Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 96 of 276
Found at i:30209353 original size:20 final size:19
Alignment explanation
Indices: 30209306--30209355 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
30209296 CAATATAAAC
30209306 ATTAAATT--TAATTTAAT
1 ATTAAATTAATAATTTAAT
30209323 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
30209343 ATTAAATTAATAA
1 ATTAAATTAATAA
30209356 AATATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 1 0.04
19 4 0.14
20 17 0.61
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:30209359 original size:25 final size:25
Alignment explanation
Indices: 30209312--30209359 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30209302 AAACATTAAA
*
30209312 TTTAATTTAATATTAAGATAATAAC
1 TTTAATTTAATATTAAGAAAATAAC
*
30209337 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
30209360 TTATTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAC
Found at i:30209411 original size:68 final size:70
Alignment explanation
Indices: 30209259--30209414 Score: 160
Period size: 68 Copynumber: 2.2 Consensus size: 70
30209249 ATTAAATTTA
* * *
30209259 ATATT-AAATATTATTAAATTAATACAATATTTATCTACAATATAAACATTAAATTTAATTTAAT
1 ATATTAAAATAATATTAAATTAATAAAATATTTATCTA-AAGATAAACATTAAATTTAATTTAAT
30209323 ATTAAG
65 ATTAAG
* ** ** *
30209329 ATAATAACTTTAATATTAAATTAATAAAATA-TTAT-T-AAGATAAGTATTAAATTTATTTTAAT
1 ATATTAA-AATAATATTAAATTAATAAAATATTTATCTAAAGATAAACATTAAATTTAATTTAAT
30209391 ATTAA-
65 ATTAAG
30209396 ATCTATTAAAATAATATTA
1 A--TATTAAAATAATATTA
30209415 TTTTTGGAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
67 1 0.01
68 35 0.50
69 5 0.07
70 5 0.07
71 5 0.07
72 19 0.27
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (70 bp):
ATATTAAAATAATATTAAATTAATAAAATATTTATCTAAAGATAAACATTAAATTTAATTTAATA
TTAAG
Found at i:30214010 original size:25 final size:25
Alignment explanation
Indices: 30213982--30214030 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
30213972 CCTAAAATTC
*
30213982 CCTAGCCCTAACAAAATTAAAAAAT
1 CCTAACCCTAACAAAATTAAAAAAT
*
30214007 CCTAACCCTATCAAAATTAAAAAA
1 CCTAACCCTAACAAAATTAAAAAA
30214031 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.53, C:0.24, G:0.02, T:0.20
Consensus pattern (25 bp):
CCTAACCCTAACAAAATTAAAAAAT
Found at i:30214222 original size:32 final size:33
Alignment explanation
Indices: 30214186--30214251 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
30214176 GTTATACAAT
*
30214186 TTAACTTAAAAT-TTCATTAA-AAAAATGACAGA
1 TTAACTTAAAATATTCA-TAATAAAAATGAAAGA
**
30214218 TTAACTTATTATATTCATAATAAAAATGAAAGA
1 TTAACTTAAAATATTCATAATAAAAATGAAAGA
30214251 T
1 T
30214252 GAAATGATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (33 bp):
TTAACTTAAAATATTCATAATAAAAATGAAAGA
Found at i:30214262 original size:33 final size:33
Alignment explanation
Indices: 30214198--30214263 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
30214188 AACTTAAAAT
* * * *
30214198 TTCATTAAAAAAATGACAGATTAACTTATTATA
1 TTCATTAAAAAAATGAAAGATGAAATGATTATA
30214231 TTCA-TAATAAAAATGAAAGATGAAATGATTATA
1 TTCATTAA-AAAAATGAAAGATGAAATGATTATA
30214264 ATGTATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (33 bp):
TTCATTAAAAAAATGAAAGATGAAATGATTATA
Found at i:30227443 original size:29 final size:29
Alignment explanation
Indices: 30227367--30227443 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
30227357 ATATTGTTCA
*
30227367 TAATTTTATATAATTTGTAATAATTTTTTG
1 TAATTTTATAT-ATTTTTAATAATTTTTTG
* * *
30227397 CAATTCCTATA-ATATTTAATAATTTTTT-
1 TAATT-TTATATATTTTTAATAATTTTTTG
30227425 TAATTTTATATTATTTTTA
1 TAATTTTATA-TATTTTTA
30227444 GTAAATTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
27 4 0.11
28 4 0.11
29 21 0.57
30 4 0.11
31 4 0.11
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (29 bp):
TAATTTTATATATTTTTAATAATTTTTTG
Found at i:30227551 original size:24 final size:25
Alignment explanation
Indices: 30227506--30227560 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
30227496 TTTTTTGTAA
**
30227506 TTTTTAAAAATTATGTTCTTTAT-T
1 TTTTTAAAAATTATAATCTTTATAT
30227530 TTTTTAGAAAATTATAAT-TTTATAT
1 TTTTTA-AAAATTATAATCTTTATAT
30227555 TTTTTA
1 TTTTTA
30227561 TTCGCAACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTTAAAAATTATAATCTTTATAT
Found at i:30227660 original size:29 final size:29
Alignment explanation
Indices: 30227625--30227693 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
30227615 TTTTGAGGGT
30227625 TCAATTGATTGCTTATATTT-GATT-AAGGC
1 TCAATTGATTGC-TAT-TTTAGATTGAAGGC
* * *
30227654 TTAATTGAGTGCTATTTTAGATTGATGGC
1 TCAATTGATTGCTATTTTAGATTGAAGGC
30227683 TCAATTGATTG
1 TCAATTGATTG
30227694 TTGAATTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
29 23 0.70
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (29 bp):
TCAATTGATTGCTATTTTAGATTGAAGGC
Found at i:30252402 original size:22 final size:23
Alignment explanation
Indices: 30252372--30252450 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 23
30252362 TAGCTCGTAT
30252372 GAGCTTACCGTTCAGTC-CT-TA
1 GAGCTTACCGTTCAGTCTCTATA
* *
30252393 GGGGCTTACCATTTCAG-CTCTATA
1 -GAGCTTACC-GTTCAGTCTCTATA
* *
30252417 GAGCTTACCGTTCAGT-TCAATT
1 GAGCTTACCGTTCAGTCTCTATA
30252439 GAGCTTACCGTT
1 GAGCTTACCGTT
30252451 TATCGACTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 30 0.64
23 15 0.32
24 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
GAGCTTACCGTTCAGTCTCTATA
Found at i:30254901 original size:48 final size:45
Alignment explanation
Indices: 30254834--30255012 Score: 179
Period size: 48 Copynumber: 3.9 Consensus size: 45
30254824 CACATAGTAA
*
30254834 GATGCCAACGCCATATCCCAGATATGGTCTTACATGGGATCACAACT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCA-AA-T
* *
30254881 CGATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCATAT
1 -GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAAAT
*
30254927 -AT--CAATGCCATATCCCAGATATGGTCTTACAT--GATAAAATAT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT-CAA-AT
* * * *
30254969 ACGGATGCCGATGCCATATCCTAGATATGGTCTTATACGGGATC
1 ---GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC
30255013 TCATCACCCC
Statistics
Matches: 110, Mismatches: 11, Indels: 19
0.79 0.08 0.14
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 31 0.28
44 2 0.02
46 3 0.03
47 1 0.01
48 66 0.60
50 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAAAT
Found at i:30254969 original size:42 final size:42
Alignment explanation
Indices: 30254838--30254970 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 42
30254828 TAGTAAGATG
* * *
30254838 CCAACGCCATATCCCAGATATGGTCTTACATGGGATCACAACTCGATG
1 CCAATGCCATATCCCAGATATGGTCTTACAT--GAT-A-AAAT--ATA
* ** **
30254886 CCAATGCCATGTCCCAGATATGGTCTTACATGGGATCATATA
1 CCAATGCCATATCCCAGATATGGTCTTACATGATAAAATATA
*
30254928 TCAATGCCATATCCCAGATATGGTCTTACATGATAAAATATA
1 CCAATGCCATATCCCAGATATGGTCTTACATGATAAAATATA
30254970 C
1 C
30254971 GGATGCCGAT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 38 0.54
44 1 0.01
45 1 0.01
46 1 0.01
48 29 0.41
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
CCAATGCCATATCCCAGATATGGTCTTACATGATAAAATATA
Found at i:30254995 original size:90 final size:89
Alignment explanation
Indices: 30254843--30255012 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 89
30254833 AGATGCCAAC
* * *
30254843 GCCATATCCCAGATATGGTCTTACATGGGATCACAACTCGATGCCAATGCCATGTCCCAGATATG
1 GCCATATCCCAGATATGGTCTTACAT-GGATCAAAAATCGATGCCAATGCCATATCCCAGATATG
*
30254908 GTCTTACATGGGATCATATATCAAT
65 GTCTTACACGGGATCATATATCAAT
* *
30254933 GCCATATCCCAGATATGGTCTTACAT-GAT-AAAATATACGGATGCCGATGCCATATCCTAGATA
1 GCCATATCCCAGATATGGTCTTACATGGATCAAAA-AT-C-GATGCCAATGCCATATCCCAGATA
*
30254996 TGGTCTTATACGGGATC
63 TGGTCTTACACGGGATC
30255013 TCATCACCCC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
87 3 0.04
88 4 0.06
89 1 0.01
90 62 0.89
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (89 bp):
GCCATATCCCAGATATGGTCTTACATGGATCAAAAATCGATGCCAATGCCATATCCCAGATATGG
TCTTACACGGGATCATATATCAAT
Found at i:30262777 original size:27 final size:27
Alignment explanation
Indices: 30262746--30262830 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
30262736 TATTTCTCTC
* *
30262746 AGAGTTCACCAGACATAGTATTCCTTT
1 AGAGTTCACCATACATACTATTCCTTT
* * *
30262773 CGAGTTTACCATACGTACTATTCCTTT
1 AGAGTTCACCATACATACTATTCCTTT
* *
30262800 AGAGTTCACCATACATACTAGTCCTTC
1 AGAGTTCACCATACATACTATTCCTTT
30262827 AGAG
1 AGAG
30262831 CTAGCTACAC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (27 bp):
AGAGTTCACCATACATACTATTCCTTT
Found at i:30263013 original size:27 final size:27
Alignment explanation
Indices: 30262980--30263049 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
30262970 AGATCACCAT
*
30262980 AAAGGCTTCCATTTCATAGATTGCCAC
1 AAAGGCTTCCATTTCATAGACTGCCAC
* *
