Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 202 of 362
Found at i:68198836 original size:87 final size:86
Alignment explanation
Indices: 68198682--68198840 Score: 228
Period size: 87 Copynumber: 1.8 Consensus size: 86
68198672 TACATGCATA
* * ** * *
68198682 AGGTTGAGTTCTTACTCTTAATGAATTCATACCCTAGGGTTTGGGCGGTCCTATTGAGACGAACT
1 AGGTTGAGTTCTTACTCCTAATGAATTCATACCCAAAAGTTTGGGCGGTCCTATTGACACAAACT
68198747 TGATGAATTCACCAACATGTG
66 TGATGAATTCACCAACATGTG
* * *
68198768 AGGTTGAGTTTCTTACTCCTAATGAGTTCATATCCAAAAGTTTGGGTGGTCCTATTGACACAAAC
1 AGGTTGAG-TTCTTACTCCTAATGAATTCATACCCAAAAGTTTGGGCGGTCCTATTGACACAAAC
68198833 TTGATGAA
65 TTGATGAA
68198841 CTCATTGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
86 8 0.13
87 55 0.87
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (86 bp):
AGGTTGAGTTCTTACTCCTAATGAATTCATACCCAAAAGTTTGGGCGGTCCTATTGACACAAACT
TGATGAATTCACCAACATGTG
Found at i:68199750 original size:95 final size:93
Alignment explanation
Indices: 68199642--68199831 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 93
68199632 TCTCCTCATT
* * * * *
68199642 TTACACTACAAGGAAAACAACAATCTTTTATCCTACAGCTCACCTATTCCTTTTTTTTAGATTTT
1 TTACACAACAAGGAAAACAACAATCTTTTATCCCACAGCTCACATACTCC--TTTTTCAG-TTTT
*
68199707 T-CGTTTCCTTTTTGAGAAGAGCAATACCAC
63 TCCGATTCCTTTTTGAGAAGAGCAATACCAC
* *
68199737 TTACACAATAAGGAAAACAACAATCTTTTATCCCACAGCTCACATGCTCCTTTTTCAGTTTTTCC
1 TTACACAACAAGGAAAACAACAATCTTTTATCCCACAGCTCACATACTCCTTTTTCAGTTTTTCC
* *
68199802 GATTCCTTTTTTAGAAGAGCAATATCAC
66 GATTCCTTTTTGAGAAGAGCAATACCAC
68199830 TT
1 TT
68199832 GTGTTCCACC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
92 5 0.06
93 35 0.42
95 44 0.52
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (93 bp):
TTACACAACAAGGAAAACAACAATCTTTTATCCCACAGCTCACATACTCCTTTTTCAGTTTTTCC
GATTCCTTTTTGAGAAGAGCAATACCAC
Found at i:68215450 original size:26 final size:26
Alignment explanation
Indices: 68215421--68215477 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
68215411 ACAACTCACT
* * *
68215421 AGGCCCACTAGCTACCCCAGCTTGCC
1 AGGCCCACTAACAACCCCAGCTCGCC
*
68215447 AGGCCCTCTAACAACCCCAGCTCGCC
1 AGGCCCACTAACAACCCCAGCTCGCC
68215473 AGGCC
1 AGGCC
68215478 TCAAAATCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.47, G:0.19, T:0.12
Consensus pattern (26 bp):
AGGCCCACTAACAACCCCAGCTCGCC
Found at i:68218128 original size:28 final size:28
Alignment explanation
Indices: 68218096--68218181 Score: 111
Period size: 28 Copynumber: 3.0 Consensus size: 28
68218086 TACCTGTATC
* *
68218096 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
68218124 TGGCCCACTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
68218153 TGGCCCATTAGGCCCAATCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
68218181 T
1 T
68218182 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.02
28 24 0.49
29 23 0.47
30 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:68218153 original size:29 final size:28
Alignment explanation
Indices: 68218087--68218173 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
68218077 AATTTCACAT
* *
68218087 ACCTGTATCTGGCCCATTAAGCCCAATC
1 ACCTGTATATGGCCCATTAGGCCCAATC
** *
68218115 ATAT-TCATATGGCCCACTAGGCCCAAATC
1 ACCTGT-ATATGGCCCATTAGGCCC-AATC
68218144 ACCTGTATATGGCCCATTAGGCCCAATC
1 ACCTGTATATGGCCCATTAGGCCCAATC
68218172 AC
1 AC
68218174 ATTCATATTC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.48
29 23 0.48
30 1 0.02
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (28 bp):
ACCTGTATATGGCCCATTAGGCCCAATC
Found at i:68219517 original size:16 final size:16
Alignment explanation
Indices: 68219496--68219527 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68219486 AAGTTCAGGA
*
68219496 TTTCGGGATTTTTGGG
1 TTTCGGCATTTTTGGG
68219512 TTTCGGCATTTTTGGG
1 TTTCGGCATTTTTGGG
68219528 ACGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.09, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGGCATTTTTGGG
Found at i:68222466 original size:29 final size:29
Alignment explanation
Indices: 68222404--68222509 Score: 142
Period size: 29 Copynumber: 3.7 Consensus size: 29
68222394 TTCACATATC
* * *
68222404 TATATCTGGCCCATTAAG-CCAAATCATA
1 TATATATGGCCCATTAGGCCCAAATCACA
* * *
68222432 TTTATATGGCCCACTAGGCCCAAATCACC
1 TATATATGGCCCATTAGGCCCAAATCACA
68222461 TATATATGGCCCATTAGGCCCAAATCACA
1 TATATATGGCCCATTAGGCCCAAATCACA
*
68222490 TTTATATGGCCCATTAGGCC
1 TATATATGGCCCATTAGGCC
68222510 TATCAAAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 14 0.21
29 53 0.79
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (29 bp):
TATATATGGCCCATTAGGCCCAAATCACA
Found at i:68224557 original size:48 final size:45
Alignment explanation
Indices: 68224494--68224715 Score: 189
Period size: 48 Copynumber: 4.8 Consensus size: 45
68224484 TGGGATAAGT
* *
68224494 TGCCAATGTCATGTCCCAGACATGGTCTTACACTGGCCAT-CATCATTG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CATACATC-TTG
* * * *
68224542 ATGCCGTTGCATGTCCCAGACATGTCTTACACTAGCTCTCGCATATTCG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTAGC-AT-ACATCTT-G
** *
68224591 TGTAGATGCATGTCCCAAACATGTCTTACACTAGC--ACATCTTG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCATACATCTTG
* * * * *
68224634 TAGCCAATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCATACATCTTG
* *
68224680 AGGCCGATACATGTCCCAGACATGTCTTACACTAGC
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTAGC
68224716 GCTCGTCTCA
Statistics
Matches: 142, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
43 2 0.01
44 33 0.23
46 38 0.27
47 12 0.08
48 47 0.33
49 10 0.07
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCATACATCTTG
Found at i:68224695 original size:46 final size:44
Alignment explanation
Indices: 68224599--68224715 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
68224589 CGTGTAGATG
* * *
68224599 CATGTCCCAAACATGTCTTACACTAGCACATCTTGTAGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCAATA
* * *
68224643 CATGTCCCAGACATGTCTTACATTGGCTTACATCTCG-AGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGC--ACATCTCGTA-GCCAATA
68224689 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
68224716 GCTCGTCTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 24 0.39
45 1 0.02
46 37 0.60
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCAATA
Found at i:68225158 original size:30 final size:30
Alignment explanation
Indices: 68225117--68225178 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
68225107 AATTTTACAT
* *
68225117 CTTTGGTAAAATGACCATTTTGCCCTTAGG
1 CTTTGGCAAAATGACCATTTTGCCCCTAGG
68225147 CTTTGGCAAAATGACCATTTTGCCCCTAGG
1 CTTTGGCAAAATGACCATTTTGCCCCTAGG
68225177 CT
1 CT
68225179 CGAAAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTGCCCCTAGG
Found at i:68227883 original size:45 final size:46
Alignment explanation
Indices: 68227819--68227994 Score: 165
Period size: 56 Copynumber: 3.5 Consensus size: 46
68227809 ACAAGGGATG
68227819 ATGGGCAAAACATGTCATGAAA-AATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAATAATGGAAAAATAAAATAAGAAGC
* *
68227864 ATGGGCAAAAGATGTCATGAAACATGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATG-AA-A-----TAATGGAAAAATAAAATAAGAAGC
*
68227917 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATG-AA-A--------TAATGGAAAAATAAAATAAGAAGC
68227973 ATGGGCAAAACATGTCATGAAA
1 ATGGGCAAAACATGTCATGAAA
68227995 CATGTTGTGT
Statistics
Matches: 117, Mismatches: 3, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
45 18 0.15
46 2 0.02
47 1 0.01
53 45 0.38
54 1 0.01
55 2 0.02
56 48 0.41
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGGGCAAAACATGTCATGAAATAATGGAAAAATAAAATAAGAAGC
Found at i:68227974 original size:56 final size:56
Alignment explanation
Indices: 68227841--68228036 Score: 353
Period size: 56 Copynumber: 3.6 Consensus size: 56
68227831 TGTCATGAAA
* *
68227841 AATGGAAAAATAAAATAAGAAGCATGGGCAAAAGATGTCATGAAACA---TGTGTT
1 AATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTT
68227894 AATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTT
1 AATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTT
68227950 AATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTT
1 AATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTT
68228006 AATGGAAGAATAAAATAAGAAGCATGGGCAA
1 AATGGAAGAATAAAATAAGAAGCATGGGCAA
68228037 TAAACTAATA
Statistics
Matches: 138, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
53 45 0.33
56 93 0.67
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.21
Consensus pattern (56 bp):
AATGGAAGAATAAAATAAGAAGCATGGGCAAAACATGTCATGAAACATGTTGTGTT
Found at i:68229316 original size:40 final size:40
Alignment explanation
Indices: 68229170--68229392 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
68229160 TCGAATGATG
* * * *
68229170 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
68229210 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68229249 TTCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68229287 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68229327 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
68229368 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68229393 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
37 22 0.14
38 11 0.07
39 10 0.06
40 109 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68235923 original size:56 final size:56
Alignment explanation
Indices: 68235837--68236012 Score: 352
Period size: 56 Copynumber: 3.1 Consensus size: 56
68235827 ACAATGGATG
68235837 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
68235893 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
68235949 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
68236005 ATGGGCAA
1 ATGGGCAA
68236013 TAAACTAATA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 120 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:68237381 original size:40 final size:40
Alignment explanation
Indices: 68237143--68237367 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
68237133 TCGAATGATG
* * * *
68237143 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
