTGCTCTTTGAGGACT-GAATGGTGCCACCAACTTCTGTGGGCTTTGAAAG----GCGTCC
1 CGTCCTGCTCTTTGAGGACTGGAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGCGTCC
*
371232 TACTCTTTGAGGACTAAAGG
65 TGCTCTTTGAGGACTAAAGG
371252 GCTAAAAGAG
Statistics
Matches: 626, Mismatches: 73, Indels: 106
0.78 0.09 0.13
Matches are distributed among these distances:
153 46 0.07
154 7 0.01
155 46 0.07
156 4 0.01
157 6 0.01
158 21 0.03
160 3 0.00
162 1 0.00
164 25 0.04
165 2 0.00
166 1 0.00
167 1 0.00
168 24 0.04
169 54 0.09
170 196 0.31
171 84 0.13
172 5 0.01
173 35 0.06
174 11 0.02
175 4 0.01
176 31 0.05
177 19 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (167 bp):
CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGCGTCCT
GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGG
ACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
Found at i:370642 original size:54 final size:55
Alignment explanation
Indices: 370396--371251 Score: 633
Period size: 55 Copynumber: 15.4 Consensus size: 55
370386 AAAGAAAGCA
*
370396 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
370451 TCCTACT-TTTGAGGACTGGAAA-ATGCCACCAACTAGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
370505 TCCTGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT----T-G-AAAGGCG
* *
370567 TCTTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * ** ** ** * ** *
370621 TCCTACTCTTTAAGGACT-AAAGGGTGAGAGAAGAGAGTGTCCTGCTCTTTGAGGACTAGGAAG
1 TCCTGCTCTTTGAGGACTGAAA-GGTGCCACCA-A-CTTGT-GTGGGCTTTGA--A--AGG-CG
* * ** **** *
370684 TGCC-AC-C----A--ACTTG---TGTG-----GGCTT-TAAAAG---AGAAA-GCG
1 T-CCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
370720 TCCTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT----TGA-AAGGCG
* *
370779 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
370834 TCCTGCT-TTTGAGGACTGGAAA-ATGCCACCAACTAGTGTGGGCATTAAAAGACG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
370888 TCCTGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA--G-----GCG
370950 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * * *
371004 TCCTGCTTTTTGAAGACTAAAAGGTACCACCAACTTATGTGGGCTTTGAAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG---AAAG---GCG
*
371065 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
371119 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
371174 TCCTGCTCTTTGAGGACTGAATGGTGCCACCAACTTCTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
371229 TCCTACTCTTTGAGGACT-AAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
371252 GCTAAAAGAG
Statistics
Matches: 640, Mismatches: 93, Indels: 137
0.74 0.11 0.16
Matches are distributed among these distances:
35 2 0.00
36 4 0.01
37 1 0.00
38 1 0.00
40 1 0.00
41 1 0.00
42 4 0.01
43 2 0.00
44 3 0.00
46 1 0.00
47 1 0.00
49 3 0.00
50 2 0.00
54 166 0.26
55 213 0.33
56 10 0.02
57 11 0.02
58 15 0.02
59 21 0.03
60 55 0.09
61 70 0.11
62 48 0.08
63 3 0.00
64 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:370884 original size:383 final size:384
Alignment explanation
Indices: 370333--371024 Score: 1167
Period size: 383 Copynumber: 1.8 Consensus size: 384
370323 AAGGAGAGAA
*
370333 CGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAGCATC
1 CGTCCTACTCTTTGAGGACTA-GAAGTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAGCATC
*
370398 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTTTTGA
65 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTTTTGA
* *
370463 GGACTGGAAAATGCCACCAACTAGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAATG
130 GGACTGGAAAATGCCACCAACTAGTGTGGGCATTAAAAGACGTCCTGCTCTTTGAGGACTGAATG
* * *
370528 GTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGGCGTCTTGCTCTTTGAGGACTAAAGGTGC
195 GTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGCATCCTGCTCTTTGAGGACTAAAGGTGC
370593 CACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTT-AAGGACTAAAGGGTGAGAGAAGAGA
260 CACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAA-GACTAAAGGGTGAGAGAAGAGA
370657 GTGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAG
324 GTGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAG
* * * * *
370718 CGTCCTACTTTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTT-A-AAAGGAGAAGGCGT
1 CGTCCTACTCTTTGAGGACTAGAA-GTGCCACCAACTGGTGTGGGCTTCACAAA-AAGAAAGCAT
*
370780 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTG
64 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTTTTG
370845 AGGACTGGAAAATGCCACCAACTAGTGTGGGCATTAAAAGACGTCCTGCTCTTTGAGGACTGAAT
129 AGGACTGGAAAATGCCACCAACTAGTGTGGGCATTAAAAGACGTCCTGCTCTTTGAGGACTGAAT
*
370910 GGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTG
194 GGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGCATCCTGCTCTTTGAGGACTAAAGGTG
* * *
370975 CCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGAAGACTAAA
259 CCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAAGACTAAA
371025 AGGTACCACC
Statistics
Matches: 287, Mismatches: 17, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
382 3 0.01
383 242 0.84
384 24 0.08
385 18 0.06
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (384 bp):
CGTCCTACTCTTTGAGGACTAGAAGTGCCACCAACTGGTGTGGGCTTCACAAAAAGAAAGCATCC
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTTTTGAG
GACTGGAAAATGCCACCAACTAGTGTGGGCATTAAAAGACGTCCTGCTCTTTGAGGACTGAATGG
TGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAAGCATCCTGCTCTTTGAGGACTAAAGGTGCC
ACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAAGACTAAAGGGTGAGAGAAGAGAGT
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAG
Found at i:377493 original size:79 final size:77
Alignment explanation
Indices: 377312--377497 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 77
377302 ATAGGTCTCG
* * * *
377312 ATGAGAAATTTAATATTTTGGAGATAATAATGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTT
1 ATGAGAAA-TCAATA-TTTGGAAATAA-AATGGGATTAGAGTATCCCCTTGAAAATAACGGGGTT
***
377377 GGAGTATCCCTGGTT
63 GGAGTATCCCCAATT
* * * * *
377392 GTAAAAAATCGATGATTGGGAAATAAAATCGGGATTAGAGTATCCCCTT-AGAAATAACGGGGTT
1 ATGAGAAATCAAT-ATTTGGAAATAAAAT-GGGATTAGAGTATCCCCTTGA-AAATAACGGGGTT
377456 GGAGTATCCCCAATT
63 GGAGTATCCCCAATT
377471 ATGAGAAATCAATATTCTGGAAATAAA
1 ATGAGAAATCAATATT-TGGAAATAAA
377498 GCCGAGGTTG
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
78 7 0.08
79 72 0.85
80 6 0.07
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.28
Consensus pattern (77 bp):
ATGAGAAATCAATATTTGGAAATAAAATGGGATTAGAGTATCCCCTTGAAAATAACGGGGTTGGA
GTATCCCCAATT
Found at i:377516 original size:79 final size:77
Alignment explanation
Indices: 377344--377545 Score: 199
Period size: 79 Copynumber: 2.6 Consensus size: 77
377334 GATAATAATG
*** * *
377344 GGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGGTTGTAAAAAATCGATGATT
1 GGGTTGGAGTATCCCCTTG-AAATAACGGGGTTGGAGTATCCCCAATTATAAAAAATCAATGATT
*
377409 GGGAAATAAAATC
65 GGGAAATAAAACC
* * *
377422 GGGATTAGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-AT
1 GGG-TTGGAGTATCCCCTT-GAAATAACGGGGTTGGAGTATCCCCAATTATAAAAAATCAATGAT
* *
377486 TCTGGAAATAAAGCC
64 T-GGGAAATAAAACC
* * ** *
377501 GAGGTTGGAGAATCCCCTCGGAGGTAATGGGGTTGGAGTATCCCC
1 G-GGTTGGAGTATCCCCT-TGAAATAACGGGGTTGGAGTATCCCC
377546 GATGAAATAA
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
78 6 0.06
79 93 0.91
80 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCTTGAAATAACGGGGTTGGAGTATCCCCAATTATAAAAAATCAATGATTG
GGAAATAAAACC
Found at i:377664 original size:53 final size:53
Alignment explanation
Indices: 377580--378048 Score: 376
Period size: 52 Copynumber: 8.9 Consensus size: 53
377570 CCTTGATTGT
* *
377580 GAAAGATTGGTGTTTT-TAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAG
1 GAAA-ATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
* * * *
377633 GAAATTTGGTGTTTTGAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAAAG
1 GAAAATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
* * * *
