Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 135 of 410
Found at i:40801252 original size:17 final size:18
Alignment explanation
Indices: 40801210--40801258 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
40801200 AGTTGAAAAG
40801210 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
40801229 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
40801246 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
40801259 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:40802147 original size:40 final size:40
Alignment explanation
Indices: 40802081--40802247 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
40802071 AAATTGAATG
* * *
40802081 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
40802120 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
40802160 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
40802200 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
40802240 ATATCCGG
1 ATATCCGG
40802248 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:40815736 original size:157 final size:157
Alignment explanation
Indices: 40815450--40815765 Score: 632
Period size: 157 Copynumber: 2.0 Consensus size: 157
40815440 CCAGGGGTTA
40815450 ATTTGGAAAACTATTAAAGGTTGAAGAACATGCCATGAATTTGTTTGAATTGGTTTTGATACTAT
1 ATTTGGAAAACTATTAAAGGTTGAAGAACATGCCATGAATTTGTTTGAATTGGTTTTGATACTAT
40815515 TTGATGGATTATTTGTCTTTGTTGTAAAATAAACATGTTTTTTTGTTGTTGAATTTTGGAATGAG
66 TTGATGGATTATTTGTCTTTGTTGTAAAATAAACATGTTTTTTTGTTGTTGAATTTTGGAATGAG
40815580 GGATTAAATCATTAAAGGTGTAAATCT
131 GGATTAAATCATTAAAGGTGTAAATCT
40815607 ATTTGGAAAACTATTAAAGGTTGAAGAACATGCCATGAATTTGTTTGAATTGGTTTTGATACTAT
1 ATTTGGAAAACTATTAAAGGTTGAAGAACATGCCATGAATTTGTTTGAATTGGTTTTGATACTAT
40815672 TTGATGGATTATTTGTCTTTGTTGTAAAATAAACATGTTTTTTTGTTGTTGAATTTTGGAATGAG
66 TTGATGGATTATTTGTCTTTGTTGTAAAATAAACATGTTTTTTTGTTGTTGAATTTTGGAATGAG
40815737 GGATTAAATCATTAAAGGTGTAAATCT
131 GGATTAAATCATTAAAGGTGTAAATCT
40815764 AT
1 AT
40815766 GGGTTTTATT
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 159 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (157 bp):
ATTTGGAAAACTATTAAAGGTTGAAGAACATGCCATGAATTTGTTTGAATTGGTTTTGATACTAT
TTGATGGATTATTTGTCTTTGTTGTAAAATAAACATGTTTTTTTGTTGTTGAATTTTGGAATGAG
GGATTAAATCATTAAAGGTGTAAATCT
Found at i:40818493 original size:47 final size:44
Alignment explanation
Indices: 40818426--40818688 Score: 174
Period size: 47 Copynumber: 5.6 Consensus size: 44
40818416 TTTGTGCTCT
* *
40818426 AGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC-TA-TATGAGAGCC
* * ** * *
40818472 AGTGTAAGACCATGTCTGGGACGTGGCATCGATACAGAAATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-A-GCCTATATGAGAGCC
** *
40818520 AAAGTAAGACATGTTTGGGACATGCATCAGCCTCGATA-GAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT--ATATGAG--AGCC
* * * * *
40818567 AGTGTAAGACGTGTCTGGGACACGCATC-GGCTA-A-GAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTATATGA---GAGCC
*
40818611 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-C-TATATGAGAGCC
40818659 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
40818689 GGCAATTTAT
Statistics
Matches: 166, Mismatches: 31, Indels: 36
0.71 0.13 0.15
Matches are distributed among these distances:
43 3 0.02
44 30 0.18
45 5 0.03
46 20 0.12
47 51 0.31
48 31 0.19
49 17 0.10
50 7 0.04
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTATATGAGAGCC
Found at i:40818638 original size:91 final size:94
Alignment explanation
Indices: 40818424--40818691 Score: 282
Period size: 94 Copynumber: 2.9 Consensus size: 94
40818414 GATTTGTGCT
* ** *
40818424 CTAGTGTAAGACATGTCTGGGACATGCTTCAGC-CATAT-TATGAGAGCTAGTGTAAGACCATGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGT
* * * * *
40818487 CTGGGACGTGGCATC-GATACAGAAATGAGTG
66 CTGGGACATCGCATCGGCTA-AG-AGT-TGTG
* ** * * * *
40818518 CCAAAGTAAGACATGTTTGGGACATGCATCAGC-CTCGATAG-A-GATAGCCAGTGTAAGA-CGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGC-AT-GTATGAGAGCCAGTGTAAGACCAT
40818579 GTCTGGGACA-CGCATCGGCTAAGAGTTGTG
64 GTCTGGGACATCGCATCGGCTAAGAGTTGTG
40818609 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGT
*
40818674 CTGGGACATGGCATCGGC
66 CTGGGACATCGCATCGGC
40818692 AATTTATCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
90 1 0.01
91 35 0.25
92 19 0.13
93 19 0.13
94 51 0.36
95 16 0.11
96 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATGTATGAGAGCCAGTGTAAGACCATGT
CTGGGACATCGCATCGGCTAAGAGTTGTG
Found at i:40832173 original size:46 final size:46
Alignment explanation
Indices: 40832106--40832280 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
40832096 TGTAACCCGC
*
40832106 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
40832152 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCACAT
* * * * *
40832202 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCCGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
* *
40832245 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
40832281 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 61 0.56
47 26 0.24
48 1 0.01
49 1 0.01
50 7 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
Found at i:40832240 original size:93 final size:93
Alignment explanation
Indices: 40832114--40832285 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
40832104 GCCCATAAGT
* * * *
40832114 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCCGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
40832179 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
40832207 GAACTCGGACTCAACTCAACGAGTTCCGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCCGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
*
40832272 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
40832286 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCCGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:40835327 original size:16 final size:15
Alignment explanation
Indices: 40835306--40835335 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
40835296 CAAAATACCT
40835306 GCTTTTTGGCATTTTG
1 GCTTTTTGGC-TTTTG
40835322 GCTTTTTGGCTTTT
1 GCTTTTTGGCTTTT
40835336 ACCGATCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.03, C:0.13, G:0.23, T:0.60
Consensus pattern (15 bp):
GCTTTTTGGCTTTTG
Found at i:40841663 original size:16 final size:17
Alignment explanation
Indices: 40841638--40841679 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
40841628 TTTTTTCAAC
*
40841638 TTTTATAAAATTTTTGT
1 TTTTATAAAATCTTTGT
40841655 TTTTA-AAAATCTTTGT
1 TTTTATAAAATCTTTGT
*
40841671 TTTTGTAAA
1 TTTTATAAA
40841680 CCCATTCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (17 bp):
TTTTATAAAATCTTTGT
Found at i:40842672 original size:25 final size:27
Alignment explanation
Indices: 40842643--40842747 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
40842633 GGCTGCCAAA
* *
40842643 ACAGATAATGT-G-ACAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
40842668 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
40842695 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
40842723 -CAGATAATTGTAGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
40842748 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
25 9 0.13
26 3 0.04
27 46 0.66
28 12 0.17
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:40849841 original size:19 final size:19
Alignment explanation
Indices: 40849817--40849856 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
40849807 TGTGCCATCG
*
40849817 TAAATTCATAGGCATAACT
1 TAAATTCATAAGCATAACT
*
40849836 TAAATTTATAAGCATAACT
1 TAAATTCATAAGCATAACT
40849855 TA
1 TA
40849857 CACATTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAATTCATAAGCATAACT
Found at i:40854264 original size:37 final size:37
Alignment explanation
Indices: 40854214--40854341 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
40854204 TTATTACGAA
40854214 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
* *
40854251 GTCTTACCCGGACATAATCTCCATACGTACTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
40854288 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
40854325 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
40854342 TTTCCAAGTT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
37 80 0.94
38 5 0.06
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:40854484 original size:49 final size:49
Alignment explanation
Indices: 40854428--40854763 Score: 640
Period size: 49 Copynumber: 6.9 Consensus size: 49
40854418 CACACATATA
40854428 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40854477 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40854524 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40854573 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
40854622 TTTCACATTCATCACATGGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40854671 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
40854720 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
40854764 CATCTCATAC
Statistics
Matches: 282, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
47 47 0.17
49 235 0.83
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:40858656 original size:37 final size:37
Alignment explanation
Indices: 40858606--40858733 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
40858596 TTATTACGAA
40858606 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
40858643 GTCTTACCCGGACATAATCTCCATACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
40858680 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
40858717 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
40858734 TTTCCAAGTT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 82 0.94
38 5 0.06
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:40858876 original size:49 final size:49
Alignment explanation
Indices: 40858820--40859104 Score: 524
Period size: 49 Copynumber: 5.9 Consensus size: 49
40858810 CACACATATA
40858820 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40858869 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40858916 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40858963 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
40859012 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
* *
40859061 TTTCACATTCATCACATCTGCCATTAGGCCCTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
40859105 CATCTCATAC
Statistics
Matches: 232, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