68237183 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68237223 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68237262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68237302 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
68237343 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68237368 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68246038 original size:26 final size:26
Alignment explanation
Indices: 68246002--68246054 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
68245992 TAGCCATGAG
68246002 ATATGGCTCATATTGATGTAGGTAGT
1 ATATGGCTCATATTGATGTAGGTAGT
68246028 ATATGGCTCATATTGATGTAGGTAGT
1 ATATGGCTCATATTGATGTAGGTAGT
68246054 A
1 A
68246055 AAACTACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (26 bp):
ATATGGCTCATATTGATGTAGGTAGT
Found at i:68263414 original size:21 final size:21
Alignment explanation
Indices: 68263384--68263428 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
68263374 ATGTGTGTAG
* *
68263384 GTGTGTGAATTAGTGAAACTT
1 GTGTGAGAATTAGTGAAAATT
68263405 GTGTGAGAATTAGTGAAAATT
1 GTGTGAGAATTAGTGAAAATT
68263426 GTG
1 GTG
68263429 GATTGTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (21 bp):
GTGTGAGAATTAGTGAAAATT
Found at i:68264015 original size:50 final size:52
Alignment explanation
Indices: 68263892--68264023 Score: 151
Period size: 52 Copynumber: 2.6 Consensus size: 52
68263882 GTTGTGAGAA
* * * * *
68263892 CACATGTGTAGTACTATGTACAGGATACTATATGTTTAAAATGGCTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTATAAAATGGCTTTAGGT
* * * * *
68263944 CACGTGGGTAATACTAAGTGCAGGCTACTACGTGTATCAAATGG-TTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTATAAAATGGCTTTAGGT
*
68263994 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
68264024 TACATACCCA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
50 29 0.44
51 3 0.05
52 34 0.52
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (52 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTATAAAATGGCTTTAGGT
Found at i:68264145 original size:51 final size:53
Alignment explanation
Indices: 68264034--68264174 Score: 141
Period size: 51 Copynumber: 2.7 Consensus size: 53
68264024 TACATACCCA
* * * * *
68264034 GTAGCTTCGATAACATGTGTGGTACTAAGTGCAA-GCCACTATGTGTAAGAGAT
1 GTAGCTTTGATCACAAGTGTGGTACTATGTG-AAGGCCACTATGTGTAACAGAT
* *
68264087 G-A-TTTTGATCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AACA-AT
1 GTAGCTTTGATCACAAGTGTGGTACTATGTGAAGGCCACTATGTGTAACAGAT
* *
68264136 GTAGCTTTGA-CTACAAGGGTGGTACTATGTGCAGGCCAC
1 GTAGCTTTGATC-ACAAGTGTGGTACTATGTGAAGGCCAC
68264175 CGGGTATCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
49 3 0.04
50 7 0.09
51 62 0.84
52 1 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (53 bp):
GTAGCTTTGATCACAAGTGTGGTACTATGTGAAGGCCACTATGTGTAACAGAT
Found at i:68269707 original size:52 final size:50
Alignment explanation
Indices: 68269629--68269764 Score: 130
Period size: 52 Copynumber: 2.7 Consensus size: 50
68269619 GTTGTGAGAA
* * * ***
68269629 CACATGTGCAGTACTATGT-TCAGGCTACTATGTGTTTAAAATGGCTTTAGGT
1 CACATGTGTAGTACTAAGTGT-AGGCTACTATGCGCACAAAATGG-TTT-GGT
* *
68269681 CACATGTGTAGTACTAAGTGTAGGCTACTACGCGCACCAAATGGTTTGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGCGCACAAAATGGTTTGGT
** * *
68269731 CGTATGTGTAGTACTAATTGCAGGCTACTATGCG
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGCG
68269765 TAACCCGATA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 32 0.46
51 3 0.04
52 34 0.49
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGTAGGCTACTATGCGCACAAAATGGTTTGGT
Found at i:68275258 original size:51 final size:51
Alignment explanation
Indices: 68275118--68275250 Score: 257
Period size: 51 Copynumber: 2.6 Consensus size: 51
68275108 CCGTTCTGCG
68275118 TCACGTGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
1 TCACGTGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
68275169 TCACGTGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
1 TCACGTGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
*
68275220 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTGCTAAGTGCAGGCTACTA
68275251 CATGTACCAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (51 bp):
TCACGTGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
Found at i:68277704 original size:15 final size:15
Alignment explanation
Indices: 68277684--68277720 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
68277674 TATTTTCTTC
*
68277684 TGGATTTCTTTATGT
1 TGGATTTCTATATGT
*
68277699 TGGATTTCTATATTT
1 TGGATTTCTATATGT
68277714 TGGATTT
1 TGGATTT
68277721 TTCCGTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.59
Consensus pattern (15 bp):
TGGATTTCTATATGT
Found at i:68280847 original size:13 final size:13
Alignment explanation
Indices: 68280829--68280858 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
68280819 TTATTCATTT
*
68280829 TTTTAACATATTA
1 TTTTAACATAGTA
68280842 TTTTAACATAGTA
1 TTTTAACATAGTA
68280855 TTTT
1 TTTT
68280859 GAACTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTTAACATAGTA
Found at i:68281566 original size:21 final size:21
Alignment explanation
Indices: 68281523--68281568 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
68281513 TTTACATATT
**
68281523 TTTTATTTTTATTTTCATTTA
1 TTTTATTTTTATTTTCAAATA
68281544 TTTTATGTTTTA-TTTCAAATA
1 TTTTAT-TTTTATTTTCAAATA
68281565 TTTT
1 TTTT
68281569 GCGAGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTTTTATTTTCAAATA
Found at i:68285645 original size:12 final size:12
Alignment explanation
Indices: 68285614--68285667 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
68285604 AGAAAAGTTG
68285614 GAACAAATGC-A
1 GAACAAATGCAA
*
68285625 GAAAGAAATGCAA
1 G-AACAAATGCAA
68285638 GAACAAATGCAA
1 GAACAAATGCAA
* *
68285650 GCACAAGTGCAA
1 GAACAAATGCAA
*
68285662 GCACAA
1 GAACAA
68285668 CTAGCTAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
11 1 0.03
12 34 0.92
13 2 0.05
ACGTcount: A:0.54, C:0.19, G:0.20, T:0.07
Consensus pattern (12 bp):
GAACAAATGCAA
Found at i:68288057 original size:26 final size:26
Alignment explanation
Indices: 68288027--68288088 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
68288017 CAAAGCTCTG
*
68288027 CACATTACTACCAGATGCAAAAGGTA
1 CACATTACCACCAGATGCAAAAGGTA
* *
68288053 TACATTACCACCAGATGCAAAGGGTA
1 CACATTACCACCAGATGCAAAAGGTA
68288079 CACATTACCA
1 CACATTACCA
68288089 GGAGTCTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (26 bp):
CACATTACCACCAGATGCAAAAGGTA
Found at i:68294211 original size:88 final size:88
Alignment explanation
Indices: 68294112--68294395 Score: 236
Period size: 88 Copynumber: 3.2 Consensus size: 88
68294102 GGTAGCAAGA
* * * * *
68294112 GAGCAGGTTGAAAATTGTAGTCTTATCTTCCTAAGGTAGCAAGAAAGTAGACTAAGGATTGTAGA
1 GAGCAGATTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGGATTGTAGA
*
68294177 TCTTGTCTCCCTAAGCAGTAGTG
66 TCTTATCTCCCTAAGCAGTAGTG
* * * * * * * * * * **
68294200 GAGCAGATTGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGGAGATTTTAGCCA--CC
1 GAGCAGATTGAAGATTG-TAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA-CTAAG-GATTGT
* * * **
68294263 AG-CCTTATCTCTCTATG-A-TAACAAG
63 AGATCTTATCTCCCTAAGCAGT-A-GTG
* * * *
68294288 AGAGCAGGTTTAAGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAGGATTGTAG
1 -GAGCAGATTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGGATTGTAG
68294353 ATCTTATCTCCCTAAGCAGTAGTG
65 ATCTTATCTCCCTAAGCAGTAGTG
68294377 GAGCAGATTGAAGATTGTA
1 GAGCAGATTGAAGATTGTA
68294396 AAATTTATCT
Statistics
Matches: 141, Mismatches: 44, Indels: 22
0.68 0.21 0.11
Matches are distributed among these distances:
86 2 0.01
87 5 0.04
88 72 0.51
89 55 0.39
90 5 0.04
91 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (88 bp):
GAGCAGATTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGGATTGTAGA
TCTTATCTCCCTAAGCAGTAGTG
Found at i:68294365 original size:177 final size:176
Alignment explanation
Indices: 68294044--68294450 Score: 555
Period size: 177 Copynumber: 2.3 Consensus size: 176
68294034 GTGAAGTCAG
* * * *
68294044 ATCTTATCTCCCAAGGTAGTAGGGGAGAAAATTTTAGCCACTAGCCTTATCTCTCTAAGGTAGCA
1 ATCTTATCTCCCAAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGATAACA
*
68294109 AGAGAGCAGGTTGAAAATTGTAGTCTTATCTTCCTAAGGTAGCAAGAAAGTAGACTAAGGATTGT
66 AGAGAGCAGGTTGAAAATTGTAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTAAGGATTGT
*
68294174 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGA
131 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGA
* * * *
68294220 ATCTTATCTTCCCGAGGTAGCAGGGGAGGAGATTTTAGCCACCAGCCTTATCTCTCTATGATAAC
1 ATCTTATC-TCCCAAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGATAAC
* * * * * *
68294285 AAGAGAGCAGGTTTAAGATTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAGGATTG
65 AAGAGAGCAGGTTGAAAATTGTAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTAAGGATTG
***
68294350 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAAA
130 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGGCGA
* * ** **
68294398 AT-TTATCTTCCCAATGTAGTAAAGGAGAAAATTCAAGCCACCAGCCTTATCTC
1 ATCTTATC-TCCCAAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTC
68294451 CCTGAAGTTG
Statistics
Matches: 201, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
176 8 0.04
177 188 0.94
178 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (176 bp):
ATCTTATCTCCCAAGGTAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGATAACA
AGAGAGCAGGTTGAAAATTGTAGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTAAGGATTGT
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGA
Found at i:68296078 original size:13 final size:13
Alignment explanation
Indices: 68296060--68296089 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
68296050 GTTATTCATT
*
68296060 TTTTAACATATTA
1 TTTTAACATAGTA
68296073 TTTTAACATAGTA
1 TTTTAACATAGTA
68296086 TTTT
1 TTTT
68296090 GAACTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTTAACATAGTA
Found at i:68296782 original size:22 final size:22
Alignment explanation
Indices: 68296738--68296786 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
68296728 TTAAACTTTA