377686 GAAATTTGGTGTTTTGAAAAATAAAACCGGGGTTAGAATATCCCCAATT-ATG
1 GAAAATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
* * *
377738 GAAAATTGGTGTTTTAAAAAATAAAACCGGGGTTAGAATATCCCCGATT-ATG
1 GAAAATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
* * *
377790 GAAAATTAGTGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCCCATT-AT-
1 GAAAATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
*** * * * * * *
377840 GAGAAATCAATATTTTG-GAAATAAAGCTGGGGTTGGAGTATCCCCTCGGAGGTAACG
1 GA-AAATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTAT-CCC-C-GA-TTAATG
** * ** * * * *
377897 G--TGTTGGAGTATCCCCGATGAAAT--AA-CGAGGTTGGAGTATCCTCGATT-GTG
1 GAAAATTGGTGT-T--TTGA-AAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
* * * * *
377948 AAAAATTGGTGTTTTTG-GAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
1 GAAAATTGGTG-TTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
378001 G-AAATTGGTGTTTTG-AAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 GAAAATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
378049 TGATCAATTG
Statistics
Matches: 340, Mismatches: 55, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
49 5 0.01
50 2 0.01
51 102 0.30
52 107 0.31
53 94 0.28
54 5 0.01
55 4 0.01
56 13 0.04
57 3 0.01
59 5 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (53 bp):
GAAAATTGGTGTTTTGAAAAATAAAACCGGGGTTGGAGTATCCCCGATTAATG
Found at i:377758 original size:105 final size:103
Alignment explanation
Indices: 377580--377845 Score: 361
Period size: 105 Copynumber: 2.5 Consensus size: 103
377570 CCTTGATTGT
* * * *
377580 GAAAGATTGGTGTTTTTAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGT
1 GAAA-ATTGGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCAATT-ATGGAAAATTGGTGT
* * *
377645 TTTGAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAAAG
64 TTTAAAAAATAAAACCGGGGTTAGAATATCCCCGATT-AAG
* * *
377686 GAAATTTGGTGTTTTGAAAAATAAAACCGGGGTTAGAATATCCCCAATTATGGAAAATTGGTGTT
1 GAAAATTGGTGTTTT-AAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTT
*
377751 TTAAAAAATAAAACCGGGGTTAGAATATCCCCGATTATG
65 TTAAAAAATAAAACCGGGGTTAGAATATCCCCGATTAAG
* * *
377790 GAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCCATTATGAGAAA
1 GAAAATTGGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCAATTATG-GAAA
377846 TCAATATTTT
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
103 32 0.23
104 19 0.13
105 57 0.40
106 33 0.23
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (103 bp):
GAAAATTGGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGGAAAATTGGTGTTT
TAAAAAATAAAACCGGGGTTAGAATATCCCCGATTAAG
Found at i:377763 original size:52 final size:51
Alignment explanation
Indices: 377580--377845 Score: 343
Period size: 53 Copynumber: 5.1 Consensus size: 51
377570 CCTTGATTGT
* * *
377580 GAAAGATTGGTGTTTTTAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAG
1 GAAA-ATTGGTGTTTTAAAAATAAAACCGGGGTTAGAGTATCCCCGATT-ATG
* * *
377633 GAAATTTGGTGTTTTGAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAAAG
1 GAAAATTGGTGTTTT-AAAAATAAAACCGGGGTTAGAGTATCCCCGATT-ATG
* * *
377686 GAAATTTGGTGTTTTGAAAAATAAAACCGGGGTTAGAATATCCCCAATTATG
1 GAAAATTGGTGTTTT-AAAAATAAAACCGGGGTTAGAGTATCCCCGATTATG
*
377738 GAAAATTGGTGTTTTAAAAAATAAAACCGGGGTTAGAATATCCCCGATTATG
1 GAAAATTGGTGTTTT-AAAAATAAAACCGGGGTTAGAGTATCCCCGATTATG
* * * *
377790 GAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCCATTATG
1 GAAAATTGGTGTTTTAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATG
377841 AGAAA
1 -GAAA
377846 TCAATATTTT
Statistics
Matches: 195, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
51 32 0.16
52 79 0.41
53 84 0.43
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (51 bp):
GAAAATTGGTGTTTTAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATG
Found at i:377832 original size:51 final size:51
Alignment explanation
Indices: 377580--378050 Score: 353
Period size: 51 Copynumber: 9.0 Consensus size: 51
377570 CCTTGATTGT
*
377580 GAAAGATTGGTGTTTTTA-AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAG
1 GAAA-ATTGGTG-TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATT-ATG
* * * * *
377633 GAAATTTGGTGTTTTGAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAAAG
1 GAAAATTGGTGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCCGATT-ATG
* * * * *
377686 GAAATTTGGTGTTTTGAAAAATAAAACCGGGGTTAGAATATCCCCAATTATG
1 GAAAATTGGTGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCCGATTATG
* * *
377738 GAAAATTGGTGTTTTAAAAAATAAAACCGGGGTTAGAATATCCCCGATTATG
1 GAAAATTGGTGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCCGATTATG
* *
377790 GAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCCATTAT-
1 GAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTATG
*** * * * * ****
377840 GAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATCCCCTCGGA-G
1 GA-AAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTATG
* * ** * * * * *
377891 G-TAA-CGGTGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
1 GAAAATTGGTGTTTTAG-A-----AAT-AAA-ACCGGGGTTGGAGTATCCCCGATTATG
* * * * *
377948 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
1 GAAAATTGGTG-TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATT-ATG
378001 G-AAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGTATCCCCGATTATG
1 GAAAATTGGTGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCCCGATTATG
378051 ATCAATTGAG
Statistics
Matches: 340, Mismatches: 60, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
48 5 0.01
49 3 0.01
50 5 0.01
51 106 0.31
52 101 0.30
53 87 0.26
54 4 0.01
55 3 0.01
56 15 0.04
57 1 0.00
58 2 0.01
59 5 0.01
60 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
GAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATTATG
Found at i:379336 original size:35 final size:35
Alignment explanation
Indices: 379271--379435 Score: 243
Period size: 35 Copynumber: 4.9 Consensus size: 35
379261 TCATTTTTAT
379271 CCATCATTCCATGCCTTCA-TTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
379305 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
379340 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
379375 CCATCATCCCATG---T--TTTTTTTATTTCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
379405 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTTTATTCC
379436 TTGATTTTCA
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
30 26 0.22
32 1 0.01
33 1 0.01
34 18 0.16
35 70 0.60
ACGTcount: A:0.18, C:0.30, G:0.05, T:0.46
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:379413 original size:65 final size:67
Alignment explanation
Indices: 379271--379435 Score: 255
Period size: 65 Copynumber: 2.5 Consensus size: 67
379261 TCATTTTTAT
* *
379271 CCATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-C-T-ATTTTTTTATTC
379335 CATGC
63 CATGC
*
379340 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-T-TTTTTTTATTTCAT
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTATTTTTTTATTCCAT
379403 GC
66 GC
379405 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTATATTCC
379436 TTGATTTTCA
Statistics
Matches: 92, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
65 46 0.50
67 1 0.01
69 24 0.26
70 21 0.23
ACGTcount: A:0.18, C:0.30, G:0.05, T:0.46
Consensus pattern (67 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTATTTTTTTATTCCAT
GC
Found at i:382771 original size:24 final size:25
Alignment explanation
Indices: 382736--382782 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
382726 TTTGATTGTC
* *
382736 CAAACTTAAAGAATAAAGGCATGAG
1 CAAACTTAAAGAAGAAAGCCATGAG
382761 CAAAC-TAAAGAAGAAAGCCATG
1 CAAACTTAAAGAAGAAAGCCATG
382783 GTGGCTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.53, C:0.15, G:0.19, T:0.13
Consensus pattern (25 bp):
CAAACTTAAAGAAGAAAGCCATGAG
Found at i:386404 original size:20 final size:20
Alignment explanation
Indices: 386363--386404 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