30263007 AATGGCTTTCATTTCATAGACTGCCAC
1 AAAGGCTTCCATTTCATAGACTGCCAC
30263034 AAAGGCTTCCATTTCA
1 AAAGGCTTCCATTTCA
30263050 CATCTACCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (27 bp):
AAAGGCTTCCATTTCATAGACTGCCAC
Found at i:30270156 original size:252 final size:244
Alignment explanation
Indices: 30269719--30270167 Score: 738
Period size: 252 Copynumber: 1.8 Consensus size: 244
30269709 GAGTACTAGC
* * *
30269719 AACTAAATTATTTATTTCTAGAGCTACAGAACTCCAAACCGTTAATTTTCCTTGAAACTAAATTC
1 AACTAAATTATTTATTTCTAGAGCTACAGAACTCCAAACCATTAATTTTACATGAAACTAAATTC
* *
30269784 ACATATATTCTTACCATAAAATTTTCAGAATTTTTATTCAAGCAAATTAGTACAATTTATTCATT
66 ACATATATTCTAACCATAAAATTTTCAGAATTTTTATTCAAGAAAATTAGTACAATTTATTCATT
30269849 GAAGTTACCCCTGTTTCACTGCTCAACTGTTCTGACCACTCTTCACTACGAATCAATTTTATCCT
131 GAAGTTACCCCTGTTTCACTGCTCAACTGTTCTGACCACTCTTCACTACGAATCAATTTTATCCT
30269914 CATACAAAATTAAAAGGATGTTCTAATTTATTTAATTTGAAGCTAGACT
196 CATACAAAATTAAAAGGATGTTCTAATTTATTTAATTTGAAGCTAGACT
30269963 AACTAAATTATTTATTTCTAGAGCTACAGAACTCCAAATTACAAACCATTAATTTTACATGAAAC
1 AACTAAATTATTTATTTCTAGAGCTACAGAACT-C------CAAACCATTAATTTTACATGAAAC
* * *
30270028 TAGATTCACATATATTCTAACCATAAAATTTTTAGAAATTTTT-TGTCTAGAAAATTAGTACAAT
59 TAAATTCACATATATTCTAACCATAAAATTTTCAG-AATTTTTAT-TCAAGAAAATTAGTACAAT
30270092 TTATTCATTGAAGTTACCCCTGTTTCACTGCTCAACTGTTCTGACCACTCTTCACTACGAATCAA
122 TTATTCATTGAAGTTACCCCTGTTTCACTGCTCAACTGTTCTGACCACTCTTCACTACGAATCAA
30270157 TTTTATCCTCA
187 TTTTATCCTCA
30270168 NNNNNNNNNN
Statistics
Matches: 188, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
244 33 0.18
245 1 0.01
251 54 0.29
252 100 0.53
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (244 bp):
AACTAAATTATTTATTTCTAGAGCTACAGAACTCCAAACCATTAATTTTACATGAAACTAAATTC
ACATATATTCTAACCATAAAATTTTCAGAATTTTTATTCAAGAAAATTAGTACAATTTATTCATT
GAAGTTACCCCTGTTTCACTGCTCAACTGTTCTGACCACTCTTCACTACGAATCAATTTTATCCT
CATACAAAATTAAAAGGATGTTCTAATTTATTTAATTTGAAGCTAGACT
Found at i:30270703 original size:68 final size:63
Alignment explanation
Indices: 30270558--30270703 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
30270548 TAATTTTGGT
* * *
30270558 TCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTAGTTTATCTCGTAGC
1 TCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCTAATTTATCTCGTAGC
* * * * *
30270621 TCTCTTGT-CTACATGGTGTACACATAGTATCACCTATGCGACCTAGCTACATCATAATGTCTTG
1 TCTCTTGTAC-ACATGGTGAACACATAGTACCACCCATGCGACCTAGCTA-AT--T--TATCTCG
30270685 TAGC
60 TAGC
30270689 TCTCTTGTACACATG
1 TCTCTTGTACACATG
30270704 ATGTGCACTC
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 42 0.62
64 1 0.01
66 1 0.01
68 22 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (63 bp):
TCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCTAATTTATCTCGTAGC
Found at i:30271240 original size:30 final size:30
Alignment explanation
Indices: 30271206--30271266 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30271196 TCCTTAACTC
30271206 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30271236 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30271266 A
1 A
30271267 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30273074 original size:10 final size:10
Alignment explanation
Indices: 30273056--30273086 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30273046 GGCCATAATG
*
30273056 GAACAGGGCC
1 GAACTGGGCC
30273066 GAACTGGGCC
1 GAACTGGGCC
30273076 GAACTGGGCC
1 GAACTGGGCC
30273086 G
1 G
30273087 TGTGGGCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.42, T:0.06
Consensus pattern (10 bp):
GAACTGGGCC
Found at i:30289141 original size:27 final size:27
Alignment explanation
Indices: 30289082--30289142 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
30289072 CATTCATCTC
*
30289082 ATAGGGGCATAACAATCATTTTTTCAT
1 ATAGGGGCATAACAATCATTTTATCAT
* * *
30289109 ACAGGGGCATAATAGTCATTTTATCAGT
1 ATAGGGGCATAACAATCATTTTATCA-T
30289137 -TAGGGG
1 ATAGGGG
30289143 GTCTAGGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (27 bp):
ATAGGGGCATAACAATCATTTTATCAT
Found at i:30308718 original size:27 final size:27
Alignment explanation
Indices: 30308677--30308733 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
30308667 AGTACTGTGC
* *
30308677 TAGTGGCTTTACCACGTATTCTGATAT
1 TAGTGGCTATACCACGTATACTGATAT
* *
30308704 TAGTGGCTATGCCACGTATACTGTTAT
1 TAGTGGCTATACCACGTATACTGATAT
30308731 TAG
1 TAG
30308734 CAGCTTCGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
TAGTGGCTATACCACGTATACTGATAT
Found at i:30308934 original size:33 final size:34
Alignment explanation
Indices: 30308882--30308947 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
30308872 CCACACTGCC
* * *
30308882 ACTGTATAGGGCTAAGGCCCAGACTG-TACTGTT
1 ACTGAATAGGGCCAAGGCCCAGACCGTTACTGTT
*
30308915 ACTGAATAGGGCCATGGCCCAGACCGTTACTGT
1 ACTGAATAGGGCCAAGGCCCAGACCGTTACTGT
30308948 ATGCATTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 22 0.79
34 6 0.21
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (34 bp):
ACTGAATAGGGCCAAGGCCCAGACCGTTACTGTT
Found at i:30310619 original size:11 final size:10
Alignment explanation
Indices: 30310593--30310617 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30310583 TCTGATTTGG
30310593 AAAAATTATT
1 AAAAATTATT
30310603 AAAAATTATT
1 AAAAATTATT
30310613 AAAAA
1 AAAAA
30310618 ATAATTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATTATT
Found at i:30312644 original size:45 final size:45
Alignment explanation
Indices: 30312529--30312631 Score: 161
Period size: 45 Copynumber: 2.3 Consensus size: 45
30312519 ATCATACCAA
*
30312529 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACACTATGGCATCACGATTC
* * *
30312574 AGATGAGTAAGACCATAGCTGAAAGACACTATGGTATCGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACACTATGGCATCACGATTC
*
30312619 AAATGTGTAAGAC
1 AAATGAGTAAGAC
30312632 AATGGTTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACACTATGGCATCACGATTC
Found at i:30312676 original size:46 final size:46
Alignment explanation
Indices: 30312619--30312876 Score: 318
Period size: 46 Copynumber: 5.6 Consensus size: 46
30312609 ATCGCGATTC
* *
30312619 AAATGTGTAAGACAATGGTTGAAAGATACCATGACAACATTATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATG
* *
30312665 AAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATG
*
30312711 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATG
** * **
30312757 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT-ATG
*** * * * **
30312804 AAATGAACAAGACCATGGTTGAAAGATACCATAGGCAACCTGACAAA
1 AAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGATATG
* *
30312851 AAATGAGTAAGACCATAGTTGAAAGA
1 AAATGTGTAAGACCATGGTTGAAAGA
30312877 CACTATAGCA
Statistics
Matches: 188, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
46 124 0.66
47 55 0.29
48 9 0.05
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATG
Found at i:30313357 original size:24 final size:23
Alignment explanation
Indices: 30313326--30313372 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
30313316 ATTACATGAT
*
30313326 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
30313349 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
30313373 ATCCTTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:30314423 original size:111 final size:111
Alignment explanation
Indices: 30314229--30314496 Score: 536
Period size: 111 Copynumber: 2.4 Consensus size: 111
30314219 ATAGATGATA
30314229 TATATTGTTACATGTTTGATGTCTATTATTTCTTAAAGTTTTTTATGATGCCATTTGATAAAAGA
1 TATATTGTTACATGTTTGATGTCTATTATTTCTTAAAGTTTTTTATGATGCCATTTGATAAAAGA
30314294 CTATTGTTGAGATATGAAATTAAAGCATAAATTAACACATATGACT
66 CTATTGTTGAGATATGAAATTAAAGCATAAATTAACACATATGACT
30314340 TATATTGTTACATGTTTGATGTCTATTATTTCTTAAAGTTTTTTATGATGCCATTTGATAAAAGA
1 TATATTGTTACATGTTTGATGTCTATTATTTCTTAAAGTTTTTTATGATGCCATTTGATAAAAGA
30314405 CTATTGTTGAGATATGAAATTAAAGCATAAATTAACACATATGACT
66 CTATTGTTGAGATATGAAATTAAAGCATAAATTAACACATATGACT
30314451 TATATTGTTACATGTTTGATGTCTATTATTTCTTAAAGTTTTTTAT
1 TATATTGTTACATGTTTGATGTCTATTATTTCTTAAAGTTTTTTAT
30314497 AATTTGAATT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 157 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (111 bp):
TATATTGTTACATGTTTGATGTCTATTATTTCTTAAAGTTTTTTATGATGCCATTTGATAAAAGA
CTATTGTTGAGATATGAAATTAAAGCATAAATTAACACATATGACT
Found at i:30320687 original size:21 final size:20
Alignment explanation
Indices: 30320667--30320703 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
30320657 TTTTATTGTC
*
30320667 TCTCAAATCAT-ATAAAATG
1 TCTCTAATCATCATAAAATG
30320686 TCTCTAATCATCATAAAA
1 TCTCTAATCATCATAAAA
30320704 ACAAGTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (20 bp):
TCTCTAATCATCATAAAATG
Found at i:30324309 original size:8 final size:8
Alignment explanation
Indices: 30324272--30324311 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