68296738 TATTTTACATATTATTTATTTT
1 TATTTTACATATTATTTATTTT
68296760 TATTTT-CAT-TTATTTTATGTTT
1 TATTTTACATATTA-TTTAT-TTT
68296782 TATTT
1 TATTT
68296787 CAAATATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.12
21 8 0.32
22 14 0.56
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTACATATTATTTATTTT
Found at i:68296786 original size:16 final size:16
Alignment explanation
Indices: 68296749--68296786 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
68296739 ATTTTACATA
68296749 TTATTTATTTTTATTT
1 TTATTTATTTTTATTT
*
68296765 TCATTTA-TTTTATGTT
1 TTATTTATTTTTAT-TT
68296781 TTATTT
1 TTATTT
68296787 CAAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTATTTATTTTTATTT
Found at i:68296794 original size:21 final size:21
Alignment explanation
Indices: 68296752--68296795 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
68296742 TTACATATTA
**
68296752 TTTATTTTTATTTTCATTTAT
1 TTTATTTTTATTTTCAAATAT
68296773 TTTATGTTTTA-TTTCAAATAT
1 TTTAT-TTTTATTTTCAAATAT
68296794 TT
1 TT
68296796 CGCGAGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTATTTTTATTTTCAAATAT
Found at i:68298412 original size:16 final size:16
Alignment explanation
Indices: 68298393--68298425 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
68298383 TGAACCCGTT
68298393 CTTTTAAGTCTATTTA
1 CTTTTAAGTCTATTTA
68298409 CTTTTAAGTCTATTTA
1 CTTTTAAGTCTATTTA
68298425 C
1 C
68298426 ATATAGTGAA
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:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (16 bp):
CTTTTAAGTCTATTTA
Found at i:68307394 original size:39 final size:39
Alignment explanation
Indices: 68307340--68307494 Score: 238
Period size: 39 Copynumber: 4.0 Consensus size: 39
68307330 AGTGATGAAG
*
68307340 TATATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
68307379 TATATCCAGACTTAAGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
68307418 TATATCCGGACCTAAGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
68307457 TATAACCGGACTTAAGGTCCGCAGGCTACGTACTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
68307495 ATATGTCCAG
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 104 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:68307520 original size:78 final size:77
Alignment explanation
Indices: 68307340--68307522 Score: 224
Period size: 78 Copynumber: 2.3 Consensus size: 77
68307330 AGTGATGAAG
* * *
68307340 TATATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAATTATATCCAGACTTAAGGTCCGCAAGC
1 TATATCCGGAC-TAAAGTCCGCAGGCTATGTGCTGGAATTATAACCAGACTTAAGGTCCGCAAGC
* * *
68307405 TATGTGCTGGAAT
65 TACGTACTGGAAA
* * * *
68307418 TATATCCGGACCTAAGGTCTGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGC
1 TATATCCGGA-CTAAAGTCCGCAGGCTATGTGCTGGAATTATAACCAGACTTAAGGTCCGCAAGC
68307483 TACGTACTGGAAA
65 TACGTACTGGAAA
*
68307496 TATGTCCAGG-CTAAAGTCCCGCAGGCT
1 TATATCC-GGACTAAAGT-CCGCAGGCT
68307523 TCGAGCTGGT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
77 6 0.06
78 84 0.90
79 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (77 bp):
TATATCCGGACTAAAGTCCGCAGGCTATGTGCTGGAATTATAACCAGACTTAAGGTCCGCAAGCT
ACGTACTGGAAA
Found at i:68330575 original size:18 final size:18
Alignment explanation
Indices: 68330554--68330589 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
68330544 AGTAAGTAAG
68330554 TATATAAATAACAAATAA
1 TATATAAATAACAAATAA
68330572 TATATAAATAACAAATAA
1 TATATAAATAACAAATAA
68330590 GGAATCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
TATATAAATAACAAATAA
Found at i:68333219 original size:11 final size:10
Alignment explanation
Indices: 68333180--68333215 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
68333170 GTTTATAAAC
68333180 ACTTTTATAA
1 ACTTTTATAA
68333190 ACTTTTATAA
1 ACTTTTATAA
68333200 ACTTTTATAA
1 ACTTTTATAA
68333210 ACTTTT
1 ACTTTT
68333216 TATATTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (10 bp):
ACTTTTATAA
Found at i:68335098 original size:18 final size:20
Alignment explanation
Indices: 68335062--68335108 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
68335052 AGTTGTAAGT
68335062 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
68335082 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
68335101 ATGATATA
1 AT-ATATA
68335109 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:68335589 original size:50 final size:50
Alignment explanation
Indices: 68335515--68335690 Score: 189
Period size: 50 Copynumber: 3.5 Consensus size: 50
68335505 TTAGGTCACG
* * *
68335515 TGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATTCTTAGGTTGCA
1 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTTGCA
* * * * *
68335565 TGTGTAGTACTAAGTACAATCTACTACGTGTATCTA-ATGGTTAGG-T-CA
1 TGTGTAGTACTAAGTGCAAGCTACTACATGTA-CCAGATTGTTAGGTTGCA
* * *
68335613 TGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGATCGCA
1 --TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTTGCA
68335665 TGTGTAGTA-TGAAGTGCAAGCTACTA
1 TGTGTAGTACT-AAGTGCAAGCTACTA
68335691 TGCGTACCAG
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
48 2 0.02
49 4 0.04
50 92 0.90
51 2 0.02
52 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTTGCA
Found at i:68335636 original size:100 final size:101
Alignment explanation
Indices: 68335461--68335690 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 101
68335451 TGTGAGAACA
* * *
68335461 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACGTGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAAGCTACTACGTGTATAAAATGG-TTTAGGTCACGTGTGTAGTACT
* * *
68335526 ATGTGCAGGCTACTACATGTACCAGATTCTTAGGTTG
65 AAGTGCAGGCTACTACATGTACCAGATTCTTAGATCG
* * ** *
68335563 CATGTGTAGTACTAAGTACAATCTACTACGTGTATCTAATGG-TTAGGTCATGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAAGCTACTACGTGTATAAAATGGTTTAGGTCACGTGTGTAGTACTA
*
68335627 AGTGCAGGCTACTACATGTACCAGATTGTTAGATCG
66 AGTGCAGGCTACTACATGTACCAGATTCTTAGATCG
68335663 CATGTGTAGTA-TGAAGTGCAAGCTACTA
1 CATGTGTAGTACT-AAGTGCAAGCTACTA
68335691 TGCGTACCAG
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 1 0.01
100 77 0.68
102 35 0.31
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (101 bp):
CATGTGTAGTACTAAGTGCAAGCTACTACGTGTATAAAATGGTTTAGGTCACGTGTGTAGTACTA
AGTGCAGGCTACTACATGTACCAGATTCTTAGATCG
Found at i:68335923 original size:16 final size:16
Alignment explanation
Indices: 68335902--68335933 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
68335892 AGAATGGAGT
68335902 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
68335918 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
68335934 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:68341815 original size:18 final size:20
Alignment explanation
Indices: 68341779--68341825 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
68341769 AGTTGTAAGT
68341779 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
68341799 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
68341818 ATGATATA
1 AT-ATATA
68341826 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:68342306 original size:50 final size:50
Alignment explanation
Indices: 68342177--68342409 Score: 184
Period size: 50 Copynumber: 4.6 Consensus size: 50
68342167 GTTGTGAGAA
** * *** * * *
68342177 CACATGTGTAGTACTGTGTGCAAGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG--TTAGAT
* * * *
68342229 CACGTGTGTAGCACTATGTGCAAGCTACTACGTGTACCAGATTGTTAGAT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGAT
* * * * *
68342279 CGCATGTGTAGTACGAAGTGCAGGCTACTA-TTCGTACTC-GATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGT-GTAC-CAGATAG-TTAGAT
* * * *
68342330 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGCATCCA-ATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CCAGATAGTTAGAT
*
68342380 CACATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAAGCTACTA
68342410 TGCGTACTAG
Statistics
Matches: 145, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
49 1 0.01
50 69 0.48
51 38 0.26
52 37 0.26
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGAT
Found at i:68342349 original size:51 final size:49
Alignment explanation
Indices: 68342276--68342428 Score: 155
Period size: 50 Copynumber: 3.0 Consensus size: 49
68342266 CAGATTGTTA
* *
68342276 GATCGCATGTGTAGTACGAAGTGCAGGCTACTATTCGTACTCGATAGCTTC
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTA-TCGTACTCGA-AGCTTC
* * * * * *
68342327 GATCACGTGTGTAGTACTAAGTGCAAGCTACTA-CGTGCATCCAATGGTTA
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTATCGTAC-TCGAA-GCTTC
* *
68342377 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGAGAGCTTC
1 GATCACATGTGTAGTACTAAGTGCAGGCTACTAT-CGTACTCGA-AGCTTC
68342428 G
1 G
68342429 GTTACAAGGG
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
49 5 0.06
50 36 0.44
51 35 0.43
52 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
GATCACATGTGTAGTACTAAGTGCAGGCTACTATCGTACTCGAAGCTTC
Found at i:68342359 original size:101 final size:101
Alignment explanation
Indices: 68342228--68342428 Score: 296
Period size: 101 Copynumber: 2.0 Consensus size: 101
68342218 TGGTTTTAGG
* * * *
68342228 TCACGTGTGTAGCACTATGTGCAAGCTACTACGTGTA-CCAGATTGTTAGATCGCATGTGTAGTA
1 TCACGTGTGTAGCACTAAGTGCAAGCTACTACGTGCATCCA-ATGGTTAGATCACATGTGTAGTA
* * *
68342292 CGAAGTGCAGGCTACTATTCGTACTCGATAGCTTCGA
65 CGAAGTGCAGGCTACTATGCGTACTAGAGAGCTTCGA
* *
68342329 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGCATCCAATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGCACTAAGTGCAAGCTACTACGTGCATCCAATGGTTAGATCACATGTGTAGTAC
*
68342394 TAAGTGCAGGCTACTATGCGTACTAGAGAGCTTCG
66 GAAGTGCAGGCTACTATGCGTACTAGAGAGCTTCG
68342429 GTTACAAGGG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 86 0.97
102 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGCACTAAGTGCAAGCTACTACGTGCATCCAATGGTTAGATCACATGTGTAGTAC
GAAGTGCAGGCTACTATGCGTACTAGAGAGCTTCGA
Found at i:68346878 original size:6 final size:6
Alignment explanation
Indices: 68346860--68346978 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
68346850 AAGAAACATT
* *
68346860 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACA-A ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
