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 45 of 362
Found at i:13188244 original size:21 final size:21
Alignment explanation
Indices: 13188186--13188250 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
13188176 TAAATAGGTA
*
13188186 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATGTTATTTTTTGT
*
13188207 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATGTTATTTTTTGT
13188228 TGATC-CGTATGTT-TTTTTATGT
1 TG-TCTC-TATGTTATTTTT-TGT
13188250 T
1 T
13188251 TAAATAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 29 0.73
22 11 0.28
ACGTcount: A:0.11, C:0.09, G:0.12, T:0.68
Consensus pattern (21 bp):
TGTCTCTATGTTATTTTTTGT
Found at i:13188245 original size:22 final size:21
Alignment explanation
Indices: 13188186--13188229 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13188176 TAAATAGGTA
13188186 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATTTTATTTTTTGT
13188207 TGTCTCTATTTTATTTTTTGT
1 TGTCTCTATTTTATTTTTTGT
13188228 TG
1 TG
13188230 ATCCGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.11, T:0.70
Consensus pattern (21 bp):
TGTCTCTATTTTATTTTTTGT
Found at i:13196291 original size:24 final size:25
Alignment explanation
Indices: 13196255--13196301 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
13196245 TACCACTAAT
13196255 AAAATAATATTTA-AAAAAAAATAA
1 AAAATAATATTTATAAAAAAAATAA
*
13196279 AAAATAA-ATTTTATTAAAAAAAT
1 AAAATAATA-TTTATAAAAAAAAT
13196302 GATAGTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 11 0.55
25 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAATAATATTTATAAAAAAAATAA
Found at i:13205761 original size:26 final size:26
Alignment explanation
Indices: 13205710--13205767 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
13205700 TAAGTTTAAA
13205710 TTTATTATATTTAATAATAAATAATT
1 TTTATTATATTTAATAATAAATAATT
*
13205736 TTTATTAATATATT-ATGATAAA-AATT
1 TTTATT-ATAT-TTAATAATAAATAATT
*
13205762 ATTATT
1 TTTATT
13205768 GTTTTTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.54
27 11 0.39
28 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTATTATATTTAATAATAAATAATT
Found at i:13206102 original size:61 final size:59
Alignment explanation
Indices: 13206002--13206116 Score: 133
Period size: 61 Copynumber: 1.9 Consensus size: 59
13205992 TCTTGTTGGG
** ** *
13206002 AAAATTCTTATTAAGCCCCTCAATTGTTTGAAATTTTTTAGTTAAACCCTCAATTTTCTTT
1 AAAATTCTTATTAAGCCCCTCAAAAGTTTGAAAAATTTTA-ATAAACCC-CAATTTTCTTT
* *
13206063 AAAATTCTTATTAAG-CCATCTAAAAGTTTTAAAAATTTTAATAAACCCCAATTT
1 AAAATTCTTATTAAGCCCCTC-AAAAGTTTGAAAAATTTTAATAAACCCCAATTT
13206117 AACACCAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 6 0.13
60 11 0.24
61 29 0.63
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.42
Consensus pattern (59 bp):
AAAATTCTTATTAAGCCCCTCAAAAGTTTGAAAAATTTTAATAAACCCCAATTTTCTTT
Found at i:13207650 original size:20 final size:21
Alignment explanation
Indices: 13207621--13207669 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13207611 AACATTAATG
13207621 AAAAAA-TAAAAAAAACT-TA
1 AAAAAATTAAAAAAAACTCTA
* *
13207640 AAAAAATTAAATAAAAGTCTA
1 AAAAAATTAAAAAAAACTCTA
13207661 AAATAAATT
1 AAA-AAATT
13207670 TTCTTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.24
20 9 0.36
21 5 0.20
22 5 0.20
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAAATTAAAAAAAACTCTA
Found at i:13209263 original size:71 final size:71
Alignment explanation
Indices: 13209147--13209280 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 71
13209137 GAGTTTGGAC
* * *
13209147 AAGTAAAAGTTTTGGAGAGAAAGTAAAAAGACAAAAGTTTGGAGGGTTTGGGGGAAAGTAAAATT
1 AAGTAAAAGTTTTGGAGAGAAAATAAAAAGAAAAAAATTTGGAGGGTTTGGGGGAAAGTAAAATT
13209212 TTTTAG
66 TTTTAG
* *
13209218 AAGTAAAAGTTTTGGAGAGAAAATAATAGGAAAATAAATTT-GAGGGTTTGGGGGAAAGTAAAA
1 AAGTAAAAGTTTTGGAGAGAAAATAAAAAGAAAA-AAATTTGGAGGGTTTGGGGGAAAGTAAAA
13209281 AGGTTTGAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 52 0.91
72 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.25
Consensus pattern (71 bp):
AAGTAAAAGTTTTGGAGAGAAAATAAAAAGAAAAAAATTTGGAGGGTTTGGGGGAAAGTAAAATT
TTTTAG
Found at i:13210611 original size:43 final size:43
Alignment explanation
Indices: 13210561--13210644 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
13210551 AGGGTGCACA
* * *
13210561 GCCATGTGCCAGGCCGTGTGAGCTACAAAGACGGGTGGTCACT
1 GCCATGTGCCAAGCCATGTGAGCTACAAAGACGAGTGGTCACT
**
13210604 GCCATGTGCCAAGCCATGTGAGCTACAGGGACGAGTGGTCA
1 GCCATGTGCCAAGCCATGTGAGCTACAAAGACGAGTGGTCA
13210645 GGCTATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.18
Consensus pattern (43 bp):
GCCATGTGCCAAGCCATGTGAGCTACAAAGACGAGTGGTCACT
Found at i:13212010 original size:33 final size:33
Alignment explanation
Indices: 13211973--13212042 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
13211963 TATTTATACA
* *
13211973 ATTATAATATT-TTATT-TAAATTCATAGATATTT
1 ATTAT-ATATTATTATTAT-AATTAAGAGATATTT
*
13212006 ATTATTTATTATTATTATAATTAAGAGATATTT
1 ATTATATATTATTATTATAATTAAGAGATATTT
13212039 ATTA
1 ATTA
13212043 ATTAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.12
33 27 0.84
34 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTATAATTAAGAGATATTT
Found at i:13212064 original size:33 final size:33
Alignment explanation
Indices: 13211998--13212064 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
13211988 TTAAATTCAT
* * * *
13211998 AGATATTTATTATTTATTATTATTATAATTAAG
1 AGATATTTATTAATTATAATAATTATAAATAAG
13212031 AGATATTTATTAATTA-AATAATTATAAAATAAG
1 AGATATTTATTAATTATAATAATTAT-AAATAAG
13212064 A
1 A
13212065 TTTTTATGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (33 bp):
AGATATTTATTAATTATAATAATTATAAATAAG
Found at i:13212321 original size:18 final size:18
Alignment explanation
Indices: 13212294--13212328 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13212284 CAGGGGAGAA
*
13212294 AAAGAGAAAGAAAAAGGG
1 AAAGAAAAAGAAAAAGGG
*
13212312 AAAGAAAAAGGAAAAGG
1 AAAGAAAAAGAAAAAGG
13212329 AAAAACTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGGG
Found at i:13212327 original size:12 final size:12
Alignment explanation
Indices: 13212290--13212333 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
13212280 AAAACAGGGG
13212290 AGAAAAA-GAGAA
1 AGAAAAAGGA-AA
*
13212302 AGAAAAAGGGAA
1 AGAAAAAGGAAA
13212314 AGAAAAAGGAAA
1 AGAAAAAGGAAA
13212326 AGGAAAAA
1 A-GAAAAA
13212334 CTAGAGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAAAGGAAA
Found at i:13212935 original size:45 final size:45
Alignment explanation
Indices: 13212885--13212997 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
13212875 CGACTACTGT
13212885 TACTGTTACCGTTACTGTTACTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACTGATTCAG-CACTTTGTGTGTCGAA
* *
13212930 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
* *
13212975 TACTGTTACTGTTACTGCTACTG
1 TACTGTTACCGTTACTGTTACTG
13212998 CTACCGTTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 61 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACTGATTCAGCACTTTGTGTGTCGAA
Found at i:13212944 original size:51 final size:51
Alignment explanation
Indices: 13212870--13212989 Score: 146
Period size: 45 Copynumber: 2.5 Consensus size: 51
13212860 CAGGCACTTA
* * *
13212870 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACTGATTC-GACACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTTACAGATTCAG-CACTTTG
13212921 TGTGTCG-A-A----TACTGTTACCGTTACTGTTACAGATTCAGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACCGTTACTGTTACAGATTCAGCACTTTG
*
13212966 TGTGTTGAATACTGTTACTGTTAC
1 TGTGTCGAATACTGTTACTGTTAC
13212990 TGCTACTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
45 39 0.67
46 2 0.03
47 1 0.02
49 1 0.02
51 15 0.26
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACCGTTACTGTTACAGATTCAGCACTTTG
Found at i:13213006 original size:18 final size:18
Alignment explanation
Indices: 13212975--13213009 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13212965 GTGTGTTGAA
* *
13212975 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
13212993 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
13213010 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:13213751 original size:3 final size:3
Alignment explanation
Indices: 13213739--13213777 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
13213729 GTCGAAATTT
13213739 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13213778 AATTGGAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13215834 original size:42 final size:46
Alignment explanation
Indices: 13215771--13215904 Score: 150
Period size: 49 Copynumber: 2.9 Consensus size: 46
13215761 CTTCGTTTAC
** * *
13215771 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
*
13215813 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
13215862 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATC
13215905 TCACTAATGC
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
42 27 0.35
45 2 0.03
47 1 0.01
48 12 0.15
49 36 0.46
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:13215873 original size:49 final size:48
Alignment explanation
Indices: 13215810--13215904 Score: 172
Period size: 49 Copynumber: 2.0 Consensus size: 48
13215800 ACATCTTCAT
*
13215810 ATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC
13215859 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
13215905 TCACTAATGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 11 0.24
49 34 0.76
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
Found at i:13215964 original size:47 final size:47
Alignment explanation
