Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 113 of 126
Found at i:33623016 original size:28 final size:27
Alignment explanation
Indices: 33622955--33623078 Score: 79
Period size: 30 Copynumber: 4.3 Consensus size: 27
33622945 AAATGGTAAT
* * *
33622955 TTTTGGAAAGTTTAGGGTCAAAAATGATAA
1 TTTTGG-AAGTTCAGGGT-AAAAGTG-TGA
33622985 TTTTGGAAGTTCCAGGGTAAAAGTGTGA
1 TTTTGGAAGTT-CAGGGTAAAAGTGTGA
* ** *
33623013 TTTTGAAAAGGTTTGGGGTTAAAA-TGGTAA
1 TTTTG-GAA-GTTCAGGG-TAAAAGT-GTGA
* *
33623043 TTTTGGAAGTTCAGGGGGAAAAGTGCGA
1 TTTTGGAAGTTCA-GGGTAAAAGTGTGA
33623071 TTTTGGAA
1 TTTTGGAA
33623079 AGGTTCGGGG
Statistics
Matches: 74, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
28 24 0.32
29 23 0.31
30 27 0.36
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.33
Consensus pattern (27 bp):
TTTTGGAAGTTCAGGGTAAAAGTGTGA
Found at i:33623176 original size:29 final size:28
Alignment explanation
Indices: 33622741--33623203 Score: 162
Period size: 29 Copynumber: 15.9 Consensus size: 28
33622731 TCCGGGGGTG
* * *
33622741 AAATGGTAATTTTTGGATG-TTCGGGTGTA
1 AAAT-GTAATTTTTGAAAGTTTAGGGT-TA
* *
33622770 AAATGGTAATTTTTGGAAAG-TTCGAGGTCAA
1 AAAT-GTAATTTTT-GAAAGTTTAG-GGT-TA
* **
33622801 AAATGTAATTTTTGGACA-TCCAGGAG-TA
1 AAATGTAATTTTT-GAAAGTTTAGG-GTTA
* * *
33622829 AAATGGTAATTTTTGGATGTTCGAGGG-TA
1 AAAT-GTAATTTTTGAAAGTT-TAGGGTTA
* *
33622858 AAATGGTAATTTTTGGAAAGTTTGGGGTCAA
1 AAAT-GTAATTTTT-GAAAGTTTAGGGT-TA
* * * *
33622889 AAATGTGATTTTTGGACA-TCTCATGG-TA
1 AAATGTAATTTTT-GAAAGT-TTAGGGTTA
* * * *
33622917 AAATGATAATTTTTTATA-TTCAGGGGTA
1 AAATG-TAATTTTTGAAAGTTTAGGGTTA
*
33622945 AAATGGTAATTTTTGGAAAGTTTAGGGTCAA
1 AAAT-GTAATTTTT-GAAAGTTTAGGGT-TA
* *
33622976 AAATGATAA-TTTTGGAAGTTCCAGGG-TA
1 AAATG-TAATTTTTGAAAGTT-TAGGGTTA
* *
33623004 AAAGTGTGA-TTTTGAAAAGGTTTGGGGTTA
1 AAA-TGTAATTTTTG-AAA-GTTTAGGGTTA
* * **
33623034 AAATGGTAA-TTTTGGAAGTTCAGGGGGA
1 AAAT-GTAATTTTTGAAAGTTTAGGGTTA
** * **
33623062 AAAGTGCGATTTTGGAAAGGTTCGGGGTTA
1 AAA-TGTAATTTTTGAAA-GTTTAGGGTTA
* * **
33623092 AAACGATAA-TTTTGGAAGTTTAGGGGCAA
1 AAATG-TAATTTTTGAAAGTTTA-GGGTTA
33623121 AAATGTAATTTTTAGAAAGTTT-GGGTTA
1 AAATGTAATTTTT-GAAAGTTTAGGGTTA
*
33623149 AAATGTAATTTTTGTAAAGTTTATGGTTA
1 AAATGTAATTTTTG-AAAGTTTAGGGTTA
* *
33623178 AAATATGATTTTTGAAGAGTTTAGGG
1 AAATGTAATTTTTGAA-AGTTTAGGG
33623204 ACCTTCTAGG
Statistics
Matches: 329, Mismatches: 71, Indels: 68
0.70 0.15 0.15
Matches are distributed among these distances:
27 6 0.02
28 84 0.26
29 123 0.37
30 95 0.29
31 21 0.06
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (28 bp):
AAATGTAATTTTTGAAAGTTTAGGGTTA
Found at i:33625628 original size:208 final size:209
Alignment explanation
Indices: 33625285--33625666 Score: 536
Period size: 208 Copynumber: 1.8 Consensus size: 209
33625275 TTTGGGTCTC
* * * * *
33625285 ATCAGGAAGATGGATTTGGTCTACTTCTCTATATTTCATCAGGAAGGTTGACCATTTTATTGCTT
1 ATCAGGAAGACGGATCTGGTCTACTTCTCTATATCTCATCAGAAAGGTTAACCATTTTATTGCTT
* * * * * *
33625350 TGACCCGCTTCTCAGTATCTTATCAGAAAGTTAGGGTTCGAAGATTTGCTCATTTTGAGTTTTGT
66 CGACCCGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGGT
33625415 TTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTGATCCA
131 TTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTGATCCA
33625480 CTTTTCTATATCTT
196 CTTTTCTATATCTT
* * *
33625494 ATCAGGAAGACGGATCTGGT-TCACTTCTCTGTATCTCATCTGAAAGG-TAACCGTTTTATTGCT
1 ATCAGGAAGACGGATCTGGTCT-ACTTCTCTATATCTCATCAGAAAGGTTAACCATTTTATTGCT
* * * *
33625557 TCGACCTGCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAG-TTTCGCTCACTTTGAGCTTG
65 TCGACCCGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAGATTT-GCTCACTTTGAGCTTG
* * *
33625621 GTTTCATTGATTTGGTCTACTTCTCAGTATCTTATTAGGAAGATGA
129 GTTTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGA
33625667 TTGCATCACT
Statistics
Matches: 150, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
207 3 0.02
208 108 0.72
209 39 0.26
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (209 bp):
ATCAGGAAGACGGATCTGGTCTACTTCTCTATATCTCATCAGAAAGGTTAACCATTTTATTGCTT
CGACCCGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGGT
TTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTGATCCA
CTTTTCTATATCTT
Found at i:33625803 original size:172 final size:173
Alignment explanation
Indices: 33625517--33625886 Score: 532
Period size: 172 Copynumber: 2.2 Consensus size: 173
33625507 ATCTGGTTCA
* * * * * * * *
33625517 CTTCTCTGTATCTCATC-TGAA-AGGTAACCGTTTTATTGCTTCGACCTGCTTCTTAGTATCTCA
1 CTTCTCTGTATCTCATCAAGAAGACG-AACCGCTTTATTACTTCAACCCGCTTCTCAGTATCTAA
*
33625580 TCAGGAAGCTGGGGTTCGAAGTTTCGCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCT
65 TCAGGAAGCTGGGGTTCGAAGTTTCGCTCACTTTAAGCTTGGTTTCATTGATTTGGTCTACTTCT
* * ***
33625645 CAGTATCTTATTAGGAAGATGATTGCATCACTTATTTTAATCCG
130 CAGTATCTCATTAAGAAGATGACCACATCACTTATTTTAATCCG
33625689 CTTCTCTGTATCTCATCAAGAAGACG-ACCGCTTTATTACTTCAACCCGCTTCTCAGTATCTAAT
1 CTTCTCTGTATCTCATCAAGAAGACGAACCGCTTTATTACTTCAACCCGCTTCTCAGTATCTAAT
33625753 CAGGAAGCTGGGGTTCGAAGTTTCGCTCA-TATTAAGCTTGGTTTCATTGATTTGGTCTACTTCT
66 CAGGAAGCTGGGGTTCGAAGTTTCGCTCACT-TTAAGCTTGGTTTCATTGATTTGGTCTACTTCT
* *
33625817 CAGTATCTCATTAAGAAGATGACCATATCACTTGTTTTAATCCG
130 CAGTATCTCATTAAGAAGATGACCACATCACTTATTTTAATCCG
* *
33625861 CTTCTCTTTATCTCATTAAGAAGACG
1 CTTCTCTGTATCTCATCAAGAAGACG
33625887 GATTTGGTCC
Statistics
Matches: 177, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
171 1 0.01
172 171 0.97
173 3 0.02
174 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (173 bp):
CTTCTCTGTATCTCATCAAGAAGACGAACCGCTTTATTACTTCAACCCGCTTCTCAGTATCTAAT
CAGGAAGCTGGGGTTCGAAGTTTCGCTCACTTTAAGCTTGGTTTCATTGATTTGGTCTACTTCTC
AGTATCTCATTAAGAAGATGACCACATCACTTATTTTAATCCG
Found at i:33626031 original size:39 final size:38
Alignment explanation
Indices: 33625944--33626033 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 38
33625934 TGCTTCGATA
33625944 ACTGCAATCTGCCCCATAATCGAGTAAAAGATTGGATG
1 ACTGCAATCTGCCCCATAATCGAGTAAAAGATTGGATG
* *** * *
33625982 GCTATGATCTGCCCCATGATCGGGATAAAAGATTGGATG
1 ACTGCAATCTGCCCCATAATCGAG-TAAAAGATTGGATG
33626021 ACTGCAATCTGCC
1 ACTGCAATCTGCC
33626034 TTAGGCTCGG
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
38 18 0.44
39 23 0.56
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (38 bp):
ACTGCAATCTGCCCCATAATCGAGTAAAAGATTGGATG
Found at i:33626163 original size:78 final size:78
Alignment explanation
Indices: 33625986--33626189 Score: 209
Period size: 78 Copynumber: 2.6 Consensus size: 78
33625976 TGGATGGCTA
* * * * ** * *
33625986 TGATCTGCCCCATG-ATCGGGATAAAAGATTGGATGACTGCAATCTGCCTTAGGCTCGGGGCAAG
1 TGATCTGCCCCAAGCA-CGGGGTAAAAGATCGAATGACTGCAATCTGCCCCAGGCTCGAGACAAG
* *
33626050 AGATTGGTTGATGG
65 AGATTGGCTAATGG
* * * *
33626064 TGATCTGCCCCAAACTA-GGGGTAAAAGATCGAATGGCTGCCATCTGCCCCAGGCTCGAGATAAG
1 TGATCTGCCCCAAGC-ACGGGGTAAAAGATCGAATGACTGCAATCTGCCCCAGGCTCGAGACAAG
33626128 AGATTGGCTAATGG
65 AGATTGGCTAATGG
* *
33626142 TGATCTGCCCCAAGCACGGGGTAAGAGATCGGAAT--CTTCAATCTGCCC
1 TGATCTGCCCCAAGCACGGGGTAAAAGATC-GAATGACTGCAATCTGCCC
33626190 TTCTTGATTA
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
77 12 0.12
78 87 0.84
79 4 0.04
80 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (78 bp):
TGATCTGCCCCAAGCACGGGGTAAAAGATCGAATGACTGCAATCTGCCCCAGGCTCGAGACAAGA
GATTGGCTAATGG
Found at i:33626167 original size:39 final size:39
Alignment explanation
Indices: 33626041--33626170 Score: 106
Period size: 39 Copynumber: 3.3 Consensus size: 39
33626031 GCCTTAGGCT
* * * *
33626041 CGGGGCAAGAGATTGGTTGATGGTGATCTGCCCCAAACTA
1 CGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGC-A
* * * *
33626081 -GGGGTAAAAGA-T--CGAATGGCTGCCATCTGCCCCAGGCT
1 CGGGGTAAGAGATTGGCTAATGG-TG--ATCTGCCCCAAGCA
* *
33626119 CGAGATAAGAGATTGGCTAATGGTGATCTGCCCCAAGCA
1 CGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGCA
33626158 CGGGGTAAGAGAT
1 CGGGGTAAGAGAT
33626171 CGGAATCTTC
Statistics
Matches: 67, Mismatches: 16, Indels: 15
0.68 0.16 0.15
Matches are distributed among these distances:
36 4 0.06
37 2 0.03
38 1 0.01
39 51 0.76
40 1 0.01
41 2 0.03
42 6 0.09
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (39 bp):
CGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGCA
Found at i:33628476 original size:21 final size:21
Alignment explanation
Indices: 33628437--33628477 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33628427 GACCCCGTTT
*
33628437 TTTTTATTTGTTTTGTTTTTC
1 TTTTTATTTCTTTTGTTTTTC
33628458 TTTTTATTTCTCTTT-TTTTT
1 TTTTTATTTCT-TTTGTTTTT
33628478 AATACGTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.83
Consensus pattern (21 bp):
TTTTTATTTCTTTTGTTTTTC
Found at i:33632593 original size:29 final size:28
Alignment explanation
Indices: 33632552--33632914 Score: 253
Period size: 29 Copynumber: 12.5 Consensus size: 28
33632542 AATGGAGTCA
33632552 AAAAT-GTAATTTTTGGATTTCGAGGGGT
1 AAAATGGTAATTTTTGGATTTCGA-GGGT
* **
33632580 AAAACGGTAATTTTTGGATACCCGAGGGT
1 AAAATGGTAATTTTTGGAT-TTCGAGGGT
*
33632609 AAAATGGTTATTTTTGGATGTTCGAGGGT
1 AAAATGGTAATTTTTGGAT-TTCGAGGGT
* * *
33632638 ATAATGATAATTTTTGGAAAGTTC--GGGT
1 AAAATGGTAATTTTTGG--ATTTCGAGGGT
*
33632666 CAAAATGGTAATTTTTGGATATCTGAGGGT
1 -AAAATGGTAATTTTTGGATTTC-GAGGGT
*
33632696 AAAATGGTAATTTTTTGATGTTCG-GGTGT
1 AAAATGGTAATTTTTGGAT-TTCGAGG-GT
*
33632725 AAAATGGTAATTTTTGGAAAGTTCGA-GGT
1 AAAATGGTAATTTTTGG--ATTTCGAGGGT
* ** *
33632754 CAAAAT-GTGATTTTTGGACATCTGATGGT
1 -AAAATGGTAATTTTTGGATTTC-GAGGGT
*
33632783 AAAATGGTAATTTTTGGATGTT-TAGGGGT
1 AAAATGGTAATTTTTGGAT-TTCGA-GGGT
* *
33632812 AAAATGGTAATTTTTGGAAAGTTC-AGAGT
1 AAAATGGTAATTTTTGG--ATTTCGAGGGT
* * *
33632841 CAAAAAT-GTGATTTTTGGACATCCG-GTGGT
1 --AAAATGGTAATTTTTGGA-TTTCGAG-GGT
33632871 AAAATGGTAATTTTTGGATGTT-GAGGGGT
1 AAAATGGTAATTTTTGGAT-TTCGA-GGGT
*
33632900 AAAATGATAATTTTT