30324262 CACAAAATAC
30324272 CGGCTTTT
1 CGGCTTTT
*
30324280 CGGCATTT
1 CGGCTTTT
*
30324288 CGGCATTT
1 CGGCTTTT
*
30324296 CAGCTTTT
1 CGGCTTTT
30324304 CGGCTTTT
1 CGGCTTTT
30324312 GCCGATCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.07, C:0.25, G:0.23, T:0.45
Consensus pattern (8 bp):
CGGCTTTT
Found at i:30325309 original size:24 final size:24
Alignment explanation
Indices: 30325282--30325328 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30325272 CTAGATTTCC
**
30325282 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30325306 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30325329 NNNNNNNNNN
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30325720 original size:49 final size:49
Alignment explanation
Indices: 30325648--30325752 Score: 183
Period size: 49 Copynumber: 2.1 Consensus size: 49
30325638 CTACTCACTT
* *
30325648 CAAAATCCGATAAGGCCCAATGAACTGCGGACTCAACTTGCCTTTCTTA
1 CAAAACCCGATAAGGCCCAATGAACCGCGGACTCAACTTGCCTTTCTTA
30325697 CAAAACCCGATAAGGCCCAATGAACCGCGGACTCAACTTGCCTTTCTTA
1 CAAAACCCGATAAGGCCCAATGAACCGCGGACTCAACTTGCCTTTCTTA
*
30325746 CCAAACC
1 CAAAACC
30325753 TCAATATCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.21
Consensus pattern (49 bp):
CAAAACCCGATAAGGCCCAATGAACCGCGGACTCAACTTGCCTTTCTTA
Found at i:30331129 original size:57 final size:54
Alignment explanation
Indices: 30331044--30331155 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 54
30331034 AGCATGGCTG
* *
30331044 CCAGAACAGATAATGTGACAGAGTCACCAGATACATATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
30331098 CCAGAACAGATATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAG--ATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
30331155 C
1 C
30331156 TAGGACGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
54 9 0.18
56 9 0.18
57 31 0.63
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:30331154 original size:28 final size:28
Alignment explanation
Indices: 30331044--30331155 Score: 113
Period size: 28 Copynumber: 4.0 Consensus size: 28
30331034 AGCATGGCTG
* * *
30331044 CCAGAACAGATAA--TGTGACAGAGTCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
* *
30331070 CCAGATACATATAA-TCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTTGTGGCAGAGCCA
* *
30331098 CCAGAACAGATATATATGTGGCAGAGCCA
1 CCAGATCAGATA-ATTTGTGGCAGAGCCA
*
30331127 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
30331155 C
1 C
30331156 TAGGACGCTT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
26 5 0.07
27 11 0.16
28 31 0.44
29 23 0.33
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (28 bp):
CCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:30331605 original size:8 final size:8
Alignment explanation
Indices: 30331568--30331607 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
30331558 CACAAAATAC
30331568 CGGCTTTT
1 CGGCTTTT
*
30331576 CGGCATTT
1 CGGCTTTT
*
30331584 CGGCATTT
1 CGGCTTTT
*
30331592 CAGCTTTT
1 CGGCTTTT
30331600 CGGCTTTT
1 CGGCTTTT
30331608 ACCGATCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.07, C:0.25, G:0.23, T:0.45
Consensus pattern (8 bp):
CGGCTTTT
Found at i:30332608 original size:24 final size:24
Alignment explanation
Indices: 30332581--30332627 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30332571 CTAGATTTCC
**
30332581 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30332605 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30332628 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30339777 original size:27 final size:27
Alignment explanation
Indices: 30339747--30339800 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
30339737 TCATACAACC
* *
30339747 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
30339774 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
30339801 TCAGATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:30341738 original size:43 final size:43
Alignment explanation
Indices: 30341650--30341795 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
30341640 TGTGATTACA
* * * * *
30341650 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGGTTATG
1 TGTAAGACCATATCTGGGACATTGGCATCGTAATGCGATTATG
* *
30341693 TGTAAGACCATATCTGGGACATTGGTATCGTTAAT-CGATTTTG
1 TGTAAGACCATATCTGGGACATTGGCATCG-TAATGCGATTATG
* * * * * * * **
30341736 TGTAAGACCCTGTTTGGGACAGTGGCATC-AATATGTGATAACA
1 TGTAAGACCATATCTGGGACATTGGCATCGTA-ATGCGATTATG
30341779 TGTAAGACCATATCTGG
1 TGTAAGACCATATCTGG
30341796 ATATGGCATT
Statistics
Matches: 79, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
41 1 0.01
42 2 0.03
43 73 0.92
44 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACATTGGCATCGTAATGCGATTATG
Found at i:30344775 original size:28 final size:27
Alignment explanation
Indices: 30344743--30344853 Score: 107
Period size: 28 Copynumber: 4.0 Consensus size: 27
30344733 ACATACCTGT
* *
30344743 ATATGGCCCACTAGGCCCAATCTCCTTC
1 ATATGGCCCA-TAGGCCCAATCACATTC
*
30344771 ATATGGCCCATCAGGCCCAATCACATTT
1 ATATGGCCCAT-AGGCCCAATCACATTC
* *
30344799 ATGTGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCA-TAGGCCC-AATCACATTC
* *
30344828 ATA-CGACCATTAGGCCCAATCACATT
1 ATATGGCCCA-TAGGCCCAATCACATT
30344854 TACCGTCATG
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.14
28 50 0.68
29 13 0.18
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.25
Consensus pattern (27 bp):
ATATGGCCCATAGGCCCAATCACATTC
Found at i:30344815 original size:56 final size:56
Alignment explanation
Indices: 30344746--30344855 Score: 141
Period size: 56 Copynumber: 2.0 Consensus size: 56
30344736 TACCTGTATA
* * * *
30344746 TGGCCCACTAGGCCC-AATCTCCTTCATATGGCCCATCAGGCCCAATCACATTTATG
1 TGGCCCACTAGGCCCAAATCACATTCATA-CGACCATCAGGCCCAATCACATTTATG
* * *
30344802 TGGCCCATTAGGCCCAAATCACATTTATACGACCATTAGGCCCAATCACATTTA
1 TGGCCCACTAGGCCCAAATCACATTCATACGACCATCAGGCCCAATCACATTTA
30344856 CCGTCATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
56 36 0.78
57 10 0.22
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (56 bp):
TGGCCCACTAGGCCCAAATCACATTCATACGACCATCAGGCCCAATCACATTTATG
Found at i:30351936 original size:40 final size:40
Alignment explanation
Indices: 30351892--30352119 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
30351882 GCCACTTGCT
30351892 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30351932 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
30351972 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
30352012 GAAATGCCTTCTGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
30352052 CAAATGCCTTCGGG-CTTAGCCCAG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
30352091 CAATTGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
30352120 CATCCGAATA
Statistics
Matches: 171, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30379380 original size:26 final size:26
Alignment explanation
Indices: 30379320--30379383 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
30379310 TACATCGTTT
* * *
30379320 CTCACACAAGCTATGAAATGAGTCTA
1 CTCACACGAGCTATGAAATGAGCCAA
* *
30379346 CTTACACGAGCTATGAAATGGGCCAA
1 CTCACACGAGCTATGAAATGAGCCAA
*
30379372 CTCATACGAGCT
1 CTCACACGAGCT
30379384 GTGGGTCAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (26 bp):
CTCACACGAGCTATGAAATGAGCCAA
Found at i:30382355 original size:49 final size:49
Alignment explanation
Indices: 30382278--30382522 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 49
30382268 TAGCCGAAGC
* * *
30382278 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
30382327 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
30382377 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
30382428 TTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
30382477 TATCTAGTACACGTAGTAGCCTACACTTAGTATTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
30382523 TCACAATAGC
Statistics
Matches: 162, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 78 0.48
50 47 0.29
51 37 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:30382515 original size:100 final size:99
Alignment explanation
Indices: 30382291--30382522 Score: 297
Period size: 100 Copynumber: 2.3 Consensus size: 99
30382281 CTGGTACGCA
* * * *
30382291 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTACACTTA
*
30382356 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * *
30382390 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTTTCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTACACT
* **
30382455 TAGTACTACACATGCGACC-AATTATCT-AGTACACG
64 TAGTACTACACACGCGACCTAACCATCTGA-TACACG
* *
30382490 TAGTAGCCTACACTTAGTATTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
30382523 TCACAATAGC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 31 0.27
100 44 0.38
101 40 0.35