Indices: 13215815--13215989 Score: 165
Period size: 47 Copynumber: 3.7 Consensus size: 47
13215805 TTCATATATC
* * * * * *
13215815 GATGTCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCACATAT
1 GATGCCATATCCCAGATATGGTCTTATACAG-AAGCACATATCACA-CT
* * * * *
13215863 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCACT
1 -GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACACT
* * * *
13215910 AATGCCATATCCTAGATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACACT
*
13215957 GATGCCATATCCCAAATATGGTCTTATACAGAA
1 GATGCCATATCCCAGATATGGTCTTATACAGAA
13215990 ATCACTTGTC
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
46 24 0.22
47 43 0.39
48 13 0.12
49 29 0.27
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACACT
Found at i:13216039 original size:31 final size:31
Alignment explanation
Indices: 13216004--13216152 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
13215994 CTTGTCACTT
*
13216004 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
13216035 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
13216066 GTAGTCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
13216097 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
13216128 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
13216153 TGTCATTTTT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:13216234 original size:50 final size:51
Alignment explanation
Indices: 13216128--13216256 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
13216118 CACTGATCAG
* * * * *
13216128 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCATGATCAGATAAGT
*
13216179 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCATGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCATGATCAGATAAGT
13216229 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
13216257 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCATGATCAGATAAGT
Found at i:13235053 original size:49 final size:49
Alignment explanation
Indices: 13235000--13235102 Score: 161
Period size: 49 Copynumber: 2.1 Consensus size: 49
13234990 AACCAATAAT
* *
13235000 ACACCTCAAAACTGAGTGCCTAGCCCGTAGGCCAACATCCCTCCAAAAC
1 ACACCTCAAAACTAAGTGACTAGCCCGTAGGCCAACATCCCTCCAAAAC
* * *
13235049 ACACCTCGACACTAAGTGACTAGCCTGTAGGCCAACATCCCTCCAAAAC
1 ACACCTCAAAACTAAGTGACTAGCCCGTAGGCCAACATCCCTCCAAAAC
13235098 ACACC
1 ACACC
13235103 CCGGCACTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.39, G:0.14, T:0.15
Consensus pattern (49 bp):
ACACCTCAAAACTAAGTGACTAGCCCGTAGGCCAACATCCCTCCAAAAC
Found at i:13235111 original size:49 final size:49
Alignment explanation
Indices: 13235014--13235115 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 49
13235004 CTCAAAACTG
* *
13235014 AGTGCCTAGCCCGTAGGCCAACATCCCTCCAAAACACACCTCGACACTA
1 AGTGACTAGCCCGTAGGCCAACATCCCTCCAAAACACACCCCGACACTA
* *
13235063 AGTGACTAGCCTGTAGGCCAACATCCCTCCAAAACACACCCCGGCACTA
1 AGTGACTAGCCCGTAGGCCAACATCCCTCCAAAACACACCCCGACACTA
13235112 AGTG
1 AGTG
13235116 CCAACCCGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.30, C:0.38, G:0.17, T:0.15
Consensus pattern (49 bp):
AGTGACTAGCCCGTAGGCCAACATCCCTCCAAAACACACCCCGACACTA
Found at i:13235137 original size:49 final size:49
Alignment explanation
Indices: 13235023--13235128 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 49
13235013 GAGTGCCTAG
* * * *
13235023 CCCGTAGGCCAACATCCCTCCAAAACACACCTCGACACTAAGTGACTAG
1 CCCGTAAGCCAACATCCCTCCAAAACACACCCCGACACTAAGTGACCAA
* * *
13235072 CCTGTAGGCCAACATCCCTCCAAAACACACCCCGGCACTAAGTG-CCAA
1 CCCGTAAGCCAACATCCCTCCAAAACACACCCCGACACTAAGTGACCAA
13235120 CCCG-AAGCC
1 CCCGTAAGCC
13235129 TTTACATCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 4 0.08
48 5 0.10
49 41 0.82
ACGTcount: A:0.31, C:0.42, G:0.15, T:0.12
Consensus pattern (49 bp):
CCCGTAAGCCAACATCCCTCCAAAACACACCCCGACACTAAGTGACCAA
Found at i:13238113 original size:47 final size:47
Alignment explanation
Indices: 13237934--13238130 Score: 158
Period size: 46 Copynumber: 4.2 Consensus size: 47
13237924 TGTGAGAGCT
* * * * *
13237934 AGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGA-CA-AGTGCT
1 AGTGTAAGACCATGTCTAGGACAT-GCTTCGAC-TCGAGATGATA-AGCC
* *
13237982 AGTGTAAGA-CATGTTTAGAACATG-TATCGACCTCGAGATG-TAAGCC
1 AGTGTAAGACCATGTCTAGGACATGCT-TCGA-CTCGAGATGATAAGCC
* * * *
13238028 AGTGTAAGA-CATGTCTCGGACATGCGTCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTAGGACATGCTTCGACT-CGAGATGATAAGCC
* *
13238074 AGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGAT-ATAAGCC
1 AGTGTAAGACCATGTCTAGGACAT-GCTTCGACTCGAGATGATAAGCC
13238121 AGTGTAAGAC
1 AGTGTAAGAC
13238131 TGTGCCTGGG
Statistics
Matches: 121, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
45 2 0.02
46 57 0.47
47 46 0.38
48 16 0.13
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGCTTCGACTCGAGATGATAAGCC
Found at i:13238140 original size:47 final size:46
Alignment explanation
Indices: 13238015--13238143 Score: 122
Period size: 47 Copynumber: 2.8 Consensus size: 46
13238005 GTATCGACCT
* * *
13238015 CGAGATGTAAGCCAGTGTAAGACATGT-CTCGGACATGCGTCGGCTA
1 CGAGATATAAGCCAGTGTAAGAC-TGTGCTGGGACATGCGTCGACTA
* *
13238061 CGAGATGAT-AGTCAGTGTAAGACCATGT-CTGGGACATGGCTTCGACT-
1 CGAGAT-ATAAGCCAGTGTAAGA-C-TGTGCTGGGACAT-GCGTCGACTA
*
13238108 TGAGATATAAGCCAGTGTAAGACTGTGCCTGGGACA
1 CGAGATATAAGCCAGTGTAAGACTGTG-CTGGGACA
13238144 CAATATCGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
45 3 0.04
46 21 0.30
47 39 0.56
48 7 0.10
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
CGAGATATAAGCCAGTGTAAGACTGTGCTGGGACATGCGTCGACTA
Found at i:13239053 original size:55 final size:55
Alignment explanation
Indices: 13238989--13239105 Score: 189
Period size: 55 Copynumber: 2.1 Consensus size: 55
13238979 AGAGACACGA
13238989 CCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTAG
1 CCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTAG
* * * * *
13239044 TCGTGTGTCTCAGTCGTGTGAAGGGCATGGTCTAGCACACAAGCATGTGTCTTAG
1 CCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTAG
13239099 CCGTGTG
1 CCGTGTG
13239106 ACCCTTATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (55 bp):
CCGTGTGTCTCAGTCGTATAAAGGGCACGGTCTAGCACACAAGCATGTGCCTTAG
Found at i:13245614 original size:46 final size:46
Alignment explanation
Indices: 13245507--13245678 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
13245497 GGTCATTTGT
* * *
13245507 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAGAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
* *
13245555 GAGAGCTAGTGTAAGACATATCTGGGACATGCATCGGCCTCGAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* * *
13245601 GTA-AGCTAGTGTAAGACATGTCTAGGACATGCGTCGGC-TACGAGAT
1 G-AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGAC
* * *
13245647 GATAG-TCAGTGTACGACCATGTCAGGGACATG
1 GAGAGCT-AGTGTAAGA-CATGTCTGGGACATG
13245679 GCTCTGACTT
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
45 3 0.03
46 62 0.58
47 26 0.24
48 16 0.15
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:13246289 original size:38 final size:38
Alignment explanation
Indices: 13246245--13246318 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
13246235 GCCTCGAATA
13246245 ATGGCTAATATTCATTTTGATATATGCAAATGGAGTAG
1 ATGGCTAATATTCATTTTGATATATGCAAATGGAGTAG
13246283 ATGGCTAATATTCATTTTGATATATGCAAATGGAGT
1 ATGGCTAATATTCATTTTGATATATGCAAATGGAGT
13246319 TATGTTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (38 bp):
ATGGCTAATATTCATTTTGATATATGCAAATGGAGTAG
Found at i:13250945 original size:27 final size:27
Alignment explanation
Indices: 13250881--13250945 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
13250871 AGGAATTAAA
*
13250881 TAAAATAAAAAAATAGAATTTAAAAAT
1 TAAAATAAAAAAATAAAATTTAAAAAT
* *
13250908 TAAATTAAAAACA-AAAATATT-AAAAT
1 TAAAATAAAAAAATAAAAT-TTAAAAAT
13250934 TAAAATAAAAAA
1 TAAAATAAAAAA
13250946 GTAACAGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (27 bp):
TAAAATAAAAAAATAAAATTTAAAAAT
Found at i:13254507 original size:16 final size:15
Alignment explanation
Indices: 13254486--13254531 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
13254476 TTAATCACTT
13254486 TAATATTGAATTAATA
1 TAATATT-AATTAATA
*
13254502 TAATATTTATTAATA
1 TAATATTAATTAATA
13254517 TAAATATTAAATTAA
1 T-AATATT-AATTAA
13254532 ATTTAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 13 0.50
17 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TAATATTAATTAATA
Found at i:13254515 original size:15 final size:16
Alignment explanation
Indices: 13254495--13254524 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13254485 TTAATATTGA
13254495 ATTAATAT-AATATTT
1 ATTAATATAAATATTT
13254510 ATTAATATAAATATT
1 ATTAATATAAATATT
13254525 AAATTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATATAAATATTT
Found at i:13254827 original size:24 final size:24
Alignment explanation
Indices: 13254783--13254828 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13254773 ACAACCAACT
* *
13254783 GTCACTAGCCACTGATACACCGCC
1 GTCACTAGCCACCGACACACCGCC
13254807 GTCAC-AGCCACCGACATCACCG
1 GTCACTAGCCACCGACA-CACCG
13254829 TGTCCAGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.26, C:0.43, G:0.17, T:0.13
Consensus pattern (24 bp):
GTCACTAGCCACCGACACACCGCC
Found at i:13259639 original size:175 final size:178
Alignment explanation
Indices: 13259345--13259699 Score: 594
Period size: 175 Copynumber: 2.0 Consensus size: 178
13259335 ACAAGTCTGC
13259345 CTAGGAACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCGAAAAGAAAAAGAAAAAG
1 CTAGGAACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCGAAAAGAAAAAGAAAAAG
13259410 TGAGGAGTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTC
66 TGAGGAGTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTC
* *
13259475 TGCGGTCGAAGTGAAACCAGCAACGGTATCACCAGGCCAGTAATCACG
131 TGCGGTCGAAGTAAAACCAACAACGGTATCACCAGGCCAGTAATCACG
** *
13259523 CTAGGAACTAACAATCTCTGTCGAATAA-A-TGCAAAT-TCAAATG-GAAAAAGCAAAAA-AAAA
1 CTAGGAACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCG-AAAAG-AAAAAGAAAA
*
13259583 ATTGAGGAGTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCC
64 AGTGAGGAGTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCC
*
13259648 TCTGCGGTCGAAGTAAAACCAACAAGGGTATCACCAGGCCAGTAATCACG
129 TCTGCGGTCGAAGTAAAACCAACAACGGTATCACCAGGCCAGTAATCACG
13259698 CT
1 CT
13259700 CAGATCACAC
Statistics
Matches: 168, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
174 1 0.01
175 126 0.75
176 12 0.07
177 1 0.01
178 28 0.17
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (178 bp):
CTAGGAACTAACAATCTCTGTCGAATAAGACTGCAAATGGAAAAAGCGAAAAGAAAAAGAAAAAG
TGAGGAGTCTGTCAGACAACTGCGTGACCTTCCCAGCCGCACAAGGCAAGCTGAGAACGATCCTC
TGCGGTCGAAGTAAAACCAACAACGGTATCACCAGGCCAGTAATCACG
Found at i:13261069 original size:25 final size:25
Alignment explanation
Indices: 13261041--13261101 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
13261031 AAAAAATTTA
*
13261041 AAAATTAAATAGAATAATCATTAAT
1 AAAATTAAATAGAATAATCAATAAT
* * * *
13261066 AAAAATAAATATAATATTTAATAAT
1 AAAATTAAATAGAATAATCAATAAT
*
13261091 AAATTTAAATA
1 AAAATTAAATA
13261102 TGTTTTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAATTAAATAGAATAATCAATAAT
Found at i:13261215 original size:34 final size:32
Alignment explanation
Indices: 13261156--13261219 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
13261146 ATGATCAAAA
**
13261156 ATATTCAATATTAATATTTTAATAATAAATCT
1 ATATTCAATATTAATATACTAATAATAAATCT
*
13261188 ATATTACAATTATTAATATACTCATAATAAAT
1 ATATT-CAA-TATTAATATACTAATAATAAAT
13261220 ATTTTGTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 5 0.19
33 3 0.11
34 19 0.70
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (32 bp):
ATATTCAATATTAATATACTAATAATAAATCT
Found at i:13262895 original size:19 final size:19
Alignment explanation
Indices: 13262861--13262911 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13262851 TTTTTTAAAC
13262861 ATTTTTAAATTTATTATAATT
1 ATTTTT-AA-TTATTATAATT
*
13262882 ATTTTTAATTATTATATTT
1 ATTTTTAATTATTATAATT
*
13262901 AATTTT-ATTAT
1 ATTTTTAATTAT
13262912 AAATTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 15 0.54
20 2 0.07
21 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTAATTATTATAATT
Found at i:13271034 original size:17 final size:17
Alignment explanation
Indices: 13270993--13271041 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
13270983 TCGTATTTTA
* *
13270993 TTTTTTTT-AAATTACT
1 TTTTTTTTAAAAATAAT
*
13271009 TTTTATTTAAAAATAAT
1 TTTTTTTTAAAAATAAT
13271026 TTTTTTTTAAAAATAA
1 TTTTTTTTAAAAATAA
13271042 AATATACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTTTAAAAATAAT
Found at i:13271133 original size:17 final size:18
Alignment explanation
Indices: 13271108--13271148 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
13271098 CAGTAATAAA
* *
13271108 TATAATAAATAT-TTTTT
1 TATATTAAATATAATTTT
13271125 TATATTAAATATAATTTT
1 TATATTAAATATAATTTT
13271143 TATATT
1 TATATT
13271149 TTTATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTAAATATAATTTT
Found at i:13279142 original size:20 final size:20
Alignment explanation
Indices: 13279113--13279152 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13279103 TGCAATCATG
*
13279113 AAATATCTTCATAA-ATTTTC
1 AAATAACTTC-TAACATTTTC
13279133 AAATAACTTCTAACATTTTC
1 AAATAACTTCTAACATTTTC
13279153 TAATCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATAACTTCTAACATTTTC
Found at i:13281984 original size:75 final size:74
Alignment explanation
Indices: 13281897--13282069 Score: 214
Period size: 75 Copynumber: 2.4 Consensus size: 74
13281887 GTTTTCCTCA
* ** * * **
13281897 TTGAAATACCATATCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
13281961 CAGTATGGAT
65 CAGTATGGAT
*
13281971 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
13282036 CAGTATGGA-
65 CAGTATGGAT
13282045 -TG--ATACCATACCTACATTTCA-AACT
1 TTGAAATACCATACCTACATTTCACAACT
13282070 TTGCCATGGA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
69 3 0.03
70 19 0.22
73 2 0.02
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:13282079 original size:35 final size:35
Alignment explanation
Indices: 13281901--13282069 Score: 189
Period size: 35 Copynumber: 4.7 Consensus size: 35
13281891 TCCTCATTGA
* ** *
13281901 AATACCATATCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13281936 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13281976 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13282011 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13282046 GATACCATACCTACATTTCA-AACT
1 AATACCATACCTACATTTCACAACT
13282070 TTGCCATGGA
Statistics
Matches: 118, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.03
35 84 0.71
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13286387 original size:43 final size:44
Alignment explanation
Indices: 13286316--13286450 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
13286306 TATCGAAATG
* *
13286316 TGATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
13286360 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
13286403 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
13286448 TGA
1 TGA
13286451 AATGTTATGT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.47
44 8 0.10
45 31 0.40
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:13286763 original size:38 final size:38
Alignment explanation
Indices: 13286720--13286879 Score: 207
Period size: 38 Copynumber: 4.2 Consensus size: 38
13286710 ATGATATTTG
* ** *
13286720 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
13286758 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
13286796 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
13286834 TATCCGGGTTAATTCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
13286872 TATTCGGG
1 TATCCGGG
13286880 CCTTTGAGCC
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
37 1 0.01
38 108 0.97
39 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:13287014 original size:45 final size:45
Alignment explanation
Indices: 13286872--13287044 Score: 192
Period size: 45 Copynumber: 3.9 Consensus size: 45
13286862 GCTGGTATTA
* * *
13286872 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
* *
13286917 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
* *
13286962 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCAATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCAGTGAGAT-AC
* * * * *
13287007 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
13287045 TTTGAGAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
43 9 0.08
44 17 0.15
45 82 0.75
46 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
Found at i:13287254 original size:10 final size:10
Alignment explanation
Indices: 13287239--13287269 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
13287229 CAGGTCAGGG
13287239 TGTGAAAGTA
1 TGTGAAAGTA
13287249 TGTGAAAGTA
1 TGTGAAAGTA
13287259 TGTGAAAGTA
1 TGTGAAAGTA
13287269 T
1 T
13287270 TTGAGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
TGTGAAAGTA
Found at i:13291921 original size:11 final size:11
Alignment explanation
Indices: 13291905--13291929 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13291895 AGTATAACAA
13291905 ATTTTTAATTT
1 ATTTTTAATTT
13291916 ATTTTTAATTT
1 ATTTTTAATTT
13291927 ATT
1 ATT
13291930 AAAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTAATTT
Found at i:13301168 original size:14 final size:14
Alignment explanation
Indices: 13301149--13301178 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13301139 TAAACCTTTT
13301149 TACTGCCAGGTTGG
1 TACTGCCAGGTTGG
13301163 TACTGCCAGGTTGG
1 TACTGCCAGGTTGG
13301177 TA
1 TA
13301179 AAGGAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (14 bp):
TACTGCCAGGTTGG
Found at i:13304350 original size:92 final size:92
Alignment explanation
Indices: 13304223--13304408 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
13304213 AAACTAGACC
* * *
13304223 CAGGGGGAGGGGGTTCATTCCGGTAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
1 CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
13304288 ACATGATTGGATATCACTGAATCATCT
66 ACATGATTGGATATCACTGAATCATCT
13304315 CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
1 CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
13304380 ACATGATTGGATATCACTGAATCATCT
66 ACATGATTGGATATCACTGAATCATCT
13304407 CA
1 CA
13304409 TATATGCAAA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (92 bp):
CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
ACATGATTGGATATCACTGAATCATCT
Found at i:13306867 original size:13 final size:13
Alignment explanation
Indices: 13306840--13306901 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
13306830 ACTTAAATTT
13306840 TTCT-AAAA-CAC
1 TTCTCAAAAGCAC
*
13306851 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
13306864 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
13306877 TTTTTC-ACAGCAC
1 -TTCTCAAAAGCAC
*
13306890 TTTTCAAAAGCA
1 TTCTCAAAAGCA
13306902 ATGAAGAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
11 4 0.10
12 9 0.21
13 25 0.60
14 4 0.10
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:13309500 original size:47 final size:47