1 AAAATGGTAATTTTT
33632915 AGAAAGTTTG
Statistics
Matches: 266, Mismatches: 38, Indels: 61
0.73 0.10 0.17
Matches are distributed among these distances:
27 6 0.02
28 25 0.09
29 188 0.71
30 39 0.15
31 8 0.03
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGATTTCGAGGGT
Found at i:33632709 original size:87 final size:86
Alignment explanation
Indices: 33632586--33632922 Score: 437
Period size: 87 Copynumber: 3.9 Consensus size: 86
33632576 GGGTAAAACG
* * * *
33632586 GTAATTTTTGGATACCCGAGGGTAAAATGGTTATTTTTGGATGTTCGA-GGGTATAATGATAATT
1 GTAATTTTTGGACATCCGAGGGTAAAATGGTAATTTTTGGATGTT-GAGGGGTAAAATGATAATT
33632650 TTTGGAAAGTTCGGGTCAAAAT
65 TTTGGAAAGTTCGGGTCAAAAT
* * * * *
33632672 GGTAATTTTTGGATATCTGAGGGTAAAATGGTAATTTTTTGATGTTCG-GGTGTAAAATGGTAAT
1 -GTAATTTTTGGACATCCGAGGGTAAAATGGTAATTTTTGGATGTT-GAGGGGTAAAATGATAAT
33632736 TTTTGGAAAGTTCGAGGTCAAAAT
64 TTTTGGAAAGTTCG-GGTCAAAAT
* * * * *
33632760 GTGATTTTTGGACATCTGATGGTAAAATGGTAATTTTTGGATGTTTAGGGGTAAAATGGTAATTT
1 GTAATTTTTGGACATCCGAGGGTAAAATGGTAATTTTTGGATGTTGAGGGGTAAAATGATAATTT
*
33632825 TTGGAAAGTTCAGAGTCAAAAAT
66 TTGGAAAGTTC-GGGTC-AAAAT
*
33632848 GTGATTTTTGGACATCCG-GTGGTAAAATGGTAATTTTTGGATGTTGAGGGGTAAAATGATAATT
1 GTAATTTTTGGACATCCGAG-GGTAAAATGGTAATTTTTGGATGTTGAGGGGTAAAATGATAATT
*
33632912 TTTAGAAAGTT
65 TTTGGAAAGTT
33632923 TGGGGTTAAA
Statistics
Matches: 225, Mismatches: 19, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
87 141 0.63
88 84 0.37
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (86 bp):
GTAATTTTTGGACATCCGAGGGTAAAATGGTAATTTTTGGATGTTGAGGGGTAAAATGATAATTT
TTGGAAAGTTCGGGTCAAAAT
Found at i:33632927 original size:29 final size:28
Alignment explanation
Indices: 33632605--33633098 Score: 204
Period size: 29 Copynumber: 17.0 Consensus size: 28
33632595 GGATACCCGA
* * * *
33632605 GGGTAAAATGGTTATTTTTGGATGTTCG
1 GGGTAAAATGGTAATTTTTGAAAGTTTG
* * *
33632633 AGGGTATAATGATAATTTTTGGAAAG-TTC
1 -GGGTAAAATGGTAATTTTT-GAAAGTTTG
* *
33632662 GGGTCAAAATGGTAATTTTTGGATA-TCTG
1 GGGT-AAAATGGTAATTTTT-GAAAGTTTG
* *
33632691 AGGGTAAAATGGTAATTTTTTG-ATGTTCG
1 -GGGTAAAATGGTAA-TTTTTGAAAGTTTG
*
33632720 GGTGTAAAATGGTAATTTTTGGAAAGTTCG
1 GG-GTAAAATGGTAATTTTT-GAAAGTTTG
* * * *
33632750 AGGTCAAAAT-GTGATTTTTGGACA-TCTG
1 GGGT-AAAATGGTAATTTTT-GAAAGTTTG
* * *
33632778 ATGGTAAAATGGTAATTTTTGGATGTTTAG
1 -GGGTAAAATGGTAATTTTTGAAAGTTT-G
**
33632808 GGGTAAAATGGTAATTTTTGGAAAGTTCA
1 GGGTAAAATGGTAATTTTT-GAAAGTTTG
* * * **
33632837 GAGTCAAAAAT-GTGATTTTTGGACA-TCCG
1 GGGT--AAAATGGTAATTTTT-GAAAGTTTG
* * *
33632866 GTGGTAAAATGGTAATTTTTGGATGTTGAG
1 G-GGTAAAATGGTAATTTTTGAAAGTT-TG
*
33632896 GGGTAAAATGATAATTTTTAGAAAGTTTG
1 GGGTAAAATGGTAATTTTT-GAAAGTTTG
* * *
33632925 GGGTTAAAAATGATAA-TTTTGGAAGTTCG
1 GGG-T-AAAATGGTAATTTTTGAAAGTTTG
* * * *
33632954 AGGG-AAAAAGTGTGATTTTGGAAATGTTCG
1 -GGGTAAAATG-GTAATTTTTGAAA-GTTTG
* * * *
33632984 GGGTTAAAAT-GAAAATTTTGGAAGTTTAA
1 GGG-TAAAATGGTAATTTTTGAAAGTTT-G
*
33633013 GGTTAAAAAT-GTAATTTTTGAGAAGTTTAG
1 GGGT-AAAATGGTAATTTTTGA-AAGTTT-G
*
33633043 GGTTAAAAT-GTAATTTTTGAAAAGTTTG
1 GGGTAAAATGGTAATTTTTG-AAAGTTTG
* *
33633071 GGGTTAAAAT-ATGATTTTTGAAGAGTTT
1 GGG-TAAAATGGTAATTTTTGAA-AGTTT
33633099 AGGGACCTTC
Statistics
Matches: 357, Mismatches: 72, Indels: 72
0.71 0.14 0.14
Matches are distributed among these distances:
27 5 0.01
28 36 0.10
29 221 0.62
30 76 0.21
31 19 0.05
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGAAAGTTTG
Found at i:33635054 original size:3 final size:3
Alignment explanation
Indices: 33635046--33635096 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
33635036 AAAGCATCAA
33635046 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33635094 TAT
1 TAT
33635097 ATAAGATGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33636858 original size:24 final size:24
Alignment explanation
Indices: 33636811--33636855 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33636801 AATATGTGAA
* *
33636811 AAAATAAAAATATTTAATTTAATT
1 AAAATAAAAATAATAAATTTAATT
33636835 AAAATAAAAA-AATAAATTTAA
1 AAAATAAAAATAATAAATTTAA
33636856 ATTTATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATAAAAATAATAAATTTAATT
Found at i:33638920 original size:26 final size:26
Alignment explanation
Indices: 33638889--33638962 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 26
33638879 CAAAAAAATC
33638889 TTTATGAATTTCCACAAAAATGATGA
1 TTTATGAATTTCCACAAAAATGATGA
* * *
33638915 TTTATGCCA-CTCCA-AAAAA--AT-C
1 TTTATG-AATTTCCACAAAAATGATGA
*
33638937 TTTATGAATTTCCACAAGAATGATGA
1 TTTATGAATTTCCACAAAAATGATGA
33638963 CTAATTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
21 1 0.03
22 10 0.29
23 6 0.17
25 7 0.20
26 10 0.29
27 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (26 bp):
TTTATGAATTTCCACAAAAATGATGA
Found at i:33638937 original size:48 final size:51
Alignment explanation
Indices: 33638827--33639009 Score: 221
Period size: 48 Copynumber: 3.5 Consensus size: 51
33638817 ATCTAATCCG
* * * *
33638827 AAAAAATATCTTTATGAATCTCCACAAGTGCAATGACTAATTTATGCAACTTC
1 AAAAAATATCTTTATGAATTTCCACAA--GAAATGACTAATTTATGCCACTCC
*
33638880 AAAAAA-ATCTTTATGAATTTCCACAA-AAATGA-TGATTTATGCCACTCC
1 AAAAAATATCTTTATGAATTTCCACAAGAAATGACTAATTTATGCCACTCC
*
33638928 AAAAAA-ATCTTTATGAATTTCCACAAGAATGATGACTAATTTTATGACACTCC
1 AAAAAATATCTTTATGAATTTCCACAAGAA--ATGACTAA-TTTATGCCACTCC
33638981 AAAAAAAATATCTTTATGAATTTCCACAA
1 --AAAAAATATCTTTATGAATTTCCACAA
33639010 ATTTCCACAA
Statistics
Matches: 115, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
48 39 0.34
49 7 0.06
51 4 0.03
52 21 0.18
53 18 0.16
55 6 0.05
56 20 0.17
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (51 bp):
AAAAAATATCTTTATGAATTTCCACAAGAAATGACTAATTTATGCCACTCC
Found at i:33641138 original size:31 final size:28
Alignment explanation
Indices: 33641063--33641239 Score: 178
Period size: 31 Copynumber: 6.0 Consensus size: 28
33641053 TAAAAATTCG
* *
33641063 AGGGTCAAAATGTAATTTTGTAAAGTTT
1 AGGGTCAAAATGTGATTTTGAAAAGTTT
*
33641091 AGGGTCAATATGTGATTTTAGAAAAGTTT
1 AGGGTCAAAATGTGATTTT-GAAAAGTTT
*
33641120 AGGAGTAAAAAATGTGATTTTGAGAAAGTTT
1 AGG-GT-CAAAATGTGATTTTGA-AAAGTTT
*
33641151 ATGGTCAAAATGTGATTTTCGAAAAGTTT
1 AGGGTCAAAATGTGATTTT-GAAAAGTTT
33641180 -GGGCATCAAAATGTGATTTTGGAAAAG-TT
1 AGGG--TCAAAATGTGATTTT-GAAAAGTTT
*
33641209 AGGAGATCAAAAATGTAATTTTGGAAAAGTT
1 AGG-G-TC-AAAATGTGATTTT-GAAAAGTT
33641240 CTGGAGTCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
28 19 0.15
29 33 0.26
30 34 0.27
31 41 0.32
32 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (28 bp):
AGGGTCAAAATGTGATTTTGAAAAGTTT
Found at i:33641164 original size:60 final size:58
Alignment explanation
Indices: 33641069--33641239 Score: 184
Period size: 60 Copynumber: 2.9 Consensus size: 58
33641059 TTCGAGGGTC
* * * *
33641069 AAAATGTAATTTTGTAAAGTTTAGGGTCAATATGTGATTTTAGAAAAGTTTAGG-AGTAA
1 AAAATGTGATTTTGGAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTGGGCA-T-A
* * *
33641128 AAAATGTGATTTTGAGAAAGTTTATGGTCAAAATGTGATTTTCGAAAAGTTTGGGCATC
1 AAAATGTGATTTTG-GAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTGGGCATA
* *
33641187 AAAATGTGATTTTGGAAAAG-TTAGGAGATCAAAAATGTAATTTTGGAAAAGTT
1 AAAATGTGATTTTGG-AAAGTTTAGG-G-TC-AAAATGTGATTTTAGAAAAGTT
33641240 CTGGAGTCAA
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
58 5 0.05
59 32 0.33
60 38 0.40
61 21 0.22
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (58 bp):
AAAATGTGATTTTGGAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTGGGCATA
Found at i:33641239 original size:90 final size:88
Alignment explanation
Indices: 33641065--33641235 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 88
33641055 AAAATTCGAG
* *
33641065 GGTCAAAATGTAATTTTGTAAAGTTTAGGGTCAATATGTGATTTTAGAAAAGTTTAGGAGTAAAA
1 GGTCAAAATGTAATTTTGAAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTAGGAGTAAAA
*
33641130 AATGTGATTTTGAGAAAGTTTAT
66 AATGTAATTTTGAGAAAGTTTAT
* *
33641153 GGTCAAAATGTGATTTTCGAAAAGTTT-GGGCATCAAAATGTGATTTTGGAAAAG-TTAGGAGAT
1 GGTCAAAATGTAATTTT-GAAAAGTTTAGGG--TCAAAATGTGATTTTAGAAAAGTTTAGGAG-T
*
33641216 CAAAAATGTAATTTTG-GAAA
62 AAAAAATGTAATTTTGAGAAA
33641236 AGTTCTGGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
88 19 0.26
89 19 0.26
90 35 0.48
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (88 bp):
GGTCAAAATGTAATTTTGAAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTAGGAGTAAAA
AATGTAATTTTGAGAAAGTTTAT
Found at i:33641250 original size:31 final size:28
Alignment explanation
Indices: 33641064--33641260 Score: 155
Period size: 30 Copynumber: 6.6 Consensus size: 28
33641054 AAAAATTCGA
*
33641064 GGGTCAAAATGTAATTTT-GTAAAGTTT
1 GGGTCAAAATGTAATTTTGGAAAAGTTT
* * *
33641091 AGGGTCAATATGTGATTTTAGAAAAGTTT
1 -GGGTCAAAATGTAATTTTGGAAAAGTTT
* *
33641120 AGGAGTAAAAAATGTGATTTT-GAGAAAGTTT
1 -GG-GT-CAAAATGTAATTTTGGA-AAAGTTT
* * *
33641151 ATGGTCAAAATGTGATTTTCGAAAAGTTT
1 -GGGTCAAAATGTAATTTTGGAAAAGTTT
* *
33641180 GGGCATCAAAATGTGATTTTGGAAAAGTTA
1 GGG--TCAAAATGTAATTTTGGAAAAGTTT
33641210 GGAGATCAAAAATGTAATTTTGGAAAAGTTCT
1 GG-G-TC-AAAATGTAATTTTGGAAAAGTT-T
*
33641242 GGAGTCAAAAGGTAATTTT
1 GG-GTCAAAATGTAATTTT
33641261 AGAAGAATTC
Statistics
Matches: 146, Mismatches: 13, Indels: 18
0.82 0.07 0.10
Matches are distributed among these distances:
28 18 0.12
29 31 0.21
30 48 0.33
31 45 0.31
32 4 0.03
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.35
Consensus pattern (28 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTT
Found at i:33642285 original size:43 final size:44
Alignment explanation
Indices: 33642224--33642309 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
33642214 CTATTCTTTT
*
33642224 CTTCAATCTGTCCCTCTTGA-TTAGGGATAAAAGATTGAAATGG
1 CTTCAATCTATCCCTCTTGACTTAGGGATAAAAGATTGAAATGG
* *
33642267 CTTCAATCTATCCCTCTTGACTTAGGGGTAAAAGATTGGAATG