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:30383204 original size:30 final size:30
Alignment explanation
Indices: 30383170--30383229 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30383160 CTTTAATACG
30383170 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
30383200 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30383230 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30414757 original size:30 final size:30
Alignment explanation
Indices: 30414723--30414783 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30414713 TCCTTAACTC
30414723 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30414753 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30414783 A
1 A
30414784 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30421766 original size:45 final size:45
Alignment explanation
Indices: 30421717--30421840 Score: 142
Period size: 45 Copynumber: 2.8 Consensus size: 45
30421707 GTTTGATTCG
* * * *
30421717 TGATGCTATAGCATCGTTCAACTATGGTCTTACTCGA-TAGAATCA
1 TGATGCCATAACATCTTTCAACTATGGTCTTACTC-ATTAAAATCA
*** *
30421762 TGATGCCATAACATCTTTTTGCTATGGTCTTATTCATTAAAATCA
1 TGATGCCATAACATCTTTCAACTATGGTCTTACTCATTAAAATCA
* *
30421807 TGATGCCATAACGTCTTTCAATTATGGTCTTACT
1 TGATGCCATAACATCTTTCAACTATGGTCTTACT
30421841 TGTTTCTGGT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.02
45 63 0.98
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (45 bp):
TGATGCCATAACATCTTTCAACTATGGTCTTACTCATTAAAATCA
Found at i:30423609 original size:22 final size:19
Alignment explanation
Indices: 30423581--30423620 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
30423571 TTATATTATT
30423581 ATAAAATTATATAACATAAAAC
1 ATAAAA-TA-ATAA-ATAAAAC
30423603 ATAAAATAATAAATAAAA
1 ATAAAATAATAAATAAAA
30423621 AGAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 2 0.11
22 6 0.33
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAAAATAATAAATAAAAC
Found at i:30423628 original size:22 final size:21
Alignment explanation
Indices: 30423603--30423646 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
30423593 AACATAAAAC
30423603 ATAAAATAATAAATAAAAAGAA
1 ATAAAATAATAAA-AAAAAGAA
*
30423625 ATAAAATAATAAAACAAAGAA
1 ATAAAATAATAAAAAAAAGAA
30423646 A
1 A
30423647 AAGAAGAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
ATAAAATAATAAAAAAAAGAA
Found at i:30425144 original size:35 final size:35
Alignment explanation
Indices: 30425098--30425219 Score: 183
Period size: 35 Copynumber: 3.5 Consensus size: 35
30425088 AGTGCCACAA
*
30425098 TTCACAACTCAGTATGGAAAATATCATACCTACGT
1 TTCACAACTCAGTATGGAAAATACCATACCTACGT
*
30425133 TTCACAACTCAGTATGAAAAATACCATACCTACGT
1 TTCACAACTCAGTATGGAAAATACCATACCTACGT
* * *
30425168 TTCACCACTCGGTATGGAAAATGCCATACCTACGT
1 TTCACAACTCAGTATGGAAAATACCATACCTACGT
30425203 TTCACATA-TCAGTATGG
1 TTCACA-ACTCAGTATGG
30425220 TTTTCTTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
35 77 0.99
36 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (35 bp):
TTCACAACTCAGTATGGAAAATACCATACCTACGT
Found at i:30439345 original size:43 final size:43
Alignment explanation
Indices: 30439284--30439408 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
30439274 GTTACATAAA
* * *
30439284 TCGCATCCATTATGAACTCAGACCTTTCAACGAGCTCGGATGC
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
30439327 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
* * * * *
30439370 -CACATATCTCAA-GAACCCAGACCACTCAACGAGCTCGGA
1 TCGCATCTAT-AATGAACTCAGACCTCTCAACGAGCTCGGA
30439409 CATCTTAGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 31 0.42
43 42 0.58
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (43 bp):
TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
Found at i:30455292 original size:43 final size:43
Alignment explanation
Indices: 30455228--30455310 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
30455218 ACATGTAACA
*
30455228 CATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTTG
1 CATCCATAATCAACTCAGACCTCTCAACGAGCTCGGATGCTTG
*
30455271 CATCCATAATCAACTCGGACCTCTCAACGAGCTCGGATGC
1 CATCCATAATCAACTCAGACCTCTCAACGAGCTCGGATGC
30455311 CACATATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.22
Consensus pattern (43 bp):
CATCCATAATCAACTCAGACCTCTCAACGAGCTCGGATGCTTG
Found at i:30459395 original size:15 final size:16
Alignment explanation
Indices: 30459375--30459407 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30459365 TTTTGAACTT
*
30459375 TTATTAGCTT-TATTA
1 TTATTACCTTATATTA
30459390 TTATTACCTTATATTA
1 TTATTACCTTATATTA
30459406 TT
1 TT
30459408 TTAATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (16 bp):
TTATTACCTTATATTA
Found at i:30459995 original size:44 final size:45
Alignment explanation
Indices: 30459946--30460036 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
30459936 TTAATTTCAT
*
30459946 AATAAATTATGATTA-TTTTCAACAGATTTGTACAAAGGGCAAAA
1 AATAAATTATGATTATTTTTCAACAGATTTGTACAAAAGGCAAAA
* *
30459990 AATAAATTATGATTATTTTTTAACAGATTTGTACAAAAGGCGAAA
1 AATAAATTATGATTATTTTTCAACAGATTTGTACAAAAGGCAAAA
30460035 AA
1 AA
30460037 CAGCTCGGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 15 0.35
45 28 0.65
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (45 bp):
AATAAATTATGATTATTTTTCAACAGATTTGTACAAAAGGCAAAA
Found at i:30461209 original size:21 final size:21
Alignment explanation
Indices: 30461179--30461222 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
30461169 TTCAATGTAG
30461179 AAATACATTGTTACCTCACGT
1 AAATACATTGTTACCTCACGT
*
30461200 AAATATATTGTTACCTCACGT
1 AAATACATTGTTACCTCACGT
30461221 AA
1 AA
30461223 TCTTTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATACATTGTTACCTCACGT
Found at i:30461295 original size:46 final size:46
Alignment explanation
Indices: 30461242--30461336 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
30461232 TGCTTATGTG
*
30461242 ATTGAATTAATTCTTTGAATTGGCATAGAGATATGTACAATAGATT
1 ATTGAATTAATTCTTTGAATTGGCATAGAGATATGTACAAGAGATT
*
30461288 ATTGAATTAATTTTTTGAATTGGCATAGAGATATGTACAAGAGATT
1 ATTGAATTAATTCTTTGAATTGGCATAGAGATATGTACAAGAGATT
30461334 ATT
1 ATT
30461337 TTAATTTCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (46 bp):
ATTGAATTAATTCTTTGAATTGGCATAGAGATATGTACAAGAGATT
Found at i:30462461 original size:29 final size:29
Alignment explanation
Indices: 30462415--30462476 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
30462405 AAATTACAAA
* *
30462415 TAACATATTTAAGTCATCCATGGTTAAGT
1 TAACATATTCAAGCCATCCATGGTTAAGT
30462444 TAACATATTCAAGCCATCCATGGTTAAGT
1 TAACATATTCAAGCCATCCATGGTTAAGT
30462473 TAAC
1 TAAC
30462477 CTATACATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (29 bp):
TAACATATTCAAGCCATCCATGGTTAAGT
Found at i:30462488 original size:29 final size:29
Alignment explanation
Indices: 30462415--30462489 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
30462405 AAATTACAAA
** *
30462415 TAACATATTTAAGTCATCCATGGTTAAGT
1 TAACATATACAAGCCATCCATGGTTAAGT
*
30462444 TAACATATTCAAGCCATCCATGGTTAAGT
1 TAACATATACAAGCCATCCATGGTTAAGT
* *
30462473 TAACCTATACATGCCAT
1 TAACATATACAAGCCAT
30462490 TATACCAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (29 bp):
TAACATATACAAGCCATCCATGGTTAAGT
Found at i:30463072 original size:57 final size:58
Alignment explanation
Indices: 30462998--30463133 Score: 165
Period size: 57 Copynumber: 2.4 Consensus size: 58
30462988 CCACATATCA
*
30462998 TATAACAGGATTACCTGTCCAAGCTAAAT-CT-TGCGT-TCAACATATGCTCATA-AGAGCT
1 TATATCAGGATTACCTGTCCAAGCTAAATCCTAT-C-TAT-AACATATGCTCA-AGAGAGCT
* *
30463056 TA-ATCAGGATTACCTGTCCAGGCTAAATCCTATCTATATCATATGCTCAAGAGAGCT
1 TATATCAGGATTACCTGTCCAAGCTAAATCCTATCTATAACATATGCTCAAGAGAGCT
*
30463113 TATATCAGGATTACCAGTCCA
1 TATATCAGGATTACCTGTCCA
30463134 GGAAAAATAC
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
56 1 0.01
57 44 0.64
58 23 0.33
59 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (58 bp):
TATATCAGGATTACCTGTCCAAGCTAAATCCTATCTATAACATATGCTCAAGAGAGCT
Found at i:30463150 original size:58 final size:57
Alignment explanation
Indices: 30463038--30463151 Score: 158
Period size: 58 Copynumber: 2.0 Consensus size: 57
30463028 TTGCGTTCAA
* ** *
30463038 CATATGCTCATAAGAGCTTAATCAGGATTACCTGTCCAGGCTAAATCCTATCTATAT
1 CATATGCTCATAAGAGCTTAATCAGGATTACCAGTCCAGGAAAAATACTATCTATAT
*
30463095 CATATGCTCA-AGAGAGCTTATATCAGGATTACCAGTCCAGGAAAAATACTTTCTATA
1 CATATGCTCATA-AGAGCTTA-ATCAGGATTACCAGTCCAGGAAAAATACTATCTATA
30463152 ATGAGGTCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 1 0.02
57 18 0.36
58 31 0.62
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (57 bp):
CATATGCTCATAAGAGCTTAATCAGGATTACCAGTCCAGGAAAAATACTATCTATAT
Found at i:30469147 original size:33 final size:33
Alignment explanation
Indices: 30469040--30469150 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 33
30469030 AAATTGTGCA
