Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 112 of 332
Found at i:36192436 original size:79 final size:78
Alignment explanation
Indices: 36192333--36192556 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 78
36192323 GCTCCTCGTT
* * *
36192333 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
36192398 TTTA-ATACTTCGCA
66 TTTATAT-C-TCGCA
* * * *
36192412 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
*
36192476 AATTTGTATCTCGCA
65 -ATTTATATCTCGCA
* * * * * *
36192491 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
36192555 GA
64 GA
36192557 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.02
79 87 0.72
80 29 0.24
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
TTTATATCTCGCA
Found at i:36192565 original size:41 final size:41
Alignment explanation
Indices: 36192488--36192565 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
36192478 TTTGTATCTC
* * *
36192488 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
36192529 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
36192566 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:36195189 original size:27 final size:27
Alignment explanation
Indices: 36195158--36195334 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
36195148 TAAATTGTAC
*
36195158 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
36195185 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
36195211 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
36195239 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
36195267 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
36195293 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
36195320 AGCACTGATTGTGCG
1 AGCACTAAGTGTGCG
36195335 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.20
27 80 0.62
28 23 0.18
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:36203247 original size:27 final size:27
Alignment explanation
Indices: 36203184--36203357 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
36203174 TAAATTGTAC
* *
36203184 AGCACTAAGTGTGCGATTTGACTAT-T
1 AGCACTAAGTGTGCGAATTGAATATGT
*
36203210 -GCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGAATATGT
**
36203235 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGAATATGT
*
36203263 GGCACTAAGTGTGCGAGATTG-ATATGT
1 AGCACTAAGTGTGCGA-ATTGAATATGT
* *
36203290 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGAATATGT
* * *
36203316 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGAATATGT
* *
36203343 AGCACTGATTGTGCG
1 AGCACTAAGTGTGCG
36203358 GACTCAATAT
Statistics
Matches: 124, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
25 25 0.20
26 19 0.15
27 76 0.61
28 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGAATATGT
Found at i:36203332 original size:53 final size:52
Alignment explanation
Indices: 36203184--36203357 Score: 185
Period size: 53 Copynumber: 3.3 Consensus size: 52
36203174 TAAATTGTAC
* *
36203184 AGCACTAAGTGTGCGATTTGACTA-TTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGA-TTGACTAGTAGCACTAAGTGTGCGAGATTG-ATATGT
* *
36203235 ATGCACTAAGTGTGCGAATTGACCATGTGGCACTAAGTGTGCGAGATTGATATGT
1 A-GCACTAAGTGTGCG-ATTGACTA-GTAGCACTAAGTGTGCGAGATTGATATGT
* *
36203290 AGCACTAAGTGTGCGATTGATTACGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGATTGACTA-GTAGCACTAAGTGTGCGAGATTGA-TATGT
* *
36203343 AGCACTGATTGTGCG
1 AGCACTAAGTGTGCG
36203358 GACTCAATAT
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
51 1 0.01
52 24 0.23
53 42 0.40
54 35 0.33
55 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (52 bp):
AGCACTAAGTGTGCGATTGACTAGTAGCACTAAGTGTGCGAGATTGATATGT
Found at i:36211167 original size:39 final size:39
Alignment explanation
Indices: 36211120--36211342 Score: 238
Period size: 39 Copynumber: 5.7 Consensus size: 39
36211110 GCTCCTCGTT
* * * *
36211120 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
*
36211160 C-AATGCCTTCGGGACTTAACCCGGATTTAATACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCA
*
36211198 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCA
* *
36211237 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCA
** * * *
36211277 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCA
*
36211318 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
36211343 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 7 0.04
39 92 0.58
40 47 0.30
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCA
Found at i:36211351 original size:41 final size:41
Alignment explanation
Indices: 36211274--36211351 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
36211264 TTTGTATCTC
* * *
36211274 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
36211315 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
36211352 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:36227360 original size:17 final size:17
Alignment explanation
Indices: 36227338--36227375 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
36227328 GCACCTCCAT
36227338 GTGAGTCACATTGCCGG
1 GTGAGTCACATTGCCGG
*
36227355 GTGAGTCACATTGCCGT
1 GTGAGTCACATTGCCGG
36227372 GTGA
1 GTGA
