Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 271 of 279
Found at i:88518176 original size:28 final size:28
Alignment explanation
Indices: 88518106--88518200 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
88518096 GGCAAGTTAA
88518106 GTTTGCTAGTTTGTTTAGCAAACTGAGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
** * * *
88518134 GTTCACCAGTTTGTTTAGCGAACTGGGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
* * * * *
88518162 GTTTGCTAGTCTGTTTGGCTAATTAAGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
*
88518190 GTTTGCCAGTT
1 GTTTGCTAGTT
88518201 GAGTTGTGAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (28 bp):
GTTTGCTAGTTTGTTTAGCAAACTGAGG
Found at i:88526188 original size:19 final size:19
Alignment explanation
Indices: 88526164--88526202 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
88526154 ATTTTGAGTT
88526164 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
88526183 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
88526202 A
1 A
88526203 ATTTTTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
AGACGAATTGAGTTATTCG
Found at i:88526667 original size:17 final size:17
Alignment explanation
Indices: 88526647--88526707 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
88526637 ATCTATATCT
*
88526647 ATTATTTATATTATTAA
1 ATTATTTATATTATTGA
* *
88526664 ATTAATTTTTACATT-TTGT
1 ATT-A--TTTATATTATTGA
*
88526683 ACTATTTATATTATTGA
1 ATTATTTATATTATTGA
88526700 ATTATTTA
1 ATTATTTA
88526708 ATCATATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
16 7 0.21
17 13 0.39
18 2 0.06
19 4 0.12
20 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:88530710 original size:19 final size:19
Alignment explanation
Indices: 88530686--88530734 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
88530676 GATTAAGATC
88530686 TGGTTTTCACTAAAAT-GAA
1 TGGTTTTC-CTAAAATAGAA
*
88530705 TGGTTTTCCTAGAATAGAA
1 TGGTTTTCCTAAAATAGAA
88530724 -GGTTTT-CTAAA
1 TGGTTTTCCTAAA
88530735 GTTTTCGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (19 bp):
TGGTTTTCCTAAAATAGAA
Found at i:88537006 original size:17 final size:18
Alignment explanation
Indices: 88536975--88537019 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
88536965 CTTAGCCAAT
*
88536975 TGGGCCATGT-GGGCCATA
1 TGGG-CATGTAGGCCCATA
88536993 TGGGCATGTAGGCCCATA
1 TGGGCATGTAGGCCCATA
*
88537011 CGGGCATGT
1 TGGGCATGT
88537020 GAAATTCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (18 bp):
TGGGCATGTAGGCCCATA
Found at i:88537993 original size:18 final size:18
Alignment explanation
Indices: 88537952--88538000 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
88537942 GATTAAGATC
*
88537952 TGGTTTTCCCTAAAACGAA
1 TGGTTTT-CCTAAAAAGAA
88537971 TGGTTTTCCTAAAATAGAA
1 TGGTTTTCCTAAAA-AGAA
88537990 -GGTTTT-CTAAA
1 TGGTTTTCCTAAA
88538001 GCTTTCGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 13 0.46
19 10 0.36
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (18 bp):
TGGTTTTCCTAAAAAGAA
Found at i:88568885 original size:26 final size:26
Alignment explanation
Indices: 88568847--88569005 Score: 250
Period size: 26 Copynumber: 6.1 Consensus size: 26
88568837 GGTACAAATC
*
88568847 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
*
88568873 GATAATGGATTAGGTAAATATTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
88568899 GATAAT-GAGTTAGGTAAATGTTCCAT
1 GATAATGGA-TTAGGTAAATGTTCCAT
*
88568925 GATAATGGATTAGGTAAATATTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
88568951 GATAAT-GAGTTAGGTAAATGTTCCAT
1 GATAATGGA-TTAGGTAAATGTTCCAT
*
88568977 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
88569003 GAT
1 GAT
88569006 GGGAATCTCA
Statistics
Matches: 123, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
25 4 0.03
26 116 0.94
27 3 0.02
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
GATAATGGATTAGGTAAATGTTCCAT
Found at i:88568911 original size:52 final size:52
Alignment explanation
Indices: 88568847--88569005 Score: 291
Period size: 52 Copynumber: 3.1 Consensus size: 52
88568837 GGTACAAATC
*
88568847 GATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCAT
1 GATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCAT
88568899 GATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCAT
1 GATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCAT
* *
88568951 GATAATGAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCAT
88569003 GAT
1 GAT
88569006 GGGAATCTCA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (52 bp):
GATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCAT
Found at i:88569797 original size:27 final size:26
Alignment explanation
Indices: 88569758--88569852 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 26
88569748 NNNNNNNNTA
88569758 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGATCTGGTGGCTC
*
88569785 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGATCTGGTGGCTC
*
88569812 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTG-ATCTGGTGGCTC
*
88569838 TCGTCACAATATCTG
1 T-GCCACAATATCTG
88569853 GTAGCCTCGC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.13
27 52 0.85
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCCACAATATCTGATCTGGTGGCTC
Found at i:88571566 original size:106 final size:105
Alignment explanation
Indices: 88571372--88571571 Score: 364
Period size: 106 Copynumber: 1.9 Consensus size: 105
88571362 CTAATAGGAC
88571372 TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
1 TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
*
88571437 TCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
66 CCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
*
88571477 TACCCGTCTAGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGGAACA
1 TACCCGTCT-GGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACA
*
88571542 CCCGTCCGGGCTAGATTCCTTTTCATACTT
65 CCCGTCCGAGCTAGATTCCTTTTCATACTT
88571572 AAGATCATGG
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 9 0.10
106 82 0.90
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (105 bp):
TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
CCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
Found at i:88572904 original size:576 final size:576
Alignment explanation
Indices: 88571812--88572967 Score: 2249
Period size: 576 Copynumber: 2.0 Consensus size: 576
88571802 TTATCTGAAC
88571812 TTGACTGGTATTCTTTTCGGGATTATGTTTCGGTTACTCCGAAACCTTGCGTTTACCTCGATCGA
1 TTGACTGGTATTCTTTTCGGGATTATGTTTCGGTTACTCCGAAACCTTGCGTTTACCTCGATCGA
88571877 CCTCCAAAATTTATTCCTTGGGGTCTATAACAACAAAATTAACTCATTATACACTACATTATGCA
66 CCTCCAAAATTTATTCCTTGGGGTCTATAACAACAAAATTAACTCATTATACACTACATTATGCA
88571942 TTTTGAGTTTAATATCTACCCCCGATCCAAATGACCATTTTGCCCCTAACCTATCACATTTTTAC
131 TTTTGAGTTTAATATCTACCCCCGATCCAAATGACCATTTTGCCCCTAACCTATCACATTTTTAC
* * *
88572007 GATTTAGTCCCTAGGCTCGGATAATGAAACACATACACTTTCTATCTTACCCAAGCCTAGCCAAA
196 AATTTAGTCCATAGGCTCGAATAATGAAACACATACACTTTCTATCTTACCCAAGCCTAGCCAAA
*
88572072 CACTTTTCCTTCTTATGTTAGCCCACATTATCCATTAATTTCTCATTTCTACCACACATTTACAT
261 CACTTTTCCTTCTTATGGTAGCCCACATTATCCATTAATTTCTCATTTCTACCACACATTTACAT
88572137 CTTTTGCAAAATGGTCCCTATAAGGGTTTCTTATGAAAATAAACTAGAAAAATATGTTTAACACA
326 CTTTTGCAAAATGGTCCCTATAAGGGTTTCTTATGAAAATAAACTAGAAAAATATGTTTAACACA
88572202 CATTAATCTATCATATTCCTCCATAATCTATCAAAATACAAGCAACTCATGCATGGGTAAATTTT
391 CATTAATCTATCATATTCCTCCATAATCTATCAAAATACAAGCAACTCATGCATGGGTAAATTTT
88572267 TAAACATGAACCTTAGCATGAAATTTGGGTAGAAATGGAGAGATCAAGCTACTAGGATTTCAAAA
456 TAAACATGAACCTTAGCATGAAATTTGGGTAGAAATGGAGAGATCAAGCTACTAGGATTTCAAAA
88572332 ATACAAAGAACGTTAAAAACGGGGCTTGGGGGCACTTACTATTAAGCTTGAAAATG
521 ATACAAAGAACGTTAAAAACGGGGCTTGGGGGCACTTACTATTAAGCTTGAAAATG
88572388 TTGACTGGTATTCTTTTCGGGATTATGTTTCGGTTACTCCGAAACCTTGCGTTTACCTCGATCGA
1 TTGACTGGTATTCTTTTCGGGATTATGTTTCGGTTACTCCGAAACCTTGCGTTTACCTCGATCGA
88572453 CCTCCAAAATTTATTCCTTGGGGTCTATAACAACAAAATTAACTCATTATACACTACATTATGCA
66 CCTCCAAAATTTATTCCTTGGGGTCTATAACAACAAAATTAACTCATTATACACTACATTATGCA
*
88572518 TTTTGAGTTTAATATCTACCCCCGATCCAAATGACCATTTTTCCCCTAACCTATCACATTTTTAC
131 TTTTGAGTTTAATATCTACCCCCGATCCAAATGACCATTTTGCCCCTAACCTATCACATTTTTAC
* *
88572583 AATTTAGTTCATAGGCTCGAATAATGAATCACATACACTTTCTATCTTACCCAAGCCTAGCCAAA
196 AATTTAGTCCATAGGCTCGAATAATGAAACACATACACTTTCTATCTTACCCAAGCCTAGCCAAA
88572648 CACTTTTCCTTCTTATGGTAGCCCACATTATCCATTAATTTCTCATTTCTACCACACATTTACAT
261 CACTTTTCCTTCTTATGGTAGCCCACATTATCCATTAATTTCTCATTTCTACCACACATTTACAT
88572713 CTTTTGCAAAATGGTCCCTATAAGGGTTTCTTATGAAAATAAACTAGAAAAATATGTTTAACACA
326 CTTTTGCAAAATGGTCCCTATAAGGGTTTCTTATGAAAATAAACTAGAAAAATATGTTTAACACA
88572778 CATTAATCTATCATATTCCTCCATAATCTATCAAAATACAAGCAACTCATGCATGGGTAAATTTT
391 CATTAATCTATCATATTCCTCCATAATCTATCAAAATACAAGCAACTCATGCATGGGTAAATTTT
88572843 TAAACATGAACCTTAGCATGAAATTTGGGTAGAAATGGAGAGATCAAGCTACTAGGATTTCAAAA
456 TAAACATGAACCTTAGCATGAAATTTGGGTAGAAATGGAGAGATCAAGCTACTAGGATTTCAAAA
88572908 ATACAAAGAACGTTAAAAACGGGGCTTGGGGGCACTTACTATTAAGCTTGAAAATG
521 ATACAAAGAACGTTAAAAACGGGGCTTGGGGGCACTTACTATTAAGCTTGAAAATG
88572964 TTGA
1 TTGA
88572968 AACCCCTAGC
Statistics
Matches: 573, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
576 573 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (576 bp):
TTGACTGGTATTCTTTTCGGGATTATGTTTCGGTTACTCCGAAACCTTGCGTTTACCTCGATCGA
CCTCCAAAATTTATTCCTTGGGGTCTATAACAACAAAATTAACTCATTATACACTACATTATGCA
TTTTGAGTTTAATATCTACCCCCGATCCAAATGACCATTTTGCCCCTAACCTATCACATTTTTAC
AATTTAGTCCATAGGCTCGAATAATGAAACACATACACTTTCTATCTTACCCAAGCCTAGCCAAA
CACTTTTCCTTCTTATGGTAGCCCACATTATCCATTAATTTCTCATTTCTACCACACATTTACAT
CTTTTGCAAAATGGTCCCTATAAGGGTTTCTTATGAAAATAAACTAGAAAAATATGTTTAACACA
CATTAATCTATCATATTCCTCCATAATCTATCAAAATACAAGCAACTCATGCATGGGTAAATTTT
TAAACATGAACCTTAGCATGAAATTTGGGTAGAAATGGAGAGATCAAGCTACTAGGATTTCAAAA
ATACAAAGAACGTTAAAAACGGGGCTTGGGGGCACTTACTATTAAGCTTGAAAATG
Found at i:88577442 original size:23 final size:22
Alignment explanation
Indices: 88577409--88577504 Score: 93
Period size: 23 Copynumber: 4.2 Consensus size: 22
88577399 AGTTACCGAC
*
88577409 TCTGTGAAAGCCTTTATGGCTGT
1 TCTGTGAAAGCCTTTGTGG-TGT
* *
88577432 TCTGTGGAAGCCTTTTTGGATGT
1 TCTGTGAAAGCCTTTGTGG-TGT
*
88577455 TCTGTGAAAGCCTTTGTAGTAGT
1 TCTGTGAAAGCCTTTGTGGT-GT
* * *