47 94 0.41
49 138 0.59
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:40858927 original size:96 final size:96
Alignment explanation
Indices: 40858820--40859106 Score: 524
Period size: 96 Copynumber: 3.0 Consensus size: 96
40858810 CACACATATA
40858820 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
40858885 TCGGCCATTAGGCCTTATCACATATATACAC
66 TCGGCCATTAGGCCTTATCACATATATACAC
40858916 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
40858979 TCGGCCATTAGGCCTTATCACATATATATACAC
66 TCGGCCATTAGGCCTTATCAC--ATATATACAC
40859012 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
40859077 TCTGCCATTAGGCCCTATCACATATATACA
66 TCGGCCATTAGGCCTTATCACATATATACA
40859107 TCTCATACAT
Statistics
Matches: 185, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
94 47 0.25
96 93 0.50
98 45 0.24
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (96 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACAC
Found at i:40869816 original size:49 final size:49
Alignment explanation
Indices: 40869761--40870171 Score: 707
Period size: 49 Copynumber: 8.4 Consensus size: 49
40869751 TATTAAAATT
*
40869761 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
40869810 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
40869859 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
40869908 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
40869957 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
40870006 TGTGAAAGTGTGTATATATGTGATAAGGCCTACTGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
40870055 TGTGAAAGT-TGATGTATATGTGATAAGGCCTAAAGGCCGATGTGATGAA
1 TGTGAAAGTGT-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
40870104 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
40870153 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
40870172 ATGTGGTAAA
Statistics
Matches: 340, Mismatches: 20, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
48 1 0.00
49 338 0.99
50 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:40874465 original size:46 final size:44
Alignment explanation
Indices: 40874412--40874518 Score: 135
Period size: 46 Copynumber: 2.4 Consensus size: 44
40874402 GACGAGAGCT
*
40874412 AGTGTAAGACATGTCTAAGACATGCATCTGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTAAGACATGCATC-GACTACGAGATGT--GCC
** *
40874458 AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGTGTC
1 AGTGTAAGACATGTCTAAGACATGCATCGACTACGAGATGTGCC
40874502 AGTGTAAGACCATGTCT
1 AGTGTAAGA-CATGTCT
40874519 GGGACATGGC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 11 0.20
45 10 0.18
46 34 0.62
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAAGACATGCATCGACTACGAGATGTGCC
Found at i:40877390 original size:40 final size:40
Alignment explanation
Indices: 40877282--40877531 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
40877272 CGGGATTTAA
* * * * *
40877282 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
40877322 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40877362 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40877402 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40877442 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40877482 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40877522 CCGGATATAT
1 CCGGATATAT
40877532 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:40882948 original size:40 final size:39
Alignment explanation
Indices: 40882780--40882950 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
40882770 AGAAATTGAA
* *
40882780 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
40882820 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
40882860 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
40882900 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
40882940 TGATATCCGGG
1 TGATATCCGGG
40882951 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:40890947 original size:40 final size:39
Alignment explanation
Indices: 40890779--40890949 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
40890769 AGAAATTGAA
* *
40890779 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
40890819 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
40890859 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
40890899 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
40890939 TGATATCCGGG
1 TGATATCCGGG
40890950 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:40894788 original size:423 final size:430
Alignment explanation
Indices: 40893726--40894917 Score: 1507
Period size: 423 Copynumber: 2.7 Consensus size: 430
40893716 TTATATACAA
* * * *
40893726 ATATTACATTTTATAATAATTCATCAAGACTAAACATTA-TATACGCGCTTTAATAACTCGCAAG
1 ATATTA-ATTTTACAATAATTCATCAAGGCTAAACA-TAGTATACGTGCTTTAATAACTCACAAG
* *
40893790 TGTAGCTTATATATTTACATGCATTCACAAGTTAAATGAAAACGACCTAA-ACCAAAATTACATA
64 TATAGCTTATATATTCACATGCATTCACAAGTTAAATGAAAACGACC-AAGACCAAAATTACATA
* * *
40893854 TGCAATTTACTATGAGAACAATACTAACATTTTCAATGAAACTTAAATCAACTCATTTAACATAT
128 CGTAATTTACTATGAGAA-AGTACTAACATTTTC-ATGAAACTTAAATCAACTCATTTAACATAT
* * ** * * *
40893919 TATTTAGACGTTTATGCATCCATCTCACT-TCCTATTATCACAATAAGTAAAATCACATTTAAAC
191 TATTTACATGTTTATAAATCCATCTCA-TATCATATTATCACAATAAATATAATCACATTT-AAC
* * * *
40893983 AATAATTTGACACTTGAGGCTATGAAACATAAAAGTGGGCTCCATCACCACACATTGGGTACACG
254 GATAATTTGACACTTGAGGCTATGAAACATAAAAGTGGGCTCTATCACCACACATCGGATACACG
40894048 GATATCCAACACACCAATTGACTTATAGAGTCAATCATAACAAAAAGTAACATATTAATGTTTCA
319 GA-ATCC-ACACA-CAATTGACTTATAGAGTCAATCATAACAAAAAGTAACATATTAATGTTTCA
* *
40894113 TTAAATCATAAAACTAGCATATACTCTTACTTGCTATTACACTTAACTTG
381 TTAAATCATAAAACTAGCATATACTCTTACATGCAATTACACTTAACTTG
*
40894163 CTTATATATAAATAATTAATTTTACAATAATTTATCAAGGCTAAACATAGTATACGTGCTTTAAT
1 -----------AT-ATTAATTTTACAATAATTCATCAAGGCTAAACATAGTATACGTGCTTTAAT
* * * * *
40894228 AACTCACAAGTAT-GGTTATATATTCACTTGCATTCACAAGTTAAATGAAAATGACCTAGACCAC
54 AACTCACAAGTATAGCTTATATATTCACATGCATTCACAAGTTAAATGAAAACGACCAAGACCAA
* * * * *
40894292 AATTACATGCGTAATTTACTATGAGAACGTACTAACACTTTCATGAATCTTAAATAAACTCATTT
119 AATTACATACGTAATTTACTATGAGAAAGTACTAACATTTTCATGAAACTTAAATCAACTCATTT
* * *
40894357 ACCATATTATTTACTTGCTTATAAATCCATCTCATATCATATTATCACAATAAATATAATCACAT
184 AACATATTATTTACATGTTTATAAATCCATCTCATATCATATTATCACAATAAATATAATCACAT
* *
40894422 TTAACTGACAATTTGACACTTGAGGCTATGAGACATAAAAGTGGGCTCTATCACCACACATCGGA
249 TTAAC-GATAATTTGACACTTGAGGCTATGAAACATAAAAGTGGGCTCTATCACCACACATCGGA
* * * * * *
40894487 TACATGG-AT-C-TACA-AATTGACTTATAGAGTCGATCATATCCCTAAAA-TAACAT-TTCACT
313 TACACGGAATCCACACACAATTGACTTATAGAGTCAATCATA--ACAAAAAGTAACATATT-AAT
40894546 -TTTCATTAAATCATAAAACTAGCATATACTCTTACATGCAATTACA-TTCAACTTG
375 GTTTCATTAAATCATAAAACTAGCATATACTCTTACATGCAATTACACTT-AACTTG
* * *
40894601 -T-TT-A-TTTACAATAATTCATCAAGGCTAAACATCGTATACGTGCTTTAATAACTCAAAAGTC
1 ATATTAATTTTACAATAATTCATCAAGGCTAAACATAGTATACGTGCTTTAATAACTCACAAGTA
* *
40894662 TAGCTTATATATTCACATGCATTCACAAGTTAAATGAAAACGACCAAGACCATAGTTACATACGT
66 TAGCTTATATATTCACATGCATTCACAAGTTAAATGAAAACGACCAAGACCAAAATTACATACGT
* * * *
40894727 AATTTACTATGAGAATGTACTAACATTTTCATGAAGCTTAAATCAACTTATTTAGCATATTATTT
131 AATTTACTATGAGAAAGTACTAACATTTTCATGAAACTTAAATCAACTCATTTAACATATTATTT
* *
40894792 ACATGTTTATAAATCCATCTCACATCATATTATTACAATAAATATAATCACATTTAACCGATAAT
196 ACATGTTTATAAATCCATCTCATATCATATTATCACAATAAATATAATCACATTTAA-CGATAAT
* *
40894857 TTGACACTTGAGGCTATGAAACATAAAAATGGGCTCTATCACCACACATCGGATACGCGGA
260 TTGACACTTGAGGCTATGAAACATAAAAGTGGGCTCTATCACCACACATCGGATACACGGA
40894918 TCTCAAACAC
Statistics
Matches: 662, Mismatches: 70, Indels: 48
0.85 0.09 0.06
Matches are distributed among these distances:
422 54 0.08
423 230 0.35
424 3 0.00
426 1 0.00
437 2 0.00
438 75 0.11
439 8 0.01
440 8 0.01
442 1 0.00
443 2 0.00
444 4 0.01
445 135 0.20
446 13 0.02
447 69 0.10
448 53 0.08
449 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (430 bp):
ATATTAATTTTACAATAATTCATCAAGGCTAAACATAGTATACGTGCTTTAATAACTCACAAGTA
TAGCTTATATATTCACATGCATTCACAAGTTAAATGAAAACGACCAAGACCAAAATTACATACGT
AATTTACTATGAGAAAGTACTAACATTTTCATGAAACTTAAATCAACTCATTTAACATATTATTT
ACATGTTTATAAATCCATCTCATATCATATTATCACAATAAATATAATCACATTTAACGATAATT
TGACACTTGAGGCTATGAAACATAAAAGTGGGCTCTATCACCACACATCGGATACACGGAATCCA
CACACAATTGACTTATAGAGTCAATCATAACAAAAAGTAACATATTAATGTTTCATTAAATCATA
AAACTAGCATATACTCTTACATGCAATTACACTTAACTTG
Found at i:40909092 original size:13 final size:13
Alignment explanation
Indices: 40909074--40909102 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
40909064 AAATATAAAC
40909074 TATATTTCTTACT
1 TATATTTCTTACT
40909087 TATATTTCTTACT
1 TATATTTCTTACT
40909100 TAT
1 TAT
40909103 TTTTTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATTTCTTACT
Found at i:40912355 original size:28 final size:28
Alignment explanation
Indices: 40912331--40912385 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
40912321 GATGACACAG
* *
40912331 GCATGTCTAGGCCGTGTGAGGGACACGA
1 GCATGTCTAGGCCATGTGACGGACACGA
*
40912359 GCGTGTCTAGGCCATGTGACGGACACG
1 GCATGTCTAGGCCATGTGACGGACACG
40912386 GGCCAGGGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.38, T:0.18
Consensus pattern (28 bp):
GCATGTCTAGGCCATGTGACGGACACGA
Found at i:40914322 original size:31 final size:32
Alignment explanation
Indices: 40914272--40914333 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
40914262 ATATATTTTC
*
40914272 TGAACCGATCTTAACGTT-AAAAATAATGCAT
1 TGAACCGATCTGAACGTTAAAAAATAATGCAT
* *
40914303 TGAACCTATCTGAATGTTAAAAAATAATGCA
1 TGAACCGATCTGAACGTTAAAAAATAATGCA
40914334 CTGTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (32 bp):
TGAACCGATCTGAACGTTAAAAAATAATGCAT
Found at i:40914552 original size:17 final size:17
Alignment explanation
Indices: 40914530--40914567 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
40914520 TTTATTTCTC
40914530 AAAAAA-TTATAAAAAAT
1 AAAAAACTT-TAAAAAAT
*
40914547 AAAAAACTTTAAAAATT
1 AAAAAACTTTAAAAAAT
40914564 AAAA
1 AAAA
40914568 TAAACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAACTTTAAAAAAT
Found at i:40915133 original size:22 final size:22
Alignment explanation
Indices: 40915106--40915161 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
40915096 TCTTATATAA
40915106 ATAAAAATATACTTATACTAGT
1 ATAAAAATATACTTATACTAGT
40915128 ATAAAAAATATACTTATACTAGT
1 AT-AAAAATATACTTATACTAGT
* *
40915151 GTAAAATTATA
1 ATAAAAATATA
40915162 TTTGTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAAAAATATACTTATACTAGT
Found at i:40915137 original size:23 final size:23
Alignment explanation
Indices: 40915108--40915156 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
40915098 TTATATAAAT
40915108 AAAAATATACTTATACTAGTATA
1 AAAAATATACTTATACTAGTATA
*
40915131 AAAAATATACTTATACTAGTGTA
1 AAAAATATACTTATACTAGTATA
40915154 AAA
1 AAA
40915157 TTATATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (23 bp):
AAAAATATACTTATACTAGTATA
Found at i:40915418 original size:31 final size:30
Alignment explanation
Indices: 40915321--40915425 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 30
40915311 AAATTATATA
** *
40915321 TAAACTTTAATTTAATGTATAATTGTATA-TT
1 TAAACTTTAATTTGGTGCA-AA-TGTATACTT
* * * *
40915352 TAAACTTTAATTTGGTGCAATTATACACGT
1 TAAACTTTAATTTGGTGCAAATGTATACTT
* * *
40915382 GAAACTCTAATTGTGGTTCAAATGTATACTT
1 TAAACTTTAATT-TGGTGCAAATGTATACTT
40915413 TAAACTTTAATTT
1 TAAACTTTAATTT
40915426 TGATTTAATC
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
29 4 0.07
30 13 0.23
31 39 0.70
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (30 bp):
TAAACTTTAATTTGGTGCAAATGTATACTT
Found at i:40915729 original size:21 final size:21
Alignment explanation
Indices: 40915703--40915745 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
40915693 ATTCTTTACC
40915703 AATGAACTGTATCCTATAAAT
1 AATGAACTGTATCCTATAAAT
40915724 AATGAACTGTATCCTATAAAT
1 AATGAACTGTATCCTATAAAT
40915745 A
1 A
40915746 TATTAAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
AATGAACTGTATCCTATAAAT
Found at i:40918772 original size:46 final size:45
Alignment explanation
Indices: 40918682--40918844 Score: 197
Period size: 46 Copynumber: 3.6 Consensus size: 45
40918672 ATGCCAATGC
* *
40918682 CATGTCCTAGACATGGTCTTACACTGGC-TCATCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTCATCTC-AAGCCGATG
* *
40918727 CATGTCCCAAACAT-GTCTTACATTGGCTTACATCTCAAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCAA-GCCGATG
* *
40918773 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCAA-GCCGATG
40918819 CCATGTCCCAGACATGGTCTTACACT
1 -CATGTCCCAGACATGGTCTTACACT
40918845 AGCTCACAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 52 0.50
47 15 0.15
48 10 0.10
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTCATCTCAAGCCGATG
Found at i:40920100 original size:67 final size:67
Alignment explanation
Indices: 40919992--40920124 Score: 266
Period size: 67 Copynumber: 2.0 Consensus size: 67
40919982 ATAAAGAGTA
40919992 AAAAAGAGGCGAAATGATAATTTTGCTATAAAAATAGTAAATTGGTCATTTCTGAAGTATTTAAT
1 AAAAAGAGGCGAAATGATAATTTTGCTATAAAAATAGTAAATTGGTCATTTCTGAAGTATTTAAT
40920057 GT
66 GT
40920059 AAAAAGAGGCGAAATGATAATTTTGCTATAAAAATAGTAAATTGGTCATTTCTGAAGTATTTAAT
1 AAAAAGAGGCGAAATGATAATTTTGCTATAAAAATAGTAAATTGGTCATTTCTGAAGTATTTAAT
40920124 G
66 G
40920125 ACTAAAATAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (67 bp):
AAAAAGAGGCGAAATGATAATTTTGCTATAAAAATAGTAAATTGGTCATTTCTGAAGTATTTAAT
GT
Found at i:40923543 original size:43 final size:43
Alignment explanation
Indices: 40923471--40923594 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
40923461 TCTGAACTCA
* * *
40923471 TTCACCGGCATT-TCGCCTACTAGGGCTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
* *
40923513 TTCATCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
* * * * **
40923556 CTCACCGACATTATACCCAGCTAGGCCCAAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
40923595 ATACTATTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 11 0.16
43 58 0.84
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
Found at i:40927996 original size:40 final size:40
Alignment explanation
Indices: 40927950--40928129 Score: 224
Period size: 40 Copynumber: 4.5 Consensus size: 40
40927940 ACTACTCGTT
* *
40927950 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40927990 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40928030 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
** * *
40928070 CAAATGCCTTC-GGATCTTAGTTCAGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40928111 CAAA-GCCTTCGGGACTTAG
1 CAAATGCCTTCGGGACTTAG
40928130 ACTGGACATG
Statistics
Matches: 128, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40936124 original size:40 final size:40
Alignment explanation
Indices: 40936069--40936248 Score: 224
Period size: 40 Copynumber: 4.5 Consensus size: 40
40936059 ACTACTCGTT
* *
40936069 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40936109 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40936149 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
** * *
40936189 CAAATGCCTTC-GGATCTTAGTTCAGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40936230 CAAA-GCCTTCGGGACTTAG
1 CAAATGCCTTCGGGACTTAG
40936249 ACTGGACATG
Statistics
Matches: 128, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40944783 original size:43 final size:42
Alignment explanation
Indices: 40944725--40944806 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
40944715 CAATGCCGAA
** * *
40944725 GTCCTAGACGTGGTCTTATATGTAATTCA-ATATCGATGCCTCT
1 GTCCTAGACAAGGTCTTACATG-AAATCAGATAT-GATGCCTCT
40944768 GTCCTAGACAAGGTCTTACATGAAATCAGATATGATGCC
1 GTCCTAGACAAGGTCTTACATGAAATCAGATATGATGCC
40944807 AATGTCCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 11 0.32
43 23 0.68
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
GTCCTAGACAAGGTCTTACATGAAATCAGATATGATGCCTCT
Found at i:40957382 original size:37 final size:37
Alignment explanation
Indices: 40957329--40957431 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
40957319 CGAATAGTCC
*
40957329 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
40957366 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
40957403 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
40957432 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:40961940 original size:43 final size:43
Alignment explanation
Indices: 40961874--40962030 Score: 150
Period size: 43 Copynumber: 3.7 Consensus size: 43
40961864 AGCTCATAGA
40961874 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACATG-AATCAAATATCG
40961917 ATGCC-ACTGTCCCAGACAGGGTCTTACATGATATCAAATA-CG
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGA-ATCAAATATCG
* * *
40961959 ATGCCGA-TGTCCCAGACATGGTCTTACACATAAAACTC-AA-ATCG
1 ATGCCAACTGTCCCAGACAGGGTCTT--ACAT-GAA-TCAAATATCG
**
40962003 ATGCCAA-TGTCCCAGACTTGGTCTTACA
1 ATGCCAACTGTCCCAGACAGGGTCTTACA
40962031 CAAAATAACA
Statistics
Matches: 101, Mismatches: 4, Indels: 19
0.81 0.03 0.15
Matches are distributed among these distances:
42 30 0.30
43 35 0.35
44 33 0.33
45 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACATGAATCAAATATCG
Found at i:40962032 original size:44 final size:41
Alignment explanation
Indices: 40961874--40962030 Score: 179
Period size: 44 Copynumber: 3.7 Consensus size: 41
40961864 AGCTCATAGA
* * *
40961874 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATC-AA-ATCG
* * *
40961917 ATGCCACTGTCCCAGACAGGGTCTTACATGATATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAAT-CG
* *
40961959 ATGCCGATGTCCCAGACATGGTCTTACACATAAAACTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTT--ACATGAAA-TCAAATCG
*
40962003 ATGCCAATGTCCCAGACTTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
40962031 CAAAATAACA
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 29 0.30
44 31 0.32
45 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATCG
Found at i:40963396 original size:21 final size:21
Alignment explanation
Indices: 40963372--40963422 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
40963362 ATTCTACTTG
40963372 GAGTTAAGGCTAAAATTGGCT
1 GAGTTAAGGCTAAAATTGGCT
40963393 GAGTTAAGGCTAAAATTGGCT
1 GAGTTAAGGCTAAAATTGGCT
*
40963414 AAGTATAAG
1 GAGT-TAAG
40963423 TTAAAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (21 bp):
GAGTTAAGGCTAAAATTGGCT
Found at i:40964693 original size:45 final size:45
Alignment explanation
Indices: 40964630--40964722 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 45
40964620 GAACAAAGAC
* * *
40964630 ACATTAAAATGCTATACTAAGTAAGACAAAATTAATAGACTTAAG
1 ACATTAAAATACTATACTAAATAAGACAAAATTAATAAACTTAAG
* * * *
40964675 ACATTAAAATACTGTACTAAATAGGACACAATTAATAAACTTATG
1 ACATTAAAATACTATACTAAATAAGACAAAATTAATAAACTTAAG
40964720 ACA
1 ACA
40964723 CATTAAAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.27
Consensus pattern (45 bp):
ACATTAAAATACTATACTAAATAAGACAAAATTAATAAACTTAAG
Found at i:40973817 original size:40 final size:40
Alignment explanation
Indices: 40973709--40973958 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
40973699 CGGGATTTAA
* * * * *
40973709 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
40973749 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40973789 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40973829 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40973869 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40973909 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40973949 CCGGATATAT
1 CCGGATATAT
40973959 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:40981543 original size:40 final size:40
Alignment explanation
Indices: 40981435--40981684 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
40981425 CGGGATTTAA
* * * * *
40981435 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
40981475 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40981515 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40981555 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40981595 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40981635 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40981675 CCGGATATAT
1 CCGGATATAT
40981685 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:40986552 original size:46 final size:47
Alignment explanation
Indices: 40986465--40986681 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 47
40986455 AAATATCCGT
* * * *
40986465 GCCGATGCCATGTCCCAGACATGGTCTTACTCTGAC-GCATCTCTTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCTC-AAG
* * *
40986511 GTCGATG-CATGTCCCAGATAT-GTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCAAG
* *
40986557 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCAAG
* * * **
40986603 GCCGATGCCATGTCCCAGATATGGTCTTACGCTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCAT-CTCAAG
*
40986651 GCCGATG-CATGTCCTAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