Alignment explanation
Indices: 13309431--13309746 Score: 213
Period size: 47 Copynumber: 6.7 Consensus size: 47
13309421 GGTATAATGC
* *
13309431 CGATGCCATGTCCCAGGCATGGTCTTACACTGACTCATGTCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATGTCTCGAGT
* * * *
13309478 CGATGCCATGTCCTAGATATGGTCTTACACTGACT-ATCGTCATTGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-GTC-TCGAGT
* * * *
13309526 CTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATAT-TCGTGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACT-G-ACTC--ATGTCTCGAGT
* * * *
13309577 TGATGCCATGTCCCAGACATGGTCTTACACTGACACA--TCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATGTCTC-GAGT
* * * * ** *
13309623 CGATG-TATGTCCCAGACAT-GCCTTACACTGGCTTACCT-TACGAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATGTCT-CGAG-T
* *
13309669 CGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTC-TCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCAT-GTCTCGA-GT
* *
13309715 CGATGTCATGTCTCAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
13309747 GCTTTCATAA
Statistics
Matches: 212, Mismatches: 36, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
44 13 0.06
45 18 0.08
46 49 0.23
47 50 0.24
48 16 0.08
49 28 0.13
50 30 0.14
51 5 0.02
53 1 0.00
54 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATGTCTCGAGT
Found at i:13309682 original size:46 final size:44
Alignment explanation
Indices: 13309533--13309791 Score: 164
Period size: 46 Copynumber: 5.5 Consensus size: 44
13309523 AGGCTGACGC
* * * **
13309533 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATTCGTGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TC--AT-TACGAGCCGATG
* * *
13309582 CCATGTCCCAGACATGGTCTTACACTGAC-ACATCT-CATAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTCAT-TAC-GAGCCGATG
* * *
13309628 TATGTCCCAGACATGCCTTACACTGGCTTACCTTACGAGACCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATTACGAG-CCGATG
* * *
13309674 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-CAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TCAT-TACGA-GCCGATG
* * * *
13309720 TCATGTCTCAGACATGGTCTTACACTGGCTTTCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC-TTCATTACG-AGCCGATG
*
13309768 CATGTCCTAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
13309792 AGCTCACGAT
Statistics
Matches: 168, Mismatches: 28, Indels: 30
0.74 0.12 0.13
Matches are distributed among these distances:
44 11 0.07
45 17 0.10
46 62 0.37
47 28 0.17
48 23 0.14
49 1 0.01
50 26 0.15
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATTACGAGCCGATG
Found at i:13309766 original size:94 final size:94
Alignment explanation
Indices: 13309533--13309798 Score: 283
Period size: 94 Copynumber: 2.8 Consensus size: 94
13309523 AGGCTGACGC
* * * **
13309533 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTATAT-TCGTGTTGATGCCATGTCCCAGACAT
1 CATGTCCCAGACATGGTCTTACACTGGCTTTCATA-ATGT-G-GCCGATG-CATGTCCCAGACAT
*
13309597 GGTCTTACACT-G-ACACATCTCATAGCCGATGT
62 -GTCTTACACTAGCTCACATCTCATAGCCGATGT
* * * * * * *
13309629 -ATGTCCCAGACAT-GCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
* *
13309692 TACACTAGCTCTCGTCTCA-ATGCCGATGT
66 TACACTAGCTCACATCTCATA-GCCGATGT
* *
13309721 CATGTCTCAGACATGGTCTTACACTGGCTTTCATAATGTGGCCGATGCATGTCCTAGACATGTCT
1 CATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
13309786 TACACTAGCTCAC
66 TACACTAGCTCAC
13309799 GATAACCCAT
Statistics
Matches: 140, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
90 10 0.07
91 16 0.11
92 19 0.14
93 14 0.10
94 68 0.49
95 13 0.09
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCTCACATCTCATAGCCGATGT
Found at i:13309766 original size:140 final size:139
Alignment explanation
Indices: 13309422--13309791 Score: 329
Period size: 140 Copynumber: 2.6 Consensus size: 139
13309412 CAAACATAGG
* * * *
13309422 GTATA-ATGCCGATGCCATGTCCCAGGCATGGTCTTACACTGACTCATGTC-TCAAGTCGATGCC
1 GTATATATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAT--AGCCGATG-C
* * * * * * * * * *
13309485 ATGTCCTAGATATGGTCTTACACTGAC-TATCGTCATTGAGGCTGACGCCATGTCCCAGACATGG
63 ATGTCCCAGACAT-GCCTTACACTGGCTTA-CCTTA-CGAGACCGATG-CATGTCCCAGACATGG
13309549 TCTTACACTAGCTCTC
124 TCTTACACTAGCTCTC
* ** * *
13309565 GTATATTCGTGTTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCGATGTA
1 GTATA-T-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCATAGCCGATGCA
13309630 TGTCCCAGACATGCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACAT-GTCTTA
64 TGTCCCAGACATGCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACATGGTCTTA
13309694 CACTAGCTCTC
129 CACTAGCTCTC
* * * * * * *
13309705 GTCTCA-ATGCCGATGTCATGTCTCAGACATGGTCTTACACTGGCTTTCATAAT-GTGGCCGATG
1 GTAT-ATATGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACAT-ATCATAGCCGATG
* *
13309768 CATGTCCTAGACATGTCTTACACT
62 CATGTCCCAGACATGCCTTACACT
13309792 AGCTCACGAT
Statistics
Matches: 186, Mismatches: 32, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
138 32 0.17
140 52 0.28
141 16 0.09
142 7 0.04
143 19 0.10
144 13 0.07
145 7 0.04
146 39 0.21
147 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (139 bp):
GTATATATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCATAGCCGATGCATG
TCCCAGACATGCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACATGGTCTTACA
CTAGCTCTC
Found at i:13318147 original size:53 final size:51
Alignment explanation
Indices: 13318069--13318178 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 51
13318059 GAGGAAGTGA
*
13318069 AAAAGGGCTTATGCCCCAGTTTATTGTAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTT-TGCCCCAGTTTATCG
*
13318122 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGGCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTATCG
13318173 AAAAGG
1 AAAAGG
13318179 ACTTTCCCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
51 19 0.35
52 10 0.18
53 26 0.47
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTATCG
Found at i:13318192 original size:25 final size:26
Alignment explanation
Indices: 13318069--13318178 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
13318059 GAGGAAGTGA
13318069 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
13318095 TAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
13318122 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
13318148 AAAAGGGCTT-TGGCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
13318173 AAAAGG
1 AAAAGG
13318179 ACTTTCCCCT
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 19 0.23
26 36 0.44
27 26 0.32
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:13323330 original size:39 final size:39
Alignment explanation
Indices: 13323273--13323414 Score: 182
Period size: 39 Copynumber: 3.6 Consensus size: 39
13323263 CAGTGATGTT
13323273 TATCCGGACTT-AGAGTCCGCAGGCTACGTGCTGGAATTA
1 TATCCGGACTTAAG-GTCCGCAGGCTACGTGCTGGAATTA
*
13323312 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
13323351 TAACCGGACTTAAGGTCCGCAGGCT-CTGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTAC-GTGCTGGAATTA
* * *
13323390 TGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAGGT-CCGCAGGCT
13323415 TCGACCTGGT
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
38 5 0.05
39 85 0.92
40 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
Found at i:13323429 original size:78 final size:77
Alignment explanation
Indices: 13323272--13323434 Score: 183
Period size: 78 Copynumber: 2.1 Consensus size: 77
13323262 TCAGTGATGT
* *
13323272 TTAT-CCGGACTTAGAGTCCGCAGGCTACGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGC
1 TTATACCGGACTTAGAGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
**
13323336 TATGTGCTGGAA
66 TATGACCTGGAA
* *
13323348 TTATAACCGGACTTA-AGGTCCGCAGGCT-CTGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGC
1 TTAT-ACCGGACTTAGA-GTCCGCAGGCTAC-GTGCTGGAAATATATCCGGACTTAAAGT-CCGC
*
13323410 AGGCT-TCGACCTGGTA
62 AGGCTAT-GACCTGGAA
13323426 TTATACCGG
1 TTATACCGG
13323435 GTTTAAATTC
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
76 4 0.05
77 13 0.18
78 57 0.77
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (77 bp):
TTATACCGGACTTAGAGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGACCTGGAA
Found at i:13329842 original size:19 final size:19
Alignment explanation
Indices: 13329818--13329914 Score: 162
Period size: 19 Copynumber: 5.1 Consensus size: 19
13329808 ATCTTTAAGA
13329818 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
13329837 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
13329856 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
13329873 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
13329892 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
13329913 AT
1 AT
13329915 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:13329847 original size:36 final size:37
Alignment explanation
Indices: 13329807--13329914 Score: 134
Period size: 36 Copynumber: 2.9 Consensus size: 37
13329797 ATGGAAATAT
*
13329807 AATCTTTAAGA-AT-ATGCAATCTTAGATATGATATGC
1 AATCTTT-AGATATGATACAATCTTAGATATGATATGC
13329843 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATGATACAATCTTAGATATGATATGC
13329879 AATC-TTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTTTAGATATGATA--CAATCTT--AGATATGAT
13329915 CTTGTAATCT
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
34 3 0.05
35 4 0.06
36 42 0.65
38 7 0.11
40 9 0.14
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
AATCTTTAGATATGATACAATCTTAGATATGATATGC
Found at i:13336690 original size:1 final size:1
Alignment explanation