88577478 TCTGAGGAAGCCCTTGTGGTTGT
1 TCTGTGAAAGCCTTTGTGG-TGT
88577501 TCTG
1 TCTG
88577505 ATATATGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
22 1 0.02
23 59 0.97
24 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (22 bp):
TCTGTGAAAGCCTTTGTGGTGT
Found at i:88577480 original size:46 final size:46
Alignment explanation
Indices: 88577409--88577504 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
88577399 AGTTACCGAC
* * * *
88577409 TCTGTGAAAGCCTTTATGGCTGTTCTGTGGAAGCCTTTTTGGATGT
1 TCTGTGAAAGCCTTTATAGCTGTTCTGAGGAAGCCCTTGTGGATGT
* *
88577455 TCTGTGAAAGCCTTTGTAG-TAGTTCTGAGGAAGCCCTTGTGGTTGT
1 TCTGTGAAAGCCTTTATAGCT-GTTCTGAGGAAGCCCTTGTGGATGT
88577501 TCTG
1 TCTG
88577505 ATATATGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (46 bp):
TCTGTGAAAGCCTTTATAGCTGTTCTGAGGAAGCCCTTGTGGATGT
Found at i:88579792 original size:50 final size:50
Alignment explanation
Indices: 88579737--88579851 Score: 194
Period size: 50 Copynumber: 2.3 Consensus size: 50
88579727 AGTGAAACTA
*
88579737 GCTACTGCACCTTGCCAGCAGAACTAGCCCTCCACCCTGATCCTTCGCGC
1 GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
* * *
88579787 GCTACTGCACCTTGCCAGTAGAACTAGCCCGCCACCCTGATCCTTTGCGT
1 GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
88579837 GCTACTGCACCTTGC
1 GCTACTGCACCTTGC
88579852 TCCTTTACCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.17, C:0.41, G:0.19, T:0.23
Consensus pattern (50 bp):
GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
Found at i:88589825 original size:17 final size:18
Alignment explanation
Indices: 88589803--88589837 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
88589793 GGTTCATCCG
88589803 TGTGGCCCACAC-GCCTA
1 TGTGGCCCACACGGCCTA
*
88589820 TGTGGCCTACACGGCCTA
1 TGTGGCCCACACGGCCTA
88589838 ATAGGTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (18 bp):
TGTGGCCCACACGGCCTA
Found at i:88600926 original size:43 final size:43
Alignment explanation
Indices: 88600800--88600904 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
88600790 GTCTTACATT
88600800 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
* * *
88600843 TAATCACATATCGATGCCCCTGTCCCAGACAGGGTCTTACTGG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
88600886 TAATCACATATCGATGCCA
1 TAATCACATATCGATGCCA
88600905 ACGTATTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (43 bp):
TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
Found at i:88601544 original size:15 final size:15
Alignment explanation
Indices: 88601521--88601551 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88601511 TGAAAAATTC
88601521 CAATACAAAACATAT
1 CAATACAAAACATAT
*
88601536 CAATCCAAAACATAT
1 CAATACAAAACATAT
88601551 C
1 C
88601552 TTTCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:88602064 original size:14 final size:14
Alignment explanation
Indices: 88602047--88602073 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88602037 AAATCACGAA
88602047 AATTTCACACATAT
1 AATTTCACACATAT
88602061 AATTTCACACATA
1 AATTTCACACATA
88602074 ATAAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:88609366 original size:14 final size:14
Alignment explanation
Indices: 88609349--88609375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88609339 AAATCACGAA
88609349 AATTTCACACATAT
1 AATTTCACACATAT
88609363 AATTTCACACATA
1 AATTTCACACATA
88609376 ATAAAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:88609965 original size:19 final size:19
Alignment explanation
Indices: 88609941--88609977 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
88609931 GTTACATGCA
88609941 CACATGATTCCACTAATCT
1 CACATGATTCCACTAATCT
*
88609960 CACATGGTTCCACTAATC
1 CACATGATTCCACTAATC
88609978 AAACACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (19 bp):
CACATGATTCCACTAATCT
Found at i:88617614 original size:26 final size:26
Alignment explanation
Indices: 88617578--88617633 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
88617568 TCATGGAGTG
88617578 TCAACCAGTCCATACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
88617604 TCAACCAGTCCATACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
88617630 TCAA
1 TCAA
88617634 ACTCATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.34, G:0.07, T:0.16
Consensus pattern (26 bp):
TCAACCAGTCCATACCCAAAATGACA
Found at i:88620115 original size:74 final size:74
Alignment explanation
Indices: 88619994--88620144 Score: 275
Period size: 74 Copynumber: 2.0 Consensus size: 74
88619984 GGCTGTGTGT
* *
88619994 CACACACAGCCTAGACACAATCCCGTGTGTCTACCTGTGTGGACAATATAAGGCTCTCTACCAAG
1 CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
88620059 CTTTTTTGC
66 CTTTTTTGC
*
88620068 CACACACAGCCTAGACACAAGCTCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
1 CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
88620133 CTTTTTTGC
66 CTTTTTTGC
88620142 CAC
1 CAC
88620145 TCTGAAACAC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (74 bp):
CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
CTTTTTTGC
Found at i:88624544 original size:15 final size:15
Alignment explanation
Indices: 88624526--88624555 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88624516 ATTTTCATTT
88624526 TTAAAATTTAATTAC
1 TTAAAATTTAATTAC
*
88624541 TTAAAATTTGATTAC
1 TTAAAATTTAATTAC
88624556 AAATGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATTTAATTAC
Found at i:88626314 original size:20 final size:22
Alignment explanation
Indices: 88626289--88626332 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
88626279 TCGCATAAAC
88626289 AACATGT-A-GGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
88626309 AACATGTAAGGGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
88626331 AA
1 AA
88626333 TAATCATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (22 bp):
AACATGTAAGGGGTTCGCATGT
Found at i:88628001 original size:17 final size:17
Alignment explanation
Indices: 88627979--88628012 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
88627969 GCAAGCTTAA
88627979 ATAAATATAAAAAAATT
1 ATAAATATAAAAAAATT
* *
88627996 ATAAATTTATAAAAATT
1 ATAAATATAAAAAAATT
88628013 TATTTCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATAAAAAAATT
Found at i:88629004 original size:29 final size:29
Alignment explanation
Indices: 88628971--88629027 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
88628961 TAAACGCCCC
88628971 ACTAAACCGA-CCACTAACTCCATCACCCT
1 ACTAAACC-ATCCACTAACTCCATCACCCT
*
88629000 ACTAAACCATCCACTACCTCCATCACCC
1 ACTAAACCATCCACTAACTCCATCACCC
88629028 CCACGCCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (29 bp):
ACTAAACCATCCACTAACTCCATCACCCT
Found at i:88629043 original size:37 final size:37
Alignment explanation
Indices: 88628996--88629068 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
88628986 AACTCCATCA
*
88628996 CCCTACTAAACCATCCACTACCTCCATCACCCCCACG
1 CCCTACTAAACCATCCACTACCTCCATCAACCCCACG
* *
88629033 CCCTACTAAACCGTCCATTACCTCCATCAACCCCAC
1 CCCTACTAAACCATCCACTACCTCCATCAACCCCAC
88629069 TACCTCCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.52, G:0.03, T:0.18
Consensus pattern (37 bp):
CCCTACTAAACCATCCACTACCTCCATCAACCCCACG
Found at i:88629074 original size:18 final size:18
Alignment explanation
Indices: 88629010--88629079 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
88629000 ACTAAACCAT
*
88629010 CCACTACCTCCATCACCC
1 CCACTACCTCCATCAACC
** * *
88629028 CCACGCCCTAC-TAAACC
1 CCACTACCTCCATCAACC
*
88629045 GTCCATTACCTCCATCAACC
1 --CCACTACCTCCATCAACC
88629065 CCACTACCTCCATCA
1 CCACTACCTCCATCA
88629080 CCCTACTTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
17 4 0.11
18 22 0.58
19 7 0.18
20 5 0.13
ACGTcount: A:0.26, C:0.53, G:0.03, T:0.19
Consensus pattern (18 bp):
CCACTACCTCCATCAACC
Found at i:88629535 original size:61 final size:60
Alignment explanation
Indices: 88629411--88629535 Score: 130
Period size: 61 Copynumber: 2.0 Consensus size: 60
88629401 TATTTTACTG
* * * *
88629411 TTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTTTTTTTTATTTTCTA
1 TTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
* *
88629472 TTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTATCTATTTATTATATATT-TA
1 TTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATT-TCT-TTT-TTATATATTCTA
88629533 TTA
1 TTA
88629536 TGTAAATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
59 15 0.28
60 6 0.11
61 26 0.48
62 7 0.13
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (60 bp):
TTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
Found at i:88630239 original size:126 final size:126
Alignment explanation
Indices: 88630004--88630245 Score: 430
Period size: 126 Copynumber: 1.9 Consensus size: 126
88629994 CATTGATCTT
* * **
88630004 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
88630069 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
88630130 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
88630195 ACGTATTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCT
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCT
88630246 TAAGGCTAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
Found at i:88641855 original size:45 final size:45
Alignment explanation
Indices: 88641534--88642057 Score: 195
Period size: 45 Copynumber: 11.6 Consensus size: 45
88641524 TATCATCAGC
* * *
88641534 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
88641579 CTTATCTTCACTAAGCAGGAGTGAAGCA-GATCAAATTTTGGC-GAGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TATAGCAGA-T
* * ** ** *** * *
88641625 CTTATCTTCACTGAGTAGGAGTGAAGCAGATTTCAGCCACCAG-C
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
88641669 CTTATCTTCACGGAGCAGGAGTGGAGTAGGCTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
88641714 CTTTTCTTCACTGAGCAGGAGTGAAGCA-GATCAAATTGTGGC-GAGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TATAGCAGA-T
* * * * *
88641760 CTTATCTCCA-TGTATC-GGCAATGGAGCAGATTCT-AATCAT--CAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAG--GCTAAAT-ATAGCAGAT
* *
88641804 CTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * * * **
88641849 CTTATCTTCGCTGAGCAGGAGCGGAGCA-GATCGAATTTTGGTGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATAGCAG-AT
* * ** *