1 CTTCAATCTATCCCTCTTGACTTAGGGATAAAAGATTGAAATG
33642310 TGGTTTCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 19 0.49
44 20 0.51
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (44 bp):
CTTCAATCTATCCCTCTTGACTTAGGGATAAAAGATTGAAATGG
Found at i:33642734 original size:50 final size:50
Alignment explanation
Indices: 33642564--33642735 Score: 138
Period size: 49 Copynumber: 3.5 Consensus size: 50
33642554 CCGTTGCGAG
* * * * * *
33642564 CTCAATCTTTCCCGTCATGT-TTCTAAGGTACCGAGTTTGCCGTTG-CGA
1 CTCAACCTTTCCCTTCATATCTTCTAAGGTATCGAGTTTGTCGTTGAGGA
* * * * *
33642612 CCTCAACCTTTCCTTTCATATCTTC-ATGGTATCGAATTTATCGTT-ACGA
1 -CTCAACCTTTCCCTTCATATCTTCTAAGGTATCGAGTTTGTCGTTGAGGA
* * * *
33642661 CATCAATCC-TTCCCATCACATCTTCTAAGGTATCGAGTTTGTCGTTGTGGT
1 C-TCAA-CCTTTCCCTTCATATCTTCTAAGGTATCGAGTTTGTCGTTGAGGA
*
33642712 CTCAACCTTTCCCTTCTTATCTTC
1 CTCAACCTTTCCCTTCATATCTTC
33642736 ATGTTTCCTT
Statistics
Matches: 95, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
48 1 0.01
49 53 0.56
50 39 0.41
51 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.39
Consensus pattern (50 bp):
CTCAACCTTTCCCTTCATATCTTCTAAGGTATCGAGTTTGTCGTTGAGGA
Found at i:33644020 original size:6 final size:5
Alignment explanation
Indices: 33644000--33644063 Score: 62
Period size: 5 Copynumber: 12.6 Consensus size: 5
33643990 TGACCTCTTG
*
33644000 TTTT- TTTTC TTTTC TTCTTC TTTT- TCTT- TTTTC TGTTTCC TTTTC
1 TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC T-TTT-C TTTTC
33644045 TTTTTC TTTTC TTTTC TTT
1 -TTTTC TTTTC TTTTC TTT
33644064 CTCTATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
4 10 0.19
5 24 0.46
6 16 0.31
7 2 0.04
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:33644024 original size:12 final size:11
Alignment explanation
Indices: 33644000--33644063 Score: 62
Period size: 11 Copynumber: 5.7 Consensus size: 11
33643990 TGACCTCTTG
33644000 TTTT-TTTTC-
1 TTTTCTTTTCT
33644009 TTTTCTTCTTCT
1 TTTTCTT-TTCT
33644021 TTTTCTTTTTTCT
1 TTTTC--TTTTCT
*
33644034 GTTTCCTTTTCT
1 -TTTTCTTTTCT
33644046 TTTTCTTTTC-
1 TTTTCTTTTCT
33644056 TTTTCTTT
1 TTTTCTTT
33644064 CTCTATTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
9 4 0.09
10 10 0.21
11 12 0.26
12 11 0.23
13 4 0.09
14 6 0.13
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:33644029 original size:25 final size:26
Alignment explanation
Indices: 33644000--33644063 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
33643990 TGACCTCTTG
33644000 TTTTTTTTCTTTT-CTTCTTCTTTTTC
1 TTTTTTTTCTTTTCCTT-TTCTTTTTC
33644026 --TTTTTTCTGTTTCCTTTTCTTTTTC
1 TTTTTTTTCT-TTTCCTTTTCTTTTTC
33644051 TTTTCTTTTCTTT
1 TTTT-TTTTCTTT
33644064 CTCTATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
24 8 0.24
25 12 0.36
26 3 0.09
27 4 0.12
28 6 0.18
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (26 bp):
TTTTTTTTCTTTTCCTTTTCTTTTTC
Found at i:33644075 original size:16 final size:16
Alignment explanation
Indices: 33644004--33644067 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
33643994 CTCTTGTTTT
33644004 TTTTCTTTTC-TTCTTC
1 TTTTCTTTTCTTTC-TC
*
33644020 TTTT-TCTTT-TTTCTG
1 TTTTCT-TTTCTTTCTC
* *
33644035 TTTCCTTTTCTTTTTC
1 TTTTCTTTTCTTTCTC
33644051 TTTTCTTTTCTTTCTC
1 TTTTCTTTTCTTTCTC
33644067 T
1 T
33644068 ATTTTTTTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
15 8 0.21
16 30 0.79
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTCTTTCTC
Found at i:33645027 original size:17 final size:18
Alignment explanation
Indices: 33644995--33645028 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33644985 TTTCGACCCT
*
33644995 TTTCTTTTTCTTTCTTTA
1 TTTCTTTTTCTCTCTTTA
33645013 TTTCTTTTTC-CTCTTT
1 TTTCTTTTTCTCTCTTT
33645029 TTTTAACCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTCTCTCTTTA
Found at i:33645040 original size:13 final size:13
Alignment explanation
Indices: 33645022--33645046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33645012 ATTTCTTTTT
33645022 CCTCTTTTTTTAA
1 CCTCTTTTTTTAA
33645035 CCTCTTTTTTTA
1 CCTCTTTTTTTA
33645047 CACGTCAGTC
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:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (13 bp):
CCTCTTTTTTTAA
Found at i:33647732 original size:25 final size:25
Alignment explanation
Indices: 33647704--33647754 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
33647694 TGCGGTTTAA
33647704 GTCCTAAAGTAAGGGTACTTGAACC
1 GTCCTAAAGTAAGGGTACTTGAACC
33647729 GTCCTAAAGTAAGGGTACTTGAACC
1 GTCCTAAAGTAAGGGTACTTGAACC
33647754 G
1 G
33647755 ACAGATTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (25 bp):
GTCCTAAAGTAAGGGTACTTGAACC
Found at i:33649114 original size:29 final size:29
Alignment explanation
Indices: 33649013--33649254 Score: 118
Period size: 29 Copynumber: 8.3 Consensus size: 29
33649003 TTTCAGAGAA
* * *
33649013 TTTGAGGTTAAAATGTAATTTTGTAAAA-
1 TTTGAGGGTAAAATGTGATTTTGGAAAAG
* * * * *
33649041 ATTCAGGATTAAAATGTAATTTTTGG-ATAG
1 TTTGAGG-GTAAAATGTGA-TTTTGGAAAAG
* * *
33649071 TTT-ATGGTTAGAATGTGATTTTGGGAAAG
1 TTTGA-GGGTAAAATGTGATTTTGGAAAAG
**
33649100 TTTGAGGGTAAAATGTGATTTTAAAAAAG
1 TTTGAGGGTAAAATGTGATTTTGGAAAAG
* *
33649129 CTT-AGGGGTTAAAATGTTATTTTGGAAAAG
1 TTTGA-GGG-TAAAATGTGATTTTGGAAAAG
* * * * *
33649159 TTTGGGGGTCAAATATGTTTTTTGAAAAG
1 TTTGAGGGTAAAATGTGATTTTGGAAAAG
* * * *
33649188 TTAGAGGGTCAAAATGTAATTTTAGAGAAG
1 TTTGAGGGT-AAAATGTGATTTTGGAAAAG
* * * *
33649218 TTCGAGAGTCAAAATATAATTTT-GAAAGAG
1 TTTGAGGGT-AAAATGTGATTTTGGAAA-AG
33649248 TTT-AGGG
1 TTTGAGGG
33649255 GCTCTATTAT
Statistics
Matches: 165, Mismatches: 38, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
28 12 0.07
29 82 0.50
30 71 0.43
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (29 bp):
TTTGAGGGTAAAATGTGATTTTGGAAAAG
Found at i:33649144 original size:30 final size:28
Alignment explanation
Indices: 33649082--33649255 Score: 102
Period size: 30 Copynumber: 5.9 Consensus size: 28
33649072 TTATGGTTAG
* * *
33649082 AATGTGATTTTGGGAAAGTTTGAGGGT-AA
1 AATGT-ATTTTAGAAAAGTTAG-GGGTCAA
* *
33649111 AATGTGATTTTAAAAAAGCTTAGGGGTTAA
1 AATGT-ATTTTAGAAAAG-TTAGGGGTCAA
* *
33649141 AATGTTATTTTGGAAAAGTTTGGGGGTCAA
1 AATG-TATTTTAGAAAAG-TTAGGGGTCAA
*
33649171 ATATGT-TTTTTGAAAAGTTAGAGGGTCAA
1 A-ATGTATTTTAGAAAAGTTAG-GGGTCAA
* * *
33649200 AATGTAATTTTAGAGAAGTTCGAGAGTCAA
1 AATGT-ATTTTAGAAAAGTTAG-GGGTCAA
*
33649230 AATATAATTTT-GAAAGAGTTTAGGGG
1 AATGT-ATTTTAGAAA-AG-TTAGGGG
33649256 CTCTATTATG
Statistics
Matches: 117, Mismatches: 19, Indels: 17
0.76 0.12 0.11
Matches are distributed among these distances:
28 7 0.06
29 40 0.34
30 63 0.54
31 7 0.06
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (28 bp):
AATGTATTTTAGAAAAGTTAGGGGTCAA
Found at i:33649151 original size:59 final size:59
Alignment explanation
Indices: 33649076--33649249 Score: 161
Period size: 59 Copynumber: 2.9 Consensus size: 59
33649066 GATAGTTTAT
* * * *
33649076 GGTTAGAATGTGATTTTGGGAAAGTTTGAGGGTAAAATGTGATTTTAAAAAAGCTTAG-G
1 GGTTAAAATGTAATTTTGGAAAAGTTTGAGGGTAAAATATGATTTTAAAAAAG-TTAGAG
* * * * **
33649135 GGTTAAAATGTTATTTTGGAAAAGTTTGGGGGTCAAATATGTTTTTTGAAAAGTTAGAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTGAGGGTAAAATATGATTTTAAAAAAGTTAGAG
* * * * * * * *
33649194 GGTCAAAATGTAATTTTAGAGAAGTTCGAGAGTCAAAATATAATTTTGAAAGAGTT
1 GGTTAAAATGTAATTTTGGAAAAGTTTGAGGGT-AAAATATGATTTTAAAAAAGTT
33649250 TAGGGGCTCT
Statistics
Matches: 91, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
58 4 0.04
59 71 0.78
60 16 0.18
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (59 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTGAGGGTAAAATATGATTTTAAAAAAGTTAGAG
Found at i:33649631 original size:22 final size:22
Alignment explanation
Indices: 33649582--33649631 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
33649572 ATATAAAAAA
* *
33649582 AAAAAAAACTTTTTTCCTTTCT
1 AAAAAAAACTCTTTTCCTCTCT
33649604 AAAAAAAACTCTTTTCTCTCTCT
1 AAAAAAAACTCTTTTC-CTCTCT
*
33649627 CAAAA
1 AAAAA
33649632 TTTTTTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAAAAACTCTTTTCCTCTCT
Found at i:33650626 original size:21 final size:20
Alignment explanation
Indices: 33650597--33650636 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
33650587 AATTAAATAA
33650597 ATTTAATTAAAAAAATATTTT
1 ATTTAATTAAAAAAA-ATTTT
*
33650618 ATTTTATTAAAAAAAATTT
1 ATTTAATTAAAAAAAATTT
33650637 GGATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATTAAAAAAAATTTT
Found at i:33650642 original size:21 final size:21
Alignment explanation
Indices: 33650597--33650643 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
33650587 AATTAAATAA
* *
33650597 ATTTAATTAAAAAAATATTTT
1 ATTTTATTAAAAAAATATTTG
33650618 ATTTTATTAAAAAAA-ATTTGG
1 ATTTTATTAAAAAAATATTT-G
33650639 ATTTT
1 ATTTT
33650644 TTATTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTTTATTAAAAAAATATTTG
Found at i:33661221 original size:20 final size:20
Alignment explanation
Indices: 33661155--33661221 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
33661145 TAAAATCAAA
* *
33661155 AAATATATATTGAAACATAT
1 AAATATTTATAGAAACATAT
* *
33661175 AAATA-CTAGTAGAAAGATAT
1 AAATATTTA-TAGAAACATAT
* *
33661195 TAATATTTATAGAAATATAT
1 AAATATTTATAGAAACATAT
33661215 AAATATT
1 AAATATT
33661222 AATATATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (20 bp):
AAATATTTATAGAAACATAT
Found at i:33663692 original size:76 final size:77
Alignment explanation
Indices: 33663565--33663713 Score: 237
Period size: 76 Copynumber: 1.9 Consensus size: 77
33663555 AGTCCTAGTC
*
33663565 ATGTGCCTTCCAATTGAAAGGATTTATTATAATTGATGAGTCTCAAATTCGATCGAAAAGATTGA
1 ATGTGCCTTCCAATTGAAAGGATTTATTATAACTGATGAGTCTCAAATTCGATCGAAAAGATTGA
33663630 TATCAATTGGGG
66 TATCAATTGGGG
* * **
33663642 ATGTGTCTTCCAATTG-AAGGATTTATTATAACTGATTAGTCTCAAATTCGATCGATGAGATTGA