68346908 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
68346959 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
68346979 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
5 8 0.09
6 64 0.73
7 14 0.16
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:68346934 original size:19 final size:19
Alignment explanation
Indices: 68346910--68346967 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
68346900 AAATCAGAAT
68346910 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
68346929 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
68346941 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
68346960 CAGAATCA
1 CAGAATCA
68346968 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:68346942 original size:31 final size:31
Alignment explanation
Indices: 68346869--68346978 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
68346859 TATCAGAACT
* * * *
68346869 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
68346900 A-AATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
68346930 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
68346961 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
68346979 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
30 27 0.37
31 35 0.48
32 11 0.15
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:68347157 original size:27 final size:26
Alignment explanation
Indices: 68347115--68347216 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
68347105 GCTCAGTTAT
* *
68347115 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
68347142 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
68347168 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
68347196 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
68347217 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:68347403 original size:22 final size:22
Alignment explanation
Indices: 68347375--68347438 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
68347365 GCAAATACGT
*
68347375 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
68347397 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
68347419 TTGACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
68347439 AAAGGCTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:68347922 original size:27 final size:27
Alignment explanation
Indices: 68347865--68348086 Score: 256
Period size: 27 Copynumber: 8.3 Consensus size: 27
68347855 GAGGCAAAAT
* * * *
68347865 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
68347891 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
68347918 AGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
68347945 GGTAATTCTACCCTACAGGGATATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
*
68347972 GATAATTCTA-CCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
68347998 GGTAATTCTACCCTAC-GAAGGTATTTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
*
68348025 GGTAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
68348052 GGTAATTCTACCATACAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
68348079 GGT-ATTCT
1 GGTAATTCT
68348087 GGTAATTTTG
Statistics
Matches: 166, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 42 0.25
27 121 0.73
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:68347986 original size:80 final size:80
Alignment explanation
Indices: 68347893--68348086 Score: 234
Period size: 80 Copynumber: 2.4 Consensus size: 80
68347883 GGTATCTCGG
* * * * *
68347893 TAATTCCACCCTACAGGGGTATTTTAGTAATTTTACCTTAC-AGGGGTATTTCGGTAATTCTACC
1 TAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTACGA-AGGTATTTCGGTAATTCTACC
68347957 CTACA-GGGATATTGT-GA
64 CTACAGGGGA-ATT-TCGA
*
68347974 TAATTCTACCTACAGGGGTATTTCGGTAATTCTACCCTACGAAGGTATTTCGGTAATTCTACCCT
1 TAATTCTACCTACAGGGGTATTTCAGTAATTCTACCCTACGAAGGTATTTCGGTAATTCTACCCT
*
68348039 ACAGGGGAATTTCGG
66 ACAGGGGAATTTCGA
* *
68348054 TAATTCTACCATACAGGTGTATTTCGGT-ATTCT
1 TAATTCTACC-TACAGGGGTATTTCAGTAATTCT
68348087 GGTAATTTTG
Statistics
Matches: 101, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
79 1 0.01
80 72 0.71
81 28 0.28
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (80 bp):
TAATTCTACCTACAGGGGTATTTCAGTAATTCTACCCTACGAAGGTATTTCGGTAATTCTACCCT
ACAGGGGAATTTCGA
Found at i:68348173 original size:27 final size:28
Alignment explanation
Indices: 68348143--68348301 Score: 114
Period size: 27 Copynumber: 5.9 Consensus size: 28
68348133 GGTACTTTGG
68348143 TAATTTTACAAGTCGA-GGGTATTTCAA
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* *
68348170 TAATTTTACAGGTCGA-GGGTATTTCAG
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* * ***
68348197 TAATTTCACAAATC-AGGGGTATTTTGT
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* * **
68348224 TAATTTTACAA-ACTAGGGGTATTTTGA
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* * ***
68348251 TAATTTTACAA-ACCAGGGGTATTTTGG
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* *
68348278 TAATTTTACAA-ACTAGGGGTATTT
1 TAATTTTACAAGTCGAGGGGTATTT
68348302 TGGTAATTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 114 0.98
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (28 bp):
TAATTTTACAAGTCGAGGGGTATTTCAA
Found at i:68348217 original size:81 final size:80
Alignment explanation
Indices: 68348127--68348572 Score: 385
Period size: 81 Copynumber: 5.5 Consensus size: 80
68348117 AATTCTATAG
* * * * * ***
68348127 ATCAAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGTA
1 ATCAGGGGTATTTTGGTAATTTTACAA-ACAAGGGTATTTTAATAATTTTACAAACCAG-GGGTA
68348191 TTTCAGTAATTTCACAA
64 TTTCAGTAATTTCACAA
* * *
68348208 ATCAGGGGTATTTTGTTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTAT
1 ATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTTAATAATTTTACAAACCAGGGGTAT
** *
68348273 TTTGGTAATTTTACAA
65 TTCAGTAATTTCACAA
* *
68348289 A-CTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTA
1 ATC-AGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAATAATTTTACAAACCAGGGGTA
** ***
68348353 TTTTGGTAATTTTGTAA
64 TTTCAGTAATTTCACAA
* * * ** * * *
68348370 A-CTAAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTA
1 ATC-AGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAATAATTTTACAAACCAGGGGTA
* *
68348434 TTTTAGTAATTTTACAA
64 TTTCAGTAATTTCACAA
* ** **
68348451 ACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTAT
1 ATCAGGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTAATAATTTTACAAACCAGGGGTAT
** * * *
68348516 TTTGGTGATTTTATAA
65 TTCAGTAATTTCACAA
* * * *
68348532 ACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTT
1 ATCAGGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTT
68348573 GGTAATTTGG
Statistics
Matches: 309, Mismatches: 50, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
80 3 0.01
81 303 0.98
82 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
ATCAGGGGTATTTTGGTAATTTTACAAACAAGGGTATTTTAATAATTTTACAAACCAGGGGTATT
TCAGTAATTTCACAA
Found at i:68348587 original size:54 final size:54
Alignment explanation
Indices: 68348132--68348580 Score: 587
Period size: 54 Copynumber: 8.3 Consensus size: 54
68348122 TATAGATCAA
* * ** * * * ** *
68348132 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
** * * * *
68348185 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTT-GTTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG-TAATTTTACAAACTAG
* * * *
68348240 GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
*
68348294 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * *
68348348 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
68348402 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * *
68348456 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
*
68348510 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
68348564 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
68348581 GGTAAACTAA
Statistics
Matches: 351, Mismatches: 41, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
54 347 0.99
55 4 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:68348589 original size:27 final size:27
Alignment explanation
Indices: 68348186--68348580 Score: 529
Period size: 27 Copynumber: 14.6 Consensus size: 27
68348176 TACAGGTCGA
** * *
68348186 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
68348213 GGGTATTTTGTTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
68348240 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
68348267 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
68348294 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
68348321 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
68348348 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
68348375 GGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
68348402 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
68348429 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
68348456 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
68348483 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
68348510 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
68348537 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
68348564 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
68348581 GGTAAACTAA
Statistics
Matches: 318, Mismatches: 50, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 318 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:68350846 original size:49 final size:47
Alignment explanation
Indices: 68350784--68350943 Score: 155
Period size: 49 Copynumber: 3.3 Consensus size: 47
68350774 CAGGGTATAC
*
68350784 AAGCTAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CCGATAGATA
* * *
68350832 AGAGCCAGTGTAAGACTTGTCTAGGACATGGCATCGGCCTCGATAAATGA
1 A-AGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACC-CGATAGAT-A
* * * * *
68350882 AAGTCAGTGTAAGACAT-TTTAGGACACGGCATCGACTTCGAT-G-TGA
1 AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CCGATAGAT-A
*
68350928 TAGCCAGTGTAAGACC
1 AAGCCAGTGTAAGACC
68350944 ATGTTTGAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 16 0.17
48 22 0.23