Indices: 13336684--13336765 Score: 65
Period size: 1 Copynumber: 82.0 Consensus size: 1
13336674 CTTCTATTTC
** * * * * * * *
13336684 AAAAAAAAAAGGAAAAAAAGAAAAGAAAAAGATAAAAAAAAAATAAAAAAAAAGAAAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
13336749 AAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAA
13336766 TAGAGAGGCT
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.04
Consensus pattern (1 bp):
A
Found at i:13336701 original size:8 final size:8
Alignment explanation
Indices: 13336687--13336765 Score: 74
Period size: 8 Copynumber: 9.6 Consensus size: 8
13336677 CTATTTCAAA
13336687 AAAAAAAGG
1 AAAAAAA-G
13336696 AAAAAAAG
1 AAAAAAAG
13336704 AAAAGAAA-
1 AAAA-AAAG
13336712 AAGATAAAA-
1 AA-A-AAAAG
*
13336721 AAAAAATAA
1 AAAAAA-AG
13336730 AAAAAAAG
1 AAAAAAAG
*
13336738 AAAAAAAT
1 AAAAAAAG
13336746 AAAAAAAG
1 AAAAAAAG
13336754 -AAAAAAG
1 AAAAAAAG
13336761 AAAAA
1 AAAAA
13336766 TAGAGAGGCT
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
7 10 0.16
8 28 0.46
9 22 0.36
10 1 0.02
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13336722 original size:23 final size:21
Alignment explanation
Indices: 13336685--13336765 Score: 74
Period size: 23 Copynumber: 3.7 Consensus size: 21
13336675 TTCTATTTCA
* *
13336685 AAAAAAAAAGGAAAA-AAAGA
1 AAAAAAAAAGAAAAAGAAAAA
* *
13336705 AAAGAAAAAGATAAAAAAAAAA
1 AAAAAAAAAGA-AAAAGAAAAA
*
13336727 TAAAAAAAAAGAAAAAAATAAAA
1 -AAAAAAAAAGAAAAAGA-AAAA
13336750 AAAGAAAAAAGAAAAA
1 AAA-AAAAAAGAAAAA
13336766 TAGAGAGGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.17
21 4 0.08
22 13 0.25
23 26 0.50
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAGAAAAA
Found at i:13336765 original size:29 final size:28
Alignment explanation
Indices: 13336687--13336765 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
13336677 CTATTTCAAA
*
13336687 AAAAAAAGGAAAAAAAGAAAAGAAAAAGAT
1 AAAAAAA-GAAAAAAA-AAAAGAAAAAAAT
*
13336717 AAAAAAAAAATAAAAAAAAAGAAAAAAAT
1 AAAAAAAGAA-AAAAAAAAAGAAAAAAAT
13336746 AAAAAAAGAAAAAAGAAAAA
1 AAAAAAAGAAAAAA-AAAAA
13336766 TAGAGAGGCT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
28 4 0.09
29 28 0.64
30 12 0.27
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (28 bp):
AAAAAAAGAAAAAAAAAAAGAAAAAAAT
Found at i:13337717 original size:44 final size:44
Alignment explanation
Indices: 13337664--13337943 Score: 162
Period size: 44 Copynumber: 6.2 Consensus size: 44
13337654 ACAAGATTTT
13337664 GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
1 GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
* * * * * **
13337708 ACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG--CATG
1 GCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATC-TG
* * *
13337752 GCATCCCTGTGTTTATAGGGAGCA-AGTTGAAGATAGCAGATTTG
1 GCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTG
* * * **
13337796 GCATCCCTGTGCTTGTGCTTACAGTGAAGCAGATCGAGGATTTCAG--CATG
1 GCATCCC--TG--TGT--TTATAGGGAA-CAGATCGAAGATAGCAGATC-TG
* *
13337846 GCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTG
1 GCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTG
* * * * * *
13337890 GCAT--CTTTGTATTGTCAGAGAGCAGATCGAAGATACCAGATTTG
1 GCATCCCTGTGT-TTAT-AGGGAACAGATCGAAGATAGCAGATCTG
*
13337934 GCATCTCTGT
1 GCATCCCTGT
13337944 ATTGGCGAAG
Statistics
Matches: 175, Mismatches: 39, Indels: 42
0.68 0.15 0.16
Matches are distributed among these distances:
42 7 0.04
43 27 0.15
44 84 0.48
45 16 0.09
46 8 0.05
48 5 0.03
50 16 0.09
51 11 0.06
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
Found at i:13337852 original size:94 final size:94
Alignment explanation
Indices: 13337664--13337894 Score: 350
Period size: 94 Copynumber: 2.5 Consensus size: 94
13337654 ACAAGATTTT
* * * *
13337664 GCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATCT-G-A--CAT-T-CCTGTGCTT
1 GCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATTTGGCATCCCTGTGCTTGTGCTT
13337722 ACAGTGAAGCAGATCGAAGATTTCAGCATG
65 ACAGTGAAGCAGATCGAAGATTTCAGCATG
*
13337752 GCATCCCTGTGTTTATAGGGAGCAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTGTGCTTA
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTGTGCTTA
*
13337817 CAGTGAAGCAGATCGAGGATTTCAGCATG
66 CAGTGAAGCAGATCGAAGATTTCAGCATG
13337846 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATC
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATC
13337895 TTTGTATTGT
Statistics
Matches: 129, Mismatches: 7, Indels: 8
0.90 0.05 0.06
Matches are distributed among these distances:
88 37 0.29
89 3 0.02
90 1 0.01
92 2 0.02
93 1 0.01
94 85 0.66
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (94 bp):
GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTGTGCTTA
CAGTGAAGCAGATCGAAGATTTCAGCATG
Found at i:13337888 original size:50 final size:50
Alignment explanation
Indices: 13337739--13337888 Score: 138
Period size: 50 Copynumber: 3.1 Consensus size: 50
13337729 AGCAGATCGA
*
13337739 AGATTTCAGCATGGCATCCCTGTGTTTATAGGGAGCAAGTTGAAGATAGC
1 AGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
* * *** * *
13337789 AGA-TT-----TGGCATCCCTGTGCTTGT-GCTTAC-AG-TGAAGCAGATC
1 AGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG-ATAGC
13337831 GAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 -A-GATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
13337883 AGATTT
1 AGATTT
13337889 GGCATCTTTG
Statistics
Matches: 73, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
41 5 0.07
42 5 0.07
43 3 0.04
44 18 0.25
45 2 0.03
49 2 0.03
50 24 0.33
51 4 0.05
52 5 0.07
53 5 0.07
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
AGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
Found at i:13337945 original size:44 final size:44
Alignment explanation
Indices: 13337874--13337966 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
13337864 GGAACAAGTT
* * *
13337874 GAAGATAGCAGATTTGGCATCTTTGTATTGTC-AGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCGA-AGAGCAGATC
13337918 GAAGATACCAGATTTGGCATCTCTGTATTGGCGAAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCGAAGAGCAGATC
13337962 GAAGA
1 GAAGA
13337967 CATAGCTGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGGCGAAGAGCAGATC
Found at i:13338343 original size:205 final size:205
Alignment explanation
Indices: 13337991--13338655 Score: 1188
Period size: 205 Copynumber: 3.2 Consensus size: 205
13337981 CTTTCACGTG
13337991 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
1 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
*
13338056 TCGATGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
66 TCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
* *
13338121 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATAAAATACATAGCTGATTTGGCTTTCACGTGCT
131 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
13338186 TACGTTGAAA
196 TACGTTGAAA
13338196 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
1 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
*
13338261 TCGACGGAGGGCAGACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGAT
66 TCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
* *
13338326 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCT
131 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
*
13338391 TACGTTGAAG
196 TACGTTGAAA
*
13338401 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACT
1 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
*
13338466 TCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
66 TCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
* * *
13338531 GGTTTGTCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTAGCTTTTACGTGCT
131 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
13338596 TACGTT-AAA
196 TACGTTGAAA
* *
13338605 GCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATTGAAG
1 -CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
13338656 AAGCAGATTT
Statistics
Matches: 440, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
204 2 0.00
205 438 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (205 bp):
CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
TCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGTTGAAA
Found at i:13338762 original size:44 final size:45
Alignment explanation
Indices: 13338712--13338802 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
13338702 GTTTGCAAAA
* * *
13338712 AGCAGATTGAAGA-AGCAAATTTGGCGTCTTTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
*
13338756 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
13338801 AG
1 AG
13338803 TGGATCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 13 0.31
45 29 0.69
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (45 bp):
AGCAGATTGAAGATAACAAATTTGGCATCTCTGTATTAGACGGGG
Found at i:13338814 original size:45 final size:45
Alignment explanation
Indices: 13338730--13338821 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13338720 GAAGAAGCAA
* * **
13338730 ATTTGGCGTCTTTGTATTAGACGGGGAGCAGATTGAAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
** *
13338775 ATTTGGCATCTCTGTATTAGACGGGGAGTGGATCAAAGATAGCAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
13338820 AT
1 AT
13338822 ATCGCCTTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.28
Consensus pattern (45 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
Found at i:13339201 original size:19 final size:19
Alignment explanation
Indices: 13339177--13339293 Score: 193
Period size: 19 Copynumber: 6.2 Consensus size: 19
13339167 AATCTTTAAG