** * *
30469040 ACTTGAAAAGGTTATGTACACTTTGTGTGTA-C
1 ACTTGAAAAGGAAAGGTATACTTTGTGTGTACC
* ** * *
30469072 ACTTGGAAAGGTTAGGTATACTTTTTGTATACC
1 ACTTGAAAAGGAAAGGTATACTTTGTGTGTACC
*
30469105 A-TATTAAAAGGAAAGGTATACTTTGTGTGTACC
1 ACT-TGAAAAGGAAAGGTATACTTTGTGTGTACC
30469138 ACTTGAAAAGGAA
1 ACTTGAAAAGGAA
30469151 TGTACACCTC
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
32 27 0.42
33 36 0.56
34 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (33 bp):
ACTTGAAAAGGAAAGGTATACTTTGTGTGTACC
Found at i:30476438 original size:32 final size:32
Alignment explanation
Indices: 30476396--30476501 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 32
30476386 TTGTGCAACT
*
30476396 TGAAAAGGTTATGTACACTTTGTGTGTACACA
1 TGAAAAGGTTAGGTACACTTTGTGTGTACACA
* * * * *
30476428 TGGAAAGGTTAGGTATACTTTCTGTATACCATA
1 TGAAAAGGTTAGGTACACTTTGTGTGTA-CACA
** *
30476461 TGAAAAGGAAAGGTACACTTTGTGTGTACCACT
1 TGAAAAGGTTAGGTACACTTTGTGTGTA-CACA
30476494 TGAAAAGG
1 TGAAAAGG
30476502 AATGTACACC
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
32 23 0.39
33 36 0.61
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (32 bp):
TGAAAAGGTTAGGTACACTTTGTGTGTACACA
Found at i:30481114 original size:16 final size:15
Alignment explanation
Indices: 30481087--30481120 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30481077 ATAACTAGTA
*
30481087 TATAATTATATTTAT
1 TATAATTATATTAAT
30481102 TATAATATATATTAAT
1 TATAAT-TATATTAAT
30481118 TAT
1 TAT
30481121 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:30481183 original size:14 final size:15
Alignment explanation
Indices: 30481164--30481195 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30481154 ATTTGATCAT
30481164 ATTTTA-TTTAATAA
1 ATTTTATTTTAATAA
30481178 ATTTTATTTTAATAA
1 ATTTTATTTTAATAA
30481193 ATT
1 ATT
30481196 AATAGCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTATTTTAATAA
Found at i:30481863 original size:25 final size:26
Alignment explanation
Indices: 30481828--30481881 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
30481818 TTCTCCTAAA
*
30481828 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
30481854 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
30481879 TTT
1 TTT
30481882 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:30502886 original size:49 final size:49
Alignment explanation
Indices: 30502814--30502921 Score: 216
Period size: 49 Copynumber: 2.2 Consensus size: 49
30502804 CAAAATGGAA
30502814 ACTGGAAAGGTAATTAAATGATTTGATTTCACTCACTTGCTCAACGTAT
1 ACTGGAAAGGTAATTAAATGATTTGATTTCACTCACTTGCTCAACGTAT
30502863 ACTGGAAAGGTAATTAAATGATTTGATTTCACTCACTTGCTCAACGTAT
1 ACTGGAAAGGTAATTAAATGATTTGATTTCACTCACTTGCTCAACGTAT
30502912 ACTGGAAAGG
1 ACTGGAAAGG
30502922 AACACCAATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (49 bp):
ACTGGAAAGGTAATTAAATGATTTGATTTCACTCACTTGCTCAACGTAT
Found at i:30503534 original size:22 final size:22
Alignment explanation
Indices: 30503509--30503551 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30503499 TAATAAAAAG
30503509 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
30503531 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
30503552 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:30507268 original size:22 final size:22
Alignment explanation
Indices: 30507243--30507285 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30507233 TAATAAAAAG
30507243 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
30507265 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
30507286 CACTTATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:30514431 original size:3 final size:3
Alignment explanation
Indices: 30514423--30514453 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30514413 ATGTCTTTTC
30514423 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
30514454 GGCTCTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:30516170 original size:26 final size:26
Alignment explanation
Indices: 30516141--30516222 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
30516131 TGATACAAAT
* *
30516141 TGATAATGGATTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30516167 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30516193 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30516219 TGAT
1 TGAT
30516223 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30524219 original size:26 final size:26
Alignment explanation
Indices: 30524190--30524241 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
30524180 ACAAATTGAC
30524190 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
30524216 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
30524242 GGGAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
AATGGGTTAGGTAAATGTTCCATGAT
Found at i:30525692 original size:28 final size:28
Alignment explanation
Indices: 30525652--30525712 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
30525642 TTAGTATGTG
*
30525652 AAAAGTAGGAATATGCATGAAAAACCCT
1 AAAATTAGGAATATGCATGAAAAACCCT
30525680 AAAATTAGGAATATGCATGAAAAACCCT
1 AAAATTAGGAATATGCATGAAAAACCCT
30525708 AAAAT
1 AAAAT
30525713 AGATAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (28 bp):
AAAATTAGGAATATGCATGAAAAACCCT
Found at i:30527530 original size:30 final size:31
Alignment explanation
Indices: 30527465--30527533 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
30527455 ACTATTAATC
* *
30527465 AGTGACTGCTTTGTCACTTTTTTATAATGTT
1 AGTGACTGCTTTGTCACTTTTTCATAAAGTT
* *
30527496 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGCTTTGTCACTTTTTCATAAAGTT
30527525 GAGTGACTG
1 -AGTGACTG
30527534 AAATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.42
31 14 0.42
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGCTTTGTCACTTTTTCATAAAGTT
Found at i:30530540 original size:13 final size:13
Alignment explanation
Indices: 30530522--30530549 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30530512 GACTCGAATA
30530522 ATGTTTTGATGAT
1 ATGTTTTGATGAT
30530535 ATGTTTTGATGAT
1 ATGTTTTGATGAT
30530548 AT
1 AT
30530550 AAATGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (13 bp):
ATGTTTTGATGAT
Found at i:30532672 original size:26 final size:26
Alignment explanation
Indices: 30532638--30532687 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
30532628 AATATTTCAA
30532638 TTCTCTCATCCCCTTCT-ATTTTCTTT
1 TTCTCTCAT-CCCTTCTGATTTTCTTT
*
30532664 TTCTCTCATCCTTTCTGATTTTCT
1 TTCTCTCATCCCTTCTGATTTTCT
30532688 GCACTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.08, C:0.32, G:0.02, T:0.58
Consensus pattern (26 bp):
TTCTCTCATCCCTTCTGATTTTCTTT
Found at i:30538582 original size:5 final size:5
Alignment explanation
Indices: 30538572--30538604 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
30538562 CCAATTTGTA
*
30538572 AAAAT AAAAT AAAAT AATAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
30538605 GAACACACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:30545690 original size:27 final size:27
Alignment explanation
Indices: 30545652--30545706 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
30545642 TTGTAATCAA
30545652 TGCACAGCCTCAACGATCCATCTTTCT
1 TGCACAGCCTCAACGATCCATCTTTCT
*
30545679 TGCACAGCCTCAATGATCCATCTTTCT
1 TGCACAGCCTCAACGATCCATCTTTCT
30545706 T
1 T
30545707 TTTTACAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.35, G:0.11, T:0.33
Consensus pattern (27 bp):
TGCACAGCCTCAACGATCCATCTTTCT
Found at i:30552433 original size:45 final size:44
Alignment explanation
Indices: 30552247--30552422 Score: 135
Period size: 47 Copynumber: 3.8 Consensus size: 44
30552237 GGGTTATTTG
* ** *
30552247 TGTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGA
1 TGTGTCAGTGTAAGACATGTCTGGGACATGCATCAGCTACA--A-GA
* * *
30552294 -GAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCATTGAGACAAGA
1 TGTGTCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC--T---ACAAGA
* *
30552344 -G-CT-AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
1 TGTGTCAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGA
*
30552385 TGTGTCAGTGTAAGACTATGTCTGGGACTTGCATCAGC
1 TGTGTCAGTGTAAGAC-ATGTCTGGGACATGCATCAGC
30552423 ACGAATATGT
Statistics
Matches: 106, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
41 6 0.06
42 1 0.01
43 1 0.01
44 11 0.10
45 19 0.18
46 20 0.19
47 26 0.25
48 15 0.14
50 3 0.03
51 1 0.01
53 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
TGTGTCAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGA
Found at i:30553775 original size:20 final size:21
Alignment explanation
Indices: 30553736--30553775 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30553726 GTTATAATGA
*
30553736 CCACACGAGCGTGTTGCCCTT
1 CCACACGAGCATGTTGCCCTT
*
30553757 CCACACGGGCATG-TGCCCT
1 CCACACGAGCATGTTGCCCT
30553776 ATTTCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCATGTTGCCCTT
Found at i:30560153 original size:48 final size:46
Alignment explanation
Indices: 30560058--30560275 Score: 178
Period size: 48 Copynumber: 4.7 Consensus size: 46
30560048 GACTAGAGCT
*
30560058 AGTGTAAGA-CATTTCTGGGACAT-GCATCGGCTACG--AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTTAGA-GTGTC
* *
30560102 AGTGTAAGGCCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-TAGA-GTGTC
* * * * *
30560150 AGTGTAAGACCATGTCTAGGACATGACGTCGGCCTCGATTTCGA-TAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACG--TTAGAGT-GTC
* ** * * *
30560199 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGA-TGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTTAGAGTG-TC
30560245 AAGTGTAAGACCATGTCTGGGACATGGCATC
1 -AGTGTAAGACCATGTCTGGGACATGGCATC
30560276 AGTATTATAC
Statistics
Matches: 144, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
44 8 0.06
45 16 0.11
46 13 0.09
47 30 0.21
48 39 0.27
49 34 0.24
50 3 0.02
51 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTTAGAGTGTC
Found at i:30561894 original size:28 final size:28
Alignment explanation
Indices: 30561862--30561918 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
30561852 GATATTATTG
30561862 TTCATTCAAAAATAATCAATTTAGTTTT
1 TTCATTCAAAAATAATCAATTTAGTTTT
*
30561890 TTCATTCGAAAATAATCAATTTAGTTTT
1 TTCATTCAAAAATAATCAATTTAGTTTT
30561918 T
1 T
30561919 CTTTAAACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (28 bp):
TTCATTCAAAAATAATCAATTTAGTTTT
Found at i:30569143 original size:13 final size:13
Alignment explanation
Indices: 30569125--30569153 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30569115 AATGGCTTTA
30569125 TTTCTTGAGATGG
1 TTTCTTGAGATGG
30569138 TTTCTTGAGATGG
1 TTTCTTGAGATGG
30569151 TTT
1 TTT
30569154 TCCTGCTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.52
Consensus pattern (13 bp):
TTTCTTGAGATGG
Found at i:30569457 original size:31 final size:32
Alignment explanation
Indices: 30569410--30569472 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
30569400 TCATCTAGGC
* * *
30569410 AAGCTTTTTTTTTTCTTTCGTTCTTCAACTTT
1 AAGCTTTTCTTTTTCTTCCATTCTTCAACTTT
*
30569442 AAGC-TTTCTTTTTCTTCCATTCTTTAACTTT
1 AAGCTTTTCTTTTTCTTCCATTCTTCAACTTT
30569473 TCCCATCTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.14, C:0.21, G:0.05, T:0.60
Consensus pattern (32 bp):
AAGCTTTTCTTTTTCTTCCATTCTTCAACTTT
Found at i:30569511 original size:18 final size:18
Alignment explanation
Indices: 30569484--30569527 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
30569474 CCCATCTCTT
*
30569484 TCTTCATCCAGGTAATCA
1 TCTTCTTCCAGGTAATCA
*
30569502 TCTTCTTCCAGGTAATCT
1 TCTTCTTCCAGGTAATCA
30569520 TCTTCTTC
1 TCTTCTTC
30569528 TTCCATTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.30, G:0.09, T:0.43
Consensus pattern (18 bp):
TCTTCTTCCAGGTAATCA
Found at i:30570686 original size:13 final size:14
Alignment explanation
Indices: 30570658--30570685 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30570648 CCTTCAATGC
30570658 ACAGAACCAAAAAA
1 ACAGAACCAAAAAA
30570672 ACAGAACCAAAAAA
1 ACAGAACCAAAAAA
30570686 CGGGGTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.21, G:0.07, T:0.00
Consensus pattern (14 bp):
ACAGAACCAAAAAA
Found at i:30572789 original size:27 final size:25
Alignment explanation
Indices: 30572732--30572791 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
30572722 GACCTCAGCA
30572732 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
30572757 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
30572782 TGCTCTCTGA
1 TGCTCTCTGA
30572792 TTAGCACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (25 bp):
TGCTCTCTGAATATTAGCACGCCAG
Found at i:30572797 original size:22 final size:23
Alignment explanation
Indices: 30572732--30572798 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 23
30572722 GACCTCAGCA
30572732 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTG-A-ATTAGCACGCCAG
30572757 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTG-A-ATTAGCACGCCAG
30572782 TGCTCTCTG-ATTAGCAC
1 TGCTCTCTGAATTAGCAC
30572799 ATTTGTGCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 8 0.19
25 34 0.81
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (23 bp):
TGCTCTCTGAATTAGCACGCCAG
Found at i:30572861 original size:22 final size:22
Alignment explanation
Indices: 30572833--30572944 Score: 118
Period size: 22 Copynumber: 5.0 Consensus size: 22
30572823 CGTCAAATAT
30572833 TTAGCACATCAGTGCTCTCTGA
1 TTAGCACATCAGTGCTCTCTGA
**
30572855 TTAGCACATTTGTGCTCTCTGATA
1 TTAGCACATCAGTGCTCTCTG--A
*
30572879 TTTAGCACGTCAGTGCTCTCTGA
1 -TTAGCACATCAGTGCTCTCTGA
**
30572902 TTAGCACATTTGTGCTCTCTG-
1 TTAGCACATCAGTGCTCTCTGA
* *
30572923 TATAGCACTTCAGTACTCTCTG
1 T-TAGCACATCAGTGCTCTCTG
30572945 TTCATTAGTG
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
21 1 0.01
22 53 0.72
23 1 0.01
24 1 0.01
25 18 0.24
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGA
Found at i:30572869 original size:63 final size:62
Alignment explanation
Indices: 30572766--30572890 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 62
30572756 GTGCTCTCTG
*
30572766 AATATTAGCACGCCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGTCA
1 AATATTAGCACACCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGTCA
*
30572828 AATATTTAGCACATCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGTCA
1 AATA-TTAGCACACCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGTCA
30572891 GTGCTCTCTG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 4 0.07
63 56 0.93
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (62 bp):
AATATTAGCACACCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGTCA
Found at i:30572898 original size:47 final size:47
Alignment explanation
Indices: 30572829--30572944 Score: 184
Period size: 47 Copynumber: 2.5 Consensus size: 47
30572819 AGCACGTCAA
30572829 ATATTTAGCACATCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTG
1 ATATTTAGCACATCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTG
*
30572876 ATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTG
1 ATATTTAGCACATCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTG
* *
30572923 -TA--TAGCACTTCAGTACTCTCTG
1 ATATTTAGCACATCAGTGCTCTCTG
30572945 TTCATTAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
44 18 0.27
46 2 0.03
47 46 0.70
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (47 bp):
ATATTTAGCACATCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTG
Found at i:30575473 original size:13 final size:13
Alignment explanation
Indices: 30575455--30575480 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30575445 GCAGGGGAGA
30575455 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
30575468 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
30575481 GGGGAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:30578710 original size:64 final size:64
Alignment explanation
Indices: 30578619--30578752 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
30578609 TAATATTTCT
* *
30578619 ATATTTCTATCATGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
*
30578683 TTATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
30578747 ATATTT
1 ATATTT
30578753 AATAAAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:30578765 original size:64 final size:64
Alignment explanation
Indices: 30578632--30578766 Score: 202
Period size: 64 Copynumber: 2.1 Consensus size: 64
30578622 TTTCTATCAT
* * * * *
30578632 GATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAATTATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
30578696 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
30578759 -ATATTTTA
1 GAT-TTTTA
30578767 TATAGTTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
62 2 0.03
63 8 0.12
64 55 0.85
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.47
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
Found at i:30578827 original size:24 final size:24
Alignment explanation
Indices: 30578800--30578870 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
30578790 ATTATTATTG
*
30578800 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
30578824 AAATATTATTGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
30578848 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
30578871 TTTAAGTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:30579090 original size:15 final size:15
Alignment explanation
Indices: 30579044--30579099 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
30579034 AATGACATGT
30579044 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* ** *
30579059 A-ATAATTTTTTTCA
1 ATATTATTTAATTAA
30579073 ATATTATTTAATTAA
1 ATATTATTTAATTAA
30579088 ATATTATTTAAT
1 ATATTATTTAAT