386353 TTACAAGCCA
* *
386363 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATGTGATC
386383 ATGTATCGATACAATGT-ATC
1 ATGTATCGATAC-ATGTGATC
386403 AT
1 AT
386405 AAACGACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATGTGATC
Found at i:389536 original size:18 final size:20
Alignment explanation
Indices: 389495--389562 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
389485 GACCTTCATT
389495 TGTATCGATAGATATCAAAA
1 TGTATCGATAGATATCAAAA
*
389515 TGTATCGATA-ATA-CACAA
1 TGTATCGATAGATATCAAAA
* * *
389533 TGTATCGATACATCTAAAAA
1 TGTATCGATAGATATCAAAA
*
389553 TATATCGATA
1 TGTATCGATA
389563 CTTTGAGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 14 0.34
19 5 0.12
20 22 0.54
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (20 bp):
TGTATCGATAGATATCAAAA
Found at i:390487 original size:20 final size:20
Alignment explanation
Indices: 390456--390531 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
390446 AATAGTGATC
*
390456 ATGTATCAATACATTATTAA
1 ATGTATCGATACATTATTAA
* * * *
390476 GTGTATTGATACATTCTGGAA
1 ATGTATCGATACATTAT-TAA
390497 ATGTATCGATACATTATTCAA
1 ATGTATCGATACATTATT-AA
390518 A-GTATCGATACATT
1 ATGTATCGATACATT
390532 GCATCGATAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 26 0.58
21 19 0.42
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTATTAA
Found at i:390770 original size:39 final size:37
Alignment explanation
Indices: 390678--390787 Score: 123
Period size: 39 Copynumber: 2.9 Consensus size: 37
390668 TCAAAAGATT
* *
390678 AAAAGATCATTCAAAGTCATATAAATCCAAATA-TACA
1 AAAAGATCA-TCAAATTCATATAAAACCAAATATTACA
* *
390715 AAAAAATCAATAAAATTCATATAAAACCAAATATTGACA
1 AAAAGATC-ATCAAATTCATATAAAACCAAATATT-ACA
* *
390754 AAAAGATCGATCAAATTCATATAAGACTAAATAT
1 AAAAGATC-ATCAAATTCATATAAAACCAAATAT
390788 GCATTAAAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
37 27 0.44
38 2 0.03
39 32 0.52
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (37 bp):
AAAAGATCATCAAATTCATATAAAACCAAATATTACA
Found at i:393010 original size:9 final size:9
Alignment explanation
Indices: 392992--393031 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
392982 TTAACCATCA
*
392992 AAGATAATG
1 AAGATGATG
393001 AAGATGATG
1 AAGATGATG
*
393010 ATGATGATG
1 AAGATGATG
*
393019 ATGATGATG
1 AAGATGATG
393028 AAGA
1 AAGA
393032 AATTGACTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (9 bp):
AAGATGATG
Found at i:393011 original size:3 final size:3
Alignment explanation
Indices: 392998--393028 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
392988 ATCAAAGATA
*
392998 ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
393029 AGAAATTGAC
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:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:401495 original size:13 final size:14
Alignment explanation
Indices: 401472--401508 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
401462 TCAAAAAGTA
401472 TTTCATTTTTGTTTT
1 TTTC-TTTTTGTTTT
401487 TTT-TTTTTGTTTT
1 TTTCTTTTTGTTTT
401500 TTTCTTTTT
1 TTTCTTTTT
401509 TTATAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.62
14 5 0.24
15 3 0.14
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.86
Consensus pattern (14 bp):
TTTCTTTTTGTTTT
Found at i:405679 original size:19 final size:19
Alignment explanation
Indices: 405655--405720 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
405645 TGTCAACGAT
405655 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
405674 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
405688 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
405706 TTGTATCGATACATA
1 TTGTATCGATACATA
405721 TGAAGCTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:405692 original size:32 final size:32
Alignment explanation
Indices: 405656--405718 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
405646 GTCAACGATT
405656 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
405688 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
405719 TATGAAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:405693 original size:13 final size:13
Alignment explanation
Indices: 405675--405699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
405665 ACATAAGTGT
405675 TGTATCGATACAA
1 TGTATCGATACAA
405688 TGTATCGATACA
1 TGTATCGATACA
405700 TAAGTGTTGT
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:405776 original size:13 final size:13
Alignment explanation
Indices: 405758--405785 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
405748 ATACATTACT
405758 CATTGTATCGATA
1 CATTGTATCGATA
405771 CATTGTATCGATA
1 CATTGTATCGATA
405784 CA
1 CA
405786 CTGATCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:405783 original size:33 final size:33
Alignment explanation
Indices: 405741--405806 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
405731 GCCAAGAAAA
*
405741 TGTATCGATACA-TTACTCATTGTATCGATACAT
1 TGTATCGATACACTGA-TCATTGTATCGATACAT
*
405774 TGTATCGATACACTGATCTTTGTATCGATACAT
1 TGTATCGATACACTGATCATTGTATCGATACAT
405807 GCAAGCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACACTGATCATTGTATCGATACAT
Found at i:410536 original size:27 final size:25
Alignment explanation
Indices: 410506--410555 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
410496 TTCACACAGC
*
410506 TGTTTTGTTGTTCGATTTTTCTCTTCA
1 TGTTTTGCT-TTC-ATTTTTCTCTTCA
*
410533 TGTTTTGCTTTCTTTTTTCTCTT
1 TGTTTTGCTTTCATTTTTCTCTT
410556 GCTTATTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 3 0.14
27 8 0.38
ACGTcount: A:0.04, C:0.16, G:0.12, T:0.68
Consensus pattern (25 bp):
TGTTTTGCTTTCATTTTTCTCTTCA
Found at i:411410 original size:15 final size:15
Alignment explanation
Indices: 411390--411429 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
411380 CCCACTTTTA
*
411390 TTTTTATTTTATTATT
1 TTTTTATTTT-TGATT
*
411406 TTTTAATTTTTGATT
1 TTTTTATTTTTGATT
411421 TTTTTATTT
1 TTTTTATTT
411430 GATTTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTGATT
Found at i:411421 original size:23 final size:21
Alignment explanation
Indices: 411385--411438 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
411375 TCGAGCCCAC
411385 TTTTATTTTTATTTTATTATT
1 TTTTATTTTTATTTTATTATT
*
411406 TTTTAATTTTTGATTTTTTTATT
1 TTTT-ATTTTT-ATTTTATTATT
411429 TGATTTATTT
1 T--TTTATTT
411439 GAATTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.14
22 6 0.21
23 11 0.39
24 4 0.14
25 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTATTTTATTATT
Found at i:411456 original size:22 final size:22
Alignment explanation
Indices: 411414--411456 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
411404 TTTTTTAATT
* *
411414 TTTGATTTTTTTATTTGATTTA
1 TTTGATTTTTTAAATTGATTTA
411436 TTTGAATTTTTTAAATT-ATTT
1 TTTG-ATTTTTTAAATTGATTT
411457 TTGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTGATTTTTTAAATTGATTTA
Found at i:411466 original size:19 final size:19
Alignment explanation
Indices: 411442--411480 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
411432 TTTATTTGAA
411442 TTTTTTAAATTATTTT-TGT
1 TTTTTTAAATT-TTTTATGT
*
411461 TTTTTTTAATTTTTTATGT
1 TTTTTTAAATTTTTTATGT
411480 T
1 T
411481 GAAAACCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTTAAATTTTTTATGT
Found at i:413083 original size:14 final size:15
Alignment explanation
Indices: 413064--413097 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
413054 TTTATCTTAA
413064 TTTTTA-AATTTTAT
1 TTTTTACAATTTTAT
413078 TTTTTACAATTTTAT
1 TTTTTACAATTTTAT
413093 TTTTT
1 TTTTT
413098 TTATTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTACAATTTTAT
Found at i:413604 original size:25 final size:25
Alignment explanation
Indices: 413570--413659 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
413560 CAAAACAGCA
*
413570 AAGCAAGCAACGGCAGCTGATGAGG
1 AAGCAAGCAACGGCAGCTGATGAAG
*
413595 AAGCAAGCAACGGCAGC-AATTGAAG
1 AAGCAAGCAACGGCAGCTGA-TGAAG
* *
413620 AAGCAAGCAATGGCATCTGATGAAG