88641895 CTTATC-TCCCTGTA-CTAACGA-TGGAGCAGATTCCAATCAT--CAGA-
1 CTTATCTTCACTG-AGC--AGGAGTGGAGCAGGCT-AAAT-ATAGCAGAT
* * *
88641939 CTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATATCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * * * *
88641984 CTTATCTCCGCTGAACAAGAGTGGAGCAGG-TCAGATACAGCGGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATAGCAGAT
* *
88642029 CTTATCTTCGCTGAGCAGGAGCGGAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
88642058 ATCAAATTTT
Statistics
Matches: 346, Mismatches: 97, Indels: 72
0.67 0.19 0.14
Matches are distributed among these distances:
42 6 0.02
43 9 0.03
44 78 0.23
45 170 0.49
46 69 0.20
47 12 0.03
48 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
Found at i:88641997 original size:135 final size:133
Alignment explanation
Indices: 88641525--88641990 Score: 567
Period size: 135 Copynumber: 3.5 Consensus size: 133
88641515 AAAGATAGAT
* *
88641525 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCCGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * *
88641590 TAAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTG-AGTAGGAGTGAAGCAG
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATC-TCCCTGTA-TACGA-TGGAGCAG
*
88641654 ATTTCA
128 ATTCCA
** * * * * * *
88641660 GCCACCAGCCTTATCTTCACGGAGCAGGAGTGGAGTAGGCTAAACATACCCGATCTTTTCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* *
88641725 TGAGCAGGAGTGAAGCAGATCAAATTGTGGCGAGTCTTATCTCCATGTAT-CGGCAATGGAGCAG
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTATAC-G--ATGGAGCAG
*
88641789 ATTCTA
128 ATTCCA
* * * *
88641795 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * * *
88641860 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCTCCCTGTACTAACGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTA-T-ACGATGGAGCAGA
88641925 TTCCA
129 TTCCA
* * * *
88641930 ATCATCAGACTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATATCAGATCTTATCT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCT
88641991 CCGCTGAACA
Statistics
Matches: 288, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
134 6 0.02
135 278 0.97
136 2 0.01
137 1 0.00
138 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTATACGATGGAGCAGATT
CCA
Found at i:88642312 original size:29 final size:29
Alignment explanation
Indices: 88642279--88642342 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
88642269 CCAAATTAAA
*
88642279 CACCCCACTAAACCGA-CCATTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
88642308 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
88642337 CACCCC
1 CACCCC
88642343 CACACCCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.31, C:0.50, G:0.02, T:0.17
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:88642355 original size:37 final size:37
Alignment explanation
Indices: 88642308--88642382 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
88642298 TTAACTCCAT
88642308 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
* *
88642345 CACCCTACTAAACCATCCACTACCTCTATCGCCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
88642382 C
1 C
88642383 TACCTCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.53, G:0.01, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:88643549 original size:126 final size:126
Alignment explanation
Indices: 88643314--88643557 Score: 452
Period size: 126 Copynumber: 1.9 Consensus size: 126
88643304 CATTGATCTT
* *
88643314 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
88643379 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
88643440 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
88643505 ACATACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
88643558 AGGCTAAAAC
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 114 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:88644048 original size:21 final size:21
Alignment explanation
Indices: 88644014--88644066 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
88644004 GACACACTTT
*
88644014 ATATCAAAGGGTTATAAAAATC
1 ATATCAAA-AGTTATAAAAATC
* * *
88644036 ATATTAAAAGTTATTAAAATT
1 ATATCAAAAGTTATAAAAATC
88644057 ATATCAAAAG
1 ATATCAAAAG
88644067 CTACCAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (21 bp):
ATATCAAAAGTTATAAAAATC
Found at i:88651542 original size:184 final size:184
Alignment explanation
Indices: 88651233--88651601 Score: 702
Period size: 184 Copynumber: 2.0 Consensus size: 184
88651223 TAAAATTCTT
*
88651233 ACTTTGTAGGAAAGTAAATCTCTCTTTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
1 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
*
88651298 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATGATAATATCGCAAAGTTGTATAT
66 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCGCAAAGTTGTATAT
*
88651363 AACTTGTTGTATTTTTAGCCCCATCGGTGTCATCTATTTATAGGGGAGGAACTG
131 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
88651417 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
1 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
*
88651482 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
66 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCGCAAAGTTGTATAT
88651547 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
131 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
88651601 A
1 A
88651602 AACCCTAGTT
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 181 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (184 bp):
ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCGCAAAGTTGTATAT
AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
Found at i:88652379 original size:16 final size:17
Alignment explanation
Indices: 88652358--88652403 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
88652348 AATTGGGTTG
88652358 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
88652374 AGAAAATTAATTT-ATT
1 AGAAAATTAATTTAATT
88652390 -G-AAATTAATTTAAT
1 AGAAAATTAATTTAAT
88652404 AAATAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.36
15 3 0.11
16 11 0.39
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:88662650 original size:33 final size:33
Alignment explanation
Indices: 88662611--88662678 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
88662601 GTATGTGTGA
** *
88662611 ATAAGGGTGGTGGATGGCTTGGTAAGTAGCCTT
1 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
88662644 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
1 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
88662677 AT
1 AT
88662679 TATTGTCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.29
Consensus pattern (33 bp):
ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
Found at i:88666281 original size:90 final size:90
Alignment explanation
Indices: 88666121--88666285 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 90
88666111 ATTTCAAAGC
** * * * * *
88666121 CATGTCCCAAACATGGTCTTACATGGGTTTACATATTGATGCCATATCCTAGATACGGTCTTATA
1 CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACGGTCTTACA
88666186 CGAAATCTCACGTCGGTGCCGATGT
66 CGAAATCTCACGTCGGTGCCGATGT
* * *
88666211 CATGTCCCAGACATGGTCTTACATGGGACCT-CACATCGATGCCATGTCCCAGACATGGTCTTAC
1 CATGTCCCAAACATGGTCTTACATGGG-CCTACACATCGATGCCATATCCCAGACACGGTCTTAC
*
88666275 ATGAAATCTCA
65 ACGAAATCTCA
88666286 TATCAATGTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (90 bp):
CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACGGTCTTACA
CGAAATCTCACGTCGGTGCCGATGT
Found at i:88666303 original size:42 final size:42
Alignment explanation
Indices: 88666215--88666329 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
88666205 CGATGTCATG
** * * * *
88666215 TCCCAGACATGGTCTTACATGGGACCTCACATCGATGCCATG
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* *
88666257 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGTCGTA
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* * *
88666299 TCCCAGATATGGTCTTGCATGAAATCACATA
1 TCCCAGACATGGTCTTACATGAAATCTCATA
88666330 CCGAGGCCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
Found at i:88666428 original size:48 final size:48
Alignment explanation
Indices: 88666347--88666467 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
88666337 CGACGCTATA
* * **
88666347 TCCCAGATATGGTCTTACACTTGC-ACACGTATCAATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTACAC-TATCAACACCGATGCCATG
*
88666395 TCCCAGACATGGTCTTACACTGGCTATCA-TATCAACACTGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTA-CACTATCAACACCGATGCCATG
*
88666443 TCCCAGACATGGTCTTACATTGGCT
1 TCCCAGACATGGTCTTACACTGGCT
88666468 CTTATTAATC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 62 0.95
49 1 0.02
50 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTGGCTACACTATCAACACCGATGCCATG
Found at i:88667251 original size:25 final size:25
Alignment explanation
Indices: 88667223--88667271 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
88667213 GACTAAAGTA
88667223 TACCCATTTCACATGCCAAGTTACT
1 TACCCATTTCACATGCCAAGTTACT
88667248 TACCCATTTCACATGCCAAGTTAC
1 TACCCATTTCACATGCCAAGTTAC
88667272 CATGAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (25 bp):
TACCCATTTCACATGCCAAGTTACT
Found at i:88674561 original size:29 final size:29
Alignment explanation
Indices: 88674528--88674601 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
88674518 GTTGTGAGAT
* *
88674528 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
88674557 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
88674586 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
88674602 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:88683751 original size:29 final size:29
Alignment explanation
Indices: 88683685--88683751 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
88683675 TAAAATGTCC
* *
88683685 AAATAGGGATTAAATTGTGAAATGTGTAA
1 AAATATGGATTAAATTGTGAAATATGTAA
*
88683714 AATTCATGG-TTAAATTGTGAAATAAATG-AA
1 AAAT-ATGGATTAAATTGTGAAAT--ATGTAA
88683744 AAATATGG
1 AAATATGG
88683752 GCTGCTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
29 21 0.68
30 8 0.26
31 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.21, T:0.31
Consensus pattern (29 bp):
AAATATGGATTAAATTGTGAAATATGTAA
Found at i:88689090 original size:25 final size:26
Alignment explanation