49 54 0.57
50 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (47 bp):
AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGACCCGATAGATA
Found at i:68355311 original size:16 final size:16
Alignment explanation
Indices: 68355290--68355324 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
68355280 ATTTAGTCAT
68355290 ATAATAAATTATAAA-A
1 ATAATAAATT-TAAATA
68355306 ATAATAAATTTAAATA
1 ATAATAAATTTAAATA
68355322 ATA
1 ATA
68355325 TTATTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATAAATTTAAATA
Found at i:68355410 original size:19 final size:19
Alignment explanation
Indices: 68355358--68355412 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
68355348 TTCAATATTA
*
68355358 ATATTTTAATAATAAATAT
1 ATATATTAATAATAAATAT
*
68355377 -T-TATTACAATTATAAATAT
1 ATATATT--AATAATAAATAT
68355396 ATATATTAATAATAAAT
1 ATATATTAATAATAAAT
68355413 GTTTTGTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
17 3 0.10
18 1 0.03
19 20 0.69
20 1 0.03
21 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATTAATAATAAATAT
Found at i:68381279 original size:16 final size:17
Alignment explanation
Indices: 68381258--68381289 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
68381248 AAGTAATGGC
68381258 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
68381274 TTCATGATCATTATGA
1 TTCATGATCATTATGA
68381290 AAGTGACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:68389354 original size:11 final size:10
Alignment explanation
Indices: 68389338--68389372 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
68389328 GATGATGAAA
68389338 AAAGAAAAGAG
1 AAAGAAAA-AG
68389349 AAAGAAAAAG
1 AAAGAAAAAG
*
68389359 AAAAAAAAAG
1 AAAGAAAAAG
68389369 AAAG
1 AAAG
68389373 GCTCTCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:68390683 original size:40 final size:40
Alignment explanation
Indices: 68390628--68390846 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
68390618 TGGATGATAA
* * *
68390628 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
68390668 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
68390708 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
68390748 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
68390788 CCGGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
68390829 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
68390847 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 14 0.09
40 115 0.71
41 34 0.21
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:68397231 original size:46 final size:46
Alignment explanation
Indices: 68397181--68397353 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
68397171 TGGTTGAGCA
68397181 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
68397227 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
68397272 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68397320 CCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
68397354 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68397337 original size:93 final size:93
Alignment explanation
Indices: 68397178--68397348 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
68397168 GGATGGTTGA
* *
68397178 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68397243 TGAGTT-CGAGTTCGTGAGATGTAACTAG
66 TGA-TTCCGAGTTCGTGAGATGTAACTAG
* *
68397271 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68397336 TGATTCCGAGTTC
66 TGATTCCGAGTTC
68397349 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGATTCCGAGTTCGTGAGATGTAACTAG
Found at i:68399838 original size:20 final size:20
Alignment explanation
Indices: 68399813--68399853 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
68399803 ATTTCAGTTA
*
68399813 CTTAGACAGCGCCCACTTGT
1 CTTAGACAACGCCCACTTGT
68399833 CTTAGACAACGCCCACTTGT
1 CTTAGACAACGCCCACTTGT
68399853 C
1 C
68399854 CTAGGATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (20 bp):
CTTAGACAACGCCCACTTGT
Found at i:68400935 original size:21 final size:21
Alignment explanation
Indices: 68400906--68400953 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
68400896 AGTCCATTTG
* * *
68400906 TTTTCTTTTCTTTTTCTTTTCA
1 TTTT-TTTTATTTTTATGTTCA
68400928 TTTTTTTTATTTTTATGTTCA
1 TTTTTTTTATTTTTATGTTCA
68400949 TTTTT
1 TTTTT
68400954 ATTTTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTTTATTTTTATGTTCA
Found at i:68401977 original size:3 final size:3
Alignment explanation
Indices: 68401971--68401996 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
68401961 AAATGATGAA
68401971 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
68401997 CACATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:68404064 original size:55 final size:54
Alignment explanation
Indices: 68403991--68404113 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 54
68403981 GTTTTACTTG
** * ** *
68403991 CACACATATATTGGAGTCACATATCGATGCCAATGTATAAAACGTGGTCTTACT
1 CACACATATATCAGAGTCACATATCAATGCCAACATATAAAACATGGTCTTACT
68404045 CTACACATATATCAGAGTCACATATCAATGCCAACATATAAAACATGGTCTTACT
1 C-ACACATATATCAGAGTCACATATCAATGCCAACATATAAAACATGGTCTTACT
68404100 CACGCACATATATC
1 CA--CACATATATC
68404114 GATGCCATGG
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
54 2 0.03
55 48 0.80
56 10 0.17
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.28
Consensus pattern (54 bp):
CACACATATATCAGAGTCACATATCAATGCCAACATATAAAACATGGTCTTACT
Found at i:68412085 original size:49 final size:50
Alignment explanation
Indices: 68412017--68412252 Score: 269
Period size: 49 Copynumber: 4.7 Consensus size: 50
68412007 AGGTCATGTT
* * *
68412017 TGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-GGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTAGGTCACATG
* * * * *
68412066 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TTAGGTCACATG
* * ** *
68412117 TGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTAGGTCACATG
** *
68412167 TGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTAGGTCACATG
* * * *
68412216 TGTAGCACTAAGAGCAGGCTACTAAGCGTACCAGATA
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
68412253 GCTTTGGCTA
Statistics
Matches: 157, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 72 0.46
50 46 0.29
51 39 0.25
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTAGGTCACATG
Found at i:68412198 original size:101 final size:98
Alignment explanation
Indices: 68412017--68412252 Score: 283
Period size: 101 Copynumber: 2.4 Consensus size: 98
68412007 AGGTCATGTT
* * * *
68412017 TGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGCA
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCA
** *
68412082 GGCTACTATGCGTACCCGATAACTTCGATCACGTG
66 GGCTACTACACGTACCCGATAA-TT-GATCACATG
* ** *
68412117 TGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCACATGTGTAGTACTAAGTGC
* * * *
68412182 AGGCTACTACATGTACCGGATAATTGGTCGCATG
65 AGGCTACTACACGTACCCGATAATTGATCACATG
* * *
68412216 TGTAGCACTAAGAGCAGGCTACTAAGCGTACCAGATA
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
68412253 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
99 38 0.33
100 36 0.31
101 41 0.36
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (98 bp):
TGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCA
GGCTACTACACGTACCCGATAATTGATCACATG
Found at i:68416135 original size:5 final size:5
Alignment explanation
Indices: 68416110--68416174 Score: 57
Period size: 5 Copynumber: 13.4 Consensus size: 5
68416100 TGATACGTGG
* * *
68416110 GATAT GATAT -ACAT GAT-T GATAT GATAT GCACAT GACAT G-TAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT G-ATAT GATAT GATAT GATAT
68416158 GCATAT GATAT G-TAT GA
1 G-ATAT GATAT GATAT GA
68416175 AGTGCACATG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 14 0.28
5 27 0.54
6 9 0.18
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (5 bp):
GATAT
Found at i:68416145 original size:20 final size:19
Alignment explanation
Indices: 68416112--68416190 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 19
68416102 ATACGTGGGA
68416112 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
68416129 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
*
68416150 TATGATATGCATATGATATG
1 TATGATATGCACATGAT-TG
68416170 TATGA-AGTGCACATGA-TG
1 TATGATA-TGCACATGATTG
68416188 TAT
1 TAT
68416191 TCATAAATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 13 0.25
19 1 0.02
20 36 0.69
21 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:68416164 original size:11 final size:11
Alignment explanation
Indices: 68416129--68416169 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
68416119 TACATGATTG
68416129 ATATGATATGC
1 ATATGATATGC
* *
68416140 ACATGACATG-
1 ATATGATATGC
68416150 -TATGATATGC
1 ATATGATATGC
68416160 ATATGATATG
1 ATATGATATG
68416170 TATGAAGTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
11 17 0.71
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (11 bp):
ATATGATATGC
Found at i:68416265 original size:26 final size:26
Alignment explanation
Indices: 68416236--68416380 Score: 176
Period size: 26 Copynumber: 5.8 Consensus size: 26
68416226 AAAGAAGTGC
*
68416236 AAAAGTGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTACCG
* **
68416262 AAAAGGGC--A--CCCCAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTACCG
*
68416284 AAAAGGGCTTATGCCCTAGTTTACTG
1 AAAAGGGCTTATGCCCTAGTTTACCG
**
68416310 AAAAGGGCTTATGCCCTAGTTTGTCG
1 AAAAGGGCTTATGCCCTAGTTTACCG
*
68416336 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTACCG
68416361 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCTAGTT
68416381 ATTAAAAGAG
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
22 18 0.18
24 2 0.02
25 31 0.30
26 51 0.50
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCTAGTTTACCG
Found at i:68416307 original size:48 final size:50
Alignment explanation
Indices: 68416236--68416369 Score: 175
Period size: 48 Copynumber: 2.7 Consensus size: 50
68416226 AAAGAAGTGC
* *
68416236 AAAAGTGCTTATGCCCTAGTTTACCGAAAAGGGC-A-CCCCAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTAGCCCCAGTTTATCG
* * *
68416284 AAAAGGGCTTATGCCCTAGTTTACTGAAAAGGGCTTATGCCCTAGTTTGTCG