1 AAGCAAGCAACGGCAGCTGATGAAG
* *
413645 AAGGAAGCAATGGCA
1 AAGCAAGCAACGGCA
413660 AATAGCAACT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.96
26 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.31, T:0.10
Consensus pattern (25 bp):
AAGCAAGCAACGGCAGCTGATGAAG
Found at i:415669 original size:156 final size:157
Alignment explanation
Indices: 415476--416817 Score: 767
Period size: 157 Copynumber: 8.8 Consensus size: 157
415466 GGAAAACCTC
* * * *
415476 TAGGTGTATTTTAGTAATTTTTTAGAACCAACTCCTAGCTCATCACTGGGTCCGCTTTTATGCTA
1 TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCTG
* * * *
415541 AAGATGGGCATTTAAGATAGGTTCATCCATTTTATTAGTCCTTTTAA-TCCTTTAGGGTTATCGA
66 AAGGTGGGCATTTAGGATAGGTTCATCCATTTTATTAGTCTTTTTAAGTCCTTTAGGGTTATCCA
*
415605 -GATACTTTTACATCAAAGGTATACCCT
131 GGATACTTTTACGTCAAAGGTAT-CCCT
* * * *** *
415632 TAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGGTCGTCACCAAGTCCGCTTTTATGCCG
1 TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCTG
* * * *
415697 AAGGTGGGCATTTAGGATAGGTTCATCCCA-TCT-CTAGTC----T-A-T-C---AAGGTTGT-C
66 AAGGTGGGCATTTAGGATAGGTTCAT-CCATTTTATTAGTCTTTTTAAGTCCTTTAGGGTTATCC
*
415749 AGGGTACTTTTACGT-AGAAGGTATACCCAT
130 AGGATACTTTTACGTCA-AAGGTAT-CCC-T
* * * * ** *
415779 T-GGGGTATTTTTGTAATTTCTTAAAACCAACTCTTAGGTTGTCACTGGGTCCGCTTTTATGCTA
1 TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCTG
* * * * * ** *
415843 AAAGTGGGCAGTTAGGGTAGGTTCGTCCTATTTCA--AACCTTTTTAAGTCCCTTATGGG-TA-C
66 AAGGTGGGCATTTAGGATAGGTTCATCC-ATTTTATTAGTCTTTTTAAGTCCTTTA-GGGTTATC
** ** * *
415904 C-GAGATA-TCCT-C-T-AGGGGCAT--TT
129 CAG-GATACTTTTACGTCAAAGGTATCCCT
* *** * * * * * *
415927 TCA----TAATTTT-TTAA--AACT-GAATCCTAAGT--TA--TCAT--CGGGTCTGC-TTTTAC
1 T-AGGGGT-ATTTTGGTAATTTTTTAGAA-CC-AACTCCTAGGTCATCACTGG-GTCCGCTTT-T
** * *** * * *
415977 AT-CGAAGGTG-GGCATTTAGGATAGGTTCA---TCA-CCATTTCTAGTA--CTTTTTAAGTCTT
60 ATGCTGAAG-GTGGGCATT----TAGGAT-AGGTTCATCCATTT-TATTAGTCTTTTTAAGTCCT
* *
416034 TTAGAGG-TA-CCAGGATACTTTCACGTCGAAGGTAT-CCT
118 TTAG-GGTTATCCAGGATACTTTTACGTCAAAGGTATCCCT
* ** * * * *
416072 CTAGAGGTATTTTTATGATTTTCTAGAACCAACTCCTAGGTCATCACTAGGTCCGCTTTTATGCC
1 -TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCT
* * * *
416137 GACGGTAGGCATTTAGGATAGGTTCATCACCA-TTTCTT-GTCTTTTTAAGTCCTTTAGGGTT-G
65 GAAGGTGGGCATTTAGGATAGGTTCAT--CCATTTTATTAGTCTTTTTAAGTCCTTTAGGGTTAT
* *
416199 CC-GAGATACTTTTACGTCGAAGGTATACCTT
128 CCAG-GATACTTTTACGTCAAAGGTAT-CCCT
* ** *
416230 TAGGGGTAATTTT-GTAATTTTTTAGAACCAACTCCTAGGTCGTCACCAGGTCCGCTTCTATGCT
1 TAGGGGT-ATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCT
* * * *
416294 GAAGGTGGGCATTTAGGATATGTTCATTCC-TTTTATGAGTCTTTTTAAGTCTTTTAGGGTT-GC
65 GAAGGTGGGCATTTAGGATAGGTTCA-TCCATTTTATTAGTCTTTTTAAGTCCTTTAGGGTTATC
* * *
416357 CAGAATACTTTTACGTCGAAGGTATACCCC
129 CAGGATACTTTTACGTCAAAGGTAT-CCCT
** * * * * * *
416387 TAAAGGTATTTTGGTAATATTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCG
1 TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCTG
* * * *
416452 AAGGTGGGCATTTTGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGGTAT-CA
66 AAGGTGGGCATTTAGGATAGGTTCATCCATTTTATTAGTCTTTTTAAGTCCTTTAGGGTTATCCA
* *
416516 GGATACTTTCATGTCAAAGGTATCTCC-
131 GGATACTTTTACGTCAAAGGTATC-CCT
* * * * *
416543 TAGGGGCATTTTTGTAATTTTTTAGAACTAACTCTTAGGTCATCA-TCGG---GCTTTTATGCTG
1 TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCTG
** * * * *
416604 AATATGGGCATTTAGGATAGGTTTATCCCCTTTTA-TAGTCCTTTTTAAGCCCTTTAGGGGTA-C
66 AAGGTGGGCATTTAGGATAGGTTCAT-CCATTTTATTAGT-CTTTTTAAGTCCTTTAGGGTTATC
* *
416667 CAGGATACTTTTACGTTGAAA-GTGTCTCC-
129 CAGGATACTTTTACG-TCAAAGGTATC-CCT
* * * * * *
416696 -AAGTGTATTTTGATAATTTTTTAGAACCAACTCTTAGGTCATCACAGGGTCCACTTTTATGCTG
1 TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCTG
* *
416760 AAGGTGGGCATTTAGGATAGGTTCATCCTTTTTATAAGTCTTTTTAAGTCCTTTAGGG
66 AAGGTGGGCATTTAGGATAGGTTCATCCATTTTATTAGTCTTTTTAAGTCCTTTAGGG
416818 CTACCGGAAT
Statistics
Matches: 917, Mismatches: 177, Indels: 185
0.72 0.14 0.14
Matches are distributed among these distances:
139 17 0.02
140 32 0.03
141 6 0.01
142 2 0.00
143 10 0.01
144 8 0.01
145 9 0.01
146 109 0.12
147 8 0.01
148 7 0.01
149 4 0.00
150 6 0.01
151 7 0.01
152 89 0.10
153 54 0.06
154 12 0.01
155 45 0.05
156 227 0.25
157 256 0.28
158 9 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (157 bp):
TAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACTGGGTCCGCTTTTATGCTG
AAGGTGGGCATTTAGGATAGGTTCATCCATTTTATTAGTCTTTTTAAGTCCTTTAGGGTTATCCA
GGATACTTTTACGTCAAAGGTATCCCT
Found at i:416257 original size:157 final size:155
Alignment explanation
Indices: 415980--416822 Score: 902
Period size: 157 Copynumber: 5.4 Consensus size: 155
415970 CTTTTACATC
* * *
415980 GAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCT-AGTACTTTTTAAGTCTTTTAGAGG-TA
1 GAAGGTGGGCATTTAGGATAGGTTCATC-CCTTTTATGAGT-CTTTTTAAGTCCTTTAG-GGTTA
* * * * * *
416043 CCAGGATACTTTCACGTCGAAGGTATCCTCTAGAGGTATTTTTATGATTTTCTAGAACCAACTCC
63 CCA-GATACTTTTACGTCGAAGGTATCCTCTAGGGGTAATTTTGTAATTTTTTAGAACCAACTCC
* *
416108 TAGGTCATCACTAGGTCCGCTTTTATGCC
127 TAGGTCATCACCAGGTCCGCTTTTATGCT
* * * * * *
416137 GACGGTAGGCATTTAGGATAGGTTCATCACCATTTCT-TGTCTTTTTAAGTCCTTTAGGGTTGCC
1 GAAGGTGGGCATTTAGGATAGGTTCATC-CCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTACC
*
416201 GAGATACTTTTACGTCGAAGGTATACCTTTAGGGGTAATTTTGTAATTTTTTAGAACCAACTCCT
65 -AGATACTTTTACGTCGAAGGTAT-CCTCTAGGGGTAATTTTGTAATTTTTTAGAACCAACTCCT
* *
416266 AGGTCGTCACCAGGTCCGCTTCTATGCT
128 AGGTCATCACCAGGTCCGCTTTTATGCT
* * * *
416294 GAAGGTGGGCATTTAGGATATGTTCATTCCTTTTATGAGTCTTTTTAAGTCTTTTAGGGTTGCCA
1 GAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTACCA
* ** * *
416359 GAATACTTTTACGTCGAAGGTATACCCCTAAAGGT-ATTTTGGTAATATTCTAGAACCAACTCCT
66 G-ATACTTTTACGTCGAAGGTAT-CCTCTAGGGGTAATTTT-GTAATTTTTTAGAACCAACTCCT
* * * *
416423 AGGTCGTCACCGGGTCTGCTTTTATGCC
128 AGGTCATCACCAGGTCCGCTTTTATGCT
* * *
416451 GAAGGTGGGCATTTTGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGGTATCA
1 GAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTACCA
* * * * * * *
416516 GGATACTTTCATGTCAAAGGTAT-CTCCTAGGGGCATTTTTGTAATTTTTTAGAACTAACTCTTA
66 -GATACTTTTACGTCGAAGGTATCCT-CTAGGGGTAATTTTGTAATTTTTTAGAACCAACTCCTA
*
416580 GGTCATCATC-GG---GCTTTTATGCT
129 GGTCATCACCAGGTCCGCTTTTATGCT
** * * *
416603 GAATATGGGCATTTAGGATAGGTTTATCCCCTTTTAT-AGTCCTTTTTAAGCCCTTTAGGGGTAC
1 GAAGGTGGGCATTTAGGATAGGTTCAT-CCCTTTTATGAGT-CTTTTTAAGTCCTTTAGGGTTAC
* * * * * * *
416667 CAGGATACTTTTACGTTGAAAGTGT-CTCCAAGTGT-ATTTTGATAATTTTTTAGAACCAACTCT
64 CA-GATACTTTTACGTCGAAGGTATCCTCTAGGGGTAATTTTG-TAATTTTTTAGAACCAACTCC
*
416730 TAGGTCATCA-CAGGGTCCACTTTTATGCT
127 TAGGTCATCACCA-GGTCCGCTTTTATGCT
* * *
416759 GAAGGTGGGCATTTAGGATAGGTTCATCCTTTTTATAAGTCTTTTTAAGTCCTTTAGGGCTACC
1 GAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTACC
416823 GGAATACCCA
Statistics
Matches: 587, Mismatches: 81, Indels: 38
0.83 0.11 0.05
Matches are distributed among these distances:
151 6 0.01
152 70 0.12
153 53 0.09
155 35 0.06
156 123 0.21
157 299 0.51
158 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (155 bp):
GAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTACCA
GATACTTTTACGTCGAAGGTATCCTCTAGGGGTAATTTTGTAATTTTTTAGAACCAACTCCTAGG
TCATCACCAGGTCCGCTTTTATGCT
Found at i:416499 original size:314 final size:306
Alignment explanation
Indices: 415980--416817 Score: 1006
Period size: 314 Copynumber: 2.7 Consensus size: 306
415970 CTTTTACATC
* *
415980 GAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTACTTTTTAAGTCTTTTAGAGGTACC
1 GAAGGTGGGCATTTAGGATAGGTTCATCACCTTTTATAGTACTTTTTAAGTCTTTTAG-GGTACC
* * * * *
416045 AGGATACTTTCACGTCGAAGGTATCCTCTAGAGGTATTTTTATGATTTTCTAGAACCAACTCCTA
65 AGGATACTTTTACGTCGAAGGTATCCCCTAAAGGTATTTTGATAATTTTCTAGAACCAACTCCTA
* * * *
416110 GGTCATCACTA-GGTCCGCTTTTATGCCGACGGTAGGCATTTAGGATAGGTTCATCACCATTTCT
130 GGTCATCAC-AGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCTTTTAT
* * * * * *
416174 TGTCTTTTTAAGTCCTTTAGGGT-TGCCGAGATACTTTTACGTCGAAGGTATAC-CTTTAGGGGT
193 AGTCTTTTTAAGTCCTTTAGGGTAT-CAG-GATACTTTCACGTCAAAGGTAT-CTC-CTAGGGGC
*
416237 AATTTTGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCAGGTCCGCTTCTATGCT
254 AATTTTGTAATTTTTTAGAACCAACTCCTAGGTCATCACC-GG---GCTTCTATGCT
* * *
416294 GAAGGTGGGCATTTAGGATATGTTCAT-TCCTTTTATGAGT-CTTTTTAAGTCTTTTAGGGTTGC
1 GAAGGTGGGCATTTAGGATAGGTTCATCACCTTTTAT-AGTACTTTTTAAGTCTTTTAGGG-TAC
* * *
416357 CAGAATACTTTTACGTCGAAGGTATACCCCTAAAGGTATTTTGGTAATATTCTAGAACCAACTCC
64 CAGGATACTTTTACGTCGAAGGTAT-CCCCTAAAGGTATTTTGATAATTTTCTAGAACCAACTCC
* * * *
416422 TAGGTCGTCACCGGGTCTGCTTTTATGCCGAAGGTGGGCATTTTGGATAGGTTCATCCCTTTTAT
128 TAGGTCATCACAGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTAT
* *
416487 GAGTCTTTTTAAGTCCTTTAGGGGTATCAGGATACTTTCATGTCAAAGGTATCTCCTAGGGGCAT
193 -AGTCTTTTTAAGTCCTTTA-GGGTATCAGGATACTTTCACGTCAAAGGTATCTCCTAGGGGCAA
* * * *
416552 TTTTGTAATTTTTTAGAACTAACTCTTAGGTCATCATCGGGCTTTTATGCT
256 TTTTGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGCTTCTATGCT
** * * * * *
416603 GAATATGGGCATTTAGGATAGGTTTATCCCCTTTTATAGTCCTTTTTAAGCCCTTTAGGGGTACC
1 GAAGGTGGGCATTTAGGATAGGTTCATCACCTTTTATAGTACTTTTTAAGTCTTTTA-GGGTACC
* * * * * *
416668 AGGATACTTTTACGTTGAAAGTGTCTCC--AAGTGTATTTTGATAATTTTTTAGAACCAACTCTT
65 AGGATACTTTTACGTCGAAGGTATCCCCTAAAG-GTATTTTGATAATTTTCTAGAACCAACTCCT
* * *
416731 AGGTCATCACAGGGTCCACTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCATCCTTTTTATA
129 AGGTCATCACAGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTAT-
416796 AGTCTTTTTAAGTCCTTTAGGG
193 AGTCTTTTTAAGTCCTTTAGGG
416818 CTACCGGAAT
Statistics
Matches: 453, Mismatches: 59, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
307 6 0.01
308 103 0.23
309 39 0.09
310 45 0.10
311 3 0.01
312 4 0.01
313 96 0.21
314 150 0.33
315 6 0.01
316 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (306 bp):
GAAGGTGGGCATTTAGGATAGGTTCATCACCTTTTATAGTACTTTTTAAGTCTTTTAGGGTACCA
GGATACTTTTACGTCGAAGGTATCCCCTAAAGGTATTTTGATAATTTTCTAGAACCAACTCCTAG
GTCATCACAGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTATAGT
CTTTTTAAGTCCTTTAGGGTATCAGGATACTTTCACGTCAAAGGTATCTCCTAGGGGCAATTTTG
TAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGCTTCTATGCT
Found at i:424511 original size:13 final size:14
Alignment explanation
Indices: 424493--424525 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
424483 ATAATATGAT
424493 AATTAT-AATTTAA
1 AATTATAAATTTAA
424506 AATTATAAATTTAA
1 AATTATAAATTTAA
424520 ATATTA
1 A-ATTA
424526 CTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTATAAATTTAA
Found at i:424659 original size:17 final size:19
Alignment explanation
Indices: 424615--424659 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
424605 ATTTGATTCG
424615 ATTATTAATTTTTAAAAATA
1 ATTATT-ATTTTTAAAAATA
* *
424635 ATTTTTATTTTTAATAAATT
1 ATTATTATTTTTAA-AAATA
424655 ATTAT
1 ATTAT
424660 ATAAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTATTATTTTTAAAAATA
Found at i:428783 original size:2 final size:2
Alignment explanation
Indices: 428743--428772 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
428733 GTTTAGGGAT
*
428743 TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
428773 CCCCCCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:433510 original size:20 final size:20
Alignment explanation
Indices: 433485--433552 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
433475 TGTCAGTTTC
433485 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATTGAGT
433505 ATGTATCGATAC-----A--
1 ATGTATCGATACAATTGAGT
433518 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATTGAGT
433538 ATGTATCGATACAAT
1 ATGTATCGATACAAT
433553 GTATCGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.29
15 1 0.02
18 1 0.02
20 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTGAGT
Found at i:433523 original size:13 final size:13
Alignment explanation
Indices: 433505--433569 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
433495 ACAATTGAGT
433505 ATGTATCGATACA
1 ATGTATCGATACA
433518 ATGTATCGATACA
1 ATGTATCGATACA
433531 A--T-T-GAGT---
1 ATGTATCGA-TACA
433538 ATGTATCGATACA
1 ATGTATCGATACA
433551 ATGTATCGATACA
1 ATGTATCGATACA
*
433564 AAGTAT
1 ATGTAT
433570 AATGTATCGA
Statistics
Matches: 43, Mismatches: 1, Indels: 16
0.72 0.02 0.27
Matches are distributed among these distances:
7 1 0.02
9 3 0.07
10 4 0.09
11 3 0.07
13 32 0.74
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:433527 original size:33 final size:33
Alignment explanation
Indices: 433485--433564 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
433475 TGTCAGTTTC
433485 ATGTATCGATACAATTGAGTATGTATCGATACA
1 ATGTATCGATACAATTGAGTATGTATCGATACA
433518 ATGTATCGATACAATTGAGTATGTATCGATACA
1 ATGTATCGATACAATTGAGTATGTATCGATACA
433551 ATGTATCGATACAA
1 ATGTATCGATACAA
433565 AGTATAATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAATTGAGTATGTATCGATACA
Found at i:434191 original size:14 final size:14
Alignment explanation
Indices: 434174--434203 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
434164 AAAAAAAACT
434174 TTTTAATTCTTCCC
1 TTTTAATTCTTCCC
*
434188 TTTTATTTCTTCCC
1 TTTTAATTCTTCCC
434202 TT
1 TT
434204 CTGTTAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTAATTCTTCCC
Found at i:439837 original size:13 final size:13
Alignment explanation
Indices: 439819--439845 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
439809 ACATCATGCT
439819 TTGTATCGATACA
1 TTGTATCGATACA
439832 TTGTATCGATACA
1 TTGTATCGATACA
439845 T
1 T
439846 ACACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:439933 original size:13 final size:13
Alignment explanation
Indices: 439915--439939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
439905 CATGGCACAT
439915 TGTATCGATACAA
1 TGTATCGATACAA
439928 TGTATCGATACA
1 TGTATCGATACA
439940 TGAAGAATTA
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:439954 original size:33 final size:33
Alignment explanation
Indices: 439895--439959 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
439885 TACTACTGTT
*
439895 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTATATCGATACAA
439928 TGTATCGATACATGAAG-A-ATTATATCGATACA
1 TGTATCGATACATG--GCACATTATATCGATACA
439960 TTGTCTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTATATCGATACAA
Found at i:440819 original size:43 final size:43
Alignment explanation
Indices: 440759--440845 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
440749 AGAGAGACGA
440759 TCTTCTTCAGCTCAAAAATGGAAAACGCAGCAATGGTTAAAGT
1 TCTTCTTCAGCTCAAAAATGGAAAACGCAGCAATGGTTAAAGT
*
440802 TCTTCTTCAGCTCAAAAATGGAAAATGCAGCAATGGTTAAAGT
1 TCTTCTTCAGCTCAAAAATGGAAAACGCAGCAATGGTTAAAGT
440845 T
1 T
440846 TCTCAATCGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (43 bp):
TCTTCTTCAGCTCAAAAATGGAAAACGCAGCAATGGTTAAAGT
Found at i:442771 original size:21 final size:19
Alignment explanation
Indices: 442719--442777 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
442709 TTGGCAGTAG
*
442719 CCAAACATGTATCGATACA
1 CCAAAAATGTATCGATACA
**
442738 CCAAGTATGTATCGATACA
1 CCAAAAATGTATCGATACA
442757 CCAAAAAATTGTATCGATACA
1 CC-AAAAA-TGTATCGATACA
442778 TTGGCTTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 19 0.56
20 3 0.09
21 12 0.35
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (19 bp):
CCAAAAATGTATCGATACA
Found at i:445003 original size:22 final size:22
Alignment explanation
Indices: 444976--445031 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
444966 TTGCAAGTTG
444976 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
444998 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
445019 AAATAAA-AACTTG
1 AAATAAAGAACTTG
445032 CATGATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:448919 original size:20 final size:20
Alignment explanation
Indices: 448848--448927 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