Indices: 88689062--88689115 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
88689052 TGTGTTACAT
* *
88689062 ATTTTAATGCTTTAA-TGTTAT-ATGA
1 ATTTAAATGC-TTAATTGCTATCATGA
88689087 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAATTGCTATCATGA
88689113 ATT
1 ATT
88689116 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 14 0.56
26 7 0.28
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTAAATGCTTAATTGCTATCATGA
Found at i:88693854 original size:27 final size:27
Alignment explanation
Indices: 88693824--88693879 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
88693814 CTAGTTATAG
*
88693824 CTATATTAAATGTTAAAGTGAGGTTTT
1 CTATATTAAATGTTAAAGCGAGGTTTT
88693851 CTATATTAAATGTTAAAGCGAGGTTTT
1 CTATATTAAATGTTAAAGCGAGGTTTT
88693878 CT
1 CT
88693880 TTGCGAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
CTATATTAAATGTTAAAGCGAGGTTTT
Found at i:88695735 original size:25 final size:26
Alignment explanation
Indices: 88695707--88695760 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
88695697 TGTGTTACAT
* *
88695707 ATTTTAATGCTTAAATGTTAT-ATGA
1 ATTTAAATGCTTAAATGCTATCATGA
*
88695732 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAAATGCTATCATGA
88695758 ATT
1 ATT
88695761 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (26 bp):
ATTTAAATGCTTAAATGCTATCATGA
Found at i:88706882 original size:47 final size:47
Alignment explanation
Indices: 88706828--88707193 Score: 579
Period size: 47 Copynumber: 7.7 Consensus size: 47
88706818 TTAGGATTTT
* * * * *
88706828 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
88706875 ATGTGATGAATGTGAACATGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAA-A-GTGTATATATGTGATAAGGCCTAATGGCCG
88706924 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88706971 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88707018 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
88707065 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
88707112 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
88707159 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
88707194 TCCCGAAGGG
Statistics
Matches: 298, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 257 0.86
48 1 0.00
49 40 0.13
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:88709854 original size:39 final size:40
Alignment explanation
Indices: 88709768--88709854 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
88709758 NNNNNNNNNN
* *
88709768 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGAGCGAGTTACTATAACCGGGCTAAAT
*
88709808 CCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAAT
1 CCCGAAGGCATTTGAGCGAGTTA-CTATAACCGGGCTAAAT
88709847 CCCGAAGG
1 CCCGAAGG
88709855 TACTTGGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 17 0.40
40 26 0.60
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCCGAAGGCATTTGAGCGAGTTACTATAACCGGGCTAAAT
Found at i:88722102 original size:40 final size:40
Alignment explanation
Indices: 88722040--88722146 Score: 169
Period size: 40 Copynumber: 2.7 Consensus size: 40
88722030 TATTCGGATG
88722040 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * * *
88722080 ATAACTGGGTTACGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
88722120 ATAACCGGGCTAAGTCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGCATT
88722147 ATAGATTTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:88725351 original size:17 final size:18
Alignment explanation
Indices: 88725319--88725352 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88725309 ATATCATACA
*
88725319 AAAATTTTGGAAACTTAG
1 AAAATTTTGCAAACTTAG
88725337 AAAATTTT-CAAACTTA
1 AAAATTTTGCAAACTTA
88725353 TAGAGGTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAATTTTGCAAACTTAG
Found at i:88736721 original size:42 final size:41
Alignment explanation
Indices: 88736675--88736826 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
88736665 AGACTAAATC
* * *
88736675 TAAGACCATATCCAGGATATGGCATCAATATGAGACTACGTG
1 TAAGACCATAT-CAGGATATGGCATCGATATGAGATTACATG
* *
88736717 TAAGACCATATCTGGTATATGGCATCGATATGAGATTTCATG
1 TAAGACCATATCAGG-ATATGGCATCGATATGAGATTACATG
* * **
88736759 TAAGACCATAGCTAGGCTATTGGCATCGATACAAGATTACATG
1 TAAGACCATATC-AGGATA-TGGCATCGATATGAGATTACATG
*
88736802 TAAGACCATATCTGAGATATGGCAT
1 TAAGACCATATCAG-GATATGGCAT
88736827 TGGTAGGGTA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.03
42 53 0.58
43 36 0.39
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (41 bp):
TAAGACCATATCAGGATATGGCATCGATATGAGATTACATG
Found at i:88738883 original size:40 final size:40
Alignment explanation
Indices: 88738783--88739047 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
88738773 GCTCCTCGTT
* * * *
88738783 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
88738823 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
88738862 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
88738902 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
88738942 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
88738982 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
88739023 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
88739048 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:88739007 original size:80 final size:80
Alignment explanation
Indices: 88738750--88739047 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
88738740 AAATCACGTA
* ** * * *
88738750 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
88738812 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
88738828 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
88738891 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
88738908 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
88738972 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
88738988 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
88739048 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:88739056 original size:41 final size:41
Alignment explanation
Indices: 88738979--88739056 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
88738969 TTTGTATCTC
* * *
88738979 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
88739020 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
88739057 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:88746782 original size:40 final size:40
Alignment explanation
Indices: 88746737--88747400 Score: 1274
Period size: 40 Copynumber: 16.6 Consensus size: 40
88746727 CAAGCTCAAT
* * *
88746737 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88746777 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88746817 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88746857 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88746897 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88746937 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88746977 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747017 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
88747057 TGCCCTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747097 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747137 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747177 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747217 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747257 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747297 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
88747337 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
88747377 TGCCTTCGGGACTTAGCCCGGATA
1 TGCCTTCGGGTCTTAGCCCGGATA
88747401 AAATTCAAAT
Statistics
Matches: 616, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 616 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:88751025 original size:43 final size:42
Alignment explanation
Indices: 88750974--88751099 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 42
88750964 TCCCAGATGT
* *
88750974 GGTCTTACACGTAATCAAATATCGATTCCACTGTCCCAGACAA
1 GGTCTTACACGTAATCAAATA-CGATGCCAATGTCCCAGACAA
** * *
88751017 GGTCTTACACAAAATCAAATAGGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAGACAA
* *
88751059 GGTCTTACGCGTAAATCTCAAAT-CGGTGCCAATGTCCCAGA
1 GGTCTTACACGT-AA--TCAAATACGATGCCAATGTCCCAGA
88751100 TGTGGTCTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 26 0.38
43 21 0.30
44 16 0.23
45 6 0.09
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATGTCCCAGACAA
Found at i:88751138 original size:44 final size:44
Alignment explanation
Indices: 88750955--88751128 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 44
88750945 AGCTTGTACA
** ** * *
88750955 ATGCCAACATCCCAGATGTGGTCTTACACGTAATCAAATATC-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCGG
* * * * *
88750998 ATTCCACTGTCCCAGACAAGGTCTTACACAAAATCA-A-ATAGG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCGG
* * *
88751040 ATGCCAATGTCCCAGACATGGTCTTACGCGTAAATCTCAAATCGG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCACATATCGG
** *
88751085 -TGCCAATGTCCCAGATGTGGTCTTACATGAAATCACATATCGG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCGG
88751128 A
1 A
88751129 ATCCTATGTC
Statistics
Matches: 103, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 27 0.26
43 44 0.43
44 26 0.25
45 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCGG
Found at i:88763343 original size:35 final size:35
Alignment explanation
Indices: 88763297--88763378 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
88763287 ACTCTCTGTT
88763297 TTGGTGTGTTTCAGA-GAGATTAGCTCTTACGAGAA
1 TTGGTGTGTTTCAGATG-GATTAGCTCTTACGAGAA
* ** *
88763332 TTGGTGTGTTTCAGATGGATTTGCTCTTGTGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTACGAGAA
88763367 TCTGGTGTGTTT
1 T-TGGTGTGTTT
88763379 TGGTTGGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
35 30 0.73
36 11 0.27
ACGTcount: A:0.17, C:0.11, G:0.30, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGATTAGCTCTTACGAGAA
Found at i:88763849 original size:18 final size:18
Alignment explanation
Indices: 88763812--88763851 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88763802 TTTATAATAC
* * *
88763812 ATGTGAATTATGTGATAT
1 ATGTGAATTAGGTAAAAT
88763830 ATGTGAATTAGGTAAAAT
1 ATGTGAATTAGGTAAAAT
88763848 ATGT
1 ATGT