1 ATGTGCCTTCCAATTGAAAGGATTTATTATAACTGATGAGTCTCAAATTCGATCGAAAAGATTGA
*
33663706 TATTAATT
66 TATCAATT
33663714 AGAGTCAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
76 51 0.77
77 15 0.23
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (77 bp):
ATGTGCCTTCCAATTGAAAGGATTTATTATAACTGATGAGTCTCAAATTCGATCGAAAAGATTGA
TATCAATTGGGG
Found at i:33666339 original size:21 final size:22
Alignment explanation
Indices: 33666299--33666349 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
33666289 GACTTGAGTT
33666299 GTATCGGTAGTTGAATTACA-A
1 GTATCGGTAGTTGAATTACATA
*
33666320 GTATCGGTAGTT-AGTATACATA
1 GTATCGGTAGTTGAAT-TACATA
33666342 -TATCGGTA
1 GTATCGGTA
33666350 CAAGTTGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (22 bp):
GTATCGGTAGTTGAATTACATA
Found at i:33666416 original size:21 final size:19
Alignment explanation
Indices: 33666390--33666441 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
33666380 GGAGTTTTTA
33666390 GTATCGATAGATGCATGACTT
1 GTATCGATAGAT-CAT-ACTT
*
33666411 GTATCGGTAGAATCATACTT
1 GTATCGATAG-ATCATACTT
33666431 GTATCGATAGA
1 GTATCGATAGA
33666442 GCTAGCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 13 0.46
21 12 0.43
22 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (19 bp):
GTATCGATAGATCATACTT
Found at i:33672300 original size:17 final size:18
Alignment explanation
Indices: 33672278--33672313 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33672268 TTGTTTGATA
*
33672278 TACTTA-TTGTTGATTTT
1 TACTTATTTGTAGATTTT
33672295 TACTTATTTGTAGATTTT
1 TACTTATTTGTAGATTTT
33672313 T
1 T
33672314 TATTACGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (18 bp):
TACTTATTTGTAGATTTT
Found at i:33674467 original size:16 final size:16
Alignment explanation
Indices: 33674441--33674478 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
33674431 TTTAATAATT
33674441 TTTAGAATTTTTTAAAA
1 TTTA-AATTTTTTAAAA
33674458 TTTAAATTTTTTAAAA
1 TTTAAATTTTTTAAAA
*
33674474 ATTAA
1 TTTAA
33674479 TTAAAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTTTTTAAAA
Found at i:33674838 original size:48 final size:48
Alignment explanation
Indices: 33674785--33675423 Score: 559
Period size: 48 Copynumber: 12.6 Consensus size: 48
33674775 TACGAGTCCC
* * *
33674785 TCCTTGGTTTGAACTCCCAATGAAAAGCTGTTGTGGATTTGTATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
* * * * *
33674833 CCCTTGGATTGAACTCCCAGCGAAAAACTGTTGCGGATTTGCATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
* *
33674881 TCCTTGGCTTGAACTCCCGGTGAAGAACTGTGGTGGATGTTGTGGATTTGTATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAAC---------TGTTGTGGATTTGTATCCAT
* * * *
33674938 CCCTTGGATTGAACTCCCAATGAAGAACTGCGGTGGATGTTGTGGATTTGTATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAA-AA--AC------TGTTGTGGATTTGTATCCAT
* * * * *
33674995 GCCTTGGATTGAACTCCTAGTGAAAAGCTGTGGTGGATTTGTATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
33675043 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
* * *
33675091 TCCTTGTCTTGATCTCCCAGTGAAAAACTGTTGTGGATTTGCATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
* *
33675139 TCCTTGGGTTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGGATTTGTATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAAC---------TGTTGTGGATTTGTATCCAT
* *
33675196 CCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTATAT---T
1 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
*
33675241 TCCTT-GCTTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGCATCCAT
1 TCCTTGGC-TTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
* * *
33675289 TCCTCGGCTTGAACTCCCAGTCAAGAACTGTGGTGGATGTTGTGGATTTGTATCCAT
1 TCCTTGGCTTGAACTCCCAGTGAAAAAC---------TGTTGTGGATTTGTATCCAT
* * * * * * *
33675346 CCCTCGGCTTGAACTCCCAGTGAAAAACTGTTTTGAATTTGTGTTCGT
1 TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
*
33675394 TCCTTGGCTTGAACTCCTAAG-GAAAAACTG
1 TCCTTGGCTTGAACTCC-CAGTGAAAAACTG
33675424 CTGGTGATTT
Statistics
Matches: 496, Mismatches: 59, Indels: 72
0.79 0.09 0.11
Matches are distributed among these distances:
44 2 0.00
45 39 0.08
48 272 0.55
49 4 0.01
54 2 0.00
56 2 0.00
57 173 0.35
58 1 0.00
60 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (48 bp):
TCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT
Found at i:33675031 original size:105 final size:105
Alignment explanation
Indices: 33674918--33675270 Score: 451
Period size: 105 Copynumber: 3.5 Consensus size: 105
33674908 CTGTGGTGGA
* *
33674918 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAATGAAGAACTGCGGTGGATGTTGTGG
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCCAGTGAAGAACTGCGGTGGATGTTGTGG
* * * *
33674983 ATTTGTATCCATGCCTTGGATTGAACTCCTAGTGAAAAGC
66 ATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAAC
* * *
33675023 TGTGGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAA-AA--AC------TGTTGTGG
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCCAGTGAAGAACTGCGGTGGATGTTGTGG
* * *
33675079 ATTTGTATCCATTCCTTGTCTTGATCTCCCAGTGAAAAAC
66 ATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAAC
* * *
33675119 TGTTGTGGATTTGCATCCATTCCTTGGGTTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGG
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCCAGTGAAGAACTGCGGTGGATGTTGTGG
33675184 ATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAAC
66 ATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAAC
* ** *
33675224 TGTTGTGGATTTATAT---TTCCTTGCTTTGAACTCCCAGTGAAAAACTG
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCCAGTGAAGAACTG
33675271 TTGTGGATTT
Statistics
Matches: 215, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
96 83 0.39
97 2 0.01
102 29 0.13
104 2 0.01
105 99 0.46
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (105 bp):
TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCCAGTGAAGAACTGCGGTGGATGTTGTGG
ATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAAC
Found at i:33675305 original size:150 final size:151
Alignment explanation
Indices: 33675027--33675423 Score: 602
Period size: 150 Copynumber: 2.6 Consensus size: 151
33675017 AAAAGCTGTG
* *
33675027 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 GTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTATAT-C-TT
* * *
33675092 CCTTGTCTTGATCTCCCAGTGAAAAACTGTTGTGGATTTGCATCCATTCCTTGGGTTGAACTCCC
64 CCTTGTCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGCATCCATTCCTCGGCTTGAACTCCC
*
33675157 AGTGAAGAACTGTGGTGGATGTT
129 AGTCAAGAACTGTGGTGGATGTT
33675180 GTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTATAT-TTCC
1 GTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTATATCTTCC
33675244 TTG-CTTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGCATCCATTCCTCGGCTTGAACTCCCA
66 TTGTC-TTGAACTCCCAGTGAAAAACTGTTGTGGATTTGCATCCATTCCTCGGCTTGAACTCCCA
33675308 GTCAAGAACTGTGGTGGATGTT
130 GTCAAGAACTGTGGTGGATGTT
* * * * *
33675330 GTGGATTTGTATCCATCCCTCGGCTTGAACTCCCAGTGAAAAACTGTTTTGAATTTGTGTTCGTT
1 GTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTAT-ATC-TT
* *
33675395 CCTTGGCTTGAACTCCTAAG-GAAAAACTG
64 CCTTGTCTTGAACTCC-CAGTGAAAAACTG
33675424 CTGGTGATTT
Statistics
Matches: 226, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
149 1 0.00
150 138 0.61
151 1 0.00
153 83 0.37
154 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (151 bp):
GTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTATATCTTCC
TTGTCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGCATCCATTCCTCGGCTTGAACTCCCAG
TCAAGAACTGTGGTGGATGTT
Found at i:33675321 original size:45 final size:44
Alignment explanation
Indices: 33675178--33675309 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 44
33675168 GTGGTGGATG
*
33675178 TTGTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAAC
1 TTGTGGATTTG-ATCCATTCC-TGGCTTGAACTCCCAGTGAAAAAC
*
33675224 TGTTGTGGATTT-AT--ATTTCCTTGCTTTGAACTCCCAGTGAAAAAC
1 --TTGTGGATTTGATCCA-TTCCTGGC-TTGAACTCCCAGTGAAAAAC
33675269 TGTTGTGGATTTGCATCCATTCCTCGGCTTGAACTCCCAGT
1 --TTGTGGATTTG-ATCCATTCCT-GGCTTGAACTCCCAGT
33675310 CAAGAACTGT
Statistics
Matches: 74, Mismatches: 3, Indels: 14
0.81 0.03 0.15
Matches are distributed among these distances:
44 4 0.05
45 35 0.47
46 2 0.03
47 2 0.03
48 28 0.38
49 3 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (44 bp):
TTGTGGATTTGATCCATTCCTGGCTTGAACTCCCAGTGAAAAAC
Found at i:33681265 original size:31 final size:31
Alignment explanation
Indices: 33681227--33681288 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33681217 CCCCATGATA
33681227 TAGGTAACTGACAAACACTAGAAAATTTAAC
1 TAGGTAACTGACAAACACTAGAAAATTTAAC
33681258 TAGGTAACTGACAAACACTAGAAAATTTAAC
1 TAGGTAACTGACAAACACTAGAAAATTTAAC
33681289 ACTTATCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (31 bp):
TAGGTAACTGACAAACACTAGAAAATTTAAC
Found at i:33695427 original size:12 final size:13
Alignment explanation
Indices: 33695410--33695438 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33695400 CCCTCAACAG
33695410 AAAAAG-AAAAGA
1 AAAAAGAAAAAGA
33695422 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
33695435 AAAA
1 AAAA
33695439 TTAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:33740392 original size:12 final size:12
Alignment explanation
Indices: 33740377--33740429 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
33740367 AATAAATTAT
33740377 TATTAAAATAAA
1 TATTAAAATAAA
*
33740389 TATTAAATTAAA
1 TATTAAAATAAA
*
33740401 T-TTAATATTAAA
1 TATTAA-AATAAA
33740413 TTATTAAAAT-AA
1 -TATTAAAATAAA
33740425 TATTA
1 TATTA
33740430 TTTTTTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 9 0.25
12 20 0.56
13 3 0.08
14 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATTAAAATAAA
Found at i:33743278 original size:28 final size:31
Alignment explanation
Indices: 33743218--33743281 Score: 91