448838 AATGTCCAAA
*
448848 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
448868 GTGTATCGATACATTTGGAAATTCA
1 ATGTATCGATACATTT-----TTCT
448893 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
448913 TTGTATCGATACATT
1 ATGTATCGATACATT
448928 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:448931 original size:13 final size:13
Alignment explanation
Indices: 448913--448938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
448903 ACATTTTTCT
448913 TTGTATCGATACA
1 TTGTATCGATACA
448926 TTGTATCGATACA
1 TTGTATCGATACA
448939 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:449102 original size:20 final size:20
Alignment explanation
Indices: 449059--449104 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
449049 AAATCTTTTG
449059 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
449080 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
449100 CAAAA
1 CAAAA
449105 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:449420 original size:21 final size:20
Alignment explanation
Indices: 449378--449420 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
449368 GGCAGCACCA
* * *
449378 CCAGGTCGCGACCGGCACTC
1 CCAGGTCACAACCGGCAATC
449398 CCAGGTCACAACCGGGCAATC
1 CCAGGTCACAACC-GGCAATC
449419 CC
1 CC
449421 CACACTAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.21, C:0.44, G:0.26, T:0.09
Consensus pattern (20 bp):
CCAGGTCACAACCGGCAATC
Found at i:451219 original size:21 final size:19
Alignment explanation
Indices: 451167--451225 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
451157 TTGGCAGTAG
*
451167 CCAAACATGTATCGATACA
1 CCAAAAATGTATCGATACA
**
451186 CCAAGTATGTATCGATACA
1 CCAAAAATGTATCGATACA
451205 CCAAAAAATTGTATCGATACA
1 CC-AAAAA-TGTATCGATACA
451226 TTGGCTTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 19 0.56
20 3 0.09
21 12 0.35
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (19 bp):
CCAAAAATGTATCGATACA
Found at i:451290 original size:20 final size:21
Alignment explanation
Indices: 451260--451298 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
451250 CTATATTTTC
*
451260 AAATATGTATCGATACATTAA
1 AAATATGTATCAATACATTAA
451281 AAAT-TGTATCAATACATT
1 AAATATGTATCAATACATT
451299 TACATGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (21 bp):
AAATATGTATCAATACATTAA
Found at i:453419 original size:13 final size:13
Alignment explanation
Indices: 453401--453426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
453391 AATTTTTTGG
453401 TGTATCGATACAT
1 TGTATCGATACAT
453414 TGTATCGATACAT
1 TGTATCGATACAT
453427 ACATGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:453430 original size:17 final size:18
Alignment explanation
Indices: 453408--453444 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
453398 TGGTGTATCG
453408 ATACAT-TGTATCGATAC
1 ATACATGTGTATCGATAC
453425 ATACATGGTGTATCGATAC
1 ATACAT-GTGTATCGATAC
453444 A
1 A
453445 AGTTTGGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
ATACATGTGTATCGATAC
Found at i:455530 original size:21 final size:20
Alignment explanation
Indices: 455501--455543 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
455491 AGCTAGTGTG
*
455501 GGGAATGCCCGGTTGCGACCT
1 GGGAATG-CCGGTCGCGACCT
*
455522 GGGAGTGCCGGTCGCGACCT
1 GGGAATGCCGGTCGCGACCT
455542 GG
1 GG
455544 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.12, C:0.28, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGAATGCCGGTCGCGACCT
Found at i:456002 original size:13 final size:13
Alignment explanation
Indices: 455984--456022 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
455974 ATAATCCCCC
*
455984 TGTATCGATACAG
1 TGTATCGATACAA
455997 TGTATCGATACAA
1 TGTATCGATACAA
456010 TGTATCGATACAA
1 TGTATCGATACAA
456023 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:458122 original size:15 final size:15
Alignment explanation
Indices: 458102--458132 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
458092 ATTTCGTTTG
*
458102 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
458117 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
458132 G
1 G
458133 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:460585 original size:12 final size:12
Alignment explanation
Indices: 460552--460586 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
460542 TTCATCCGAG
460552 TCATCATCTTCA
1 TCATCATCTTCA
*
460564 TCAACATCTTCA
1 TCATCATCTTCA
*
460576 TCATCTTCTTC
1 TCATCATCTTC
460587 GTCCTTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (12 bp):
TCATCATCTTCA
Found at i:462071 original size:20 final size:20
Alignment explanation
Indices: 462046--462083 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
462036 TCCCATGTAA
462046 ATGTATCGATACAAATTTTG
1 ATGTATCGATACAAATTTTG
*
462066 ATGTATCGATACATATTT
1 ATGTATCGATACAAATTT
462084 GAAAATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACAAATTTTG
Found at i:462157 original size:13 final size:13
Alignment explanation
Indices: 462139--462164 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
462129 AATTTTTTGG
462139 TGTATCGATACAT
1 TGTATCGATACAT
462152 TGTATCGATACAT
1 TGTATCGATACAT
462165 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:468222 original size:20 final size:19
Alignment explanation
Indices: 468199--468266 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
468189 CATTTCCAGA
*
468199 TGTATCGATACATCATGCTT
1 TGTATCGATACAT-ATGCAT
* *
468219 TGTATCGATACATGTTCAT
1 TGTATCGATACATATGCAT
**
468238 TGTATCGATACATACACAAT
1 TGTATCGATACATATGC-AT
468258 TGTATCGAT
1 TGTATCGAT
468267 GCATGAAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.41
20 24 0.59
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATATGCAT
Found at i:468242 original size:19 final size:18
Alignment explanation
Indices: 468181--468250 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 18
468171 CCTTTGAAAA
*
468181 TATCGATACATTTCCAGATG
1 TATCGATACATTT-CA-TTG
* *
468201 TATCGATACATCATGCTTTG
1 TATCGATACAT--TTCATTG
468221 TATCGATACATGTTCATTG
1 TATCGATACAT-TTCATTG
468240 TATCGATACAT
1 TATCGATACAT
468251 ACACAATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 16 0.38
20 24 0.57
21 1 0.02
22 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (18 bp):
TATCGATACATTTCATTG
Found at i:468343 original size:20 final size:20
Alignment explanation
Indices: 468300--468353 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
468290 CTACCAATGT
* *
468300 TTGTATCGATACATGGGACT
1 TTGTATCGATACATGAGACA
468320 TTGTATCGATACATGAAGA-A
1 TTGTATCGATACATG-AGACA
*
468340 TTGTATCGAAACAT
1 TTGTATCGATACAT
468354 TGTCTCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGAGACA
Found at i:470000 original size:12 final size:12
Alignment explanation
Indices: 469983--470012 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
469973 AGTCAACTTC
469983 ATCATCATCATT
1 ATCATCATCATT
*
469995 ATCATCATCTTT
1 ATCATCATCATT
470007 ATCATC
1 ATCATC
470013 TTTGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (12 bp):
ATCATCATCATT
Found at i:471682 original size:20 final size:19
Alignment explanation
Indices: 471656--471709 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
471646 TTGCCAGTTT
*
471656 CATGTATTGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
471676 TATGTATCAATACAATGAG
1 CATGTATCGATACAATGAG
471695 CATGTATCGATACAA
1 CATGTATCGATACAA
471710 AGCACAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:478847 original size:21 final size:21
Alignment explanation
Indices: 478823--478869 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
478813 TTTAATGCTG
478823 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
478843 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
478864 ATTTTG
1 ATTTTG
478870 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:479008 original size:13 final size:13
Alignment explanation