40986682 AGCACACAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 67 0.47
47 26 0.18
48 24 0.17
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCAAG
Found at i:40986656 original size:94 final size:92
Alignment explanation
Indices: 40986465--40986686 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 92
40986455 AAATATCCGT
* * *
40986465 GCCGATGCCATGTCCCAGACATGGTCTTACTCT-G-ACGCATCTCTTAGTCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACGCATCTCATAGCCGATGCATGTCCCAG
*
40986528 ATATGTCTTACACTGGCTTACATCTCGAG
64 ATATGTCTTACACTGGCTTACATATCGAG
* *
40986557 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA-ATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACGCATCTCATA-GCCGATG-CATGTCCCAG
* *
40986621 ATATGGTCTTACGCTGGCTCT-CATAAT-GTG
64 ATAT-GTCTTACACTGGCT-TACAT-ATCGAG
*
40986651 GCCGATGCATGTCCTAGACATGTCTTACACTAGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC
40986687 ACAAATAACC
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
90 9 0.08
91 16 0.14
92 20 0.18
93 14 0.12
94 52 0.46
95 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACGCATCTCATAGCCGATGCATGTCCCAGAT
ATGTCTTACACTGGCTTACATATCGAG
Found at i:40994484 original size:40 final size:40
Alignment explanation
Indices: 40994429--40994678 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
40994419 AACATTGGAA
40994429 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
40994469 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
40994509 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
40994549 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
40994589 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
40994628 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
40994669 CTATATCCGG
1 ATATATCCGG
40994679 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:41004814 original size:40 final size:40
Alignment explanation
Indices: 41004755--41004923 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
41004745 CGGGACTTTA
* * *
41004755 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
41004795 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
41004835 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
41004875 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
41004915 CCCGGATAT
1 CCCGGATAT
41004924 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:41012752 original size:40 final size:40
Alignment explanation
Indices: 41012693--41012861 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
41012683 CGGGACTTTA
* * *
41012693 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
41012733 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
41012773 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
41012813 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
41012853 CCCGGATAT
1 CCCGGATAT
41012862 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:41017394 original size:48 final size:48
Alignment explanation
Indices: 41017323--41017444 Score: 226
Period size: 48 Copynumber: 2.5 Consensus size: 48
41017313 CAAGATAAAT
*
41017323 ATATGTATATGTGGTAAAGCCGAATGGCTAATTTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
41017371 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
41017419 ATATGTATATGTGGTAAAGACGAATG
1 ATATGTATATGTGGTAAAGCCGAATG
41017445 ACCAAATGTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:41017619 original size:37 final size:37
Alignment explanation
Indices: 41017567--41017708 Score: 223
Period size: 37 Copynumber: 3.8 Consensus size: 37
41017557 ATATATTCCA
*
41017567 GGTAAGACCCGAAGACTACGTGTGGAGATTTTTTCCG
1 GGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCCG
* *
41017604 GGTAAGACCCAAAGACTATGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCCG
41017641 GGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCCG
* *
41017678 GGTAAGACCCGATA-ACTTCGTATGGAGATTT
1 GGTAAGACCCGA-AGACTACGTGTGGAGATTT
41017709 CATCTTAGCT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
37 96 0.99
38 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
GGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCCG
Found at i:41023420 original size:20 final size:21
Alignment explanation
Indices: 41023384--41023428 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
41023374 ACTCTTTTTC
41023384 TTTT-TCAATCTCGTTTTGCT
1 TTTTCTCAATCTCGTTTTGCT
* *
41023404 TTTTCTCAATCT-TTTTTTCT
1 TTTTCTCAATCTCGTTTTGCT
41023424 TTTTC
1 TTTTC
41023429 AAATTCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.09, C:0.20, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTCTCAATCTCGTTTTGCT
Found at i:41023437 original size:20 final size:18
Alignment explanation
Indices: 41023378--41023430 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
41023368 ACTTGCACTC
*
41023378 TTTTTCTTTTTCAATCTCG
1 TTTTTCTTTTTCAATCT-T
*
41023397 TTTTGCTTTTTCTCAATCTT
1 TTTTTC-TTTT-TCAATCTT
41023417 TTTTTCTTTTTCAA
1 TTTTTCTTTTTCAA
41023431 ATTCTTTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 9 0.31
21 7 0.24
ACGTcount: A:0.11, C:0.19, G:0.04, T:0.66
Consensus pattern (18 bp):
TTTTTCTTTTTCAATCTT
Found at i:41027303 original size:42 final size:41
Alignment explanation
Indices: 41027193--41027346 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 41
41027183 TACCATACCA
* * * **
41027193 ATGCCATATCCCAGATATGGTCTTACATGGGATCTTGTATTG
1 ATGCCATACCCCAGATATGATCTTACAT-GAATCTCATATTG
* * *
41027235 ATGCCAATACCCCAGCTAT-AGCCTTACATGACATCTCACATTG
1 ATGCC-ATACCCCAGATATGA-TCTTACATGA-ATCTCATATTG
*
41027278 ATGCCATACCCCAGATATCATCTTACATGAAGTCTCATATTG
1 ATGCCATACCCCAGATATGATCTTACATGAA-TCTCATATTG
* * *
41027320 ATGCCATATCTCAGATATGGTCTTACA
1 ATGCCATACCCCAGATATGATCTTACA
41027347 CATAGTCTTC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 59 0.64
43 32 0.35
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATACCCCAGATATGATCTTACATGAATCTCATATTG
Found at i:41028640 original size:41 final size:42
Alignment explanation
Indices: 41028583--41028740 Score: 198
Period size: 41 Copynumber: 3.8 Consensus size: 42
41028573 TAACAGTGAT
*
41028583 ATATCAGGCTTGTTGCCTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * *
41028625 ATATC-GGCTTATTGCCTAGCAAGCTATGATGCTGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* *
41028666 ATATCAGGCTTATTTCCTAGTAGGCTTT-ATGCCGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTA-TG
* * *
41028708 A-ATCAGGTTTATTACCTAGCAGGCTCTG-TGCCG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCG
41028741 CTGTTTTATA
Statistics
Matches: 100, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 74 0.74
42 26 0.26
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:41029761 original size:14 final size:14
Alignment explanation
Indices: 41029739--41029768 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41029729 TTGTGTATTG
*
41029739 ATATGTGTATATAT
1 ATATATGTATATAT
41029753 ATATATGTATATAT
1 ATATATGTATATAT
41029767 AT
1 AT
41029769 TTGAATGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
ATATATGTATATAT
Found at i:41036262 original size:27 final size:27
Alignment explanation
Indices: 41036232--41036302 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
41036222 CGACTTGTAA
*
41036232 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCAATTTACAG
***
41036259 AATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAAGTACCCTCAATTTACAG
*
41036286 AATTACCAAAATACCCT
1 AATTACCAAAGTACCCT
41036303 TGGTTTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCAATTTACAG
Found at i:41036309 original size:27 final size:27
Alignment explanation
Indices: 41036286--41036409 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
41036276 CAATTTACAG
41036286 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
41036313 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
41036340 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
41036367 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
41036394 AATTACTAAAATACCC
1 AATTACCAAAATACCC
41036410 CTGCAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:41036328 original size:54 final size:53
Alignment explanation
Indices: 41036270--41036409 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
41036260 ATTACCATTT
41036270 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
41036324 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
41036378 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
41036410 CTGCAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:41036421 original size:81 final size:81
Alignment explanation
Indices: 41036286--41036438 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
41036276 CAATTTACAG
* ****
41036286 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGCAGGGTAAAATTACTAAAA
41036351 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
41036367 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCTGCAGGGTAAAATTACTGAA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGCAGGGTAAAATTACTAAA
41036431 ATACCCTT
65 ATACCCTT
41036439 GTGGGGTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGCAGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:41036422 original size:27 final size:27
Alignment explanation
Indices: 41036392--41036453 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
41036382 CATGGTTTGA
41036392 AAAATTACTAAAATACCCCTGCAGGGT
1 AAAATTACTAAAATACCCCTGCAGGGT
* * **
41036419 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGCAGGGT
41036446 AAAATTAC
1 AAAATTAC
41036454 CATTTTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGCAGGGT
Found at i:41036422 original size:54 final size:54
Alignment explanation
Indices: 41036309--41036436 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
41036299 CCCTTGGTTT
* * * * ***
41036309 ATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTT
1 ATAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTCTGAGG
41036363 ATAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCC-CTGCAGG
1 ATAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTCTG-AGG
* **
41036417 GTAAAATTACTGAAATACCC
1 ATAAAATTACCAAAATACCC
41036437 TTGTGGGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.03
54 61 0.97
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (54 bp):
ATAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCTCTGAGG
Found at i:41037100 original size:28 final size:28
Alignment explanation