13339177 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13339196 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13339215 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13339234 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13339251 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13339270 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
13339291 GAT
1 GAT
13339294 CTTGTAATCT
Statistics
Matches: 92, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
17 16 0.17
19 67 0.73
21 9 0.10
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13339207 original size:36 final size:38
Alignment explanation
Indices: 13339177--13339293 Score: 193
Period size: 36 Copynumber: 3.1 Consensus size: 38
13339167 AATCTTTAAG
13339177 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
*
13339215 GATATGTAATCTTAGATATGATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
13339251 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTT--AGATAT
13339291 GAT
1 GAT
13339294 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
36 35 0.48
38 29 0.40
40 9 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:13339242 original size:55 final size:56
Alignment explanation
Indices: 13339183--13339293 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 56
13339173 TAAGGATATG
*
13339183 CAATCTTAGATATGATATGCAATCTTAGATATGATATGTAATCTT-AGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAAGATATGATA
13339238 CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTT-AAGATATGAT
13339294 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
55 44 0.83
57 9 0.17
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (56 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTTAAGATATGATA
Found at i:13346909 original size:19 final size:20
Alignment explanation
Indices: 13346885--13346923 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13346875 TGTGCTAGTG
13346885 TAAGA-CATGTATGGGACAT
1 TAAGACCATGTATGGGACAT
*
13346904 TAAGACCATGTCTGGGACAT
1 TAAGACCATGTATGGGACAT
13346924 GCATCGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (20 bp):
TAAGACCATGTATGGGACAT
Found at i:13351803 original size:21 final size:20
Alignment explanation
Indices: 13351771--13351811 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
13351761 GCCATTCAGC
*
13351771 CGTGTACAATAATACACGGG
1 CGTGTACAATAACACACGGG
*
13351791 CGTGCTACCATAACACACGGG
1 CGTG-TACAATAACACACGGG
13351812 TGTGGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (20 bp):
CGTGTACAATAACACACGGG
Found at i:13353740 original size:16 final size:16
Alignment explanation
Indices: 13353713--13353771 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
13353703 TCCTCCTATT
*
13353713 TTTTATTATTA-TTTA
1 TTTTATTTTTATTTTA
13353728 TTCTTATTTTTATTTTA
1 TT-TTATTTTTATTTTA
*
13353745 TTTTATTTTTCTTTTGA
1 TTTTATTTTTATTTT-A
13353762 TTTTTATTTT
1 -TTTTATTTT
13353772 CAGTTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
15 2 0.05
16 20 0.53
17 7 0.18
18 9 0.24
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:13353740 original size:22 final size:21
Alignment explanation
Indices: 13353712--13353770 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
13353702 CTCCTCCTAT
13353712 TTTTTATTATTATTTATTCTTA
1 TTTTTATT-TTATTTATTCTTA
* *
13353734 TTTTTATTTTATTTTATTTTTC
1 TTTTTATTTTA-TTTATTCTTA
*
13353756 TTTTGATTTTTATTT
1 TTTTTA-TTTTATTT
13353771 TCAGTTCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 24 0.75
23 5 0.16
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTATTTATTCTTA
Found at i:13353753 original size:10 final size:11
Alignment explanation
Indices: 13353709--13353771 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 11
13353699 TAACTCCTCC
13353709 TATT-TTTTAT
1 TATTATTTTAT
13353719 TATTA-TTTAT
1 TATTATTTTAT
*
13353729 TCTTATTTTTAT
1 TATTA-TTTTAT
13353741 T-TTATTTTAT
1 TATTATTTTAT
* *
13353751 TTTTCTTTTGAT
1 TATTATTTT-AT
*
13353763 TTTTATTTT
1 TATTATTTT
13353772 CAGTTCAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
10 20 0.44
11 9 0.20
12 16 0.36
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:13353754 original size:6 final size:6
Alignment explanation
Indices: 13353718--13353771 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
13353708 CTATTTTTTA
* * *
13353718 TTATTAT TTATTC TTATTT TTA-TT TTA-TT TTATTT TTCTTT TGATTT
1 TTATT-T TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
13353765 TTATTT T
1 TTATTT T
13353772 CAGTTCAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
5 10 0.25
6 25 0.62
7 5 0.12
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:13359758 original size:17 final size:16
Alignment explanation
Indices: 13359731--13359765 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
13359721 GAAATTTTAT
13359731 ATAATTTTTGGGTAAA
1 ATAATTTTTGGGTAAA
*
13359747 ATAATATTTTGGGTCAA
1 ATAAT-TTTTGGGTAAA
13359764 AT
1 AT
13359766 TAGAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (16 bp):
ATAATTTTTGGGTAAA
Found at i:13362086 original size:14 final size:15
Alignment explanation
Indices: 13362054--13362086 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
13362044 TACGTGATAT
13362054 CATGGTGATTGACAA
1 CATGGTGATTGACAA
13362069 CATGGTGATTGA-AA
1 CATGGTGATTGACAA
13362083 CATG
1 CATG
13362087 AATTTTGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (15 bp):
CATGGTGATTGACAA
Found at i:13362673 original size:30 final size:30
Alignment explanation
Indices: 13362632--13362693 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
13362622 TTTGGGGTAT
13362632 CACAATTTCGAAAATTTCAACATCCATGGC
1 CACAATTTCGAAAATTTCAACATCCATGGC
* *
13362662 CACAGTTTCGAAAATTTCGACATCCATGGC
1 CACAATTTCGAAAATTTCAACATCCATGGC
13362692 CA
1 CA
13362694 ATCTTAACAA
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:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (30 bp):
CACAATTTCGAAAATTTCAACATCCATGGC
Found at i:13363850 original size:13 final size:13
Alignment explanation
Indices: 13363832--13363856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13363822 GCATATACAA
13363832 ATACAGATACAGT
1 ATACAGATACAGT
13363845 ATACAGATACAG
1 ATACAGATACAG
13363857 ATTAACATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (13 bp):
ATACAGATACAGT
Found at i:13366394 original size:22 final size:22
Alignment explanation
Indices: 13366369--13366425 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
13366359 TGCAGGGCTC
*
13366369 ACACACCCGTGTGGT-CAAAGGG
1 ACACGCCCGTGTGGTCCAAA-GG
*
13366391 ACACGCCTGTGTGGTCCAAAGG
1 ACACGCCCGTGTGGTCCAAAGG
13366413 ACACGCCCGTGTG
1 ACACGCCCGTGTG
13366426 ACCTTGGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAAGG
Found at i:13368166 original size:20 final size:20
Alignment explanation
Indices: 13368141--13368186 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
13368131 CAGCACATGA
* *
13368141 TTTCATAAAATTTTAGAATT
1 TTTCATAAAATTTTACAACT
*
13368161 TTTCATCAAATTTTACAACT
1 TTTCATAAAATTTTACAACT
13368181 TTTCAT
1 TTTCAT
13368187 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTCATAAAATTTTACAACT
Found at i:13377069 original size:13 final size:13
Alignment explanation
Indices: 13377047--13377079 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13377037 AAGGGTTTAT
13377047 TTAT-TAAACTAA
1 TTATCTAAACTAA
13377059 TTATCTAAACTAA
1 TTATCTAAACTAA
*
13377072 TTAACTAA
1 TTATCTAA
13377080 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:13392603 original size:34 final size:35
Alignment explanation
Indices: 13392560--13392629 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
13392550 GCATGATTGA
* * *
13392560 TACTGATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 TACTGATACTAAAAGGGGCTAAGGCCCAAGACTGT
*
13392594 TACTGATACTAAAAGGGGCTTAGGCCCAAGACTGT
1 TACTGATACTAAAAGGGGCTAAGGCCCAAGACTGT
13392629 T
1 T
13392630 TGACTGTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 25 0.81
35 6 0.19
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (35 bp):
TACTGATACTAAAAGGGGCTAAGGCCCAAGACTGT
Found at i:13396414 original size:20 final size:20
Alignment explanation
Indices: 13396372--13396417 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
13396362 CAGCACATGA
*
13396372 TTTCATAAAATTTTAGAATT
1 TTTCATAAAATTTTAGAACT
*
13396392 TTTCATCAAATTTT-GAAACT
1 TTTCATAAAATTTTAG-AACT
13396412 TTTCAT
1 TTTCAT
13396418 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTCATAAAATTTTAGAACT
Found at i:13405641 original size:21 final size:21
Alignment explanation
Indices: 13405615--13405664 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
13405605 CTTCTCCCAT
13405615 GCCCGTGTGTTAGGGTACCAC
1 GCCCGTGTGTTAGGGTACCAC
* *
13405636 GCCCGTATGTTTGGGTACCAC
1 GCCCGTGTGTTAGGGTACCAC
13405657 GCCCGTGT
1 GCCCGTGT
13405665 ATTGTTGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.26
Consensus pattern (21 bp):
GCCCGTGTGTTAGGGTACCAC
Found at i:13408567 original size:30 final size:30
Alignment explanation
Indices: 13408526--13408584 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13408516 AAGAGAAAGA
*
13408526 AAAAGTAAATT-AATTAGTAATAAAAATAAT
1 AAAAGTAAATTAAATT-GCAATAAAAATAAT
*
13408556 AAAATTAAATTAAATTGCAATAAAAATAA
1 AAAAGTAAATTAAATTGCAATAAAAATAA
13408585 ATGACTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (30 bp):
AAAAGTAAATTAAATTGCAATAAAAATAAT
Found at i:13431976 original size:15 final size:16
Alignment explanation
Indices: 13431921--13431976 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
13431911 TGTTTTTCTC
13431921 TATTTTCTTCTTCTTCTT
1 TATTTTC-TCTTCTT-TT
*
13431939 TTTTTTCTCTTCTTTT
1 TATTTTCTCTTCTTTT