88763852 TGATGTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (18 bp):
ATGTGAATTAGGTAAAAT
Found at i:88768563 original size:22 final size:22
Alignment explanation
Indices: 88768549--88768594 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
88768539 GATAAGGCCT
*
88768549 AATGGCCGATGTGATGAATGTG
1 AATGGCCGATGTGATGAAGGTG
*
88768571 AATGGCCGATGTGATGAATGTG
1 AATGGCCGATGTGATGAAGGTG
88768593 AA
1 AA
88768595 AGTGTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (22 bp):
AATGGCCGATGTGATGAAGGTG
Found at i:88768626 original size:47 final size:47
Alignment explanation
Indices: 88768571--88769553 Score: 1777
Period size: 47 Copynumber: 20.9 Consensus size: 47
88768561 GATGAATGTG
** *
88768571 AATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
* *
88768618 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768665 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768712 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768759 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768806 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768853 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768900 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768947 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88768994 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88769041 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88769088 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88769135 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88769182 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
88769229 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
*
88769276 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
* *
88769323 AATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
*
88769370 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
*
88769417 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
* * * *
88769464 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCG
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
* * * * * * *
88769511 AGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAG
88769554 TCCCGAAGGG
Statistics
Matches: 913, Mismatches: 23, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 913 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT
Found at i:88769728 original size:37 final size:37
Alignment explanation
Indices: 88769672--88769750 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
88769662 CCGAGCTCTA
* *
88769672 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
88769709 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
88769746 AAGAC
1 AAGAC
88769751 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:88774775 original size:36 final size:36
Alignment explanation
Indices: 88774728--88774799 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
88774718 CCTGATGTGT
88774728 GCTCAACAAGTAGCTCGTTACTACAACTCTAAGGTC
1 GCTCAACAAGTAGCTCGTTACTACAACTCTAAGGTC
88774764 GCTCAACAAGTAGCTCGTTACTACAACTCTAAGGTC
1 GCTCAACAAGTAGCTCGTTACTACAACTCTAAGGTC
88774800 AATAATAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (36 bp):
GCTCAACAAGTAGCTCGTTACTACAACTCTAAGGTC
Found at i:88775254 original size:68 final size:68
Alignment explanation
Indices: 88775110--88775269 Score: 185
Period size: 68 Copynumber: 2.4 Consensus size: 68
88775100 AAAAATAGCT
* * * * *
88775110 AGCGGACCTACGCTCCCAGTTGATATTCTAAGAGCTTGCAGATTTAAGCTCATAACTCTAACATA
1 AGCGGACCTACGCTCCTAGATGATATTCTAAGAGCTTGCAGAGTTAAGCTCATAACTCCAACACA
*
88775175 GCT
66 GCC
* * * ** *
88775178 AGCAGACCTACGCTTCTAGATGATATTCTAAGAGCTTGTAGAGTTAAGCTTGTAGCTCCAACACA
1 AGCGGACCTACGCTCCTAGATGATATTCTAAGAGCTTGCAGAGTTAAGCTCATAACTCCAACACA
88775243 GCC
66 GCC
* * *
88775246 AGTGGACCTATGCTCCTAGCTGAT
1 AGCGGACCTACGCTCCTAGATGAT
88775270 GTTATAAAGG
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 75 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (68 bp):
AGCGGACCTACGCTCCTAGATGATATTCTAAGAGCTTGCAGAGTTAAGCTCATAACTCCAACACA
GCC
Found at i:88775815 original size:17 final size:17
Alignment explanation
Indices: 88775760--88775877 Score: 80
Period size: 17 Copynumber: 6.9 Consensus size: 17
88775750 GAAAGTTTAT
*
88775760 AATTTTCTTAAGTTCAA
1 AATTTACTTAAGTTCAA
* * *
88775777 AGTTCACTTAA-TCCCAA
1 AATTTACTTAAGT-TCAA
88775794 AATTTACTTAAGTTCAA
1 AATTTACTTAAGTTCAA
** *
88775811 AATTTTTTTAAGTTTAA
1 AATTTACTTAAGTTCAA
* *
88775828 AATATGCTTAAGTTCAA
1 AATTTACTTAAGTTCAA
*
88775845 GATTTGA-TTGAA-TTCAA
1 AATTT-ACTT-AAGTTCAA
* *
88775862 AAATTGCTTAAGTTCA
1 AATTTACTTAAGTTCA
88775878 TAGAAAGATA
Statistics
Matches: 75, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
16 3 0.04
17 69 0.92
18 3 0.04
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (17 bp):
AATTTACTTAAGTTCAA
Found at i:88778195 original size:16 final size:16
Alignment explanation
Indices: 88778174--88778206 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
88778164 TGAAGAAGTT
88778174 AGCCTCTACAGAGACC
1 AGCCTCTACAGAGACC
88778190 AGCCTCTACAGAGACC
1 AGCCTCTACAGAGACC
88778206 A
1 A
88778207 TTGAAGTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.36, G:0.18, T:0.12
Consensus pattern (16 bp):
AGCCTCTACAGAGACC
Found at i:88778313 original size:20 final size:21
Alignment explanation
Indices: 88778283--88778321 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
88778273 TATCTTTGAT
88778283 ATAGAAAGAAAGATAAAATAG
1 ATAGAAAGAAAGATAAAATAG
*
88778304 ATAG-AAGAAAGCTAAAAT
1 ATAGAAAGAAAGATAAAAT
88778322 CTGAGACGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.15
Consensus pattern (21 bp):
ATAGAAAGAAAGATAAAATAG
Found at i:88788687 original size:40 final size:40
Alignment explanation
Indices: 88788602--88788858 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
88788592 AAGCCAAGTA
* * * *
88788602 CCTTCGGGATTTA-ACCAGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCGCAAATG
* *
88788640 CCTTCGGGACATAGCCCGGATATAGTAACTCGCGCCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
*
88788680 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
* *
88788720 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
* * *
88788760 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
* * *
88788800 CCTTCGAGACTTAGCCCGGA-ACTAGTCACTAGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCGC-AAATG
88788841 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
88788859 ATTATCATCC
Statistics
Matches: 195, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 145 0.74
41 22 0.11
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
Found at i:88794689 original size:6 final size:6
Alignment explanation
Indices: 88794680--88794720 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
88794670 TTGGGAAAAG
*
88794680 AAAAAT AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
88794721 CCTACAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:88798263 original size:13 final size:13
Alignment explanation
Indices: 88798245--88798284 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
88798235 GCTCGACAAG
88798245 GACACGCCCGTGT
1 GACACGCCCGTGT
*
88798258 GACACGTCCGTGT
1 GACACGCCCGTGT
*
88798271 GACACGCTCGTGT
1 GACACGCCCGTGT
88798284 G
1 G
88798285 TGATTTCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:88821654 original size:43 final size:43
Alignment explanation
Indices: 88821572--88821654 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
88821562 TGTGATTACA
* *
88821572 TGTAAGACCATGTCTGCGAAATTGGAATTGTATTGTGATTATG
1 TGTAAGACCATGTCTGCGAAATTGGAATCGTATTATGATTATG
* * * *
88821615 TGTAATACCATGTCTGGGACATTGGCATCGT-TATATGATT
1 TGTAAGACCATGTCTGCGAAATTGGAATCGTAT-TATGATT
88821655 TCGTATACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (43 bp):
TGTAAGACCATGTCTGCGAAATTGGAATCGTATTATGATTATG
Found at i:88827801 original size:12 final size:12
Alignment explanation
Indices: 88827784--88827822 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
88827774 TCACACACCT
*
88827784 GTGTGCCAAGCG
1 GTGTGCCAAGCC
88827796 GTGTGCCAAGCC
1 GTGTGCCAAGCC
*
88827808 GTGTGCTAAGCC
1 GTGTGCCAAGCC
88827820 GTG
1 GTG
88827823 CTAGACCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (12 bp):
GTGTGCCAAGCC
Found at i:88833026 original size:79 final size:79
Alignment explanation
Indices: 88832863--88833027 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 79
88832853 GATGACAACA
* * * *
88832863 GGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAATGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGC
*
88832928 GAGTTACTATATCC
66 AAGTTACTATATCC
* *
88832942 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAATGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGA
88833006 GCAAG-TAGCTATATCC
64 GCAAGTTA-CTATATCC
88833022 -GGCTAA
1 GGGCTAA
88833028 ATTCTGAAGG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.63
80 26 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAATGACTAATACCGGGCTAAGCCCGAAGGCATTTGAGC
AAGTTACTATATCC
Found at i:88833037 original size:39 final size:40
Alignment explanation
Indices: 88832863--88833027 Score: 221
Period size: 40 Copynumber: 4.2 Consensus size: 40
88832853 GATGACAACA
* * * *
88832863 GGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
88832903 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
88832942 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
88832982 GGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
88833022 -GGCTAA
1 GGGCTAA
88833028 ATTCTGAAGG
Statistics
Matches: 114, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
39 41 0.36
40 73 0.64
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:88839450 original size:22 final size:22
Alignment explanation
Indices: 88839403--88839453 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
88839393 TATATATATT
*
88839403 TATATGTTAACTTATTATATATA
1 TATAT-TTAACTTATTATATAAA
*
88839426 TATATTTAAGTTA-TATAATAAA
1 TATATTTAACTTATTAT-ATAAA
88839448 TATATT
1 TATATT
88839454 AGTATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 17 0.68
23 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
TATATTTAACTTATTATATAAA
Found at i:88841417 original size:11 final size:11
Alignment explanation
Indices: 88841398--88841434 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