Indices: 41037068--41037126 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
41037058 GCGTAGATCA
41037068 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
41037096 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
41037124 CGA
1 CGA
41037127 TATACCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:41040421 original size:27 final size:27
Alignment explanation
Indices: 41040353--41040423 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
41040343 CGACTTGTAA
* *
41040353 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
41040380 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
41040407 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
41040424 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:41040430 original size:27 final size:27
Alignment explanation
Indices: 41040407--41040530 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
41040397 CAATTTACAG
41040407 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
41040434 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
41040461 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
41040488 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
41040515 AATTACTAAAATACCC
1 AATTACCAAAATACCC
41040531 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:41040449 original size:54 final size:53
Alignment explanation
Indices: 41040391--41040530 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
41040381 ATTACCGTTT
41040391 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
41040445 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
41040499 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
41040531 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:41040543 original size:27 final size:27
Alignment explanation
Indices: 41040513--41040574 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
41040503 CATGGTTTGA
41040513 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* *
41040540 AAAATTACTAAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
41040567 AAAATTAC
1 AAAATTAC
41040575 CATTTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:41040543 original size:54 final size:54
Alignment explanation
Indices: 41040407--41040557 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 54
41040397 CAATTTACAG
* ** * * *
41040407 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
41040461 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* *
41040515 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTAAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
41040558 TTGTGGGGTA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.03
54 82 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:41040559 original size:81 final size:81
Alignment explanation
Indices: 41040407--41040559 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
41040397 CAATTTACAG
* **
41040407 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
41040472 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* *
41040488 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTAA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
41040551 AATACCCTT
64 AATACCCTT
41040560 GTGGGGTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:41041224 original size:28 final size:28
Alignment explanation
Indices: 41041192--41041250 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
41041182 GCGTAGATCA
41041192 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
41041220 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
41041248 CGA
1 CGA
41041251 TATACCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:41043737 original size:42 final size:42
Alignment explanation
Indices: 41043623--41043776 Score: 175
Period size: 42 Copynumber: 3.6 Consensus size: 42
41043613 TACCATACCA
* ** * *
41043623 ATGCCATATCCCAGATTTGGTCTTACATGGGATTTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
41043665 ATGCCAATAACACAGCTATGGTCTTACATGAAATCTCACATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
41043708 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATC-G
* *
41043750 ATACCATATCCCAGATATGGTTTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
41043777 CATAGTCTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 60 0.64
43 33 0.35
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:41050860 original size:46 final size:46
Alignment explanation
Indices: 41050793--41050964 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
41050783 TGTAACCCGC
*
41050793 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
41050839 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
41050889 -C-TCA-CGAATTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
41050932 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
41050965 TGGATGCTCA
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:41055832 original size:80 final size:80
Alignment explanation
Indices: 41055667--41055853 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
41055657 AATTGAATGA
* * * * *
41055667 TATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
41055732 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
* *
41055748 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCTGAAGGC-A
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
41055811 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
*
41055827 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
41055854 GTGCAAATCG
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 83 0.90
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:41055872 original size:40 final size:39
Alignment explanation
Indices: 41055705--41055859 Score: 143
Period size: 40 Copynumber: 3.9 Consensus size: 39
41055695 TGCTGGAAAT
* * *
41055705 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT--CA
* * * * *
41055745 TACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAA
1 TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCA
* * *
41055784 TTATATCCGGGCTAAGACCTGAAGGCATTCGTGCGAGTCA
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
*
41055824 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
41055860 ATCGTGATAT
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 88 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
Found at i:41063991 original size:73 final size:72
Alignment explanation
Indices: 41063858--41063998 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 72
41063848 CCGAAGACAA
* * *
41063858 TTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCT
1 TTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GCTACATCCGGGCT
41063923 AAGTCCAT
65 AAGTCCAT
* *
41063931 TTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT-CATTCTATCCGGG
1 TTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGC-TAC-ATCCGGG
41063994 CTAAG
63 CTAAG
41063999 ACCCGAAGGC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
71 1 0.02
72 5 0.08
73 54 0.90
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (72 bp):
TTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGCTACATCCGGGCTA
AGTCCAT
Found at i:41064030 original size:40 final size:40
Alignment explanation
Indices: 41063945--41064032 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
41063935 GCTAGTAATT
* * *
41063945 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
* * *
41063985 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
41064025 ATATCCGG
1 ATATCCGG
41064033 TTAAAGTCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
Found at i:41071990 original size:27 final size:28
Alignment explanation
Indices: 41071933--41072002 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
41071923 AAACTTGTAC
*
41071933 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
41071961 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
41071988 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41072003 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:41072013 original size:27 final size:27
Alignment explanation
Indices: 41071933--41072014 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
41071923 AAACTTGTAC
* * *
41071933 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
41071961 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
41071988 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
41072015 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:41073487 original size:42 final size:41
Alignment explanation
Indices: 41073439--41073653 Score: 235
Period size: 41 Copynumber: 5.2 Consensus size: 41
41073429 TGGCTTGAAG
41073439 GCCCTTCGGAACTAAGTCCGGTTATGACACTGGCTCTAAAAA
1 GCCCTTCGGAACTAAGTCCGGTTATGACACTGGCTCT-AAAA
* * *
41073481 GCCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTC-AAAA
1 GCCCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAA
* * *
41073522 GCCCTTC-GATACCAAG-CTCGGATTA-GACTACTGGCT-TGAAG
1 GCCCTTCGGA-ACTAAGTC-CGG-TTATGAC-ACTGGCTCTAAAA
41073563 GCCCTTCGGAACTAAGTCCGGTTATGACACTGGCTCTAAAAA
1 GCCCTTCGGAACTAAGTCCGGTTATGACACTGGCTCT-AAAA
* * *
41073605 GCCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTC-AAAA
1 GCCCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAA
41073646 GCCCTTCG
1 GCCCTTCG
41073654 AGACCAAGCT
Statistics
Matches: 146, Mismatches: 15, Indels: 25
0.78 0.08 0.13
Matches are distributed among these distances:
40 12 0.08
41 60 0.41
42 56 0.38
43 18 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
GCCCTTCGGAACTAAGTCCGGTTATGACACTGGCTCTAAAA
Found at i:41073555 original size:41 final size:39
Alignment explanation
Indices: 41073389--41073674 Score: 215
Period size: 41 Copynumber: 6.9 Consensus size: 39
41073379 GGGTGTTACA
* *
41073389 GGCTCAAAAGCCCTTCGATACCAAGCTTGGATTAGACTACT
1 GGCTCAAAAGCCCTTCGA-ACTAAGCTCGGATTAGAC-ACT
** *
41073430 GGCTTGAAGGCCCTTCGGAACTAAG-TCCGG-TTATGACACT
1 GGCTCAAAAGCCCTTC-GAACTAAGCT-CGGATTA-GACACT
*
41073470 GGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG-CACT
1 GGCTC--AAAAGCCCTTCG-AACTAAGCTCGG--ATTAGACACT
*
41073513 GGCTCAAAAGCCCTTCGATACCAAGCTCGGATTAGACTACT
1 GGCTCAAAAGCCCTTCGA-ACTAAGCTCGGATTAGAC-ACT
** *
41073554 GGCTTGAAGGCCCTTCGGAACTAAG-TCCGG-TTATGACACT
1 GGCTCAAAAGCCCTTC-GAACTAAGCT-CGGATTA-GACACT
*
41073594 GGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG-CACT
1 GGCTC--AAAAGCCCTTCG-AACTAAGCTCGG--ATTAGACACT
* *
41073637 GGCTCAAAAGCCCTTCGAGACCAAGCTCGAATTTAGAC
1 GGCTCAAAAGCCCTTCGA-ACTAAGCTCGGA-TTAGAC
41073675 CCCGATTAGC
Statistics