Period size: 28 Copynumber: 2.2 Consensus size: 31
33743208 GTTGGACTTG
*
33743218 AATTT-TAAAAATTGAAAAGTAGAAAGATTA
1 AATTTCTAAAAATTGAAAAGTAGAAAAATTA
33743248 AATTTCTAAAAA-T-AAAAGTA-AAAAATTA
1 AATTTCTAAAAATTGAAAAGTAGAAAAATTA
33743276 AATTTC
1 AATTTC
33743282 AAATTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 13 0.41
29 7 0.22
30 6 0.19
31 6 0.19
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (31 bp):
AATTTCTAAAAATTGAAAAGTAGAAAAATTA
Found at i:33751819 original size:30 final size:29
Alignment explanation
Indices: 33751783--33752155 Score: 368
Period size: 29 Copynumber: 12.6 Consensus size: 29
33751773 AATTTAAGGG
* * *
33751783 CAAAATGGTAATTTTGGAAAAGTTCGGGGT
1 CAAAAT-GTAATTTTTGAGAAGTTAGGGGT
* *
33751813 CAAAATGGTAATTTTT-AGATGTTTGAGGG-
1 CAAAAT-GTAATTTTTGAGAAGTTAG-GGGT
** * *
33751842 CAAAAATGTGTTTTTTG-GAAGTTTGGGGG
1 C-AAAATGTAATTTTTGAGAAGTTAGGGGT
* *
33751871 CAAAATGGTAATTTTGGAGAAGTTTGGAGGT
1 CAAAAT-GTAATTTTTGAGAAGTTAGG-GGT
* *
33751902 CAAAATATAACTTTTG-GAAAGTTTAGGGGT
1 CAAAATGTAATTTTTGAG-AAG-TTAGGGGT
*
33751932 CAATATGTAATTTTTGAGAAGTTAGGGGGT
1 CAAAATGTAATTTTTGAGAAGTTA-GGGGT
**
33751962 CAAAATGTAATTTTTG-GAAAGTATAAAGGT
1 CAAAATGTAATTTTTGAG-AAGT-TAGGGGT
33751992 CAAAATGTAATTTTTTTGAGAAGTTAGGGGGT
1 CAAAATGTAA--TTTTTGAGAAGTTA-GGGGT
33752024 C-AAATGTAATTTTTGAGAAGTTAGGGGGT
1 CAAAATGTAATTTTTGAGAAGTTA-GGGGT
*
33752053 C-AAATGTAATTTTTGAGAAGTTTAGGGAT
1 CAAAATGTAATTTTTGAGAAG-TTAGGGGT
33752082 C-AAATGTAATTTTTGAGAAGTTTAGGGGT
1 CAAAATGTAATTTTTGAGAAG-TTAGGGGT
33752111 C-AAATGTAATTTTTGAGAAGTTTAGGGGT
1 CAAAATGTAATTTTTGAGAAG-TTAGGGGT
33752140 CAAAATGTAATTTTTG
1 CAAAATGTAATTTTTG
33752156 GATAGTTCAA
Statistics
Matches: 299, Mismatches: 25, Indels: 38
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.03
29 136 0.45
30 115 0.38
31 25 0.08
32 14 0.05
33 1 0.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (29 bp):
CAAAATGTAATTTTTGAGAAGTTAGGGGT
Found at i:33766872 original size:15 final size:15
Alignment explanation
Indices: 33766838--33766878 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
33766828 GTTTTTTACT
33766838 AAAATAATAT-TAAA
1 AAAATAATATATAAA
**
33766852 AAAATAATATATACC
1 AAAATAATATATAAA
33766867 AAAATAATATAT
1 AAAATAATATAT
33766879 TCTCCCCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATAATATATAAA
Found at i:33768155 original size:12 final size:13
Alignment explanation
Indices: 33768127--33768154 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33768117 TTTATATATT
33768127 AAATATTTTTTAA
1 AAATATTTTTTAA
33768140 AAATATTTTTTAA
1 AAATATTTTTTAA
33768153 AA
1 AA
33768155 TGAAAAATTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:33770732 original size:26 final size:26
Alignment explanation
Indices: 33770676--33770733 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
33770666 TGCTAAACCT
*
33770676 AATTAAATAAATTCAAACATTAAAAT
1 AATTAAATAAATTCAAACATTAAAAG
* *
33770702 TATTAAATAAATTCAAA-TTTAAATAG
1 AATTAAATAAATTCAAACATTAAA-AG
33770728 AATTAA
1 AATTAA
33770734 TTCAAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (26 bp):
AATTAAATAAATTCAAACATTAAAAG
Found at i:33773562 original size:26 final size:25
Alignment explanation
Indices: 33773526--33773601 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
33773516 TTCTGTTTCA
* *
33773526 TTTTC-TTCTTCAAAACTTTTGCT-T
1 TTTTCTTTCTTCAAAA-ATTTACTGT
33773550 TCTTTCTTTCTTCAAAAATTTACTGT
1 T-TTTCTTTCTTCAAAAATTTACTGT
* *
33773576 TATTCTTTCTTCAAAAATTTGCTGT
1 TTTTCTTTCTTCAAAAATTTACTGT
33773601 T
1 T
33773602 AAACAGATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
24 1 0.02
25 32 0.71
26 12 0.27
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.55
Consensus pattern (25 bp):
TTTTCTTTCTTCAAAAATTTACTGT
Found at i:33773581 original size:25 final size:25
Alignment explanation
Indices: 33773553--33773602 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33773543 TTTGCTTTCT
33773553 TTCTTTCTTCAAAAATTTACTGTTA
1 TTCTTTCTTCAAAAATTTACTGTTA
*
33773578 TTCTTTCTTCAAAAATTTGCTGTTA
1 TTCTTTCTTCAAAAATTTACTGTTA
33773603 AACAGATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (25 bp):
TTCTTTCTTCAAAAATTTACTGTTA
Found at i:33774070 original size:27 final size:27
Alignment explanation
Indices: 33774040--33774129 Score: 153
Period size: 27 Copynumber: 3.3 Consensus size: 27
33774030 CTTGATAGAA
* * *
33774040 AGGCACCATTGGTGCCGCCTGACAAGT
1 AGGCACCACTGGTGCCGCCTGTCAGGT
33774067 AGGCACCACTGGTGCCGCCTGTCAGGT
1 AGGCACCACTGGTGCCGCCTGTCAGGT
33774094 AGGCACCACTGGTGCCGCCTGTCAGGT
1 AGGCACCACTGGTGCCGCCTGTCAGGT
33774121 AGGCACCAC
1 AGGCACCAC
33774130 CCATTTATAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (27 bp):
AGGCACCACTGGTGCCGCCTGTCAGGT
Found at i:33774307 original size:15 final size:14
Alignment explanation
Indices: 33774287--33774327 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
33774277 AGCGGGGAGA
33774287 ATATATTATTTTTGT
1 ATATATTATTTTT-T
33774302 ATATATTATTTTTT
1 ATATATTATTTTTT
* *
33774316 TTGTATTATTTT
1 ATATATTATTTT
33774328 AATAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (14 bp):
ATATATTATTTTTT
Found at i:33774311 original size:18 final size:17
Alignment explanation
Indices: 33774290--33774325 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
33774280 GGGGAGAATA
33774290 TATTATTTTTGTATATAT
1 TATTATTTTTGTAT-TAT
*
33774308 TATTTTTTTTGTATTAT
1 TATTATTTTTGTATTAT
33774325 T
1 T
33774326 TTAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TATTATTTTTGTATTAT
Found at i:33775890 original size:8 final size:8
Alignment explanation
Indices: 33775879--33775909 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
33775869 ATTTTAACCC
33775879 TTTAAAAT
1 TTTAAAAT
33775887 TTTAAAAT
1 TTTAAAAT
33775895 TTTAAAAAT
1 TTT-AAAAT
33775904 TTTAAA
1 TTTAAA
33775910 TTAGTAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:33777273 original size:20 final size:19
Alignment explanation
Indices: 33777248--33777303 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
33777238 GAACATGAAC
33777248 CCTAAACTTTAAACCCAAA
1 CCTAAACTTTAAACCCAAA
*
33777267 CCATAAACTTTAAAACTCAAA
1 CC-TAAACTTT-AAACCCAAA
*
33777288 TCCCAAACTTTAAACC
1 -CCTAAACTTTAAACC
33777304 TAAGTTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 2 0.06
20 12 0.39
21 15 0.48
22 2 0.06
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.23
Consensus pattern (19 bp):
CCTAAACTTTAAACCCAAA
Found at i:33778000 original size:20 final size:20
Alignment explanation
Indices: 33777977--33778020 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33777967 CAAAAATTAT
33777977 AAAATAATTT-TAAAAAATTC
1 AAAAT-ATTTATAAAAAATTC
*
33777997 AAAATATTTATAAAAATTTC
1 AAAATATTTATAAAAAATTC
33778017 AAAA
1 AAAA
33778021 AAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATATTTATAAAAAATTC
Found at i:33778045 original size:25 final size:24
Alignment explanation
Indices: 33777997--33778060 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
33777987 TAAAAAATTC
33777997 AAAATATTTATAAAAATTTCAAAA
1 AAAATATTTATAAAAATTTCAAAA
* *
33778021 AAAATATTTTTTAAAAA-TT-ATAA
1 AAAATA-TTTATAAAAATTTCAAAA
*
33778044 AAAATA-TTAAAAAAATT
1 AAAATATTTATAAAAATT
33778061 AAATTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 1 0.03
23 9 0.26
24 8 0.24
25 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATATTTATAAAAATTTCAAAA
Found at i:33778045 original size:34 final size:36
Alignment explanation
Indices: 33778004--33778072 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
33777994 TTCAAAATAT
*
33778004 TTAT-AAAAAT-TTCAAAAAAAAT-ATTTTTTAAAAA
1 TTATAAAAAATATT-AAAAAAAATAAATTTTTAAAAA
*
33778038 TTATAAAAAATATTAAAAAAATTAAATTTTTAAAA
1 TTATAAAAAATATTAAAAAAAATAAATTTTTAAAA
33778073 TTTTTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 14 0.47
36 12 0.40
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (36 bp):
TTATAAAAAATATTAAAAAAAATAAATTTTTAAAAA
Found at i:33782133 original size:2 final size:2
Alignment explanation
Indices: 33782128--33782153 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33782118 AAAAAGAAAA
33782128 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
33782154 TAAAGGTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33784306 original size:11 final size:10
Alignment explanation
Indices: 33784287--33784392 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 10
33784277 GTCAAATTTG
33784287 TTTTATAATAT
1 TTTTATAAT-T
*
33784298 TTTTGTAATT
1 TTTTATAATT
* *
33784308 TTTAAAATAGTTT
1 TTT--TATA-ATT
33784321 TTTTATAA--
1 TTTTATAATT
*
33784329 TTTTATAATA
1 TTTTATAATT
*
33784339 TGTTAT-ATT
1 TTTTATAATT
*
33784348 TTTCATAATT
1 TTTTATAATT
* *
33784358 TTATATATACT
1 TTTTATA-ATT
33784369 TTTTATAATT
1 TTTTATAATT
* *
33784379 TTCTATTATT
1 TTTTATAATT
33784389 TTTT
1 TTTT
33784393 TTTTGCAATT
Statistics
Matches: 70, Mismatches: 18, Indels: 15
0.68 0.17 0.15
Matches are distributed among these distances:
8 8 0.11
9 6 0.09
10 30 0.43
11 19 0.27
12 2 0.03
13 5 0.07
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:33784375 original size:9 final size:9
Alignment explanation
Indices: 33784320--33784391 Score: 58
Period size: 10 Copynumber: 7.6 Consensus size: 9
33784310 TAAAATAGTT
33784320 TTTTTATAA
1 TTTTTATAA
33784329 -TTTTATAA
1 TTTTTATAA
*
33784337 TATGTTAT-A
1 T-TTTTATAA
33784346 TTTTTCATAA
1 TTTTT-ATAA
33784356 TTTTATATATA
1 TTTT-TATA-A
33784367 CTTTTTATAA
1 -TTTTTATAA
*
33784377 TTTTCTATTA
1 TTTT-TATAA
33784387 TTTTT
1 TTTTT
33784392 TTTTTGCAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
8 11 0.21
9 9 0.17
10 22 0.42
11 6 0.12
12 4 0.08
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:33784392 original size:21 final size:22
Alignment explanation
Indices: 33784341--33784394 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
33784331 TTATAATATG