88841388 AGGATGATAT
88841398 TTTTG-GCATG
1 TTTTGAGCATG
88841408 TTTTGAGCATG
1 TTTTGAGCATG
*
88841419 -TTTGATCATG
1 TTTTGAGCATG
88841429 TTTTGA
1 TTTTGA
88841435 ATAGGTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.51
Consensus pattern (11 bp):
TTTTGAGCATG
Found at i:88843389 original size:50 final size:50
Alignment explanation
Indices: 88843314--88843597 Score: 228
Period size: 50 Copynumber: 5.8 Consensus size: 50
88843304 TGATGCTATA
*
88843314 GAGATATGAGAGCTAGTGTAAGACCATCTCTGGGACATGGCATCGACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
* * *
88843364 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCTTC-AGCT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
* * * *
88843412 -TGATATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTC
* * * * * * *
88843459 GATAGATGAGAGCCAATGTAAAACCATGTCTAGAACATGGCATC-AGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTC
* * * * *
88843509 AATACAAGAGAG-TCAGTGTAAGACCATGCCTGGGACATGGCATCGA-CT-
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
** * * * **
88843557 TTGATGTGTGAGCCAGTGTAAGACCATGTCCAGGACATGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
88843598 GTTGGCACCT
Statistics
Matches: 182, Mismatches: 41, Indels: 24
0.74 0.17 0.10
Matches are distributed among these distances:
45 28 0.15
46 1 0.01
47 8 0.04
48 34 0.19
49 7 0.04
50 103 0.57
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
Found at i:88843491 original size:95 final size:97
Alignment explanation
Indices: 88843328--88843597 Score: 298
Period size: 95 Copynumber: 2.8 Consensus size: 97
88843318 TATGAGAGCT
* * * *
88843328 AGTGTAAGACCATCTCTGGGACATGGCATCGACCTCGAGATATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACC-CGATAGATGAGAGCCAGTGTAAGACCATGT
* ** * *
88843393 CTAGGACATGGCTTCAG-CTTGAT-A-TGTGTC
65 CTAGGACATGGCATCAGCCTCAATAAGAGAGTC
* * *
88843423 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAGATGAGAGCCAATGTAAAACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-CCGATAGATGAGAGCCAGTGTAAGACCATGT
*
88843488 CTAGAACATGGCATCAGCCTCAATACAAGAGAGTC
65 CTAGGACATGGCATCAGCCTCAAT--AAGAGAGTC
* ** *
88843523 AGTGTAAGACCATGCCTGGGACATGGCATCGACTTTGAT-G-TGTGAGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-CCGATAGATGAGAGCCAGTGTAAGACCATGT
*
88843586 CCAGGACATGGC
65 CTAGGACATGGC
88843598 GTTGGCACCT
Statistics
Matches: 146, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
95 71 0.49
96 5 0.03
98 30 0.21
99 2 0.01
100 38 0.26
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCCGATAGATGAGAGCCAGTGTAAGACCATGTC
TAGGACATGGCATCAGCCTCAATAAGAGAGTC
Found at i:88848086 original size:27 final size:27
Alignment explanation
Indices: 88848035--88848086 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
88848025 AGTTAATAAA
**
88848035 TTCTCATTGAGTTTTTTTTTCAAGACT
1 TTCTCATTGAGTTTTTTTTAAAAGACT
88848062 TTCTC-TTGAGTTTTCTTTTAAAAGA
1 TTCTCATTGAGTTTT-TTTTAAAAGA
88848087 GTTTAGCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.54
Consensus pattern (27 bp):
TTCTCATTGAGTTTTTTTTAAAAGACT
Found at i:88852076 original size:56 final size:56
Alignment explanation
Indices: 88851968--88852077 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
88851958 GGCCATGTCT
* *
88851968 TCCCTACACCTTATTTTAGCAAAATTGGACAGTGAGTTACATGACCTATTCACACG
1 TCCCTACACCTTATTTTAGCAAAATTGGACAGTAAGTTACACGACCTATTCACACG
** * * *
88852024 TCCCTACACCTTATTTTAGCAATTTTGGACAGTAAGTTATACGGCCTGTTCACA
1 TCCCTACACCTTATTTTAGCAAAATTGGACAGTAAGTTACACGACCTATTCACA
88852078 TGGTCGTGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (56 bp):
TCCCTACACCTTATTTTAGCAAAATTGGACAGTAAGTTACACGACCTATTCACACG
Found at i:88862553 original size:17 final size:17
Alignment explanation
Indices: 88862531--88862566 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
88862521 TAACAAAATT
88862531 ATAATTGAATTGAGAAA
1 ATAATTGAATTGAGAAA
* *
88862548 ATAATTTAATTGGGAAA
1 ATAATTGAATTGAGAAA
88862565 AT
1 AT
88862567 TAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (17 bp):
ATAATTGAATTGAGAAA
Found at i:88862576 original size:18 final size:18
Alignment explanation
Indices: 88862525--88862576 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
88862515 TTACTTTAAC
88862525 AAAATTATAATTGAATTGAG
1 AAAATTA-AATT-AATTGAG
* *
88862545 AAAA-TAATTTAATTGGG
1 AAAATTAAATTAATTGAG
88862562 AAAATTAAATTAATT
1 AAAATTAAATTAATT
88862577 TATTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 10 0.36
18 12 0.43
19 2 0.07
20 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (18 bp):
AAAATTAAATTAATTGAG
Found at i:88863988 original size:29 final size:29
Alignment explanation
Indices: 88863946--88864046 Score: 134
Period size: 29 Copynumber: 3.5 Consensus size: 29
88863936 CATGAAATTG
88863946 GCACTAAGTGTGCGGGTTGAAATTGTATA
1 GCACTAAGTGTGCGGGTTGAAATTGTATA
* *
88863975 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTGAAATTGTATA
* *
88864004 GCACTAAGTGTGCGAGTTCG--ATTATATA
1 GCACTAAGTGTGCGGGTT-GAAATTGTATA
*
88864032 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
88864047 ACTTACTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 19 0.30
29 44 0.70
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTGAAATTGTATA
Found at i:88868273 original size:17 final size:16
Alignment explanation
Indices: 88868251--88868283 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
88868241 AGTGGTGAAG
88868251 ATGAGGAAGGAAAGGAA
1 ATGAGGAA-GAAAGGAA
88868268 ATGAGGAAGAAAGGAA
1 ATGAGGAAGAAAGGAA
88868284 GAAATTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (16 bp):
ATGAGGAAGAAAGGAA
Found at i:88871921 original size:220 final size:220
Alignment explanation
Indices: 88871473--88872002 Score: 817
Period size: 220 Copynumber: 2.4 Consensus size: 220
88871463 AAATTTGTTA
* * * * * *
88871473 TCTTTGATTTGCTCTCTTACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTTCATCGTA
1 TCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA--T-C-ATCTTAGATCTGCTTCAGCGTA
* * *
88871538 AACACGTGAAAGCTAAATCTACTATATCTTCGATTTGCTCCTTGTAATAGCAAGGATGCCAAATC
62 AACACGTGAAAGCCAAATCTACTATATCTTCGATCTGCTCCTTATAATAGCAAGGATGCCAAATC
*
88871603 ATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGTCTTCGATTTGCTCT
127 ATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGTCTTCGATCTGCTCT
*
88871668 CCGTCGAATATGGAGATGCCAAATATGTT
192 CCGTCGAATATGGAGATGCCAAATATATT
*
88871697 TCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGGTTCAGCGTAAACA
1 TCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACA
* *
88871762 CGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTATAATAGCAAGGATGCCAAATCATCT
66 CGTGAAAGCCAAATCTACTATATCTTCGATCTGCTCCTTATAATAGCAAGGATGCCAAATCATCT
88871827 TGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCCGT
131 TGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCCGT
* *
88871892 TGAATATGGAGATGCCAAATCTATT
196 CGAATATGGAGATGCCAAATATATT
** *
88871917 TCTTCGATTTGTTCTCTGACAATATGGAGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACA
1 TCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACA
* * * *
88871982 CCTGAAGGTCAGATCTACTAT
66 CGTGAAAGCCAAATCTACTAT
88872003 GCTTTAGCCT
Statistics
Matches: 281, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
220 246 0.88
221 1 0.00
222 1 0.00
224 33 0.12
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (220 bp):
TCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACA
CGTGAAAGCCAAATCTACTATATCTTCGATCTGCTCCTTATAATAGCAAGGATGCCAAATCATCT
TGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCCGT
CGAATATGGAGATGCCAAATATATT
Found at i:88876335 original size:18 final size:17
Alignment explanation
Indices: 88876310--88876344 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88876300 CAGATCCAGA
*
88876310 GACACTTCACAATCCTG
1 GACACTTCAAAATCCTG
88876327 GACATCTTCAAAATCCTG
1 GACA-CTTCAAAATCCTG
88876345 AGATTCCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.26
Consensus pattern (17 bp):
GACACTTCAAAATCCTG
Found at i:88884184 original size:85 final size:85
Alignment explanation
Indices: 88884055--88884998 Score: 1870
Period size: 85 Copynumber: 11.1 Consensus size: 85
88884045 TATTTTATTG
*
88884055 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884120 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884140 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884205 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884225 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884290 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884310 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884375 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884395 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884460 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884480 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884545 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884565 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884630 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884650 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884715 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884735 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884800 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884820 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88884885 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88884905 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
88884970 TAGCCATAACATATTGTCCA
66 TAGCCATAACATCTTGTCCA
88884990 CCCATGCTC
1 CCCATGCTC
88884999 ATGGCTGGCC
Statistics
Matches: 857, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 857 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:88891824 original size:49 final size:49
Alignment explanation
Indices: 88891647--88892110 Score: 744
Period size: 49 Copynumber: 9.6 Consensus size: 49
88891637 CCCTTCGGGA
* * *
88891647 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
88891693 CTCTGTCAC--ATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