Matches: 199, Mismatches: 20, Indels: 52
0.73 0.07 0.19
Matches are distributed among these distances:
39 6 0.03
40 29 0.15
41 94 0.47
42 42 0.21
43 20 0.10
44 2 0.01
45 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (39 bp):
GGCTCAAAAGCCCTTCGAACTAAGCTCGGATTAGACACT
Found at i:41073609 original size:124 final size:124
Alignment explanation
Indices: 41073389--41073674 Score: 536
Period size: 124 Copynumber: 2.3 Consensus size: 124
41073379 GGGTGTTACA
*
41073389 GGCTCAAAAGCCCTTCGATACCAAGCTTGGATTAGACTACTGGCTTGAAGGCCCTTCGGAACTAA
1 GGCTCAAAAGCCCTTCGATACCAAGCTCGGATTAGACTACTGGCTTGAAGGCCCTTCGGAACTAA
41073454 GTCCGGTTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACT
66 GTCCGGTTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACT
41073513 GGCTCAAAAGCCCTTCGATACCAAGCTCGGATTAGACTACTGGCTTGAAGGCCCTTCGGAACTAA
1 GGCTCAAAAGCCCTTCGATACCAAGCTCGGATTAGACTACTGGCTTGAAGGCCCTTCGGAACTAA
41073578 GTCCGGTTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACT
66 GTCCGGTTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACT
* *
41073637 GGCTCAAAAGCCCTTCGAGACCAAGCTCGAATTTAGAC
1 GGCTCAAAAGCCCTTCGATACCAAGCTCGGA-TTAGAC
41073675 CCCGATTAGC
Statistics
Matches: 158, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
124 152 0.96
125 6 0.04
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (124 bp):
GGCTCAAAAGCCCTTCGATACCAAGCTCGGATTAGACTACTGGCTTGAAGGCCCTTCGGAACTAA
GTCCGGTTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACT
Found at i:41078451 original size:124 final size:124
Alignment explanation
Indices: 41078229--41078453 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
41078219 GAATTATGTG
* * * ** * * *
41078229 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
41078294 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
41078353 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
41078418 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
41078454 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:41078575 original size:40 final size:40
Alignment explanation
Indices: 41078448--41078577 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
41078438 ATGCTGGAAA
* *
41078448 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
41078488 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
41078528 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
41078568 TTATATCCGG
1 TTATATCCGG
41078578 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:41078576 original size:80 final size:80
Alignment explanation
Indices: 41078410--41078577 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
41078400 CAATTGAATG
* * *
41078410 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
41078475 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
41078490 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
41078554 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
41078570 ATATCCGG
1 ATATCCGG
41078578 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:41082177 original size:40 final size:40
Alignment explanation
Indices: 41082050--41082179 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
41082040 ATGCTGGAAA
* *
41082050 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * *
41082090 CTACATCCGGGCTAAGACCCGAAGGTATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
41082130 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
41082170 TTATATCCGG
1 TTATATCCGG
41082180 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:41088767 original size:31 final size:31
Alignment explanation
Indices: 41088724--41088789 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
41088714 AACCATTCCT
* *
41088724 GCATTAAATCCAACCAAAAATAGAAAATATA
1 GCATGAAATCCAACCAAAAACAGAAAATATA
* *
41088755 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGAAAATATA
41088786 GCAT
1 GCAT
41088790 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.53, C:0.20, G:0.11, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGAAAATATA
Found at i:41089063 original size:21 final size:21
Alignment explanation
Indices: 41089039--41089107 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
41089029 CCATCGCTAT
41089039 TGCCTCTACCTCCCTCACTGC
1 TGCCTCTACCTCCCTCACTGC
* * *
41089060 TGCCACTACCTCCCTCGCTGT
1 TGCCTCTACCTCCCTCACTGC
* *
41089081 TGCCGCTACCTCCCTCTCTGC
1 TGCCTCTACCTCCCTCACTGC
41089102 TGCCTC
1 TGCCTC
41089108 CCTCTCTGCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.07, C:0.51, G:0.13, T:0.29
Consensus pattern (21 bp):
TGCCTCTACCTCCCTCACTGC
Found at i:41089109 original size:15 final size:15
Alignment explanation
Indices: 41089089--41089122 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
41089079 GTTGCCGCTA
*
41089089 CCTCCCTCTCTGCTG
1 CCTCCCTCTCTGCAG
41089104 CCTCCCTCTCTGCAG
1 CCTCCCTCTCTGCAG
41089119 CCTC
1 CCTC
41089123 TGCTCTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.03, C:0.56, G:0.12, T:0.29
Consensus pattern (15 bp):
CCTCCCTCTCTGCAG
Found at i:41094693 original size:9 final size:9
Alignment explanation
Indices: 41094679--41094939 Score: 107
Period size: 9 Copynumber: 30.1 Consensus size: 9
41094669 TATGTATTAC
*
41094679 GTAAGTTAA
1 GTAAGTTAT
*
41094688 GTAAGTTTT
1 GTAAGTTAT
41094697 GTAAGTTAT
1 GTAAGTTAT
41094706 GTAAGTTAT
1 GTAAGTTAT
* *
41094715 GATATGATAT
1 G-TAAGTTAT
* *
41094725 -AAATTTAT
1 GTAAGTTAT
*
41094733 GTAAGGTAT
1 GTAAGTTAT
41094742 GTAAGTTAT
1 GTAAGTTAT
*
41094751 GTAAATTAT
1 GTAAGTTAT
* **
41094760 GATATGAAAT
1 G-TAAGTTAT
* *
41094770 AT-ATTTAT
1 GTAAGTTAT
*
41094778 GT-A-TTAC
1 GTAAGTTAT
*
41094785 GTAAGCTAT
1 GTAAGTTAT
41094794 GTAAGTTAT
1 GTAAGTTAT
* *
41094803 AT-ATTTAT
1 GTAAGTTAT
*
41094811 -TTA-TTAT
1 GTAAGTTAT
* *
41094818 TTAAGTTTT
1 GTAAGTTAT
*
41094827 ATAAGTTAT
1 GTAAGTTAT
41094836 GTAAGTTAT
1 GTAAGTTAT
*
41094845 GTAAATTAT
1 GTAAGTTAT
* **
41094854 GATATGAAAT
1 G-TAAGTTAT
* *
41094864 AT-ATTTAT
1 GTAAGTTAT
*
41094872 GT-A-TTAC
1 GTAAGTTAT
41094879 GTAAGTTAT
1 GTAAGTTAT
*
41094888 GGAAGTTAT
1 GTAAGTTAT
* *
41094897 AT-ATTTAT
1 GTAAGTTAT
41094905 GT-A-TTAT
1 GTAAGTTAT
*
41094912 GTAAGTTTT
1 GTAAGTTAT
*
41094921 GTAAGTTTT
1 GTAAGTTAT
41094930 GTAAGTTAT
1 GTAAGTTAT
41094939 G
1 G
41094940 ATATGATATA
Statistics
Matches: 184, Mismatches: 55, Indels: 26
0.69 0.21 0.10
Matches are distributed among these distances:
7 21 0.11
8 30 0.16
9 119 0.65
10 14 0.08
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:41094806 original size:33 final size:33
Alignment explanation
Indices: 41094768--41094927 Score: 134
Period size: 33 Copynumber: 5.0 Consensus size: 33
41094758 ATGATATGAA
*
41094768 ATATATTTATGTATTACGTAAGCTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* ** * *
41094801 ATATATTTATTTATTATTTAAGTTTTATAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* * * * **
41094834 ATGTA---A-G--TTATGTAAATTATGATATGAA
1 ATATATTTATGTATTACGTAAGTTATG-TAAGTT
*
41094862 ATATATTTATGTATTACGTAAGTTATGGAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* *
41094895 ATATATTTATGTATTATGTAAGTTTTGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
41094928 TTGTAAGTTA
Statistics
Matches: 95, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
27 10 0.11
28 7 0.07
30 1 0.01
31 1 0.01
32 1 0.01
33 63 0.66
34 12 0.13
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.49
Consensus pattern (33 bp):
ATATATTTATGTATTACGTAAGTTATGTAAGTT
Found at i:41094852 original size:94 final size:94
Alignment explanation
Indices: 41094734--41094939 Score: 349
Period size: 94 Copynumber: 2.2 Consensus size: 94
41094724 TAAATTTATG
* *
41094734 TAAGGTATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTACGTAAGCTATGTAAG
1 TAAGTTATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTACGTAAGCTATGGAAG
* *
41094799 TTATATATTTATTTATTATTTAAGTTTTA
66 TTATATATTTATGTATTATGTAAGTTTTA
*
41094828 TAAGTTATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTACGTAAGTTATGGAAG
1 TAAGTTATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTACGTAAGCTATGGAAG
*
41094893 TTATATATTTATGTATTATGTAAGTTTTG
66 TTATATATTTATGTATTATGTAAGTTTTA
*
41094922 TAAGTTTTGTAAGTTATG
1 TAAGTTATGTAAGTTATG
41094940 ATATGATATA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 105 1.00
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (94 bp):
TAAGTTATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTACGTAAGCTATGGAAG
TTATATATTTATGTATTATGTAAGTTTTA
Found at i:41098212 original size:35 final size:35
Alignment explanation
Indices: 41098166--41098234 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
41098156 CGATTCAAGT
41098166 CAGATGTATGTTACCTCGACAATGAGACTTCACCG
1 CAGATGTATGTTACCTCGACAATGAGACTTCACCG
41098201 CAGATGTATGTTACCTCGACAATGAGACTTCACC
1 CAGATGTATGTTACCTCGACAATGAGACTTCACC
41098235 ATGTCTGCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (35 bp):
CAGATGTATGTTACCTCGACAATGAGACTTCACCG
Found at i:41099302 original size:83 final size:82
Alignment explanation
Indices: 41099207--41099449 Score: 339
Period size: 83 Copynumber: 3.0 Consensus size: 82
41099197 GACATTTTCA
41099207 AAAAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTCTCGTAT-TACTATTTTG
1 AAAAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTT-TCGTATATACTATTTTG
41099271 CTTTTTTGCGGCGTTTTAT
65 CTTTTTTGCGGCGTTTT-T
* * * * * *
41099290 AAAAAACACCGCTAATCCCCTAAATCTCCAATTAAAACGACGACGTTTAGGATAAACTATTATG-
1 AAAAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTTCGTATATACTATTTTGC
* *
41099354 TTTTTTGCTGCATTTTT
66 TTTTTTGCGGCGTTTTT
* * *
41099371 TAAAAACGCCGTTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTTTCGT-TATACTATATTG
1 AAAAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACGACGCCG-TTTCGTATATACTATTTTG
41099435 CTTTTTTGCGGCGTT
65 CTTTTTTGCGGCGTT
41099450 CCTTAAATCT
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
81 51 0.37
82 34 0.25
83 53 0.38
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (82 bp):
AAAAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTTCGTATATACTATTTTGC
TTTTTTGCGGCGTTTTT
Found at i:41099468 original size:62 final size:62
Alignment explanation
Indices: 41099386--41099584 Score: 177
Period size: 62 Copynumber: 3.0 Consensus size: 62
41099376 ACGCCGTTAA
41099386 TCCCCTAAATCTCCAATTAAAACGACGCCGTTTTCGTTATACTATATTGCTTTTTTGCGGCGT
1 TCCCCTAAATCTCCAATTAAAACGACGCCGTTTTCGTTATACTAT-TTGCTTTTTTGCGGCGT
* * * * * * *
41099449 T-CCTTAAATCTCCTATTAAAACGATGTCGTTTACGATAAACTATTATG-TTTTTTGCAAAAAAA