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGC-TA-GCCCCAGTTTATCG
*
68416336 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCT
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCT
68416370 TTGCCCTAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
48 32 0.43
50 2 0.03
51 21 0.28
52 20 0.27
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTAGCCCCAGTTTATCG
Found at i:68416388 original size:74 final size:74
Alignment explanation
Indices: 68416236--68416380 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 74
68416226 AAAGAAGTGC
* **
68416236 AAAAGTGCTTATGCCCTAGTTTACCGAAAAGGGCACCCCAGTTTATTGAAAAGGGCTTATGCCCT
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCACCCCAGTTTACCGAAAAGGGCTTATGCCCT
68416301 AGTTTACTG
66 AGTTTACTG
** *
68416310 AAAAGGGCTTATGCCCTAGTTTGTCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTT-TGC
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGC---ACCCCAGTTTACCGAAAAGGGCTTATGC
68416374 CCTAGTT
63 CCTAGTT
68416381 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
74 31 0.50
76 10 0.16
77 21 0.34
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (74 bp):
AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCACCCCAGTTTACCGAAAAGGGCTTATGCCCT
AGTTTACTG
Found at i:68424247 original size:20 final size:19
Alignment explanation
Indices: 68424214--68424292 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 19
68424204 ATACGTGGGC
68424214 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
68424231 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
68424252 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
68424272 TATGA-AGTGCACATGA-TG
1 TATGATA-TGCACATGATTG
68424290 TAT
1 TAT
68424293 TCATAAATGC
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 13 0.24
19 1 0.02
20 38 0.70
21 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.34
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:68424419 original size:52 final size:52
Alignment explanation
Indices: 68424338--68424499 Score: 260
Period size: 52 Copynumber: 3.2 Consensus size: 52
68424328 GAGGAAGTGC
68424338 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
* * *
68424390 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
68424442 AAAAGGGCTT-TGCCCTAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
68424490 AAAAGAGGCT
1 AAAAG-GGCT
68424500 AGGCCTCCAG
Statistics
Matches: 103, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
48 5 0.05
49 8 0.08
50 8 0.08
51 23 0.22
52 59 0.57
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:68424461 original size:25 final size:26
Alignment explanation
Indices: 68424338--68424486 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
68424328 GAGGAAGTGC
*
68424338 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
68424364 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
68424390 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
68424416 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
68424442 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
68424467 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
68424487 ATTAAAAGAG
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 32 0.28
26 82 0.72
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:68425769 original size:54 final size:53
Alignment explanation
Indices: 68425648--68425895 Score: 247
Period size: 55 Copynumber: 4.7 Consensus size: 53
68425638 ACCTTAGCAT
* * * * *
68425648 TGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAACTTATCAT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAA
* *
68425697 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-ATGAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGA--AACTTACCAA
* * * *
68425751 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCATTGCCTTATAGTAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAACTTACCAA
* * *
68425806 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAA
* *
68425860 TTGCCATGCCTTGGCATGGTCTTACCTGGTATCCTT
1 -TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
68425896 AAACCCTAAT
Statistics
Matches: 162, Mismatches: 24, Indels: 20
0.79 0.12 0.10
Matches are distributed among these distances:
49 32 0.20
52 3 0.02
53 7 0.04
54 47 0.29
55 69 0.43
56 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAA
Found at i:68425840 original size:109 final size:110
Alignment explanation
Indices: 68425687--68425884 Score: 321
Period size: 109 Copynumber: 1.8 Consensus size: 110
68425677 ATCCTTTTGA
* *
68425687 AACTTATCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-ATGAA-CTCACCA
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA--AACCTCACCA
68425750 A-TGCCATGCCTTGGCATGGTCTTACATGGGACCATTGCCTTATAGT
64 ATTGCCATGCCTTGGCATGGTCTTACATGGGACCATTGCCTTATAGT
* *
68425796 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
68425861 TGCCATGCCTTGGCATGGTCTTAC
66 TGCCATGCCTTGGCATGGTCTTAC
68425885 CTGGTATCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
108 2 0.02
109 55 0.67
110 25 0.30
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCATTGCCTTATAGT
Found at i:68436891 original size:55 final size:53
Alignment explanation
Indices: 68436749--68436956 Score: 231
Period size: 55 Copynumber: 3.8 Consensus size: 53
68436739 ATCCTTTTCA
* *
68436749 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * * *
68436802 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
68436856 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
68436910 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
68436957 AAACCTTAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 9 0.07
55 72 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:68436893 original size:108 final size:110
Alignment explanation
Indices: 68436749--68436949 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
68436739 ATCCTTTTCA
* * *
68436749 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCATCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
68436812 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
68436857 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
68436922 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
68436950 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 6 0.07
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:68440729 original size:56 final size:56
Alignment explanation
Indices: 68440655--68440832 Score: 248
Period size: 56 Copynumber: 3.2 Consensus size: 56
68440645 TCCCAGATAA
* * * * *
68440655 GGTCTTACTCGTAAACACATATTGGAATCACCTATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATTAGAATCACATATCGATGCCAACGTATTAAACGT
* * *
68440711 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAATGTATTAAACAT
1 GGTCTTACTCGCACACACATATTAGAATCACATATCGATGCCAACGTATTAAACGT
* *
68440767 GGTCTTACTCACACACACATATTAGAATCACATATCGATGCCAACGCATTAAACGT
1 GGTCTTACTCGCACACACATATTAGAATCACATATCGATGCCAACGTATTAAACGT
**
68440823 AATCTTACTC
1 GGTCTTACTC
68440833 ATAATCACAT
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 107 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATTAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:68440855 original size:43 final size:43
Alignment explanation
Indices: 68440792--68440930 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
68440782 CACATATTAG
* ** *
68440792 AATCACATATCGATGCCAACG-CATTAAACGTAATCTTACTCAT
1 AATCACATATCGATGGCAACGTC-CCAAACGTAATCTTACACAT
* ** *
68440835 AATCACATATCGATGGCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGGCAACGTCCCAAACGTAATCTTACACAT
* ** *
68440878 AATCACATATCGATGGCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGGCAACGTCCCAAACGTAATCTTACACAT
68440921 AATCACATAT
1 AATCACATAT
68440931 TGGAAATCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 86 0.99
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
AATCACATATCGATGGCAACGTCCCAAACGTAATCTTACACAT
Found at i:68449828 original size:33 final size:33
Alignment explanation
Indices: 68449756--68449868 Score: 129
Period size: 34 Copynumber: 3.4 Consensus size: 33
68449746 GGTAACTGTT
* * * * *
68449756 AGGGCCTTAGCCCACTTCAGTAATAGCAGCAAT-
1 AGGGCCTAAGCCCA-TTTAGTAACAGTAGCAGTC
*
68449789 ATGGGCCTGAGCCCATTTAGTAACAGTAGCAGTC
1 A-GGGCCTAAGCCCATTTAGTAACAGTAGCAGTC
68449823 AGGGCCTAAGCCCATTTCAGTAACAGTAGCAGTC
1 AGGGCCTAAGCCCATTT-AGTAACAGTAGCAGTC
*
68449857 TGGGCCTAAGCC
1 AGGGCCTAAGCC
68449869 TATTAACATA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
33 30 0.43
34 40 0.57
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (33 bp):
AGGGCCTAAGCCCATTTAGTAACAGTAGCAGTC
Found at i:68454316 original size:27 final size:27
Alignment explanation
Indices: 68454282--68454455 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
68454272 TAAATTGTAC
68454282 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68454309 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68454335 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68454363 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68454391 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68454418 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68454445 AGCACTGAGTG
1 AGCACTAAGTG
68454456 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68454396 original size:82 final size:81
Alignment explanation
Indices: 68454283--68454438 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68454273 AAATTGTACA
* *
68454283 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68454347 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68454364 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68454429 TGCGAGTTGA
65 TGCGAATTGA
68454439 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68462368 original size:27 final size:27
Alignment explanation
Indices: 68462334--68462507 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
68462324 TAAATTGTAC