30579100 CCGCAACTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 10 0.31
15 22 0.69
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:30579241 original size:9 final size:9
Alignment explanation
Indices: 30579211--30579497 Score: 273
Period size: 9 Copynumber: 32.4 Consensus size: 9
30579201 AATATTTAAC
*
30579211 ATAACTTAC
1 ATAACTTAT
* *
30579220 AAAACTTAC
1 ATAACTTAT
30579229 ATAACTTAT
1 ATAACTTAT
*
30579238 ATAACTTAG
1 ATAACTTAT
*
30579247 ATAA-ATAT
1 ATAACTTAT
30579255 ATAACTTAT
1 ATAACTTAT
*
30579264 ATAACTTAC
1 ATAACTTAT
30579273 ATAACTTAT
1 ATAACTTAT
*
30579282 ATAACTTAG
1 ATAACTTAT
*
30579291 ATAA-ATAT
1 ATAACTTAT
*
30579299 ATAACTTAC
1 ATAACTTAT
*
30579308 ATAACTTAC
1 ATAACTTAT
30579317 ATAACTTAT
1 ATAACTTAT
*
30579326 ATAACTTAG
1 ATAACTTAT
*
30579335 ATAA-ATAT
1 ATAACTTAT
30579343 ATAACTTAT
1 ATAACTTAT
30579352 ATAACTTAT
1 ATAACTTAT
*
30579361 ATAACTTAC
1 ATAACTTAT
30579370 ATAACTTAT
1 ATAACTTAT
*
30579379 ATAACTGAT
1 ATAACTTAT
30579388 ATAACTT-T
1 ATAACTTAT
*
30579396 GATAA-ATAT
1 -ATAACTTAT
*
30579405 ATAACTTAC
1 ATAACTTAT
*
30579414 ATAACTTCT
1 ATAACTTAT
*
30579423 ATAACTTAG
1 ATAACTTAT
*
30579432 ATAA-ATAT
1 ATAACTTAT
* *
30579440 ATTACTTAC
1 ATAACTTAT
*
30579449 ATAA-ATAT
1 ATAACTTAT
* *
30579457 ATATCATAT
1 ATAACTTAT
30579466 CATAACTTAT
1 -ATAACTTAT
*
30579476 ATAACTTAC
1 ATAACTTAT
*
30579485 ATAACTTAC
1 ATAACTTAT
30579494 ATAA
1 ATAA
30579498 TACTTAAATA
Statistics
Matches: 227, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
8 34 0.15
9 186 0.82
10 7 0.03
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (9 bp):
ATAACTTAT
Found at i:30579259 original size:44 final size:44
Alignment explanation
Indices: 30579211--30579497 Score: 315
Period size: 44 Copynumber: 6.3 Consensus size: 44
30579201 AATATTTAAC
*
30579211 ATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
*
30579255 ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
30579299 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
* * * * *
30579343 ATAACTTATATAACTTATATAACTTACATAACTTATATAACTGAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAAT-AT
* *
30579388 ATAACTTTGATAAATATATAACTTACATAACTTCTATAACTTAGATAAATAT
1 ATAAC-----T---TACATAACTTACATAACTTATATAACTTAGATAAATAT
* * * * * * * *
30579440 ATTACTTACATAA-ATATATATCATATCATAACTTATATAACTTAC
1 ATAACTTACATAACTTACATAACTTAT-ATAACTTAGATAA-ATAT
30579485 ATAACTTACATAA
1 ATAACTTACATAA
30579498 TACTTAAATA
Statistics
Matches: 208, Mismatches: 24, Indels: 21
0.82 0.09 0.08
Matches are distributed among these distances:
43 8 0.04
44 140 0.67
45 21 0.10
47 1 0.00
50 1 0.00
52 6 0.03
53 31 0.15
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (44 bp):
ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
Found at i:30579353 original size:97 final size:97
Alignment explanation
Indices: 30579209--30579488 Score: 341
Period size: 97 Copynumber: 2.9 Consensus size: 97
30579199 TAAATATTTA
* * * * * *
30579209 ACATAACTTACAAAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTATATAACTTAC
1 ACATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTATATAACTTATATAACTTAC
* *
30579273 ATAACTTATATAACTTAGATAAATAT-ATAACTT
65 ATAACTTATATAACTTACATAAATATGATAA-AT
30579306 ACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTATATAACTTATATAACTTACA
1 ACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTATATAACTTATATAACTTACA
* * * *
30579371 TAACTTATATAACTGATATAACTTTGATAAAT
66 TAACTTATATAACTTACATAAATATGATAAAT
* * * * * * *
30579403 ATATAACTTACATAACTTCTATAACTTAGATAAATATATTACTTACATAA-ATATATATCATATC
1 ACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTATATAACTTATATAACTTA-C
30579467 ATAACTTATATAACTTACATAA
65 ATAACTTATATAACTTACATAA
30579489 CTTACATAAT
Statistics
Matches: 160, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
96 15 0.09
97 141 0.88
98 4 0.03
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (97 bp):
ACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTATATAACTTATATAACTTACA
TAACTTATATAACTTACATAAATATGATAAAT
Found at i:30584685 original size:13 final size:14
Alignment explanation
Indices: 30584669--30584697 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30584659 TTCTAAATAT
30584669 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
30584682 TTATAATTGTTTAA
1 TTATAATTGTTTAA
30584696 TT
1 TT
30584698 CAATTAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:30585149 original size:21 final size:21
Alignment explanation
Indices: 30585111--30585186 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
30585101 ACTTAGAGCG
* * *
30585111 GAGGCAGTAGAGAGGGAGGCA
1 GAGGCAGCAGCGAAGGAGGCA
*
30585132 GTGGCAGCAGCGAAGGAGGCA
1 GAGGCAGCAGCGAAGGAGGCA
*
30585153 GCGGCA-CGAGCG-AGGAAGGCA
1 GAGGCAGC-AGCGAAGG-AGGCA
*
30585174 AAGGCAGCAGCGA
1 GAGGCAGCAGCGA
30585187 TGGCAGCAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.09
21 39 0.89
22 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.47, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAAGGAGGCA
Found at i:30585479 original size:31 final size:31
Alignment explanation
Indices: 30585433--30585499 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
30585423 TGGTTGTATT
* * *
30585433 TTTTATGCTAAATTTGTTGTTTTTGGCTGCA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
* * *
30585464 TTTTATACTATATTTGCTGTATTTGGTTGGA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
30585495 TTTTA
1 TTTTA
30585500 ATGCAGGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.57
Consensus pattern (31 bp):
TTTTATACTAAATTTGCTGTATTTGGCTGCA
Found at i:30585601 original size:43 final size:43
Alignment explanation
Indices: 30585574--30585688 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
30585564 GTGGGAAAAG
* *
30585574 CGCAGCTAAAAGCCATGACTTGTAGCGGTGCTTTTACCACAAA
1 CGCAGCTAAAAGCCATGACTTTTAGCGGCGCTTTTACCACAAA
* * *
30585617 AGCTGCTAAAAGCCATGACTTTTAGCGGCGCTTTTCCCACAAA
1 CGCAGCTAAAAGCCATGACTTTTAGCGGCGCTTTTACCACAAA
*
30585660 CGCCGCTAAAAGCCATGACTTTTAGCGGC
1 CGCAGCTAAAAGCCATGACTTTTAGCGGC
30585689 ATTTTTTTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (43 bp):
CGCAGCTAAAAGCCATGACTTTTAGCGGCGCTTTTACCACAAA
Found at i:30587138 original size:17 final size:17
Alignment explanation
Indices: 30587106--30587151 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
30587096 TAAAAATAAT
*
30587106 TTAAAATATA-AATTTA
1 TTAATATATATAATTTA
30587122 TTAATATATATAATTTA
1 TTAATATATATAATTTA
30587139 TTAATATATATAA
1 TTAATATATATAA
30587152 AAACAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATATATATAATTTA
Found at i:30588728 original size:19 final size:19
Alignment explanation
Indices: 30588704--30588742 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30588694 AAAAGATTAG
*
30588704 ATTAAAATTTCAATTTAAA
1 ATTAAAATTTCAACTTAAA
* *
30588723 ATTAAAGTTTTAACTTAAA
1 ATTAAAATTTCAACTTAAA
30588742 A
1 A
30588743 ATCAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTAAAATTTCAACTTAAA
Found at i:30603224 original size:40 final size:40
Alignment explanation
Indices: 30603151--30603362 Score: 241
Period size: 40 Copynumber: 5.3 Consensus size: 40
30603141 CATTTGAATG
* * *
30603151 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
30603191 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
30603231 TTATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
30603271 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * * *
30603311 ATACCCGGGTTAAGACCCAAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
30603351 ATATCC-GGCTAA
1 ATATCCGGGCTAA
30603363 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 7 0.05
40 140 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:30603488 original size:19 final size:19
Alignment explanation
Indices: 30603464--30603502 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
30603454 TGCGTGTGCA
30603464 TCGGAAAAGTCGATTCGTT
1 TCGGAAAAGTCGATTCGTT
*
30603483 TCGGAAGAGTCGATTCGTT
1 TCGGAAAAGTCGATTCGTT
30603502 T
1 T
30603503 TAAATAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
TCGGAAAAGTCGATTCGTT
Found at i:30605674 original size:22 final size:22
Alignment explanation
Indices: 30605649--30605771 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
30605639 AGATATGTAT
30605649 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
30605671 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
30605695 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
30605718 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
30605742 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
30605765 ATGTGAT
1 ATGTGAT
30605772 GAATGTGAAA
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 23 0.32
23 16 0.23
24 16 0.23
25 16 0.23
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:30605699 original size:47 final size:47