*
13431955 GAGTTTTCT-TTCTTTT
1 TA-TTTTCTCTTCTTTT
13431971 TATTTT
1 TATTTT
13431977 GTGGTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 4 0.12
16 10 0.30
17 13 0.39
18 6 0.18
ACGTcount: A:0.05, C:0.16, G:0.04, T:0.75
Consensus pattern (16 bp):
TATTTTCTCTTCTTTT
Found at i:13436278 original size:129 final size:129
Alignment explanation
Indices: 13435985--13436367 Score: 565
Period size: 128 Copynumber: 3.0 Consensus size: 129
13435975 AAAATCAAGG
* * *
13435985 GGCTCCTTACTATTAGAAATAGAGAGGCATTTAATCTCCATTTCATTCATCCCTCACTCACCATC
1 GGCTCCTCACTATTAGAAATAAAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCACCATC
* * *
13436050 TCTTCTCTATTTTCTCTCTTATTTCACTTCCCTTTTTCCATTCTTCAATA-AGTGTTTGC-AAGA
66 TTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAA-AGAGTGTTTGCAAAGA
* * *
13436113 GGCTCCTCACTATTACAAATAAAGAGACATTTGATCTCTATTTCATTCATCCCTCACTCACCATC
1 GGCTCCTCACTATTAGAAATAAAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCACCATC
*
13436178 TTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTTCCATTCTTCAAAGTGTGTTTGCAAAGA
66 TTTTCTCCATTTTCTCTCTTCTTTCACTTCCC-TTTTTCCATTCTTCAAAGAGTGTTTGCAAAGA
* **
13436243 -GCTCCTCACTATTAGAAATAAAGAGGCATTTGATCTCCATTTCATTCATCCCTCATTCAAGATC
1 GGCTCCTCACTATTAGAAATAAAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCACCATC
* * * * *
13436307 TTTTCTCCCTTTTCTCTCTTCTTTCACTTTCATTTTTCTATTCTTCGAAGAGTGTTTGCAA
66 TTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAAAGAGTGTTTGCAA
13436368 GGCTTTGAGA
Statistics
Matches: 230, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
128 115 0.50
129 111 0.48
130 4 0.02
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.42
Consensus pattern (129 bp):
GGCTCCTCACTATTAGAAATAAAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCACCATC
TTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAAAGAGTGTTTGCAAAGA
Found at i:13442328 original size:221 final size:222
Alignment explanation
Indices: 13441904--13442328 Score: 624
Period size: 221 Copynumber: 1.9 Consensus size: 222
13441894 CTTTGATACG
* **
13441904 TGATATTCGTGACAGGTTTTAAATATTTATAATGAATCGTTCTTGAAACTAACTATTATCATGAT
1 TGATATTCGTGACAGGTTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAAT
* * * * *
13441969 GAAGGCAAGTGTACTTATTGAACAGTAGTATAGCTTTAGCAAGACTGGATTTTCGAACCCAAAGG
66 GAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTGTCAAACCCAAAGG
* * *
13442034 AACTAAAAGTACTAGTATCAACTTTTTTTTTATTATCTAGCCTAAAAAATAAAAGGGTTTTGTTT
131 AACTAAAAGTACTAGTATCAACTGTCTTTTTATTATCTAGCCTAAAAAATAAAAGGATTTTGTTT
*
13442099 ATCTAACTAATAAACTAAATGATCGCT
196 AACTAACTAATAAACTAAATGATCGCT
* * *
13442126 TGAT-TTCGTGATAGGTTTTAAATATTTATAATTAATCGTTCTCGAAACTAACTATTATCGCAAT
1 TGATATTCGTGACAGGTTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAAT
* * *
13442190 GTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGTAAGACCGGATTGTCAAACCCAAAGG
66 GAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTGTCAAACCCAAAGG
*
13442255 AACTAAAAGTACTAGTAAT-AACTGTCTTTTTATTATCTAGCCT-AAGAAT-AAAGAGATTTTGT
131 AACTAAAAGTACTAGT-ATCAACTGTCTTTTTATTATCTAGCCTAAAAAATAAAAG-GATTTTG-
13442317 TTTAACTAACTA
193 TTTAACTAACTA
13442329 GTTATCTAAA
Statistics
Matches: 181, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
219 4 0.02
220 11 0.06
221 160 0.88
222 6 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (222 bp):
TGATATTCGTGACAGGTTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAAT
GAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTGTCAAACCCAAAGG
AACTAAAAGTACTAGTATCAACTGTCTTTTTATTATCTAGCCTAAAAAATAAAAGGATTTTGTTT
AACTAACTAATAAACTAAATGATCGCT
Found at i:13450862 original size:51 final size:50
Alignment explanation
Indices: 13450784--13450925 Score: 162
Period size: 51 Copynumber: 2.9 Consensus size: 50
13450774 TGTAAGGTCG
* * *
13450784 CATGTGTAGCACTAAGTGTAGGCTACTATGTGTACCTGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT-GATCA
* * * * * *
13450835 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACGGATAA-TTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTGATCA
* *
13450884 CATGTGTAGTACTATGTGCA-GCTACTATGCGTACCAGATAAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAC
13450926 CTTGTCTACA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 17 0.22
49 21 0.28
50 2 0.03
51 36 0.47
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTGATCA
Found at i:13467845 original size:24 final size:24
Alignment explanation
Indices: 13467799--13467855 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
13467789 CACTTTTATC
13467799 TTTATTTATCTTCTTTAAGTACT-T
1 TTTATTT-TCTTCTTTAAGTACTAT
13467823 TTTATTTTCTTTCCTTTAA-TACTAT
1 TTTATTTTC-TT-CTTTAAGTACTAT
*
13467848 TTCATTTT
1 TTTATTTT
13467856 TAGGTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 13 0.45
25 14 0.48
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTATTTTCTTCTTTAAGTACTAT
Found at i:13478452 original size:43 final size:42
Alignment explanation
Indices: 13478404--13478571 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 42
13478394 AGGATTTCTT
*
13478404 ATATGTGTTCTCGTGTAAGACCACATCTGGGACATTGGCATCG
1 ATATGTGAT-TCGTGTAAGACCACATCTGGGACATTGGCATCG
** * *
13478447 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGACATCG
1 ATATGTGATT-CGTGTAAGACCACATCTGGGACATTGGCATCG
* * * *
13478490 -TATTTGATTCGTGTAAAACC-CTATCTAGGACAGTGGCATCG
1 ATATGTGATTCGTGTAAGACCAC-ATCTGGGACATTGGCATCG
* * * * *
13478531 ATATGTAATAGCATGTAACACCACGTCTGGGACATTGGCAT
1 ATATGTGAT-TCGTGTAAGACCACATCTGGGACATTGGCAT
13478572 TGTACGATAT
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 24 0.24
42 15 0.15
43 59 0.60
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCACATCTGGGACATTGGCATCG
Found at i:13480358 original size:48 final size:47
Alignment explanation
Indices: 13480238--13480452 Score: 222
Period size: 46 Copynumber: 4.6 Consensus size: 47
13480228 GTGATTGTGT
* * *
13480238 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCAC-A-ATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGA-A
* * * *
13480284 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA-TGAA
* * * * *
13480332 GCTAGTGTAAGCCATGTCTGGGACATGCATCAGCATTGAGACA-GGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGAA
*
13480378 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATA-GACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATG--AA
* * *
13480426 GCTAATGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
13480453 GCGTCAGCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
46 73 0.51
47 1 0.01
48 66 0.46
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGAA
Found at i:13480399 original size:94 final size:94
Alignment explanation
Indices: 13480282--13480452 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 94
13480272 CACAATATGA
* * *** *
13480282 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTCGAGATATTTAAGCTAGTGTAAG-CCA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACC-
*
13480346 TGTCTGGGACATGCATCAGCATTGAGACAG
65 TATCTGGGACATGCATCAGCATTGAGACAG
* *
13480376 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGACAAGCTAATGTAAGACCT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACCT
13480441 ATCTGGGACATG
66 ATCTGGGACATG
13480453 GCGTCAGCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
94 65 0.97
95 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACCT
ATCTGGGACATGCATCAGCATTGAGACAG
Found at i:13481686 original size:22 final size:21
Alignment explanation
Indices: 13481661--13481701 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13481651 TCGAATTGGT
*
13481661 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCATG-TGCCCCTCC
*
13481683 CACACGTGCATGTGCCCCT
1 CACACGGGCATGTGCCCCT
13481702 ATGTCTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.44, G:0.24, T:0.20
Consensus pattern (21 bp):
CACACGGGCATGTGCCCCTCC
Found at i:13483995 original size:20 final size:20
Alignment explanation
Indices: 13483955--13483991 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13483945 TTACAAATGT
13483955 ATGTATATTATTTATTACAC
1 ATGTATATTATTTATTACAC
*
13483975 ATGTATTTTATTT-TTAC
1 ATGTATATTATTTATTAC
13483992 CACACAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (20 bp):
ATGTATATTATTTATTACAC
Found at i:13490769 original size:7 final size:6
Alignment explanation
Indices: 13490723--13490768 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
13490713 TTTAATTCAA
* * * *
13490723 TTTTAT CTTTAT TTTTAT TTTTCT TTCTAC TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
13490769 TTAAGTTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:13499720 original size:17 final size:17
Alignment explanation
Indices: 13499698--13499730 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13499688 TACATCATAA
*
13499698 TTTAATCACTATGTTCC
1 TTTAATCACGATGTTCC
13499715 TTTAATCACGATGTTC
1 TTTAATCACGATGTTC
13499731 GGAACTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (17 bp):
TTTAATCACGATGTTCC
Found at i:13501220 original size:27 final size:26
Alignment explanation
Indices: 13501157--13501229 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
13501147 TAATAGGGTT
*
13501157 TTCAATTCACATTTCAAT--TTCCAA
1 TTCAATACACATTTCAATCATTCCAA
*
13501181 AT-AATATCA-ATTTCAATCGATTCCAA
1 TTCAATA-CACATTTCAATC-ATTCCAA
13501207 TTCAATACACATTTCAATCATTC
1 TTCAATACACATTTCAATCATTC
13501230 TTATGTTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 11 0.28
24 3 0.08
26 13 0.32
27 13 0.32
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.38
Consensus pattern (26 bp):
TTCAATACACATTTCAATCATTCCAA