*
33784341 TTATATTTTTCATAATTTTATA
1 TTATATTTTTTATAATTTTATA
* *
33784363 -TATACTTTTTATAATTTTCTA
1 TTATATTTTTTATAATTTTATA
*
33784384 TTATTTTTTTT
1 TTATATTTTTT
33784395 TTGCAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATATTTTTTATAATTTTATA
Found at i:33791309 original size:23 final size:23
Alignment explanation
Indices: 33791277--33791340 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
33791267 CAAGAACTTA
*
33791277 AATAATAATATAAATATA-GAATT
1 AATAAAAATATAAATATATGAA-T
*
33791300 AATAAAAATAATAAA-ATATGCAT
1 AATAAAAAT-ATAAATATATGAAT
*
33791323 AATAAAATTA-AAATATAT
1 AATAAAAATATAAATATAT
33791341 TAAAATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 3 0.09
22 5 0.14
23 20 0.57
24 7 0.20
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (23 bp):
AATAAAAATATAAATATATGAAT
Found at i:33791352 original size:24 final size:24
Alignment explanation
Indices: 33791325--33791385 Score: 95
Period size: 25 Copynumber: 2.5 Consensus size: 24
33791315 ATATGCATAA
*
33791325 TAAAATTAAAATATATTAAAATAT
1 TAAAATAAAAATATATTAAAATAT
*
33791349 TAAAATAAAAAATATTTTAAAATAT
1 TAAAAT-AAAAATATATTAAAATAT
33791374 TAAAATAAAAAT
1 TAAAATAAAAAT
33791386 TTAATTGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 12 0.35
25 22 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAATAAAAATATATTAAAATAT
Found at i:33791360 original size:25 final size:25
Alignment explanation
Indices: 33791332--33791384 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
33791322 TAATAAAATT
33791332 AAAATATATTAAAATATTAAAATAA
1 AAAATATATTAAAATATTAAAATAA
*
33791357 AAAATATTTTAAAATATTAAAATAA
1 AAAATATATTAAAATATTAAAATAA
33791382 AAA
1 AAA
33791385 TTTAATTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAATATATTAAAATATTAAAATAA
Found at i:33795522 original size:18 final size:19
Alignment explanation
Indices: 33795482--33795522 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33795472 TAAATTTGGT
*
33795482 ATTTTTTTAGTGGGTATTG
1 ATTTTTTTAGTGGGTATTA
*
33795501 ATTTTTTTGGTGGGT-TTA
1 ATTTTTTTAGTGGGTATTA
33795519 ATTT
1 ATTT
33795523 GGTACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.61
Consensus pattern (19 bp):
ATTTTTTTAGTGGGTATTA
Found at i:33795882 original size:61 final size:61
Alignment explanation
Indices: 33795722--33795882 Score: 168
Period size: 61 Copynumber: 2.7 Consensus size: 61
33795712 TATGTTCAAT
* ** *
33795722 TACCAAATTAGAAAAAAAATAG-CAAGTTCATATACCAAATTGGGTCCGATAAAAGTTTAAA
1 TACCAAATTAGAAAAAAAAT-GTCAAGTTCATATACCAAATTGAGTCAAAAAAAAGTTTAAA
* * * * * * *
33795783 TACTAAATTAG-GAAAGAGTGTCAAGTTCATGTATCAAATTGAG-CAAAAAAAAGTTTAGA
1 TACCAAATTAGAAAAAAAATGTCAAGTTCATATACCAAATTGAGTCAAAAAAAAGTTTAAA
33795842 TACCAAATTAAGAAAAAAAATGTCAAGTTCA-ATTACCAAAT
1 TACCAAATT-AGAAAAAAAATGTCAAGTTCATA-TACCAAAT
33795883 GCTATATTAA
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
59 21 0.27
60 26 0.33
61 32 0.41
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (61 bp):
TACCAAATTAGAAAAAAAATGTCAAGTTCATATACCAAATTGAGTCAAAAAAAAGTTTAAA
Found at i:33797772 original size:14 final size:14
Alignment explanation
Indices: 33797753--33797779 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33797743 TTTGTTTGCA
33797753 TGTAAAATATTTTC
1 TGTAAAATATTTTC
33797767 TGTAAAATATTTT
1 TGTAAAATATTTT
33797780 TATTGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TGTAAAATATTTTC
Found at i:33801192 original size:6 final size:6
Alignment explanation
Indices: 33801181--33801219 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
33801171 TGATCAAAAT
* * *
33801181 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
33801220 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:33801369 original size:41 final size:40
Alignment explanation
Indices: 33801321--33801421 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
33801311 TCGACCTTAA
** *
33801321 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
33801361 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
33801399 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
33801422 TTTATTGTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:33806034 original size:18 final size:18
Alignment explanation
Indices: 33806011--33806045 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33806001 TTAAATTTTA
33806011 GTCATTAAGTAGT-TAATT
1 GTCATTAA-TAGTGTAATT
33806029 GTCATTAATAGTGTAAT
1 GTCATTAATAGTGTAAT
33806046 GGTAAGCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
GTCATTAATAGTGTAATT
Found at i:33809771 original size:15 final size:16
Alignment explanation
Indices: 33809751--33809790 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
33809741 GGTTAAAATA
33809751 TAATTTTAA-TTTTAT
1 TAATTTTAATTTTTAT
*
33809766 TAATTTAAATTTTTAT
1 TAATTTTAATTTTTAT
*
33809782 AAATTTTAA
1 TAATTTTAA
33809791 AAAGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATTTTAATTTTTAT
Found at i:33813121 original size:12 final size:12
Alignment explanation
Indices: 33813104--33813130 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33813094 TTGGCCATTT
33813104 TTAAACTCTCTG
1 TTAAACTCTCTG
33813116 TTAAACTCTCTG
1 TTAAACTCTCTG
33813128 TTA
1 TTA
33813131 GCATCATTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (12 bp):
TTAAACTCTCTG
Found at i:33815841 original size:88 final size:87
Alignment explanation
Indices: 33815652--33815878 Score: 260
Period size: 89 Copynumber: 2.6 Consensus size: 87
33815642 TCTCAATTTT
* * * * *
33815652 TTTTTTTAAAAAAAACAATTAAGTTCTTGCTTTTTTTACACTTAATTGGGTACTTAAACTGTCAA
1 TTTTTTTCAAAAAAATAATTAAGTTCTTGCTTTTTTTGCACTAAATTGGATACTTAAACTGTCAA
33815717 AATGCATAAAAAAATGCCCTCAA
66 AATGCATAAAAAAA-GCCCTCAA
** * * *
33815740 GCTTTTTCAAAAAAAGTAATTAAGCTCTTGCTTTTTTTGCACTAAATTGGATATTTAAATTGTCA
1 TTTTTTTCAAAAAAA-TAATTAAGTTCTTGCTTTTTTTGCACTAAATTGGATACTTAAACTGTCA
*
33815805 AAATGCAT-AAAAAAGACTCTCAAA
65 AAATGCATAAAAAAAG-CCCTC-AA
* *
33815829 TTTTTTTCAAAAAAATCAATTGA-TTCATTGCATTTTTTTGCACTCAATTG
1 TTTTTTTCAAAAAAAT-AATTAAGTTC-TTGC-TTTTTTTGCACTAAATTG
33815879 CTAAAATGCA
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
87 1 0.01
88 25 0.21
89 74 0.63
90 17 0.15
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (87 bp):
TTTTTTTCAAAAAAATAATTAAGTTCTTGCTTTTTTTGCACTAAATTGGATACTTAAACTGTCAA
AATGCATAAAAAAAGCCCTCAA
Found at i:33816105 original size:47 final size:47
Alignment explanation
Indices: 33816003--33816105 Score: 111
Period size: 47 Copynumber: 2.2 Consensus size: 47
33815993 GTGACAAAAA
* * * *
33816003 TTATAAAAAAAATAAAAACCAACAAAATTATAAAAAGTATTAAACTT
1 TTATAAAAAAAATAAAAACAAACAAAACTATAAAAAGTAGTAAAATT
* ** *
33816050 TAATAAAAAAATATAAAAA-AATTAAAACTATAAAAA-TCGTAAAATT
1 TTATAAAAAAA-ATAAAAACAAACAAAACTATAAAAAGTAGTAAAATT
33816096 TTATAAAAAA
1 TTATAAAAAA
33816106 TCATTAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
46 16 0.35
47 23 0.50
48 7 0.15
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (47 bp):
TTATAAAAAAAATAAAAACAAACAAAACTATAAAAAGTAGTAAAATT
Found at i:33816359 original size:18 final size:17
Alignment explanation
Indices: 33816338--33816378 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
33816328 AATTTAATAT
*
33816338 TTTTTACATTTTTTATAA
1 TTTTTA-ATTTTTTACAA
33816356 TTTTATAATTTTTTACAA
1 TTTT-TAATTTTTTACAA
33816374 TTTTT
1 TTTTT
33816379 TATAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.86
19 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAATTTTTTACAA
Found at i:33816381 original size:28 final size:28
Alignment explanation
Indices: 33816304--33816397 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 28
33816294 TTTTGGTACA
* * * *
33816304 ATAATTTTTATATATTTTTTTACGAATTTA
1 ATAATTTTT-TACAATTTTTTA-TAATTTT
33816334 AT-ATTTTTTAC-ATTTTTTATAATTTT
1 ATAATTTTTTACAATTTTTTATAATTTT
33816360 ATAATTTTTTACAATTTTTTATAAATTTTT
1 ATAATTTTTTACAATTTTTTAT-AA-TTTT
*
33816390 CTAATTTT
1 ATAATTTT
33816398 AATAAAATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
26 7 0.13
27 16 0.29
28 11 0.20
29 8 0.15
30 13 0.24
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (28 bp):
ATAATTTTTTACAATTTTTTATAATTTT
Found at i:33816405 original size:20 final size:21
Alignment explanation
Indices: 33816382--33816427 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
33816372 AATTTTTTAT
**
33816382 AAATTTTTCTAATTTTAA-TA
1 AAATTTTAATAATTTTAATTA
*
33816402 AAATTTTAATATTTTTAATTA
1 AAATTTTAATAATTTTAATTA
33816423 AAATT
1 AAATT
33816428 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTTTAATAATTTTAATTA
Found at i:33816436 original size:20 final size:20
Alignment explanation
Indices: 33816394--33816442 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
33816384 ATTTTTCTAA
*
33816394 TTTTAATAAAATTTTAATAT
1 TTTTAATAAAATTTAAATAT
*
33816414 TTTTAATTAAAA-TTAAATTT
1 TTTTAA-TAAAATTTAAATAT
*
33816434 TTTTTATAA
1 TTTTAATAA
33816443 CTTTTATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 17 0.68
21 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAATAAAATTTAAATAT
Found at i:33820983 original size:23 final size:23
Alignment explanation
Indices: 33820942--33820985 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
33820932 ATAATCCAAG
*
33820942 TTAAAATTATACATTAAAATGAT
1 TTAAAATTATACATAAAAATGAT
33820965 TTAAAATTA-ACAGTAAAAATG
1 TTAAAATTATACA-TAAAAATG
33820986 TTAAAAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
TTAAAATTATACATAAAAATGAT
Found at i:33821434 original size:22 final size:22
Alignment explanation
Indices: 33821370--33821453 Score: 107
Period size: 22 Copynumber: 3.9 Consensus size: 22
33821360 TATTTTTCTC
*
33821370 AGAAGGTGTTGCTGGTTTTCCA
1 AGAAGGTGTTGCTGGTTTTTCA
*
33821392 AGAAGGTGTTGCTGGTATTTCA
1 AGAAGGTGTTGCTGGTTTTTCA
*
33821414 AGAAGATGTTGCTGGTTTTTCA
1 AGAAGGTGTTGCTGGTTTTTCA
* * *
33821436 A-TAGGGGTTACTGGTTTT