1 TCCCCTAAATCTCCAATTAAAACGACGCCGTTTTCGTTATACTATT-TGCTTTTTTGC-------
41099512 GGCCGCT
58 GG-CG-T
* *
41099519 AATCCCCTAAATCTCCAATTAAAACGACGCCGTTCTCGTTATACTATTTTGCTTCTTTGCGGCGT
1 --TCCCCTAAATCTCCAATTAAAACGACGCCGTTTTCGTTATACTA-TTTGCTTTTTTGCGGCGT
41099584 T
1 T
41099585 TTTTTGTAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 30
0.70 0.11 0.20
Matches are distributed among these distances:
61 9 0.09
62 38 0.36
63 2 0.02
65 1 0.01
66 2 0.02
67 2 0.02
68 2 0.02
69 2 0.02
70 1 0.01
72 1 0.01
73 36 0.34
74 9 0.09
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (62 bp):
TCCCCTAAATCTCCAATTAAAACGACGCCGTTTTCGTTATACTATTTGCTTTTTTGCGGCGT
Found at i:41099560 original size:135 final size:138
Alignment explanation
Indices: 41099310--41099584 Score: 394
Period size: 135 Copynumber: 2.0 Consensus size: 138
41099300 GCTAATCCCC
* *
41099310 TAAATCTCCAATTAAAACGACGACGTTTAGGATAAACTATTATGTTTTTTGCTGCATTTTTTAAA
1 TAAATCTCCAATTAAAACGACGACGTTTACGATAAACTATTATGTTTTTT-CTGCA----TAAAA
* * *
41099375 AACGCCGTTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTTTCGTTATACTATATTGCTTTT
61 AACGCCGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTCTCGTTATACTATATTGCTTCT
41099440 TTGCGGCGTTCCT
126 TTGCGGCGTTCCT
* * * *
41099453 TAAATCTCCTATTAAAACGATGTCGTTTACGATAAACTATTATG-TTTTT-TGCA-AAAAAAGGC
1 TAAATCTCCAATTAAAACGACGACGTTTACGATAAACTATTATGTTTTTTCTGCATAAAAAACGC
*
41099515 CGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTCTCGTTATACTATTTTGCTTCTTTGCG
66 CGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTCTCGTTATACTATATTGCTTCTTTGCG
41099580 GCGTT
131 GCGTT
41099585 TTTTTGTAAA
Statistics
Matches: 122, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
135 73 0.60
140 4 0.03
142 5 0.04
143 40 0.33
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (138 bp):
TAAATCTCCAATTAAAACGACGACGTTTACGATAAACTATTATGTTTTTTCTGCATAAAAAACGC
CGCTAATCCCCTAAATCTCCAATTAAAACGACGCCGTTCTCGTTATACTATATTGCTTCTTTGCG
GCGTTCCT
Found at i:41099950 original size:7 final size:7
Alignment explanation
Indices: 41099940--41099971 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
41099930 CCATAAACAT
*
41099940 TAAACTC
1 TAAACCC
41099947 TAAACCC
1 TAAACCC
41099954 TAAACCC
1 TAAACCC
41099961 TAAACCC
1 TAAACCC
41099968 TAAA
1 TAAA
41099972 TCTTAACTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:41099957 original size:14 final size:14
Alignment explanation
Indices: 41099903--41099971 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
41099893 ACTAATTAAT
*
41099903 CTAAAACCTAAACC
1 CTAAACCCTAAACC
* *
41099917 TCTAACCCCT-ATCC
1 -CTAAACCCTAAACC
** *
41099931 CATAAACATTAAACT
1 C-TAAACCCTAAACC
41099946 CTAAACCCTAAACC
1 CTAAACCCTAAACC
41099960 CTAAACCCTAAA
1 CTAAACCCTAAA
41099972 TCTTAACTCT
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
13 1 0.02
14 30 0.73
15 10 0.24
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.20
Consensus pattern (14 bp):
CTAAACCCTAAACC
Found at i:41099964 original size:28 final size:29
Alignment explanation
Indices: 41099911--41099965 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
41099901 ATCTAAAACC
* *
41099911 TAAACCTCTAACCCCTATCCCATAAACAT
1 TAAACCTCTAAACCCTAACCCATAAACAT
41099940 TAAA-CTCTAAACCCTAAACCC-TAAAC
1 TAAACCTCTAAACCCT-AACCCATAAAC
41099966 CCTAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (29 bp):
TAAACCTCTAAACCCTAACCCATAAACAT
Found at i:41099997 original size:14 final size:14
Alignment explanation
Indices: 41099975--41100059 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 14
41099965 CCCTAAATCT
*
41099975 TAACTCTTAACCCC
1 TAACCCTTAACCCC
*
41099989 TAACCCTTAGACTCGATC
1 TAACCCTTA-AC-C--CC
* * *
41100007 TAAACCATAAACCTC
1 T-AACCCTTAACCCC
*
41100022 TAACCCTTAACCCT
1 TAACCCTTAACCCC
*
41100036 TAACCCCTAACCCC
1 TAACCCTTAACCCC
*
41100050 TAAACCTTAA
1 TAACCCTTAA
41100060 ACTCCAACTA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
14 37 0.69
15 5 0.09
16 1 0.02
17 1 0.02
18 4 0.07
19 6 0.11
ACGTcount: A:0.34, C:0.39, G:0.02, T:0.25
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:41100040 original size:21 final size:21
Alignment explanation
Indices: 41100006--41100059 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
41099996 TAGACTCGAT
* *
41100006 CTAAACCATAAACCTCTAACCC
1 CTAAACC-TTAACCCCTAACCC
* *
41100028 TTAACCCTTAACCCCTAACCC
1 CTAAACCTTAACCCCTAACCC
41100049 CTAAACCTTAA
1 CTAAACCTTAA
41100060 ACTCCAACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCTTAACCCCTAACCC
Found at i:41100157 original size:14 final size:14
Alignment explanation
Indices: 41100125--41100179 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
41100115 AAATAGTAAC
* *
41100125 TCCTAACCCTTAAA
1 TCCTAAACCATAAA
* *
41100139 CCCTAAACCATATA
1 TCCTAAACCATAAA
41100153 TCCTAAACCATAAA
1 TCCTAAACCATAAA
*
41100167 TCCTAAACTATAA
1 TCCTAAACCATAA
41100180 TCAAAATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (14 bp):
TCCTAAACCATAAA
Found at i:41100216 original size:24 final size:25
Alignment explanation
Indices: 41100189--41100239 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
41100179 ATCAAAATTA
*
41100189 ATTCAATATTT-TAAATTCAATACT
1 ATTCAATATTTCAAAATTCAATACT
41100213 ATTCAATATTTCAAAATTCAATACT
1 ATTCAATATTTCAAAATTCAATACT
41100238 AT
1 AT
41100240 CTCTTTTACG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTCAATATTTCAAAATTCAATACT
Found at i:41100833 original size:40 final size:40
Alignment explanation
Indices: 41100789--41100875 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
41100779 TATAGCGGTG
* * *
41100789 TTTTTTGGAAAGCGCCGCTAATGCT-TGATATTTAGCGGCA
1 TTTTTTAGAAAGCACCGCTAATGCTCT-ATATTTAGCAGCA
* * * *
41100829 TTTTTAATAAAGCACCGCTAATTCTCTATATTTAGCAGCG
1 TTTTTTAGAAAGCACCGCTAATGCTCTATATTTAGCAGCA
41100869 TTTTTTA
1 TTTTTTA
41100876 TTAAAACGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (40 bp):
TTTTTTAGAAAGCACCGCTAATGCTCTATATTTAGCAGCA
Found at i:41102786 original size:35 final size:35
Alignment explanation
Indices: 41102734--41102909 Score: 221
Period size: 35 Copynumber: 5.1 Consensus size: 35
41102724 CACGATTCAC
* * *
41102734 AACT-AGTATGGTTAATACCATACCTACGTTTCAT
1 AACTCAGTATGGATAATACCATACCTACATGTCAT
* * *
41102768 AACTCGGTATGGGA-AATACCATACCTACATATTAT
1 AACTCAGTAT-GGATAATACCATACCTACATGTCAT
* * * *
41102803 AGCTCAGTATGTATAATACCATACCTACGTATCAT
1 AACTCAGTATGGATAATACCATACCTACATGTCAT
*
41102838 AACTAAGTATGGATAATACCATACCTACATGTCAT
1 AACTCAGTATGGATAATACCATACCTACATGTCAT
*
41102873 AACTCAGCATGGATAATACCATACCTACATGTCAT
1 AACTCAGTATGGATAATACCATACCTACATGTCAT
41102908 AA
1 AA
41102910 TTTTCCATGG
Statistics
Matches: 122, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
34 6 0.05
35 114 0.93
36 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACATGTCAT
Found at i:41105536 original size:67 final size:66
Alignment explanation
Indices: 41105347--41105555 Score: 189
Period size: 67 Copynumber: 3.2 Consensus size: 66
41105337 CATATAGTTC
* * * *
41105347 AGCTCTCTTGTAC-ACATGGTGAACACCTAGTACCACCCAAGTGACCTAGC-CAGT--T-TATCT
1 AGCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCA-TCATATATCT
41105407 CGT
64 CGT
* * * * *
41105410 AGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCT-A-CATATATC
1 AGCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTCATCATATATC
*
41105473 CCGT
63 TCGT
* *
41105477 AGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATATTGTCT
1 AGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCT-CATCATA-TATCT
*
41105542 TGT
64 CGT
41105545 AGCTCTCTTGT
1 AGCTCTCTTGT
41105556 ACACATGATG
Statistics
Matches: 116, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 24 0.21
66 24 0.21
67 32 0.28
68 16 0.14
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.31
Consensus pattern (66 bp):
AGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTCATCATATATCTCG
T
Found at i:41113219 original size:12 final size:12
Alignment explanation
Indices: 41113202--41113228 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
41113192 ATTTACAAGA
41113202 TTAGACTATTTT
1 TTAGACTATTTT
41113214 TTAGACTATTTT
1 TTAGACTATTTT
41113226 TTA
1 TTA
41113229 AAAAATTACG
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:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TTAGACTATTTT
Found at i:41113475 original size:28 final size:28
Alignment explanation
Indices: 41113430--41113491 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
41113420 ACCCCAATGA
* *
41113430 CTATTTAATTAGTAGTTGGGACCAACGG
1 CTATTTAATTAGCAGTTGGGACCAAAGG
* * *
41113458 CTATTTAATTAGCCGTTGGGGCCAAAGT
1 CTATTTAATTAGCAGTTGGGACCAAAGG
41113486 CTATTT
1 CTATTT
41113492 TTTTATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (28 bp):
CTATTTAATTAGCAGTTGGGACCAAAGG
Found at i:41116806 original size:18 final size:20
Alignment explanation
Indices: 41116770--41116816 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
41116760 AGTTGTAAGT
41116770 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
41116790 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
41116809 ATGATATA
1 AT-ATATA
41116817 ACCTATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:41117344 original size:50 final size:50
Alignment explanation
Indices: 41117165--41117711 Score: 409
Period size: 50 Copynumber: 10.9 Consensus size: 50
41117155 ATTCGTTCTG
* * * *
41117165 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * * * * * *
41117215 GGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACTC-GTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGAT-AGTTA
* * * ** *
41117265 CGATCACGTGTGTAGTACTAACTGTAGGCTACTACGTGTATTAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * *
41117316 AGTTACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* ** * * * * * * *
41117366 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCTGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTTA
* * ** *
41117416 TGATCACGTGTATAGTACTAAGTATAGGCTACTACGTGTATCAGATAGTTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * *
41117467 AGTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * * * * * *
41117517 GGTCACATATGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTTA
* * * *
41117567 CGATCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * * * * * *
41117618 AGTCACATGTATAGTGCTAAGTGTAGGCTAATACGTGTACTAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
* * * * * *
41117668 GGTCTCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