Found at i:13507504 original size:49 final size:50
Alignment explanation
Indices: 13507439--13507563 Score: 164
Period size: 49 Copynumber: 2.5 Consensus size: 50
13507429 AATGCCGATG
* *
13507439 CCATGTCCCAGACATGGTCTTACACTAACTATCGAAAT-TGAG-GCCGACA
1 CCATGTCCCAGACATGGTCTTACACTAACTATC-AAATATCAGTACCGACA
* * * **
13507488 CCATGTCCCAGACATGGTCTTACACTAGCTATCACATATCCGTACCGATG
1 CCATGTCCCAGACATGGTCTTACACTAACTATCAAATATCAGTACCGACA
13507538 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
13507564 GACACATCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 3 0.04
49 34 0.51
50 30 0.45
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTAACTATCAAATATCAGTACCGACA
Found at i:13507618 original size:46 final size:47
Alignment explanation
Indices: 13507432--13507750 Score: 236
Period size: 46 Copynumber: 6.7 Consensus size: 47
13507422 TGGGTGTAAT
* *
13507432 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAAT-T-G-A
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-T--ACATCTCGTA
** *
13507480 GGCCGACACCATGTCCCAGACATGGTCTTACACTAGCTATCACATATCCGTA
1 -GCCGA-TGCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-CGTA
13507532 -CCGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCGTA
* *
13507577 GCCGATGCATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
** * * *
13507622 GGCCGACACATGTCCCAGACAT-GTCTTACACTAG-TTCTCGTCTC-AA
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTT-ACATCTCGTA
* * * *
13507668 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCT-CATAAT-GTG
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-TACAT-CTCGTA
13507717 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC
13507751 ACACAAATAA
Statistics
Matches: 224, Mismatches: 26, Indels: 43
0.76 0.09 0.15
Matches are distributed among these distances:
44 11 0.05
45 21 0.09
46 71 0.32
47 26 0.12
48 23 0.10
49 39 0.17
50 31 0.14
51 1 0.00
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
Found at i:13507736 original size:140 final size:142
Alignment explanation
Indices: 13507432--13507748 Score: 369
Period size: 140 Copynumber: 2.2 Consensus size: 142
13507422 TGGGTGTAAT
13507432 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATTGAGGCCGACACCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTATC-AAATTGAGGCCGACACCATGTCCC
** *
13507497 AGACATGGTCTTACACTAGCTATCACATATCCGTACCGATGCCATGTCCCAGACATGGTCTTACA
63 AGACATGGTCTTACACTAGCTATCACATATCAATACCAATGCCATGTCCCAGACATGGTCTTACA
*
13507562 CTGACACATCTCGTA
128 CTGACACATATCGTA
* ** *
13507577 GCCGATGCATGTCCTAGACATGTCTTACACTGGCT-T-ACATCTCGAGGCCGACA-CATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACTATCAAAT-T-GAGGCCGACACCATGTCCCA
* * * * *
13507639 GACAT-GTCTTACACTAG-T-TCTCGTCTCAATGCCAATGCCATGTCCTAGACATGGTCTTACAC
64 GACATGGTCTTACACTAGCTATCACATATCAATACCAATGCCATGTCCCAGACATGGTCTTACAC
* * *
13507701 TAGCTCTCATAAT-GTG
129 T-G-ACACAT-ATCGTA
13507717 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
13507749 GCACACAAAT
Statistics
Matches: 149, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
138 37 0.25
139 2 0.01
140 51 0.34
141 16 0.11
142 11 0.07
143 12 0.08
144 13 0.09
145 7 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (142 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACTATCAAATTGAGGCCGACACCATGTCCCAGA
CATGGTCTTACACTAGCTATCACATATCAATACCAATGCCATGTCCCAGACATGGTCTTACACTG
ACACATATCGTA
Found at i:13509507 original size:19 final size:19
Alignment explanation
Indices: 13509482--13509519 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13509472 GTTTACTCTC
*
13509482 TTTTTTTTTCCATTTTGGCA
1 TTTTTTTGT-CATTTTGGCA
13509502 TTTTTTTGTCATTTTGGC
1 TTTTTTTGTCATTTTGGC
13509520 TCTCAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.08, C:0.13, G:0.13, T:0.66
Consensus pattern (19 bp):
TTTTTTTGTCATTTTGGCA
Found at i:13516885 original size:65 final size:65
Alignment explanation
Indices: 13516781--13516913 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
13516771 TAAATAAACA
* * *
13516781 AACAAACATGATCAGAAATTTACCTATTCTGTTCAATAATAATTCTCTTCCAATTTGCAACCATT
1 AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
* *
13516846 AACAAACATAATCAGAAATTTACCTGTTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTT
1 AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
13516911 AAC
1 AAC
13516914 TATTGGGGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (65 bp):
AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
Found at i:13519843 original size:17 final size:19
Alignment explanation
Indices: 13519821--13519856 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
13519811 ACTTAATTGT
13519821 TTTCATCT-TCTC-CTTCA
1 TTTCATCTCTCTCTCTTCA
13519838 TTTCATCTCTCTCTCTTCA
1 TTTCATCTCTCTCTCTTCA
13519857 ATAATGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.11, C:0.36, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTCATCTCTCTCTCTTCA
Found at i:13536203 original size:18 final size:19
Alignment explanation
Indices: 13536175--13536210 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
13536165 AAATAATAGT
13536175 AAAAATATAATAAAATAAA
1 AAAAATATAATAAAATAAA
13536194 AAAAAT-TAATAAAATAA
1 AAAAATATAATAAAATAA
13536211 TAAGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATATAATAAAATAAA
Found at i:13541465 original size:2 final size:2
Alignment explanation
Indices: 13541458--13541485 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13541448 TCACTTGGCC
13541458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13541486 CTCAAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13542258 original size:42 final size:43
Alignment explanation
Indices: 13542158--13542316 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 43
13542148 AGCTCGTACA
* * *
13542158 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
13542201 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
* *
13542243 ATGCCAAAGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCA-AATATCG
*
13542287 ATGCCAACTTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
13542317 GTAACACATA
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
42 29 0.29
43 40 0.40
44 32 0.32
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:13542302 original size:86 final size:85
Alignment explanation
Indices: 13542158--13542316 Score: 225
Period size: 86 Copynumber: 1.9 Consensus size: 85
13542148 AGCTCGTACA
* * * *
13542158 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAAAGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAC-GTGG
13542222 TCTTACACGAAATCAAATACG
65 TCTTACACGAAATCAAATACG
13542243 ATGCCAAAGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGATGCCAACT-TCCCAGACGT
1 ATGCCAAAGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGACGT
13542306 GGTCTTACACG
63 GGTCTTACACG
13542317 GTAACACATA
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 28 0.42
86 33 0.50
87 5 0.08
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAAAGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACGTGGT
CTTACACGAAATCAAATACG
Found at i:13556108 original size:16 final size:16
Alignment explanation
Indices: 13556079--13556113 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13556069 TTTTAAAAAC
* *
13556079 TTTTATAATGCTAATA
1 TTTTAAAATACTAATA
13556095 TTTTAAAATACTAATA
1 TTTTAAAATACTAATA
13556111 TTT
1 TTT
13556114 ATGATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTTAAAATACTAATA
Found at i:13556197 original size:16 final size:17
Alignment explanation
Indices: 13556166--13556199 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13556156 TCAAAAGGAA
*
13556166 AAAATGATATTAAAAAT
1 AAAATAATATTAAAAAT
13556183 AAAATAATA-TAAAAAT
1 AAAATAATATTAAAAAT
13556199 A
1 A
13556200 TATCAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATAATATTAAAAAT
Found at i:13572782 original size:2 final size:2
Alignment explanation
Indices: 13572775--13572803 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13572765 ACAACAAAAT
13572775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13572804 GCCTGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13583681 original size:36 final size:36
Alignment explanation
Indices: 13583639--13583716 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
13583629 AGAAATTTAA
13583639 TCTTTTGATGCCATCCTTTACTTTGTTGTTTTTCAT
1 TCTTTTGATGCCATCCTTTACTTTGTTGTTTTTCAT
13583675 TCTTTTGATGCCATCCTTTACTTTGTTGTTTTTCAT
1 TCTTTTGATGCCATCCTTTACTTTGTTGTTTTTCAT
13583711 TCTTTT
1 TCTTTT
13583717 CATTCTTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.10, C:0.19, G:0.10, T:0.60
Consensus pattern (36 bp):
TCTTTTGATGCCATCCTTTACTTTGTTGTTTTTCAT
Found at i:13586601 original size:30 final size:31
Alignment explanation
Indices: 13586553--13586619 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
13586543 TTAATATGAG
13586553 TTAATACAAAACATCTATTATTTTAACTGTA
1 TTAATACAAAACATCTATTATTTTAACTGTA
*
13586584 TTAATACAAAA-ATCTATTGTTTTAACTGTA
1 TTAATACAAAACATCTATTATTTTAACTGTA
13586614 TTAATA
1 TTAATA
13586620 TGATTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 24 0.69
31 11 0.31
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.43
Consensus pattern (31 bp):
TTAATACAAAACATCTATTATTTTAACTGTA
Found at i:13590182 original size:14 final size:15
Alignment explanation
Indices: 13590163--13590191 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13590153 ATTTAACCTT
13590163 ATTTTAAT-ATAAAA
1 ATTTTAATCATAAAA
13590177 ATTTTAATCATAAAA
1 ATTTTAATCATAAAA
13590192 CTTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATCATAAAA
Done.