88891741 CTTATCAC--ATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88891788 CTTATCACATATATATACACTTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88891837 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88891886 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88891935 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88891984 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88892033 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88892082 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
88892111 TATTCAAATA
Statistics
Matches: 396, Mismatches: 16, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
46 3 0.01
47 86 0.22
48 2 0.01
49 305 0.77
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:88894107 original size:56 final size:56
Alignment explanation
Indices: 88894040--88894159 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
88894030 TATTAGTTTA
88894040 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
88894096 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
88894152 TTGCCCAT
1 TTGCCCAT
88894160 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:88896693 original size:39 final size:39
Alignment explanation
Indices: 88896645--88896906 Score: 427
Period size: 39 Copynumber: 6.7 Consensus size: 39
88896635 TGTGTGAGAT
* *
88896645 TTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
88896684 TTATGTCCGGGCTAAGTCCCGAAGGCATTCTTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
88896723 TTATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* ** *
88896762 TTATATCCAGGCTAAGTCTTGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
88896801 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
88896840 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCT-GTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
88896878 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
88896907 TGTGTTGGAA
Statistics
Matches: 207, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
38 31 0.15
39 176 0.85
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:88899618 original size:26 final size:26
Alignment explanation
Indices: 88899582--88899686 Score: 165
Period size: 26 Copynumber: 4.0 Consensus size: 26
88899572 TACAAATTGC
*
88899582 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
* *
88899608 TAATCGATTAGGTAAATATTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
*
88899634 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
*
88899660 TAATGGTTTAGGTAAATGTTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
88899686 T
1 T
88899687 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAATGGATTAGGTAAATGTTCCATGA
Found at i:88899644 original size:52 final size:52
Alignment explanation
Indices: 88899582--88899686 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
88899572 TACAAATTGC
88899582 TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
* * *
88899634 TAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
88899686 T
1 T
88899687 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (52 bp):
TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
Found at i:88904021 original size:40 final size:38
Alignment explanation
Indices: 88903911--88904021 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 38
88903901 ATGTGTTATT
* *
88903911 ATATCCGGGTTAAATCCCGCAGGCTTAATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATG
* * *
88903949 ATATCCGGACTTATAGT-CCGCAGGCCTAGTGCTGGTAATAG
1 ATATCCGG-GTTA-AATCCCGCAGGCTTAGTGCTGGT-AT-G
* *
88903990 ATATCCGGGTTAAATCCCACAGGCTTTGTGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
88904022 AGAAATTGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
38 8 0.14
39 22 0.38
40 20 0.34
41 8 0.14
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATG
Found at i:88913433 original size:31 final size:31
Alignment explanation
Indices: 88913395--88913458 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
88913385 CCTTTTCATA
*
88913395 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
**
88913426 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
88913457 TT
1 TT
88913459 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:88913704 original size:24 final size:24
Alignment explanation
Indices: 88913667--88913796 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
88913657 CTTGAGGCCT
*
88913667 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
88913692 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
88913716 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
88913740 AGCCCTTTTAATAACTGGGGCAAA
1 AGCCCTTTTAATAACTGGGGCATA
* * *
88913764 ATCCCTTTTAATAATTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
88913788 AGCCCTTTT
1 AGCCCTTTT
88913797 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 94 0.96
25 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:88913868 original size:9 final size:9
Alignment explanation
Indices: 88913854--88913910 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
88913844 ACCTCATGTG
88913854 CATATCATA
1 CATATCATA
*
88913863 CATATCATGTG
1 CATATCA--TA
88913874 CATATCATA
1 CATATCATA
*
88913883 CATATCATGTG
1 CATATCA--TA
88913894 CATATCATA
1 CATATCATA
*
88913903 CATGTCAT
1 CATATCAT
88913911 GTGCATATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 23 0.59
11 16 0.41
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:88913872 original size:20 final size:20
Alignment explanation
Indices: 88913847--88913932 Score: 145
Period size: 20 Copynumber: 4.3 Consensus size: 20
88913837 TATGAATACC
88913847 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
88913867 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
88913887 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
88913907 TCATGTGCATATCATATATA
1 TCATGTGCATATCATACATA
*
88913927 CCATGT
1 TCATGT
88913933 TTATCAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:88913877 original size:11 final size:11
Alignment explanation
Indices: 88913847--88913921 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
88913837 TATGAATACC
88913847 TCATGTGCATA
1 TCATGTGCATA
*
88913858 TCA--TACATA
1 TCATGTGCATA
88913867 TCATGTGCATA
1 TCATGTGCATA
*
88913878 TCA--TACATA
1 TCATGTGCATA
88913887 TCATGTGCATA
1 TCATGTGCATA
* *
88913898 TCA--TACATG
1 TCATGTGCATA
88913907 TCATGTGCATA
1 TCATGTGCATA
88913918 TCAT
1 TCAT
88913922 ATATACCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 23 0.46
11 27 0.54
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:88913997 original size:25 final size:25
Alignment explanation
Indices: 88913969--88914016 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88913959 ATATATAAAC
* * *
88913969 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
88913994 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
88914017 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:88931215 original size:27 final size:27
Alignment explanation
Indices: 88931174--88931227 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
88931164 TGTCATGTGA
* *
88931174 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
88931201 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
88931228 GGTTGTATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:88939044 original size:108 final size:108
Alignment explanation
Indices: 88938853--88939266 Score: 704
Period size: 108 Copynumber: 3.8 Consensus size: 108
88938843 AAGGATACCG
** * * * ** *
88938853 TGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGTAAGGAAATCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATG-GCATTGGTGA-G-TTCATAAGGCAATGCTACCATGTAAGACC
88938917 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
63 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
88938963 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
88939028 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
66 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
88939071 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
88939136 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
66 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
88939179 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
* *
88939244 TCAAGACATGGCAATGGTAAGTT
66 TCAAGACATGGCATTGATAAGTT
88939267 TCAAAAGGAT
Statistics
Matches: 293, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
107 3 0.01
108 261 0.89
109 7 0.02
110 22 0.08
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (108 bp):
TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
Found at i:88939526 original size:16 final size:16
Alignment explanation
Indices: 88939505--88939535 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88939495 ATAAATTTGA
88939505 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
88939521 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
88939536 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:88946654 original size:55 final size:53
Alignment explanation
Indices: 88946570--88947037 Score: 437
Period size: 55 Copynumber: 8.8 Consensus size: 53
88946560 AGGGTTTAAG
* * * * *
88946570 GATACCGTGTATGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCTAAGGCAAA
* * * * *
88946625 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGCAAA
* * * *
88946680 GATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAA
* * * *
88946733 GCTACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGCAAA
* * * *
88946788 GATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAA
* * * *
88946841 GCTACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGCAAA
* * * *
88946896 GATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAA
* * * *
88946949 GCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAA
* * * * *
88946998 GATACCACGTAAAACCATGACAAGTCATGGCAATGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
88947038 GTACCCGTGT
Statistics
Matches: 338, Mismatches: 63, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
49 37 0.11
52 5 0.01
53 129 0.38
54 15 0.04
55 150 0.44
56 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAA
Found at i:88946773 original size:108 final size:108
Alignment explanation
Indices: 88946577--88946990 Score: 713
Period size: 108 Copynumber: 3.8 Consensus size: 108
88946567 AAGGATACCG
* * * * ** *