68462334 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68462361 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68462387 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68462415 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68462443 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68462470 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68462497 AGCACTGAGTG
1 AGCACTAAGTG
68462508 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68462448 original size:82 final size:81
Alignment explanation
Indices: 68462335--68462490 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68462325 AAATTGTACA
* *
68462335 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68462399 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68462416 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68462481 TGCGAGTTGA
65 TGCGAATTGA
68462491 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68465305 original size:29 final size:28
Alignment explanation
Indices: 68465243--68465332 Score: 126
Period size: 28 Copynumber: 3.2 Consensus size: 28
68465233 TCTACATACA
* ***
68465243 TCATATGGCCTACTAGGCCCAATCTTTT
1 TCATATGGCCTATTAGGCCCAATCACAT
68465271 TCATATGGCCTATTAGGCCCAAATCACAT
1 TCATATGGCCTATTAGGCCC-AATCACAT
*
68465300 TCATATGGCTTATTAGGCCCAATCACAT
1 TCATATGGCCTATTAGGCCCAATCACAT
68465328 TCATA
1 TCATA
68465333 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (28 bp):
TCATATGGCCTATTAGGCCCAATCACAT
Found at i:68471746 original size:27 final size:28
Alignment explanation
Indices: 68471704--68471759 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
68471694 GAGTAAGCAT
* *
68471704 AATTTGGGCCTAAG-CCATTTCGGTAAC
1 AATTAGGGCCTAAGCCCATTTCAGTAAC
*
68471731 AATTAGGGCCTTAGCCCATTTCAGTAAC
1 AATTAGGGCCTAAGCCCATTTCAGTAAC
68471759 A
1 A
68471760 GTAACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (28 bp):
AATTAGGGCCTAAGCCCATTTCAGTAAC
Found at i:68471840 original size:34 final size:34
Alignment explanation
Indices: 68471736--68471851 Score: 153
Period size: 34 Copynumber: 3.4 Consensus size: 34
68471726 GTAACAATTA
* * * *
68471736 GGGCCTTAGCCCATTTCAGTAACAGTAACAATTT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCT
* * *
68471770 GGGCCTAAGCCCATTTGAGTAACTGTTGCAGTCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCT
*
68471804 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGCCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCT
68471838 GGG-CTAAGCCCATT
1 GGGCCTAAGCCCATT
68471852 AACAAAGTAG
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
33 11 0.15
34 60 0.85
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCT
Found at i:68474889 original size:56 final size:56
Alignment explanation
Indices: 68474808--68474980 Score: 231
Period size: 56 Copynumber: 3.1 Consensus size: 56
68474798 CATGGCATAG
* * * * *
68474808 GATTCCGATATGTGATGTGTGAGTAAGACCATGTTTAATATGTTGGCATCAATATGT
1 GATTTCGATATATG-TGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
*
68474865 GATTTCGATATATGTGTGTGAGTAAGACCACGTTTAATACATTGGCATCGATATGT
1 GATTTCGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
* * * *
68474921 GA-TTCTGATATATATGTGCGAGTAAGACCACGTCTAGTACGTTGGCATCGATATGT
1 GATTTC-GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
68474977 GATT
1 GATT
68474981 ACATGTAAGA
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
55 3 0.03
56 87 0.84
57 13 0.13
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (56 bp):
GATTTCGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT
Found at i:68479130 original size:21 final size:21
Alignment explanation
Indices: 68479061--68479130 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
68479051 GGAACACTAA
*
68479061 ATTTTTATTACTTTA-GACATTT
1 ATTTTTATTA-TTTATTA-ATTT
* *
68479083 ATTTTTATTGCAATT-TTATTTT
1 ATTTTTATT--ATTTATTAATTT
68479105 A-TTTTATTATTTATTAATTT
1 ATTTTTATTATTTATTAATTT
68479125 ATTTTT
1 ATTTTT
68479131 TTCTCTCTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 11 0.29
22 13 0.34
23 3 0.08
24 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (21 bp):
ATTTTTATTATTTATTAATTT
Found at i:68489962 original size:14 final size:13
Alignment explanation
Indices: 68489937--68489969 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
68489927 CATTTTAGAT
68489937 TCAGAT-TACAAA
1 TCAGATATACAAA
68489949 GTCAGATATACAAA
1 -TCAGATATACAAA
68489963 TCAGATA
1 TCAGATA
68489970 ATCGGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (13 bp):
TCAGATATACAAA
Found at i:68504616 original size:27 final size:28
Alignment explanation
Indices: 68504578--68504691 Score: 137
Period size: 27 Copynumber: 4.2 Consensus size: 28
68504568 CAGCATGGCT
* *
68504578 ACCAGA-ACAGATA-TTGTGACAGAGTC
1 ACCAGATACAGATATTTGTGGCAGAGCC
* *
68504604 ACCAGATACAGATA-TCGTGGTAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
* *
68504631 ACCAGAAATAGATATTTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
*
68504659 ACCAGAT-CAAATATTTGTGGCAGAGCC
1 ACCAGATACAGATATTTGTGGCAGAGCC
68504686 ACCAGA
1 ACCAGA
68504692 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (28 bp):
ACCAGATACAGATATTTGTGGCAGAGCC
Found at i:68504662 original size:55 final size:54
Alignment explanation
Indices: 68504578--68504692 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
68504568 CAGCATGGCT
* * *
68504578 ACCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TCGTGGTAGAGCC
1 ACCAGAAACAGATATTGTGACAGAGCCACCAGAT-CAAATATTCGTGGCAGAGCC
* * *
68504631 ACCAGAAATAGATATTTGTGGCAGAGCCACCAGATCAAATATTTGTGGCAGAGCC
1 ACCAGAAACAGATA-TTGTGACAGAGCCACCAGATCAAATATTCGTGGCAGAGCC
68504686 ACCAGAA
1 ACCAGAA
68504693 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 5 0.09
54 12 0.23
55 36 0.68
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
ACCAGAAACAGATATTGTGACAGAGCCACCAGATCAAATATTCGTGGCAGAGCC
Found at i:68506592 original size:17 final size:17
Alignment explanation
Indices: 68506558--68506592 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
68506548 TAAATATACG
*
68506558 AAATAATAATAGTAATA
1 AAATAATAATAATAATA
*
68506575 AAATAATAATAATGATA
1 AAATAATAATAATAATA
68506592 A
1 A
68506593 CATCAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATAATAATAATAATA
Found at i:68520440 original size:47 final size:47
Alignment explanation
Indices: 68520385--68520515 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 47
68520375 CATAATCGAT
* * *
68520385 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACT-TA-TCCTG
1 AAGTACCTATATCATGGCCCATAGCCAAATCAAGGTAACTCCACT-C-A
*
68520432 GAGTACCTATATCATGGCCCGA-AGCCAAATCAAGGTAACTCCACTCA
1 AAGTACCTATATCATGGCCC-ATAGCCAAATCAAGGTAACTCCACTCA
*
68520479 AAATACCTATATCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATATCATGGCCCATAGCCAAATCAAGGTA
68520516 TTATTCGTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 1 0.01
47 69 0.93
48 3 0.04
49 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.21
Consensus pattern (47 bp):
AAGTACCTATATCATGGCCCATAGCCAAATCAAGGTAACTCCACTCA
Found at i:68520555 original size:50 final size:47
Alignment explanation
Indices: 68520435--68520556 Score: 129
Period size: 47 Copynumber: 2.5 Consensus size: 47
68520425 TATCCTGGAG
* *
68520435 TACCTATATCATGGCCCGAAGCCAAATCAAGGTAACTCCACTCAAAA
1 TACCAATATCATGGCCCGAAGCCAAATCAAGGTAACTCCACCCAAAA
* * * * *
68520482 TACCTATATCATGGCCC-ATAGCCAAATCAAGGTATTATTCGTACCCGAAG
1 TACCAATATCATGGCCCGA-AGCCAAATCAAGGTA--ACTC-CACCCAAAA
*
68520532 TGCCAATATCATGGCCCGAAGCCAA
1 TACCAATATCATGGCCCGAAGCCAA
68520557 TTCATTGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
46 1 0.02
47 32 0.51
49 3 0.05
50 26 0.41
51 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (47 bp):
TACCAATATCATGGCCCGAAGCCAAATCAAGGTAACTCCACCCAAAA
Found at i:68524814 original size:56 final size:56
Alignment explanation
Indices: 68524716--68524825 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
68524706 GACCATGGCA
**
68524716 TCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTGGATATGTTGGCATCGATATGTGACT
**
68524772 TCGATATATGTGTGCGAGTAAGACCTTGTCTAGGATA-G-TGGCATCGATATGTGA
1 TCGATATATGTGTGCGAGTAAGACCACGT-T-GGATATGTTGGCATCGATATGTGA
68524826 TTACATGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 43 0.90
57 2 0.04
58 3 0.06
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTGGATATGTTGGCATCGATATGTGACT
Found at i:68532458 original size:16 final size:17
Alignment explanation
Indices: 68532437--68532469 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68532427 CACATTGAAG
68532437 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
68532453 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
68532470 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:68534962 original size:50 final size:51
Alignment explanation
Indices: 68534860--68534967 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 51
68534850 TATGGGGGAA
68534860 AAGAAGAAGAGAAAGTAGATGAAGAGAAAAGAAAAAAAAAGAAGGGAAAGAAG
1 AAGAAGAAGAGAAAGTAGATGAAGAGAAAAGAAAAAAAAAGAA--GAAAGAAG
** *
68534913 AAGAAGAA-AGGAAA-TAGATGAAGAGAGGAGAAAAGAAAAGAA-AATAGAAG
1 AAGAAGAAGA-GAAAGTAGATGAAGAGAAAAGAAAAAAAAAGAAGAA-AGAAG
68534963 AAGAA
1 AAGAA
68534968 AAAAAACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
49 2 0.04
50 10 0.20
52 26 0.52
53 12 0.24
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.05
Consensus pattern (51 bp):
AAGAAGAAGAGAAAGTAGATGAAGAGAAAAGAAAAAAAAAGAAGAAAGAAG
Found at i:68539760 original size:30 final size:29
Alignment explanation
Indices: 68539726--68539840 Score: 91
Period size: 30 Copynumber: 4.1 Consensus size: 29
68539716 ATGGGGGAAA
68539726 AAAAGAAGAGAAAGTAGATGAAGAGAAAAG
1 AAAAGAAGAGAAAGTAGATGAAGA-AAAAG
* *
68539756 AAAAGAAGGGAAAG-A-A-GAAGAAGAAG
1 AAAAGAAGAGAAAGTAGATGAAGAAAAAG
* **
68539782 --AAGAA-AGGAAGTAGATGAAGAGAGGAG
1 AAAAGAAGAGAAAGTAGATGAAGA-AAAAG
* * *
68539809 AAAAGAAAAGAAAATAGAAGAAGAAAAA-
1 AAAAGAAGAGAAAGTAGATGAAGAAAAAG
68539837 AAAA
1 AAAA
68539841 CTGAATCCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.06
24 6 0.09
25 1 0.01
26 9 0.13
27 9 0.13
28 5 0.07
29 8 0.12
30 26 0.38
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (29 bp):
AAAAGAAGAGAAAGTAGATGAAGAAAAAG
Found at i:68539775 original size:3 final size:3
Alignment explanation