Indices: 478990--479028 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
478980 ATAATCACCC
*
478990 TGTATCGATACAG
1 TGTATCGATACAA
479003 TGTATCGATACAA
1 TGTATCGATACAA
479016 TGTATCGATACAA
1 TGTATCGATACAA
479029 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:479039 original size:20 final size:20
Alignment explanation
Indices: 479014--479092 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
479004 GTATCGATAC
479014 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
479034 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
479059 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
479079 CATGTATCGATACA
1 AATGTATCGATACA
479093 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:481117 original size:15 final size:15
Alignment explanation
Indices: 481097--481127 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
481087 ATTTCGTTTG
*
481097 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
481112 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
481127 G
1 G
481128 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:482960 original size:21 final size:21
Alignment explanation
Indices: 482931--482975 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
482921 AAGTTTTCAT
*
482931 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
482951 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
482973 TTT
1 TTT
482976 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:487536 original size:20 final size:20
Alignment explanation
Indices: 487510--487564 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
487500 AAAAAGACAG
*
487510 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
487530 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
487550 AATGTATCGATACAT
1 AATGTATCGATACAT
487565 CTGGATACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:488972 original size:12 final size:13
Alignment explanation
Indices: 488949--488977 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
488939 ATATCATTCA
488949 AAAAAATAAAAAT
1 AAAAAATAAAAAT
488962 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
488974 AAAA
1 AAAA
488978 TAATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:490965 original size:51 final size:50
Alignment explanation
Indices: 490853--490970 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 50
490843 GAAAACAACG
*
490853 GGGTTGGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAATAAAAAT
1 GGGTTGGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAACAAAAAT
* ** *
490903 GGGATTGGAGTAT-CCTCGATGGTGAAAAGTTGATATTTTGGAAAC-AAAAT
1 GGG-TTGGAGTATCCCT-GATGGTGAAAAATCAATATTTTAGAAACAAAAAT
*
490953 CAGGGTTTGAGTATCCCT
1 --GGGTTGGAGTATCCCT
490971 TCAAAAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
50 11 0.19
51 40 0.70
52 6 0.11
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (50 bp):
GGGTTGGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAACAAAAAT
Found at i:490983 original size:79 final size:79
Alignment explanation
Indices: 490900--491048 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 79
490890 TAGAAATAAA
* * ** * *
490900 AATGGGATTGGAGTAT-CCTCGATGGTGAAAAGTTGATATTTTGGAAACAAAATCAGGGTTTGAG
1 AATGGGATTAGAGTATCCCT-GATGGTGAAAAATCAATATTTTAGAAACAAAATCAGGGTTGGAG
490964 TATCCCTTCAAAAAT
65 TATCCCTTCAAAAAT
* * * *
490979 AATGGGGTTAGAGTATCCCTGATGGTGAAAAATCAATGTTTTAGAAATAAAATCGGGGTTGGAGT
1 AATGGGATTAGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAACAAAATCAGGGTTGGAGT
491044 ATCCC
66 ATCCC
491049 CGATGGTGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 56 0.95
80 3 0.05
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (79 bp):
AATGGGATTAGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAACAAAATCAGGGTTGGAGT
ATCCCTTCAAAAAT
Found at i:491048 original size:51 final size:51
Alignment explanation
Indices: 490982--491096 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
490972 CAAAAATAAT
* * *
490982 GGGGTTAGAGTATCCCTGATGGTGAAAAATCAATGTTTTAGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACC
* *
491033 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTCGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACC
* *
491084 GAGATTGGAGTAT
1 GGGGTTGGAGTAT
491097 ATTTACACAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACC
Found at i:491095 original size:130 final size:130
Alignment explanation
Indices: 490852--491096 Score: 350
Period size: 130 Copynumber: 1.9 Consensus size: 130
490842 TGAAAACAAC
*
490852 GGGGTTGGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAATAAAAATGGGATTGGAGTATC
1 GGGGTTAGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAATAAAAATGGGATTGGAGTATC
* * * * * * *
490917 CTCGATGGTGAAAAGTTGATATTTTGGAAACAAAATCAGGGTTTGAGTATCCCTTCAAAAATAAT
66 CCCGATGGTGAAAAATCGATATTTTCGAAACAAAACCAGGATTGGAGTATCCCTTCAAAAATAAT
* *
490982 GGGGTTAGAGTATCCCTGATGGTGAAAAATCAATGTTTTAGAAAT-AAAATCGGGGTTGGAGTAT
1 GGGGTTAGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAATAAAAAT-GGGATTGGAGTAT
* *
491046 CCCCGATGGTGAAAAATCGATGTTTTCGAAATAAAACC-GAGATTGGAGTAT
65 CCCCGATGGTGAAAAATCGATATTTTCGAAACAAAACCAG-GATTGGAGTAT
491097 ATTTACACAA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
129 6 0.06
130 95 0.94
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (130 bp):
GGGGTTAGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAAATAAAAATGGGATTGGAGTATC
CCCGATGGTGAAAAATCGATATTTTCGAAACAAAACCAGGATTGGAGTATCCCTTCAAAAATAAT
Found at i:495347 original size:50 final size:51
Alignment explanation
Indices: 495264--495362 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 51
495254 CGAAAACAAC
*
495264 GGGGTTGGAGTATGCCCGATGATAAGAAATCGATATTTTGGAAATAAAAAT
1 GGGGTTGGAGTATGCCCGATGATAAGAAATCGATATTTTGGAAACAAAAAT
* * *
495315 GGGGTTTGAGTAT-CCCGATGGTGAA-AAGTCGATATTTTGGAAACAAAA
1 GGGGTTGGAGTATGCCCGATGAT-AAGAAATCGATATTTTGGAAACAAAA
495363 TCAAGCTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 29 0.67
51 14 0.33
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.27
Consensus pattern (51 bp):
GGGGTTGGAGTATGCCCGATGATAAGAAATCGATATTTTGGAAACAAAAAT
Found at i:495442 original size:79 final size:78
Alignment explanation
Indices: 495312--495678 Score: 283
Period size: 79 Copynumber: 4.7 Consensus size: 78
495302 TGGAAATAAA
* * * * *
495312 AATGGGGTTTGAGTATCCCGATGGT-GAAAAGTCGATATTTTGGAAACAAAATCAAGCTTAGAGT
1 AATGGGGTTCGAGTATCCTGATGGTGGAAAA-TCGATATTTTAGAAATAAAATCAAGGTTAGAGT
495376 ATCCCCTCAAAAAT
65 ATCCCCTCAAAAAT
* ** *
495390 AATGGGGTTCGAGTATTCCTGATTGTGGAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGT
1 AATGGGGTTCGAGTA-TCCTGATGGTGGAAAATCGATATTTTAGAAATAAAATCAAGGTTAGAGT
* *
495455 ATCCCTTCAGAAAT
65 ATCCCCTCAAAAAT
* * * * * * * *
495469 AACGGGGTTGGAGTATCCTCGATGGTGAAAAATC-AGTTTTTTCGAAATAAAACCAGGGTTGGAG
1 AATGGGGTTCGAGTATCCT-GATGGTGGAAAATCGA-TATTTTAGAAATAAAATCAAGGTTAGAG
* **
495533 TATCTCCTTGAAAAT
64 TATCCCCTCAAAAAT
* * * * * * * * * *
495548 AACGAGGTTAGAGTATCCTCGATAGTGGAAAAT-TAGTGTTTT-GAAAATAAAATCGAGATCAAA
1 AATGGGGTTCGAGTATCCT-GATGGTGGAAAATCGA-TATTTTAG-AAATAAAATCAAGGTTAGA
* *
495611 GTATTCCCTCGAAAAT
63 GTATCCCCTCAAAAAT
* * * * *
495627 AGTGGGGTTCGAGTATCCCCGATGGTAGAAAATCAATATTTTAAAAATAAAA
1 AATGGGGTTCGAGTAT-CCTGATGGTGGAAAATCGATATTTTAGAAATAAAA
495679 ACATCAATGA
Statistics
Matches: 231, Mismatches: 49, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
78 20 0.09
79 203 0.88
80 8 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (78 bp):
AATGGGGTTCGAGTATCCTGATGGTGGAAAATCGATATTTTAGAAATAAAATCAAGGTTAGAGTA
TCCCCTCAAAAAT
Found at i:498916 original size:42 final size:41
Alignment explanation
Indices: 498868--499047 Score: 105
Period size: 43 Copynumber: 4.5 Consensus size: 41
498858 CTTCGGGGAT
*
498868 AAAGGAAAAAAGGAAATGAAGTGGGTCTTGCTCCTTGAGGAC
1 AAAGGAAAAAAGGAAATGAAGT-GGTCCTGCTCCTTGAGGAC
*
498910 AAAGG----AA--AAATG-A---GTCCTGCT-CTTCGGGGAC
1 AAAGGAAAAAAGGAAATGAAGTGGTCCTGCTCCTT-GAGGAC
* * *
498941 AAAGGAAAAAAGGAAATAAAGTGTGTCCTGC-CCTTTAAGGGC