41117712 GAGCTTCGGT
Statistics
Matches: 380, Mismatches: 106, Indels: 22
0.75 0.21 0.04
Matches are distributed among these distances:
50 273 0.72
51 107 0.28
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
Found at i:41117432 original size:101 final size:98
Alignment explanation
Indices: 41117327--41117706 Score: 323
Period size: 101 Copynumber: 3.8 Consensus size: 98
41117317 GTTACGTATG
41117327 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTT-CATGTGTAGTACTAAGTGCAG
* * *
41117392 GCTACTATGCGTATCTGTTAACTTTGATCACGTGTA
65 GCTACTACGCGTATCAGTTAA--TTGATCACATGTA
** * * * * *
41117428 TAGTACTAAGTATAGGCTACTACGTGTATCAGATAGTTAAG-TCACGTGTGTAGTACTAAGTGCT
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTCA--TGTGTAGTACTAAGTGCA
* * * * * * *
41117492 GGCTACTACGTGTACCAGATTGATAGGTCACATATG
64 GGCTACTACGCGTATCAG-TTAATTGATCACATGTA
* * * * ** *
41117528 TAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGATCACGTGTGTAGTACTAAGTGC
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TAGGTTCA--TGTGTAGTACTAAGTGC
* * * ** *
41117592 AGGCTATTACGTGTATCAGATGGTTAAGTCACATGTA
63 AGGCTACTACGCGTATCAGTTAATTGA-TCACATGTA
* * * * *
41117629 TAGTGCTAAGTGTAGGCTAATACGTGTACTAGATTGATAGGTCTCATGTGTAGTACTAAGTGTAG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT-TCATGTGTAGTACTAAGTGCAG
*
41117694 GCTACTATGCGTA
65 GCTACTACGCGTA
41117707 CCAGAGAGCT
Statistics
Matches: 218, Mismatches: 53, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
99 3 0.01
100 68 0.31
101 138 0.63
102 9 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (98 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTCATGTGTAGTACTAAGTGCAGG
CTACTACGCGTATCAGTTAATTGATCACATGTA
Found at i:41117708 original size:151 final size:151
Alignment explanation
Indices: 41117165--41117708 Score: 829
Period size: 151 Copynumber: 3.6 Consensus size: 151
41117155 ATTCGTTCTG
* * *
41117165 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCTCATGTGTAGT
* * *
41117230 ACTAAGTGCAGGCTATTATGCGTACTCGTTAACTTCGATCACGTGTGTAGTACTAACTGTAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
*
41117295 ACTACGTGTATTAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* *
41117316 AGTTACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT-TGCATGTGTAG
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCT-CATGTGTAG
* * * * *
41117380 TACTAAGTGCAGGCTACTATGCGTATCTGTTAACTTTGATCACGTGTATAGTACTAAGTATAGGC
65 TACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGC
*
41117445 TACTACGTGTATCAGATAGTTA
130 TACTACGTGTATCAGATGGTTA
* * *
41117467 AGTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATAGGTCACATATGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCTCATGTGTAGT
*
41117532 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
*
41117597 ATTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * * * * *
41117618 AGTCACATGTATAGTGCTAAGTGTAGGCTAATACGTGTACTAGATTGATAGGTCTCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCTCATGTGTAGT
*
41117683 ACTAAGTGTAGGCTACTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
41117709 AGAGAGCTTC
Statistics
Matches: 353, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
151 353 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCTCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
ACTACGTGTATCAGATGGTTA
Found at i:41117934 original size:16 final size:16
Alignment explanation
Indices: 41117913--41117944 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41117903 AGAATGGAGT
41117913 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
41117929 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
41117945 TGAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:41123292 original size:15 final size:17
Alignment explanation
Indices: 41123260--41123292 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
41123250 TATTGATACT
41123260 TGTGAATGTGAGTTTGG
1 TGTGAATGTGAGTTTGG
41123277 TGTGAAT-TGA-TTTGG
1 TGTGAATGTGAGTTTGG
41123292 T
1 T
41123293 AAATTAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (17 bp):
TGTGAATGTGAGTTTGG
Found at i:41128107 original size:28 final size:28
Alignment explanation
Indices: 41128075--41128209 Score: 148
Period size: 29 Copynumber: 4.7 Consensus size: 28
41128065 TACATACTTG
*
41128075 CATATGGCCCACTTGGCCCAA-TCTTATT
1 CATATGGCCCA-TTGGCCCAATTCATATT
* * * *
41128103 TATATGGCCCATCAGACCCAATTCACATT
1 CATATGGCCCAT-TGGCCCAATTCATATT
41128132 CATATGGCCCATTAGG-CCAATTCATATT
1 CATATGGCCCATT-GGCCCAATTCATATT
* *
41128160 CATATGGCCCATCAGGCCCAATTTATATT
1 CATATGGCCCAT-TGGCCCAATTCATATT
41128189 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCATT-GGCCCAA
41128210 ATCACCTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.01
28 41 0.46
29 47 0.53
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
CATATGGCCCATTGGCCCAATTCATATT
Found at i:41128141 original size:29 final size:29
Alignment explanation
Indices: 41128104--41128243 Score: 156
Period size: 29 Copynumber: 4.9 Consensus size: 29
41128094 AATCTTATTT
*
41128104 ATATGGCCCATCAGACCCAATTCACATTC
1 ATATGGCCCATCAGGCCCAATTCACATTC
* *
41128133 ATATGGCCCATTAGG-CCAATTCATATTC
1 ATATGGCCCATCAGGCCCAATTCACATTC
* *
41128161 ATATGGCCCATCAGGCCCAATTTATATTC
1 ATATGGCCCATCAGGCCCAATTCACATTC
* * * *
41128190 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATCAGGCCCAATTCACATTC
* * * *
41128219 ATATGGTCCGTTAGGCCCAAATCAC
1 ATATGGCCCATCAGGCCCAATTCAC
41128244 CTTATATTCA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
28 26 0.27
29 71 0.73
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAATTCACATTC
Found at i:41128165 original size:57 final size:56
Alignment explanation
Indices: 41128075--41128206 Score: 185
Period size: 57 Copynumber: 2.3 Consensus size: 56
41128065 TACATACTTG
* *
41128075 CATATGGCCCACTT-GGCCCAATCTTATTTATATGGCCCATCAGACCCAATTCACATT
1 CATATGGCCCA-TTAGG-CCAATCATATTCATATGGCCCATCAGACCCAATTCACATT
* * *
41128132 CATATGGCCCATTAGGCCAATTCATATTCATATGGCCCATCAGGCCCAATTTATATT
1 CATATGGCCCATTAGGCCAA-TCATATTCATATGGCCCATCAGACCCAATTCACATT
41128189 CATATGGCCCATTAGGCC
1 CATATGGCCCATTAGGCC
41128207 CAAATCACCT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
56 6 0.09
57 62 0.91
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (56 bp):
CATATGGCCCATTAGGCCAATCATATTCATATGGCCCATCAGACCCAATTCACATT
Found at i:41128222 original size:35 final size:29
Alignment explanation
Indices: 41128075--41128209 Score: 161
Period size: 28 Copynumber: 4.7 Consensus size: 29
41128065 TACATACTTG
*
41128075 CATATGGCCCA-CTTGGCCCAATCTTAT-TT
1 CATATGGCCCATC-AGGCCCAAT-TTATATT
* * *
41128104 -ATATGGCCCATCAGACCCAATTCACATT
1 CATATGGCCCATCAGGCCCAATTTATATT
* *
41128132 CATATGGCCCATTAGG-CCAATTCATATT
1 CATATGGCCCATCAGGCCCAATTTATATT
41128160 CATATGGCCCATCAGGCCCAATTTATATT
1 CATATGGCCCATCAGGCCCAATTTATATT
*
41128189 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCATCAGGCCCAA
41128210 ATCACCTTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.02
28 45 0.49
29 45 0.49
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATTTATATT
Found at i:41128482 original size:16 final size:16
Alignment explanation
Indices: 41128461--41128500 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
41128451 ACAGCCAAAC
*
41128461 TTTCGGCTCTTCGGCA
1 TTTCGGCTCTTCGACA
41128477 TTTCGGCTCTTCGACA
1 TTTCGGCTCTTCGACA
41128493 TTTCGGCT
1 TTTCGGCT
41128501 TTTGCCGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.30, G:0.23, T:0.40
Consensus pattern (16 bp):
TTTCGGCTCTTCGACA
Found at i:41139154 original size:40 final size:40
Alignment explanation
Indices: 41139095--41139263 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
41139085 CGGGACTTTA
* * *
41139095 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
41139135 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
41139175 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
41139215 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
41139255 CCCGGATAT
1 CCCGGATAT
41139264 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:41144461 original size:42 final size:41
Alignment explanation
Indices: 41144381--41144646 Score: 244
Period size: 41 Copynumber: 6.5 Consensus size: 41
41144371 GAGCTTGGTC
* *
41144381 TCGAAGGGCTTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
41144422 TCGAAGGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTTAGAGCCAGTGTCATAACCGGACTTAGTT
* * * * *
41144464 CCGAAGGGCCTTCA-AGCCAGTAGTC-TAATCC-GAGCTTGGTA
1 TCGAAGGGCTTTTAGAGCCAGT-GTCATAA-CCGGA-CTTAGTT
* *
41144505 TCGAAGGGCTTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
41144546 TCGAAGGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTTAGAGCCAGTGTCATAACCGGACTTAGTT
* * * * * *
41144588 CCGAAGGGCCTTCA-AGCCAGTAGTC-TAATCC-AAGCTTGGTA
1 TCGAAGGGCTTTTAGAGCCAGT-GTCATAA-CCGGA-CTTAGTT
41144629 TCGAAGGGCTTTT-GAGCC
1 TCGAAGGGCTTTTAGAGCC
41144647 TGTAACACCC
Statistics
Matches: 185, Mismatches: 25, Indels: 30
0.77 0.10 0.12
Matches are distributed among these distances:
40 24 0.13
41 83 0.45
42 60 0.32
43 18 0.10
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTAGAGCCAGTGTCATAACCGGACTTAGTT
Found at i:41144590 original size:124 final size:124
Alignment explanation
Indices: 41144361--41144646 Score: 536
Period size: 124 Copynumber: 2.3 Consensus size: 124
41144351 GCTAATAGGG
* *
41144361 GTCTAAATTCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGA
1 GTCT-AATCCGAGCTTGGTATCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGA
41144426 AGGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCAAGCCAGTA
65 AGGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCAAGCCAGTA
41144486 GTCTAATCCGAGCTTGGTATCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGAA
1 GTCTAATCCGAGCTTGGTATCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGAA
41144551 GGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCAAGCCAGTA
66 GGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCAAGCCAGTA
*
41144610 GTCTAATCCAAGCTTGGTATCGAAGGGCTTTTGAGCC
1 GTCTAATCCGAGCTTGGTATCGAAGGGCTTTTGAGCC
41144647 TGTAACACCC
Statistics
Matches: 158, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
124 154 0.97
125 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (124 bp):
GTCTAATCCGAGCTTGGTATCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTCGAA
GGGCTTTTTAGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGGCCTTCAAGCCAGTA
Done.