1 AGAAGGTGTTGCTGGTTTT
33821454 GTGTTTTGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
21 13 0.24
22 41 0.76
ACGTcount: A:0.20, C:0.10, G:0.31, T:0.39
Consensus pattern (22 bp):
AGAAGGTGTTGCTGGTTTTTCA
Found at i:33823071 original size:128 final size:127
Alignment explanation
Indices: 33822844--33823099 Score: 494
Period size: 128 Copynumber: 2.0 Consensus size: 127
33822834 AATCGCCACG
33822844 TATGAAAAAGTTTAATGTCGTCATCTATGGTGATGAAGTACACTTGGCGTTATCTCCTTGGTTGT
1 TATGAAAAAGTTTAATGTCGTCATCTATGGTGATGAAGTACACTTGGCGTTATCTCCTTGGTTGT
33822909 TGACTTGTCGGCCCGAGTTCATGAACCCTTGTGTTGTGTATATATAAGCTGATTGTAGACCT
66 TGACTTGTCGGCCCGAGTTCATGAACCCTTGTGTTGTGTATATATAAGCTGATTGTAGACCT
33822971 TATGAAAAAGTTTAATGTCGTCATCTATGGTGGATGAAGTACACTTGGCGTTATCTCCTTGGTTG
1 TATGAAAAAGTTTAATGTCGTCATCTATGGT-GATGAAGTACACTTGGCGTTATCTCCTTGGTTG
*
33823036 TTGACTTGTCGGCCCGAGTTCATGAACCCTTGTGTTGTGTATATATAAGCTGATTGTAGTCCT
65 TTGACTTGTCGGCCCGAGTTCATGAACCCTTGTGTTGTGTATATATAAGCTGATTGTAGACCT
33823099 T
1 T
33823100 GGGCAGACAA
Statistics
Matches: 127, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
127 31 0.24
128 96 0.76
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (127 bp):
TATGAAAAAGTTTAATGTCGTCATCTATGGTGATGAAGTACACTTGGCGTTATCTCCTTGGTTGT
TGACTTGTCGGCCCGAGTTCATGAACCCTTGTGTTGTGTATATATAAGCTGATTGTAGACCT
Found at i:33824498 original size:36 final size:36
Alignment explanation
Indices: 33824458--33824531 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
33824448 ATTTTTTTCT
33824458 TAATTCGATATCTGGGTTAAATTTGATAGTTAACAA
1 TAATTCGATATCTGGGTTAAATTTGATAGTTAACAA
33824494 TAATTCGATATCTGGGTTAAATTTGATAGTTAACAA
1 TAATTCGATATCTGGGTTAAATTTGATAGTTAACAA
33824530 TA
1 TA
33824532 CCATTCCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (36 bp):
TAATTCGATATCTGGGTTAAATTTGATAGTTAACAA
Found at i:33826232 original size:18 final size:18
Alignment explanation
Indices: 33826211--33826246 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33826201 ATTATATAAT
33826211 ATTTAAATATATAGTTTA
1 ATTTAAATATATAGTTTA
*
33826229 ATTTAAATATATATTTTA
1 ATTTAAATATATAGTTTA
33826247 TTTTTGGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTAAATATATAGTTTA
Found at i:33826306 original size:7 final size:7
Alignment explanation
Indices: 33826296--33826320 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33826286 TTTTTTGTTT
33826296 TTTATTA
1 TTTATTA
33826303 TTTATTA
1 TTTATTA
33826310 TTTATTA
1 TTTATTA
33826317 TTTA
1 TTTA
33826321 AATATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:33828674 original size:30 final size:30
Alignment explanation
Indices: 33828638--33828704 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
33828628 GTGTGTTCAG
*
33828638 AGGTTGATCCTACGGGTCGAGCT-CTTCCAT
1 AGGTTGATCCTACGGGTCGAGCTCCGT-CAT
*
33828668 AGGTTGATCCTCCGGGTCGAGCTCCGTCAT
1 AGGTTGATCCTACGGGTCGAGCTCCGTCAT
33828698 AGGTTGA
1 AGGTTGA
33828705 CTTACATGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.28
Consensus pattern (30 bp):
AGGTTGATCCTACGGGTCGAGCTCCGTCAT
Found at i:33831807 original size:23 final size:23
Alignment explanation
Indices: 33831763--33831808 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33831753 AGACATTTCT
* * * *
33831763 AAATCTAATAATCAACACATCAC
1 AAATCAAATAAACAAAAAATCAC
33831786 AAATCAAATAAACAAAAAATCAC
1 AAATCAAATAAACAAAAAATCAC
33831809 TCAAAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.22, G:0.00, T:0.17
Consensus pattern (23 bp):
AAATCAAATAAACAAAAAATCAC
Found at i:33841951 original size:23 final size:22
Alignment explanation
Indices: 33841903--33841952 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
33841893 TAATTAAATA
* *
33841903 AATTATTAAAAATTAAAAAGTT
1 AATTATTAAAAATTAAAAACTC
33841925 AATT-TTAAAAATTATAAAAACTC
1 AATTATTAAAAA-T-TAAAAACTC
33841948 AATTA
1 AATTA
33841953 AGCAATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.30
22 5 0.22
23 11 0.48
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTATTAAAAATTAAAAACTC
Found at i:33864634 original size:16 final size:16
Alignment explanation
Indices: 33864613--33864643 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33864603 CTGAAGTTCC
33864613 TACTTTCATGATTTGT
1 TACTTTCATGATTTGT
33864629 TACTTTCATGATTTG
1 TACTTTCATGATTTG
33864644 AACAGTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (16 bp):
TACTTTCATGATTTGT
Found at i:33870117 original size:20 final size:21
Alignment explanation
Indices: 33870089--33870128 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33870079 AAATATATCC
*
33870089 CATCCTAA-TATTTGGTATTT
1 CATCATAATTATTTGGTATTT
*
33870109 CATCATAATTTTTTGGTATT
1 CATCATAATTATTTGGTATT
33870129 CCTTTGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (21 bp):
CATCATAATTATTTGGTATTT
Found at i:33870203 original size:40 final size:38
Alignment explanation
Indices: 33870099--33870210 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 38
33870089 CATCCTAATA
** *
33870099 TTTGGTATTTCATCATAATTTTTTGGTATTCCTTTGTAATT
1 TTTGGTATTTC-TCATAA-TTTTTGGTATT-CTTTAAAAGT
*
33870140 TTTAGTACTTTCTCA-AATCTTTTGGTATTCTTTAAAAAGT
1 TTTGGTA-TTTCTCATAAT-TTTTGGTATTCTTT-AAAAGT
*
33870180 TTTGGTATATCTTCATAATTTTTGGTATTCT
1 TTTGGTATTTC-TCATAATTTTTGGTATTCT
33870211 CTCATTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
39 8 0.13
40 36 0.60
41 12 0.20
42 4 0.07
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.55
Consensus pattern (38 bp):
TTTGGTATTTCTCATAATTTTTGGTATTCTTTAAAAGT
Found at i:33870215 original size:20 final size:20
Alignment explanation
Indices: 33870094--33870215 Score: 83
Period size: 20 Copynumber: 6.0 Consensus size: 20
33870084 TATCCCATCC
*
33870094 TAATATTTGGTATT-TCATCA
1 TAATTTTTGGTATTCTC-TCA
**
33870114 TAATTTTTTGGTATTC-CTTTG
1 TAA-TTTTTGGTATTCTC-TCA
*
33870135 TAATTTTTAGTACTT-TCTCA
1 TAATTTTTGGTA-TTCTCTCA
* *
33870155 -AATCTTTTGGTATTCTTTAA
1 TAAT-TTTTGGTATTCTCTCA
* *
33870175 AAAGTTTTGGTATATCT-TCA
1 TAATTTTTGGTAT-TCTCTCA
33870195 TAATTTTTGGTATTCTCTCA
1 TAATTTTTGGTATTCTCTCA
33870215 T
1 T
33870216 TTTTTTTATA
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
19 8 0.10
20 48 0.61
21 23 0.29
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (20 bp):
TAATTTTTGGTATTCTCTCA
Found at i:33870473 original size:56 final size:55
Alignment explanation
Indices: 33870401--33870506 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 55
33870391 GGTGTTGAAA
33870401 AAAAATATATTTCATGATAATTTT-TTAAAAAATGTGAATAATAAAATAAATGACTG
1 AAAAATATATTTCATGATAATTTTGTT-AAAAATGTGAA-AATAAAATAAATGACTG
* * *
33870457 AAAATTATATTTCATGATAATTTTGTTTAAAATGTGAAAATTAAATAAAT
1 AAAAATATATTTCATGATAATTTTGTTAAAAATGTGAAAATAAAATAAAT
33870507 TAAAAAAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
55 11 0.24
56 33 0.72
57 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (55 bp):
AAAAATATATTTCATGATAATTTTGTTAAAAATGTGAAAATAAAATAAATGACTG
Found at i:33874695 original size:22 final size:19
Alignment explanation
Indices: 33874655--33874699 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
33874645 TTCTCGTGCT
*
33874655 TTTTTTATATTCTCTTATAA
1 TTTTTTATATTCTCATAT-A
33874675 TTTTTTATACTTCCTCATATA
1 TTTTTTATA-TT-CTCATATA
33874696 TTTT
1 TTTT
33874700 GGTATTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTATATTCTCATATA
Found at i:33875426 original size:20 final size:20
Alignment explanation
Indices: 33875379--33875429 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
33875369 ACTTTGTTAG
*
33875379 AATTTTTGGTAATCCCTCAA
1 AATTTTTTGTAATCCCTCAA
*
33875399 AATTTTTTGTACA-CCCTCAT
1 AATTTTTTGTA-ATCCCTCAA
33875419 AATTTTTTGTA
1 AATTTTTTGTA
33875430 TGGTTTCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (20 bp):
AATTTTTTGTAATCCCTCAA
Found at i:33889618 original size:21 final size:20
Alignment explanation
Indices: 33889593--33889675 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 20
33889583 CTTTTTAATT
33889593 GATTGTTTATATGTTTAAATC
1 GATTGTTT-TATGTTTAAATC
*
33889614 GATTG--TTATGTTGAAAT-
1 GATTGTTTTATGTTTAAATC
* * *
33889631 -ATTG-ATTCT-TTTGAATC
1 GATTGTTTTATGTTTAAATC
*
33889648 GATTGTTTATATGTTTAAATT
1 GATTGTTT-TATGTTTAAATC
33889669 GATTGTT
1 GATTGTT
33889676 ATGTAGTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
16 9 0.19
17 3 0.06
18 14 0.29
19 2 0.04
20 2 0.04
21 18 0.38
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.53
Consensus pattern (20 bp):
GATTGTTTTATGTTTAAATC
Found at i:33889625 original size:18 final size:19
Alignment explanation
Indices: 33889602--33889679 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 19
33889592 TGATTGTTTA
33889602 TATGTTTAAATCGATTG-T
1 TATGTTTAAATCGATTGTT
* *
33889620 TATGTTGAAAT--ATTGAT
1 TATGTTTAAATCGATTGTT
* *
33889637 TCT-TTTGAATCGATTGTTT
1 TATGTTTAAATCGATTG-TT
*
33889656 ATATGTTTAAATTGATTG-T
1 -TATGTTTAAATCGATTGTT
33889675 TATGT
1 TATGT
33889680 AGTATATCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
16 9 0.20
17 3 0.07
18 19 0.41
19 2 0.04
20 2 0.04
21 11 0.24
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.53
Consensus pattern (19 bp):
TATGTTTAAATCGATTGTT
Found at i:33889652 original size:55 final size:55
Alignment explanation
Indices: 33889564--33889679 Score: 196
Period size: 55 Copynumber: 2.1 Consensus size: 55
33889554 ATATCAATTA
* * *
33889564 TTATGTTGAAATATTGCTTCTTTTTAATTGATTGTTTATATGTTTAAATCGATTG
1 TTATGTTGAAATATTGATTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTG
*
33889619 TTATGTTGAAATATTGATTCTTTTGAATCGATTGTTTATATGTTTAAATTGATTG
1 TTATGTTGAAATATTGATTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTG
33889674 TTATGT
1 TTATGT
33889680 AGTATATCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (55 bp):
TTATGTTGAAATATTGATTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTG
Found at i:33890031 original size:21 final size:22