1 AAAGGAAAAAAGGAAATGAAGTG-GTCCTGCTCC-TTGAGGAC
* * * * **
498983 AAAGGAAAAGAAGGAAATGAAGCGCATCTTACTTTTTGAGGAC
1 AAAGGAAAA-AAGGAAATGAAGTG-GTCCTGCTCCTTGAGGAC
499026 AAAGGGAAAATAAGGAAATGAA
1 AAA-GGAAAA-AAGGAAATGAA
499048 TCCTGCTCTT
Statistics
Matches: 104, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
30 3 0.03
31 17 0.16
35 3 0.03
36 5 0.05
37 4 0.04
38 3 0.03
42 25 0.24
43 27 0.26
44 17 0.16
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (41 bp):
AAAGGAAAAAAGGAAATGAAGTGGTCCTGCTCCTTGAGGAC
Found at i:498956 original size:73 final size:73
Alignment explanation
Indices: 498724--498990 Score: 238
Period size: 73 Copynumber: 3.6 Consensus size: 73
498714 TTTAGAAGGG
* * * ** ** *
498724 AAAAGGAAAAGAAGAGGCGGCCTGCTTTTTGAGGACAAAGGAAAGGAGTACGTCCTGCTCTTCGA
1 AAAAGGAAATGAAGTGG-GTCCTGCTCCTTGAGGACAAAGGAAACAAG-A-GTCCTGCTCTTCGG
498789 GGATAAAGGAA
63 GGATAAAGGAA
* * * * *
498800 AAGA-G-AATGAAATGGGTCCTACTCCTTGAGGAC-AAGGAAACAAGGAATACGCCTTGTTCTTC
1 AAAAGGAAATGAAGTGGGTCCTGCTCCTTGAGGACAAAGGAAACAA-GAGT---CC-TGCTCTTC
498862 GGGGATAAAGGAA
61 GGGGATAAAGGAA
*
498875 AAAAGGAAATGAAGTGGGTCTTGCTCCTTGAGGACAAAGGAAA-AATGAGTCCTGCTCTTCGGGG
1 AAAAGGAAATGAAGTGGGTCCTGCTCCTTGAGGACAAAGGAAACAA-GAGTCCTGCTCTTCGGGG
*
498939 ACAAAGGAA
65 ATAAAGGAA
* * * *
498948 AAAAGGAAATAAAGTGTGTCCTGC-CCTTTAAGGGCAAAGGAAA
1 AAAAGGAAATGAAGTGGGTCCTGCTCC-TTGAGGACAAAGGAAA
498991 AGAAGGAAAT
Statistics
Matches: 156, Mismatches: 26, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
71 1 0.01
72 11 0.07
73 69 0.44
74 11 0.07
75 23 0.15
76 4 0.03
77 30 0.19
78 7 0.04
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (73 bp):
AAAAGGAAATGAAGTGGGTCCTGCTCCTTGAGGACAAAGGAAACAAGAGTCCTGCTCTTCGGGGA
TAAAGGAA
Found at i:499265 original size:61 final size:61
Alignment explanation
Indices: 499114--499814 Score: 832
Period size: 62 Copynumber: 11.4 Consensus size: 61
499104 AAAGAAAATG
* * *
499114 TCCTGCTCTTTGAGGACTAAAAGGTGCCTCCAACTCGTGTGGACTTTAAAAG-AAAATGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
** * * * *
499174 TCCAACTCTTTGAGGACTAGAAGGTGCCACCAACTCTTGTGGGCTTTAAAAGAAAAAAGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * **
499235 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTGGTATGGGTTTTGAAAAGAAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* *
499297 TCATGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * *
499358 TCCTGCTATTTGAGGACTAAAGGGTGCCACCAACTCGTTTAGGCTTTGAAAA-AAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * * * *
499419 TCCTGCTATTTGAGGACTAAAGGGTG-CACCAACTTGTGTGAGCTTTCAAAGAAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG-AAAAAGGCA
* * * *
499480 TCCTGCTCTTTGATGACTAAAAGGTGCCACCAACTCGTGTGGACTTTCAAAGGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * * * * *
499542 TCCTACTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTCAAAGAAAAAATGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG-AAAAAGGCA
* * * * * * *
499604 TCCTACTCTTTAAGGACTAAGAGGTGCCACCAACTCGTGTGGACTTTCAAAGGAAAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * *
499666 TCCTACTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * ** *
499728 TCATGCTCTTTGAGGACTAAAGGGTGCCATTAACTCGTGTGGGCTTTGAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* *
499790 TCCTACTCTTTGAGGACAAAAAGGT
1 TCCTGCTCTTTGAGGACTAAAAGGT
499815 TAAAAGGGGT
Statistics
Matches: 546, Mismatches: 86, Indels: 16
0.84 0.13 0.02
Matches are distributed among these distances:
59 3 0.01
60 62 0.11
61 168 0.31
62 307 0.56
63 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
Found at i:499613 original size:124 final size:124
Alignment explanation
Indices: 499048--499806 Score: 917
Period size: 124 Copynumber: 6.1 Consensus size: 124
499038 AGGAAATGAA
* * * * **
499048 TCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGT-AGGCTTTAAAAGGAAAAAAGAAAA
1 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGA-GCTTTAAAA-GAAAAAAG-GCA
* * *
499112 TGTCCTGCTCTTTGAGGACTAAAAGGTGCCTCCAACTCGTGTGGACTTT-AAAAG-AAAATGCA
63 --TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCG
* * * *
499174 TCCAACTCTTTGAGGACTAGAA-GGTGCCACCAACTCTTGTGGGCTTTAAAAGAAAAAA-GCGTC
1 TCCTACTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGAGCTTTAAAAGAAAAAAGGCATC
* * * ** *
499237 CTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTGGTATGGGTTTTGAAAAGAAAAAGGTG
65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCG
* * * * *
499297 TCATGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG-AAAAAGGCATCC
1 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTAAAAGAAAAAAGGCATCC
* * * *
499361 TGCTATTTGAGGACTAAAGGGTGCCACCAACTCGTTTAGG-CTTTGAAAA-AAAAAGGCA
66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGT-GGACTTTGAAAAGAAAAAGGCG
* * * *
499419 TCCTGCTATTTGAGGACTAAAGGGTG-CACCAACTTGTGTGAGCTTTCAAAGAAAAAAGGCATCC
1 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTAAAAGAAAAAAGGCATCC
* * *
499483 TGCTCTTTGATGACTAAAAGGTGCCACCAACTCGTGTGGACTTTCAAAGGAAAAAGGCG
66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCG
* * *
499542 TCCTACTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTCAAAGAAAAAATGCATCC
1 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTAAAAGAAAAAAGGCATCC
* * * * * *
499607 TACTCTTTAAGGACTAAGAGGTGCCACCAACTCGTGTGGACTTTCAAAGGAAAAAGACG
66 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCG
* *
499666 TCCTACTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAGGCATC
1 TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTT-AAAAGAAAAAAGGCATC
* * ** *
499730 ATGCTCTTTGAGGACTAAAGGGTGCCATTAACTCGTGTGGGCTTTGAAAAGAAAAAGGCG
65 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCG
499790 TCCTACTCTTTGAGGAC
1 TCCTACTCTTTGAGGAC
499807 AAAAAGGTTA
Statistics
Matches: 551, Mismatches: 70, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
121 65 0.12
122 93 0.17
123 126 0.23
124 213 0.39
125 11 0.02
126 41 0.07
127 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (124 bp):
TCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTAAAAGAAAAAAGGCATCC
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCG
Found at i:502642 original size:79 final size:78
Alignment explanation
Indices: 502493--502879 Score: 391
Period size: 79 Copynumber: 4.9 Consensus size: 78
502483 TGGAGATGAC
* * * *
502493 AACGGGGCTGGAGTATCTCCTGATTATGGAAAATCGATGTTCTAGAAATAAAATC-GAGGTTGGA
1 AACGGGGTTGGAGTATC-CCCGATTAT-GAAAATCGATGTTTTAGAAATAAAACCAG-GGTTGGA
* * *
502557 ATATCCCTTCGGAAAT
63 GTATCCCCTCGAAAAT
** * * * *
502573 AACAAGGTTGGAGCATCCCTGATTATAGAAAATCGACGTTTT-GAAAATAAAATCAGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTAT-GAAAATCGATGTTTTAG-AAATAAAACCAGGGTTGGAG
*
502637 TATCCCCTCGATAAT
64 TATCCCCTCGAAAAT
* * * * * ** *
502652 AACGGGGTTGGAGTATCACCGATTGTGAAAAATCAAAGCTTTAGAAATAAGGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATG-AAAATCGATGTTTTAGAAATAAAACCAGGGTTGGAGT
* *
502717 ATCCCCGCCAAAAT
65 ATCCCCTCGAAAAT
* * * * *
502731 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCTAGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGA-AAATCGATGTTTTAGAAATAAAACCAGGGTTGGAGT
502796 ATCCCCTCGAAAAT
65 ATCCCCTCGAAAAT
* * * *
502810 AACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATG-AAAATCGATGTTTTAGAAATAAAACCAGGGTTGGAGT
502875 ATCCC
65 ATCCC
502880 TGAGATGAAA
Statistics
Matches: 256, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
78 3 0.01
79 237 0.93
80 16 0.06
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAATCGATGTTTTAGAAATAAAACCAGGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:505259 original size:13 final size:13
Alignment explanation
Indices: 505241--505270 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
505231 GTAAACCTAG
*
505241 AATGTATCGATAC
1 AATGTATCCATAC
505254 AATGTATCCATAC
1 AATGTATCCATAC
505267 AATG
1 AATG
505271 AACAACCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCCATAC
Done.