88946577 TGTATGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAATCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAATGCTACCATGTAAGACC
88946641 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
63 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
88946687 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
88946752 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
66 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
88946795 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
88946860 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
66 TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
88946903 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
* *
88946968 TCAAGACATGGCAATGGTAAGTT
66 TCAAGACATGGCATTGATAAGTT
88946991 TCAAAAGGAT
Statistics
Matches: 294, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
107 3 0.01
108 262 0.89
109 7 0.02
110 22 0.07
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (108 bp):
TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGCTACCATGTAAGACCATG
TCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
Found at i:88947255 original size:16 final size:16
Alignment explanation
Indices: 88947234--88947264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88947224 ATAAATTTGA
88947234 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
88947250 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
88947265 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:88952934 original size:55 final size:53
Alignment explanation
Indices: 88952809--88952997 Score: 209
Period size: 55 Copynumber: 3.5 Consensus size: 53
88952799 AACTTACCAT
* * * * *
88952809 TGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-GAACCCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * * *
88952862 TGCCATACCTTGCCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
88952917 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
88952971 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
88952998 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 32 0.28
54 35 0.31
55 42 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:88952993 original size:54 final size:54
Alignment explanation
Indices: 88952798--88953005 Score: 222
Period size: 54 Copynumber: 3.9 Consensus size: 54
88952788 TTTCCTTTTT
* * * * * *
88952798 GAACTTACCATTGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * ** *
88952851 GAACCCACCAATGCCATACCTTGCCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
88952905 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
88952960 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
88953006 ATCTTGCCAA
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 40 0.31
54 42 0.33
55 42 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:88953023 original size:46 final size:46
Alignment explanation
Indices: 88952969--88953099 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 46
88952959 AGAACTTATC
* * *
88952969 AATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTGCCA
1 AATGCCATGCCTTGACATGGTCTTACATGGTATCCTTATCTTACCA
** *
88953015 AATGCCATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTACCA
1 AATGCCATG--CCTTGACATGGTCTTACATGGTATCCTTATCTTACCA
* *
88953062 TATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
1 AATGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
88953100 ACTATCAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 32 0.45
47 36 0.51
48 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (46 bp):
AATGCCATGCCTTGACATGGTCTTACATGGTATCCTTATCTTACCA
Found at i:88959388 original size:40 final size:40
Alignment explanation
Indices: 88959333--88959415 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
88959323 TATTCGGATG
* *
88959333 ATATCTGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
* *
88959373 ATATCCGGACTAAGATCTGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
88959413 ATA
1 ATA
88959416 ACCTGGTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:88959435 original size:40 final size:40
Alignment explanation
Indices: 88959391--88959522 Score: 173
Period size: 40 Copynumber: 3.3 Consensus size: 40
88959381 ACTAAGATCT
*
88959391 GAAGGCAATT-GTGCTAGTTATTATAACCTGGTTAAGTCCC
1 GAAGGCAATTCGTGCGAGTTATTATAACC-GGTTAAGTCCC
*
88959431 GAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC
1 GAAGGCAATTCGTGCGAGTTATTATAACC-GGTTAAGTCCC
* *
88959471 GAAGG-TATTCGTGCGGGTTATTATAACCGAGTTAAGTCCC
1 GAAGGCAATTCGTGCGAGTTATTATAACCG-GTTAAGTCCC
88959511 GAAGGC-ATTCGT
1 GAAGGCAATTCGT
88959523 ACTGGTTGTT
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
39 4 0.05
40 81 0.95
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (40 bp):
GAAGGCAATTCGTGCGAGTTATTATAACCGGTTAAGTCCC
Found at i:88959541 original size:40 final size:40
Alignment explanation
Indices: 88959407--88959522 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
88959397 AATTGTGCTA
88959407 GTTATTATAACCTG-GTTAAGTCCCGAAGGCATTCGTGCGG
1 GTTATTATAACC-GAGTTAAGTCCCGAAGGCATTCGTGCGG
* *
88959447 GTTATTATAACCGGGTTAAGTCCCGAAGGTATTCGTGCGG
1 GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGG
88959487 GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGT
1 GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGT
88959523 ACTGGTTGTT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGG
Found at i:88968843 original size:39 final size:41
Alignment explanation
Indices: 88968722--88968905 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
88968712 GCTCCTCGTT
* *
88968722 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* * *
88968762 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
88968802 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
88968841 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
88968882 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88968906 CATCATTCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
38 3 0.02
39 47 0.37
40 65 0.52
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:88968899 original size:79 final size:81
Alignment explanation
Indices: 88968722--88968905 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
88968712 GCTCCTCGTT
* *
88968722 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCA
*
88968786 GATTTAGTAACTCGCA
66 GATTTAGTAACTAGCA
**
88968802 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
88968863 CGGATATT-GTCACTTAGCA
64 CAGAT-TTAGTAAC-TAGCA
88968882 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88968906 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCA
GATTTAGTAACTAGCA
Found at i:88970716 original size:40 final size:40
Alignment explanation
Indices: 88970661--88970772 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
88970651 TAGTCGGATG
*
88970661 ATATCTGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
88970701 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* ** *
88970741 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
88970773 GGGTTATTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:88970779 original size:40 final size:40
Alignment explanation
Indices: 88970677--88970857 Score: 224
Period size: 40 Copynumber: 4.5 Consensus size: 40
88970667 GGACTAAGAT
* * * * **
88970677 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAG-TC
*
88970717 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTGGTTATTATAACCGGGTTAAGTC
* *
88970757 CCGAAGGCATTCGTGCGGGTTATTATAACGGGGTTAAGTC
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
*
88970797 CCGAAGGTATTCGTG-TGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCT-GGTTATTATAACCGGGTTAAGTC
88970837 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCTGGTT
88970858 GTTACATCCG
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
39 4 0.03
40 117 0.94
41 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
Found at i:88971961 original size:71 final size:71
Alignment explanation
Indices: 88971878--88972019 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
88971868 CCTGTTATGA
88971878 CTTTGGAAATTCACTATAAATTTTAAAAATATAATTAAAAGTCAGGATTTATATTTACAGATTCA
1 CTTTGGAAATTCACTATAAATTTTAAAAATATAATTAAAAGTCAGGATTTATATTTACAGATTCA
88971943 TTGTTG
66 TTGTTG
88971949 CTTTGGAAATTCACTATAAATTTTAAAAATATAATTAAAAGTCAGGATTTATATTTACAGATTCA
1 CTTTGGAAATTCACTATAAATTTTAAAAATATAATTAAAAGTCAGGATTTATATTTACAGATTCA
88972014 TTGTTG
66 TTGTTG
88972020 AGTCTAGTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (71 bp):
CTTTGGAAATTCACTATAAATTTTAAAAATATAATTAAAAGTCAGGATTTATATTTACAGATTCA
TTGTTG
Found at i:88974141 original size:55 final size:54
Alignment explanation
Indices: 88974028--88974204 Score: 232
Period size: 55 Copynumber: 3.3 Consensus size: 54
88974018 CCATATCTTC
* *
88974028 ACATGGTCTTACATGGTATCTTTGCCTTAT-GAACTCACCAATGCCATGCCTTG
1 ACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATGCCATGCCTTG
* * * *
88974081 GCATGGTATTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTG
1 ACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAATGCCATGCCTTG
* * * *
88974136 ACATGGTCTTACATGATTTCC-TTCCCTTATAGAACTTATCAATGCCATGCCTTG
1 ACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAATGCCATGCCTTG
88974190 ACATGGTCTTACATG
1 ACATGGTCTTACATG
88974205 ATATCCTTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 26 0.24
54 36 0.34
55 43 0.40
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
ACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATGCCATGCCTTG
Found at i:88974194 original size:54 final size:54
Alignment explanation
Indices: 88974005--88974212 Score: 231
Period size: 54 Copynumber: 3.9 Consensus size: 54
88973995 TTTTCCTTTT
* * ** * * *
88974005 GAACTTACCATTGCCATATCTTCACATGGTCTTACATGGTATCTTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
88974058 GAACTCACCAATGCCATGCCTTGGCATGGTATTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
88974112 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTCCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
88974167 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
88974213 ATCTTACCAA
Statistics
Matches: 131, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.32
54 43 0.33
55 43 0.33
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Done.