Alignment explanation
Indices: 33889999--33890050 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
33889989 TAAATAAAAC
33889999 TATAATTATTTTA-ATATTTAAT
1 TATAA-TATTTTATATATTTAAT
*
33890021 TATAATATTTTATATATTTTAT
1 TATAATATTTTATATATTTAAT
33890043 T-TAATATT
1 TATAATATT
33890051 GGTAACTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATAATATTTTATATATTTAAT
Found at i:33891710 original size:22 final size:21
Alignment explanation
Indices: 33891675--33891716 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33891665 GGTTTTAGGC
*
33891675 TATAGAGTCTAAGGTTTAAGT
1 TATAGAGTCTAAGGTCTAAGT
*
33891696 TATAGAGTTTCAAGGTCTAAG
1 TATAGAGTCT-AAGGTCTAAG
33891717 GTCCGATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (21 bp):
TATAGAGTCTAAGGTCTAAGT
Found at i:33898138 original size:23 final size:24
Alignment explanation
Indices: 33898102--33898154 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
33898092 AAAATATATC
33898102 TATATTTTAATATTTA-ATAAATT
1 TATATTTTAATATTTATATAAATT
** *
33898125 TATATTTTCTTATTTATTATAATTT
1 TATATTTTAATATTTA-TATAAATT
33898150 TATAT
1 TATAT
33898155 AGTTATGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.56
25 11 0.44
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATTTTAATATTTATATAAATT
Found at i:33905783 original size:12 final size:13
Alignment explanation
Indices: 33905759--33905788 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33905749 TTGAAATTTG
33905759 GACTTATTTTTTT
1 GACTTATTTTTTT
33905772 GACTTATTTTTTT
1 GACTTATTTTTTT
33905785 -ACTT
1 GACTT
33905789 TTCCTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
GACTTATTTTTTT
Found at i:33908858 original size:16 final size:16
Alignment explanation
Indices: 33908837--33908878 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
33908827 TATTTTTTCA
33908837 TTAACAAAAAAAAAAT
1 TTAACAAAAAAAAAAT
**
33908853 TTAACAAATGAAAAAT
1 TTAACAAAAAAAAAAT
*
33908869 ATAA-AAAAAA
1 TTAACAAAAAA
33908879 CTATGTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (16 bp):
TTAACAAAAAAAAAAT
Found at i:33910011 original size:30 final size:30
Alignment explanation
Indices: 33909976--33910032 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
33909966 TATTAGTAAA
33909976 TTTATTTTCTGGTCACTTAATTATAAACAG
1 TTTATTTTCTGGTCACTTAATTATAAACAG
33910006 TTTATTTTCTGGTCACTTAATTATAAA
1 TTTATTTTCTGGTCACTTAATTATAAA
33910033 AAATTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (30 bp):
TTTATTTTCTGGTCACTTAATTATAAACAG
Found at i:33912797 original size:21 final size:21
Alignment explanation
Indices: 33912768--33912851 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 21
33912758 CCGAAAATGT
* *
33912768 AAAA-GCAGTGAAGCAAGGTG
1 AAAAGGCAGTGAACCAAAGTG
33912788 AAAAGGCAGTGAACCAAAGTG
1 AAAAGGCAGTGAACCAAAGTG
*
33912809 AAAAGGCTGTGAACCAACA-TG
1 AAAAGGCAGTGAACCAA-AGTG
*
33912830 -AAAGAACAGTGAACCAAAGTG
1 AAAAG-GCAGTGAACCAAAGTG
33912851 A
1 A
33912852 GGAAGCGTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.17
21 44 0.81
22 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.27, T:0.11
Consensus pattern (21 bp):
AAAAGGCAGTGAACCAAAGTG
Found at i:33915863 original size:24 final size:24
Alignment explanation
Indices: 33915820--33915865 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33915810 CATAGCCCCA
* *
33915820 AAACACAAAAAGCAGGCATCTAAG
1 AAACACAAAAAGAACGCATCTAAG
*
33915844 AAACACAAAAAGAACTCATCTA
1 AAACACAAAAAGAACGCATCTA
33915866 CCGGTCCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.22, G:0.11, T:0.11
Consensus pattern (24 bp):
AAACACAAAAAGAACGCATCTAAG
Found at i:33920802 original size:18 final size:18
Alignment explanation
Indices: 33920760--33920802 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
33920750 TGTAATTATC
33920760 ATAATT-TTTATTAAATT
1 ATAATTATTTATTAAATT
*
33920777 ACAATTATTT-TTAAATGT
1 ATAATTATTTATTAAAT-T
33920795 ATAATTAT
1 ATAATTAT
33920803 CATACATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
ATAATTATTTATTAAATT
Found at i:33931047 original size:20 final size:20
Alignment explanation
Indices: 33931010--33931048 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33931000 AAATAATCTT
*
33931010 AAACTTTAGACCTCGAATCC
1 AAACTTTAAACCTCGAATCC
33931030 AAACTTTAAATCCT-GAATC
1 AAACTTTAAA-CCTCGAATC
33931049 AAAAGATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (20 bp):
AAACTTTAAACCTCGAATCC
Found at i:33939556 original size:5 final size:5
Alignment explanation
Indices: 33939546--33939581 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
33939536 TCTTCCACTT
*
33939546 GAAAA GAAAA GGAAA GAAAA GAAAA GAAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA G-AAAA GAAAA
33939582 AATCTAGGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:33946401 original size:4 final size:4
Alignment explanation
Indices: 33946392--33946431 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
33946382 CCAGACTAAA
*
33946392 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTTT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
33946432 CCTCTCTCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (4 bp):
GTAT
Found at i:33955555 original size:122 final size:122
Alignment explanation
Indices: 33955373--33955617 Score: 490
Period size: 122 Copynumber: 2.0 Consensus size: 122
33955363 AAAAATATAT
33955373 GACCATATCATTACATATTTAAAATCGAAGAAATTAAACAAAATACCATTTTTCAATTTCTTGAA
1 GACCATATCATTACATATTTAAAATCGAAGAAATTAAACAAAATACCATTTTTCAATTTCTTGAA
33955438 CCAAAAAGATTAGCAAGGGAGCCCATTCATTACTGGACAATATGTATTATATTATGA
66 CCAAAAAGATTAGCAAGGGAGCCCATTCATTACTGGACAATATGTATTATATTATGA
33955495 GACCATATCATTACATATTTAAAATCGAAGAAATTAAACAAAATACCATTTTTCAATTTCTTGAA
1 GACCATATCATTACATATTTAAAATCGAAGAAATTAAACAAAATACCATTTTTCAATTTCTTGAA
33955560 CCAAAAAGATTAGCAAGGGAGCCCATTCATTACTGGACAATATGTATTATATTATGA
66 CCAAAAAGATTAGCAAGGGAGCCCATTCATTACTGGACAATATGTATTATATTATGA
33955617 G
1 G
33955618 GGTCCAAAAA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (122 bp):
GACCATATCATTACATATTTAAAATCGAAGAAATTAAACAAAATACCATTTTTCAATTTCTTGAA
CCAAAAAGATTAGCAAGGGAGCCCATTCATTACTGGACAATATGTATTATATTATGA
Found at i:33956691 original size:136 final size:135
Alignment explanation
Indices: 33956447--33956691 Score: 307
Period size: 135 Copynumber: 1.8 Consensus size: 135
33956437 ATGCCCAATT
* * * * * *
33956447 TTGATGTTTTGCTTGTATGATTTTATGAATATTGTGGACGCAAGTTTGTTATCTTAAAAAAGAGA
1 TTGATGTTTTGCTTGTACGATTTTATGAATATTGCGCACACAAGTTTGTCATCTGAAAAAAGAGA
* *
33956512 TGAAAATATTAGAGTCAAGTAGTAATTTAATTTATTAATGAAATCTTCAGTGCTCAATTTAGGAA
66 TGAAAATATTAGAGTCAAGTAGTAATTTAATTTATCAAAGAAATCTTCAGTGCTCAATTTAGGAA
33956577 TTTGA
131 TTTGA
* *
33956582 TTGATGTTTTGCTTGTACGATTTTATGAATCTTGCGCACACAAG-TTGCTCATCTGAACATAAGA
1 TTGATGTTTTGCTTGTACGATTTTATGAATATTGCGCACACAAGTTTG-TCATCTGAA-AAAAGA
** * *
33956646 GATGAGGAT-TTGGGAGTCAAGTTA-TAATTTCATTTATCAAAGAAAT
64 GATGAAAATATT-AGAGTCAAG-TAGTAATTTAATTTATCAAAGAAAT
33956692 ATCAATTGAG
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
134 3 0.03
135 48 0.52
136 39 0.42
137 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (135 bp):
TTGATGTTTTGCTTGTACGATTTTATGAATATTGCGCACACAAGTTTGTCATCTGAAAAAAGAGA
TGAAAATATTAGAGTCAAGTAGTAATTTAATTTATCAAAGAAATCTTCAGTGCTCAATTTAGGAA
TTTGA
Found at i:33968652 original size:18 final size:16
Alignment explanation
Indices: 33968620--33968663 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
33968610 ATGGGATGAG
33968620 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
33968636 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
33968650 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
33968664 ATTTTAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:33970285 original size:14 final size:14
Alignment explanation
Indices: 33970259--33970296 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
33970249 GTATCTTCAT
33970259 TTCTTCATT-TCTTC
1 TTCTTC-TTCTCTTC
*
33970273 TTCTTTTTCTCTTC
1 TTCTTCTTCTCTTC
33970287 TTCTTCTTCT
1 TTCTTCTTCT
33970297 ACTGTCTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCTTCTTCTCTTC
Found at i:33972364 original size:29 final size:28
Alignment explanation
Indices: 33972311--33972371 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
33972301 ATTTTTAAAG
* *
33972311 AAAATTATAGAAATAGACCATTTTTGTT
1 AAAATTATAGAAATAGACCAATTTTATT
*
33972339 AAAATTAATAGAAATA-AGTCAATTTTATT
1 AAAATT-ATAGAAATAGA-CCAATTTTATT
33972368 AAAA
1 AAAA
33972372 CACATCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (28 bp):
AAAATTATAGAAATAGACCAATTTTATT
Found at i:33977373 original size:152 final size:154
Alignment explanation
Indices: 33977191--33977474 Score: 362
Period size: 155 Copynumber: 1.9 Consensus size: 154
33977181 TTATCCTACT
** * *
33977191 TTTATCTATTCAAAATTTTTATTAGCTTTAATGTAATAG-CAAAATATTTTCTTAT-TTCAAGTA
1 TTTATCTATTCAAAATTTTTATTAGCTTTAAAATAATAGTAAAAATATTTGCTTATGTT-AAGTA
* ** * * * * *
33977254 AGAAA-TATTTTAAAATAATAAGATATTGTTTATCTATAAATTTAAATAGTTTAAATTATAATGA
65 AGAAACAATTCAAAAATAACAAAATATTATTTAACTATAAATTTAAATAGTTTAAATTACAATGA
33977318 AAGTGTAATTAAATATTCATTAGAA
130 AAGTGTAATTAAATATTCATTAGAA
*
33977343 TTTATCTATT-AAAATTTTTTATTTAG-TTTAAAATAATCGTAAAAATATTTGCTTATGGTTAAG
1 TTTATCTATTCAAAA-TTTTTA-TTAGCTTTAAAATAATAGTAAAAATATTTGCTTAT-GTTAAG
* *
33977406 TAAGAAACAATTCAAAAATAACAAAATATTATTTAACTATAAATTTGAATGGTTTAAATTACAAT
63 TAAGAAACAATTCAAAAATAACAAAATATTATTTAACTATAAATTTAAATAGTTTAAATTACAAT
33977471 GAAA
128 GAAA
33977475 ATACAATTCA
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
151 4 0.04
152 26 0.23
153 18 0.16
154 10 0.09
155 53 0.48
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (154 bp):
TTTATCTATTCAAAATTTTTATTAGCTTTAAAATAATAGTAAAAATATTTGCTTATGTTAAGTAA
GAAACAATTCAAAAATAACAAAATATTATTTAACTATAAATTTAAATAGTTTAAATTACAATGAA
AGTGTAATTAAATATTCATTAGAA
Done.