Indices: 68539767--68539833 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
68539757 AAAGAAGGGA
* * * *
68539767 AAG AAG AAG AAG AAG AAG AA- AGG AAG TAG ATG AAG AGAG GAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG AAG
*
68539811 AAG AA- AAG AAA ATAG AAG AAG AA
1 AAG AAG AAG AAG A-AG AAG AAG AA
68539834 AAAAAAACTG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 5 0.10
3 40 0.82
4 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:68539800 original size:53 final size:54
Alignment explanation
Indices: 68539728--68539833 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 54
68539718 GGGGGAAAAA
**
68539728 AAGAAGAGAAAGTAGATGAAGAGAAAAGAAAAGAAGGGAAAGA-AGAAGAAGAAG
1 AAGAAGAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAA-ATAGAAGAAGAAG
* **
68539782 AAGAA-AGGAAGTAGATGAAGAGAGGAGAAAAGAAAAGAAAATAGAAGAAGAA
1 AAGAAGAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAATAGAAGAAGAA
68539834 AAAAAAACTG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.02
53 40 0.87
54 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (54 bp):
AAGAAGAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAATAGAAGAAGAAG
Found at i:68539840 original size:18 final size:17
Alignment explanation
Indices: 68539807--68539840 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68539797 TGAAGAGAGG
*
68539807 AGAAAAGAAAAGAAAAT
1 AGAAAAGAAAAAAAAAT
68539824 AGAAGAAGAAAAAAAAA
1 AGAA-AAGAAAAAAAAA
68539841 CTGAATCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AGAAAAGAAAAAAAAAT
Found at i:68540225 original size:23 final size:23
Alignment explanation
Indices: 68540195--68540241 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
68540185 TACTAATATA
68540195 TGGTTACAATTAATTATAAACCT
1 TGGTTACAATTAATTATAAACCT
68540218 TGGTTACAATTAATTATAAACCT
1 TGGTTACAATTAATTATAAACCT
68540241 T
1 T
68540242 ACCTGCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
TGGTTACAATTAATTATAAACCT
Found at i:68540839 original size:15 final size:15
Alignment explanation
Indices: 68540802--68540830 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
68540792 ATTTCCTATC
68540802 TAATAATAATAATTA
1 TAATAATAATAATTA
68540817 TAATAATAATAATT
1 TAATAATAATAATT
68540831 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:68543093 original size:12 final size:12
Alignment explanation
Indices: 68543076--68543106 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
68543066 ACCTGGCATT
68543076 AACTCAATACCA
1 AACTCAATACCA
68543088 AACTCAATACCA
1 AACTCAATACCA
68543100 AACTCAA
1 AACTCAA
68543107 CCTCTTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
AACTCAATACCA
Found at i:68551448 original size:27 final size:27
Alignment explanation
Indices: 68551324--68551493 Score: 139
Period size: 27 Copynumber: 6.3 Consensus size: 27
68551314 TTAGTTTACC
* *
68551324 AAATTACTGAAATACCC-CCAGTTATA
1 AAATTACTGAAATACCCTCAATTTATA
* *
68551350 AAATTACT-AAAGTACCCCCAGTTTATA
1 AAATTACTGAAA-TACCCTCAATTTATA
** * * *
68551377 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTATA
* * *
68551404 AAATTACCGATATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTATA
* * *
68551431 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTATA
* * *
68551458 AAATTA-TCAAAGTACCCTCAAATTAAA
1 AAATTACTGAAA-TACCCTCAATTTATA
68551485 AAATTACTG
1 AAATTACTG
68551494 TTTTACCATC
Statistics
Matches: 116, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
25 3 0.03
26 17 0.15
27 92 0.79
28 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTATA
Found at i:68551474 original size:54 final size:54
Alignment explanation
Indices: 68551324--68551493 Score: 175
Period size: 54 Copynumber: 3.2 Consensus size: 54
68551314 TTAGTTTACC
* * * * * *
68551324 AAATTACTGAAATACCC-CCAGTTATAAAATTACTAAAGTACCCCCAGTTTATA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACGAAAGTACCCTCAATTTATA
** * * * *
68551377 AAATTACCCAAATATCCTCGATTTGTAAAATTACCGATA-TACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTA-CGAAAGTACCCTCAATTTATA
* *
68551431 AAATTACTGAAATACCCTCGACTTGTAAAATTATC-AAAGTACCCTCAAATTAAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTA-CGAAAGTACCCTCAATTTATA
68551485 AAATTACTG
1 AAATTACTG
68551494 TTTTACCATC
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
53 16 0.17
54 75 0.80
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACGAAAGTACCCTCAATTTATA
Found at i:68551500 original size:27 final size:27
Alignment explanation
Indices: 68551470--68551826 Score: 392
Period size: 27 Copynumber: 13.2 Consensus size: 27
68551460 ATTATCAAAG
* * *
68551470 TACCCTCAAATTAAAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
68551497 TACCATCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
68551524 TACCCTCGATTGACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
68551551 TACCCTCGATTGATAGAATTACTTTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
68551578 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
68551605 TACCTTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
68551632 TACCCTTGATTTACAAAATTACCT-TTT
1 TACCCTCGATTTACAAAATTA-CTGTTT
*
68551659 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
68551686 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
68551713 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
68551740 TACCTTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
68551767 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * **
68551794 TACCTTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
68551821 TACCCT
1 TACCCT
68551827 TAAGGTGTTA
Statistics
Matches: 286, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 2 0.01
27 283 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:68551528 original size:81 final size:80
Alignment explanation
Indices: 68551416--68551826 Score: 367
Period size: 81 Copynumber: 5.1 Consensus size: 80
68551406 ATTACCGATA
* ** *** * * * *** *
68551416 TACCCTCAATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCAAAT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGAAT
*
68551481 TAAAAAATTACTGTTT
66 TACAAAATTACT-TTT
* * * * *
68551497 TACCATCGATTTACAAAATTACTATTTTACCCTCGATTGACAGAATTACCATTTTACCCTCG-AT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGAAT
* *
68551561 TGATAGAATTACTTTTT
66 T-ACAAAATTAC-TTTT
* * * * * * * *
68551578 TACCCTCGATTTATAGAATTACTGTTTTACCTTCAATTTACAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGAAT
68551643 TACAAAATTACCTTTT
66 TACAAAATTA-CTTTT
* * * *
68551659 TACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGAAT
* *
68551724 TACAGAATTACCATTT
66 TACAAAATTA-CTTTT
* * * * *
68551740 TACCTTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCTTC-AAT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGAA-
* *
68551804 TTATAAAATTACCATTT
65 TTACAAAATTA-CTTTT
68551821 TACCCT
1 TACCCT
68551827 TAAGGTGTTA
Statistics
Matches: 272, Mismatches: 53, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
80 4 0.01
81 264 0.97
82 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGAAT
TACAAAATTACTTTT
Found at i:68552106 original size:27 final size:26
Alignment explanation
Indices: 68552062--68552113 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
68552052 CTCGCTGCAA
*
68552062 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
68552089 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
68552114 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:68552360 original size:6 final size:6
Alignment explanation
Indices: 68552329--68552404 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
68552319 ATTGATTCAC
* *
68552329 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
68552378 -TCACCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG A-TTCTG AT
68552405 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
5 4 0.07
6 43 0.77
7 7 0.12
8 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:68552367 original size:31 final size:31
Alignment explanation
Indices: 68552329--68552404 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
68552319 ATTGATTCAC
* *
68552329 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
68552360 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
68552391 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
68552405 AATGTTTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:68554501 original size:27 final size:27
Alignment explanation
Indices: 68554377--68554534 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
68554367 TTAGTTTACC
* * *
68554377 AAATTACTGAAATACCC-CCAGTTATA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
68554403 AAATTACT-AAAGTACCCCCAGTTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
** * *
68554430 AAATTACCAAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
*
68554457 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
68554484 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
*
68554511 AAATTA-TCAAAGTACCCTCGAATT
1 AAATTACTGAAA-TACCCTC-AATT
68554535 ACAAAATTAC
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.03
26 17 0.16
27 84 0.77
28 5 0.05
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:68554540 original size:27 final size:27
Alignment explanation
Indices: 68554372--68554572 Score: 92
Period size: 27 Copynumber: 7.5 Consensus size: 27
68554362 ATACCTTAGT
* * * *
68554372 TTACCAAATTACTGAAATACCC-CCAG
1 TTACAAAATTACTCAAATACCCTCGAA
* * *
68554398 TTATAAAATTACT-AAAGTACCC-CCAGT
1 TTACAAAATTACTCAAA-TACCCTCGA-A
* * *
68554425 TTATAAAATTAC-CAAAATATCCTCGAT
1 TTACAAAATTACTC-AAATACCCTCGAA
**
68554452 TTGTAAAATTAC-CGAAATACCCTC-AA
1 TTACAAAATTACTC-AAATACCCTCGAA
** * *
68554478 TTTGTAAAATTACTGAAATACCCTCGAC
1 -TTACAAAATTACTCAAATACCCTCGAA
**
68554506 TTGTAAAATTA-TCAAAGTACCCTCGAA
1 TTACAAAATTACTCAAA-TACCCTCGAA
**** *
68554533 TTACAAAATTACTGTTTTACCCTCGAT
1 TTACAAAATTACTCAAATACCCTCGAA
68554560 TTACAAAATTACT
1 TTACAAAATTACT
68554573 ATTTTACCCT
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.02
26 24 0.17
27 111 0.77
28 7 0.05
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
TTACAAAATTACTCAAATACCCTCGAA
Done.