Alignment explanation
Indices: 30605646--30606034 Score: 670
Period size: 47 Copynumber: 8.3 Consensus size: 47
30605636 ACAAGATATG
30605646 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
30605693 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
30605740 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
30605787 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
30605834 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGGGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
30605881 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
30605928 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
30605975 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
30606022 TAAATGTGATAAG
1 TATATGTGATAAG
30606035 TCCCGAAGGG
Statistics
Matches: 322, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 322 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:30605865 original size:22 final size:22
Alignment explanation
Indices: 30605837--30605912 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
30605827 AAGTGTATAT
30605837 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * **
30605859 ATGTGATGAATG-TGAAAGGGTATA
1 ATGTGAT-AAGGCCG-AATGG-CCA
30605883 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
30605906 ATGTGAT
1 ATGTGAT
30605913 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:30615344 original size:95 final size:96
Alignment explanation
Indices: 30615178--30615364 Score: 277
Period size: 95 Copynumber: 2.0 Consensus size: 96
30615168 GACATGGTAG
* * *
30615178 GATGCCAATGCCATATCCCAGATATGGCCTTACATGGGAGCACATATAGATGCCAATGCCATGTC
1 GATGCCAATGCCATATCCCAAACATGGCCTTACATGGGAGCACATATAGATGCCAAAGCCATGTC
*
30615243 CCAGACATGGTCTTATGTGGGATCGTAGATC
66 CCAGACATGGTCTTATATGGGATCGTAGATC
* * * * *
30615274 GATGCCAATGTCATGTCCCAAACATGGTCTTACATGGGATC-CATATCGATGCCAAAGCCATGTC
1 GATGCCAATGCCATATCCCAAACATGGCCTTACATGGGAGCACATATAGATGCCAAAGCCATGTC
*
30615338 CTAGACATGGTCTTATATGGGATCGTA
66 CCAGACATGGTCTTATATGGGATCGTA
30615365 CACAACCCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 46 0.57
96 35 0.43
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (96 bp):
GATGCCAATGCCATATCCCAAACATGGCCTTACATGGGAGCACATATAGATGCCAAAGCCATGTC
CCAGACATGGTCTTATATGGGATCGTAGATC
Found at i:30615346 original size:47 final size:48
Alignment explanation
Indices: 30615178--30615361 Score: 226
Period size: 48 Copynumber: 3.9 Consensus size: 48
30615168 GACATGGTAG
* * * * *
30615178 GATGCCAATGCCATATCCCAGATATGGCCTTACATGGGAGCACATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** ** *
30615226 GATGCCAATGCCATGTCCCAGACATGGTCTTATGTGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
30615274 GATGCCAATGTCATGTCCCAAACATGGTCTTACATGGGATC-CATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
30615321 GATGCCAAAGCCATGTCCTAGACATGGTCTTATATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
30615362 GTACACAACC
Statistics
Matches: 115, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 40 0.35
48 75 0.65
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:30622947 original size:48 final size:48
Alignment explanation
Indices: 30622853--30622950 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
30622843 CACATGGTAG
* * * *
30622853 GATGCCAATGCCATATCTCAGATATAGTTTTACATGTGATCACATATC
1 GATGCCAATGCCATATCCCAGACATAGTATTACATGGGATCACATATC
* * * *
30622901 GATGCCAATGCCATGTCCCAGACATGGTATTACGTGGGATCTCATATC
1 GATGCCAATGCCATATCCCAGACATAGTATTACATGGGATCACATATC
30622949 GA
1 GA
30622951 AGCCGGTAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATAGTATTACATGGGATCACATATC
Found at i:30623302 original size:29 final size:28
Alignment explanation
Indices: 30623256--30623311 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
30623246 TGGCTACTAT
30623256 TCGATTTAGTCCACAACCTTATTCTTTCC
1 TCGATTTAGTCCACAACCTTATT-TTTCC
*
30623285 TCGATTTAGGTCC-GAACCTTATTTTTC
1 TCGATTTA-GTCCACAACCTTATTTTTC
30623312 TTGATCTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 17 0.68
30 4 0.16
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.43
Consensus pattern (28 bp):
TCGATTTAGTCCACAACCTTATTTTTCC
Found at i:30627374 original size:40 final size:40
Alignment explanation
Indices: 30627238--30627378 Score: 212
Period size: 40 Copynumber: 3.5 Consensus size: 40
30627228 CGGATGTAAC
* *
30627238 AACCAGCACGAATGCCTTCGAGACTTAACTCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
30627278 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
30627318 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
30627358 ATCTAGCAC-AATTGCCTTCGG
1 AACCAGCACGAA-TGCCTTCGG
30627379 ATCTTAGTTC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.02
40 92 0.98
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:30629879 original size:20 final size:20
Alignment explanation
Indices: 30629854--30629898 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
30629844 GAAAGGCACA
*
30629854 GGCGTACCCCAAGGTACACT
1 GGCGTACCCCAAGGTACACG
30629874 GGCGTACCCCAAGGTACACG
1 GGCGTACCCCAAGGTACACG
30629894 GGCGT
1 GGCGT
30629899 GTGAGTCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.13
Consensus pattern (20 bp):
GGCGTACCCCAAGGTACACG
Found at i:30635730 original size:14 final size:14
Alignment explanation
Indices: 30635711--30635738 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30635701 GGCTTGGTAA
30635711 GATAGAAATTGCAT
1 GATAGAAATTGCAT
30635725 GATAGAAATTGCAT
1 GATAGAAATTGCAT
30635739 ATGTTTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
GATAGAAATTGCAT
Found at i:30654730 original size:43 final size:43
Alignment explanation
Indices: 30654675--30654887 Score: 261
Period size: 43 Copynumber: 5.0 Consensus size: 43
30654665 ATATCGTACA
* ** * *
30654675 ATGCCAAC-GTCCCAGATGTGGTCTTACATGTAACCTCATATCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACATAATCACATATCG
* *
30654718 ATGCCACTGTCCCAGACAG-GGTCTTACTCATAAACACATATCG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACACATAATCACATATCG
* *
30654761 ATGCCAAC-ATCCCAGACGTGGTCTTACACATAATCACATACCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACATAATCACATATCG
* *
30654804 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACACATAATCACATATCG
* *
30654847 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAT
1 ATGCCACTGTCCCAGACGTGGTCTTACACATAATCACATAT
30654888 TGATATCACA
Statistics
Matches: 149, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
42 4 0.03
43 142 0.95
44 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACGTGGTCTTACACATAATCACATATCG
Found at i:30654820 original size:86 final size:86
Alignment explanation
Indices: 30654675--30654886 Score: 291
Period size: 86 Copynumber: 2.5 Consensus size: 86
30654665 ATATCGTACA
* ** * * * *
30654675 ATGCCAACGTCCCAGATGTGGTCTTACATGTAACCTCATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATACCGATGCCAATGTCCCAGAC-GTGG
*
30654739 TCTTACTCATAAACACATATCG
65 TCTTACACATAAACACATATCG
*
30654761 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATACCGATGCCAATGTCCCAGACGTGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATACCGATGCCAATGTCCCAGACGTGGT
* *
30654826 CTTACACGTAATCACATATCG
66 CTTACACATAAACACATATCG
* *
30654847 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATA
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATA
30654887 TTGATATCAC
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 1 0.01
86 110 0.99
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATACCGATGCCAATGTCCCAGACGTGGT
CTTACACATAAACACATATCG
Found at i:30660538 original size:18 final size:18
Alignment explanation
Indices: 30660515--30660556 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
30660505 CCGATTTCTA
30660515 TTCTTTCCCTACACAATT
1 TTCTTTCCCTACACAATT
30660533 TTCTTTCCCTACACAATT
1 TTCTTTCCCTACACAATT
30660551 TTCTTT
1 TTCTTT
30660557 GTTTCGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (18 bp):
TTCTTTCCCTACACAATT
Found at i:30660918 original size:16 final size:16
Alignment explanation
Indices: 30660880--30660918 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
30660870 GTAGATAGGC
*
30660880 AAAAGCCGAAATGTCG
1 AAAAGCTGAAATGTCG
30660896 AAAAGCTGAAATG-CTG
1 AAAAGCTGAAATGTC-G
30660912 AAAAGCT
1 AAAAGCT
30660919 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (16 bp):
AAAAGCTGAAATGTCG
Found at i:30661177 original size:29 final size:29
Alignment explanation
Indices: 30661138--30661220 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
30661128 GCATGAATAT
*
30661138 AATGTTATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
* *
30661167 AATGTGATTTGGGCCTAAAGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
*
30661196 AATGTGATTTGGGCCAAATGGGCCA
1 AATGTGATTTGGGCCTAATGGGCCA
30661221 TGTGAATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCACATA
Done.