36227376 CCCTTGCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.26
Consensus pattern (17 bp):
GTGAGTCACATTGCCGG
Found at i:36228076 original size:21 final size:20
Alignment explanation
Indices: 36228052--36228099 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
36228042 CGTGAATACT
*
36228052 AAATGTGAATTTGTATTATTA
1 AAATGTCAA-TTGTATTATTA
*
36228073 AAATGTCCATTGTATTATTA
1 AAATGTCAATTGTATTATTA
36228093 AAATGTC
1 AAATGTC
36228100 CATGTAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (20 bp):
AAATGTCAATTGTATTATTA
Found at i:36228085 original size:20 final size:20
Alignment explanation
Indices: 36228062--36228102 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
36228052 AAATGTGAAT
36228062 TTGTATTATTAAAATGTCCA
1 TTGTATTATTAAAATGTCCA
36228082 TTGTATTATTAAAATGTCCA
1 TTGTATTATTAAAATGTCCA
36228102 T
1 T
36228103 GTAGACAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TTGTATTATTAAAATGTCCA
Found at i:36229665 original size:15 final size:16
Alignment explanation
Indices: 36229638--36229667 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36229628 ATTTTGTATA
36229638 TATTTTGTATAATTTT
1 TATTTTGTATAATTTT
36229654 TATTTT-TATAATTT
1 TATTTTGTATAATTT
36229668 CAAAAATAAC
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:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TATTTTGTATAATTTT
Found at i:36230180 original size:17 final size:19
Alignment explanation
Indices: 36230158--36230198 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
36230148 TTTGTTTTAA
36230158 AAATAA-TTTT-ATATTAT
1 AAATAATTTTTGATATTAT
36230175 AAATAATTTTTGATATTAT
1 AAATAATTTTTGATATTAT
36230194 AAATA
1 AAATA
36230199 CACATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
AAATAATTTTTGATATTAT
Found at i:36237736 original size:14 final size:15
Alignment explanation
Indices: 36237711--36237739 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36237701 ATTAATTTTG
36237711 ATTAAGTAAAATTAA
1 ATTAAGTAAAATTAA
36237726 ATTAA-TAAAATTAA
1 ATTAAGTAAAATTAA
36237740 TTACAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
ATTAAGTAAAATTAA
Found at i:36240920 original size:61 final size:62
Alignment explanation
Indices: 36240806--36240941 Score: 193
Period size: 61 Copynumber: 2.2 Consensus size: 62
36240796 TATTTATCTA
* * * **
36240806 AATATTAATATGAGATTATTAAATTTAGTTTAATATTTTTCTAGATAGTATTTTATTAATTT
1 AATATTAATATGAGATTATTAAATTTAATTTAATATTTATCTAAATAAAATTTTATTAATTT
* *
36240868 AATATTAGTATGAGA-TATTTAATTTAATTTAATATTTATCTAAATAAAATTTTATTAATTT
1 AATATTAATATGAGATTATTAAATTTAATTTAATATTTATCTAAATAAAATTTTATTAATTT
*
36240929 AATATTAAGATGA
1 AATATTAATATGA
36240942 TCAATTCTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 51 0.78
62 14 0.22
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (62 bp):
AATATTAATATGAGATTATTAAATTTAATTTAATATTTATCTAAATAAAATTTTATTAATTT
Found at i:36244364 original size:6 final size:6
Alignment explanation
Indices: 36244353--36244391 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
36244343 GGATTGTAAG
*
36244353 TTTCCA TTTCCA TTTTCA TTTCCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
36244392 TTTGAGACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:36246762 original size:41 final size:40
Alignment explanation
Indices: 36246698--36246777 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 40
36246688 ACAGGGGTTT
*
36246698 TCACACGGCCTGACACACGCCCGTGTCCATGGCCCGTGTCCC
1 TCACACGGCCTGA-ACACGCCCGTGTCC-TAGCCCGTGTCCC
36246740 TCACACGGCCATG-ACACGCCCGTGTCCTAGCCCGTGTC
1 TCACACGGCC-TGAACACGCCCGTGTCCTAGCCCGTGTC
36246778 TAAAAATCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 10 0.28
41 14 0.39
42 10 0.28
43 2 0.06
ACGTcount: A:0.15, C:0.44, G:0.24, T:0.17
Consensus pattern (40 bp):
TCACACGGCCTGAACACGCCCGTGTCCTAGCCCGTGTCCC
Found at i:36247826 original size:49 final size:50
Alignment explanation
Indices: 36247764--36247880 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
36247754 CATGTCTTAG
36247764 ACATGGTCTTACACTGACTATCGA-A-ATCAAGGCCGACGCCATATCCCAA
1 ACATGGTCTTACACTGACTATC-ACATATCAAGGCCGACGCCATATCCCAA
* * * * * * *
36247813 ACATGGTCTTACACT-AGCTCTCACATATCCATGCCGATGCCATGTCCTAG
1 ACATGGTCTTACACTGA-CTATCACATATCAAGGCCGACGCCATATCCCAA
36247863 ACATGGTCTTACACTGAC
1 ACATGGTCTTACACTGAC
36247881 ACATCTCGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
48 2 0.04
49 20 0.35
50 34 0.60
51 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (50 bp):
ACATGGTCTTACACTGACTATCACATATCAAGGCCGACGCCATATCCCAA
Found at i:36247945 original size:46 final size:45
Alignment explanation
Indices: 36247701--36248062 Score: 175
Period size: 47 Copynumber: 7.6 Consensus size: 45
36247691 GGTGCAATGT
* * *
36247701 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTT--ATCCATCAAGT
1 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACAT-C-TCGAGC
* * ** *
36247748 CGATGTCATGTCTTAGACATGGTCTTACACTGAC-TATCGAAATCAAGGC
1 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTA-C-ATCTCGA-GC
* * * * * * *
36247797 CGACGCCATATCCCAAACATGGTCTTACACTAGCTCTCACATATCCATGC
1 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCT-T-ACATCTCGA-GC
*
36247847 CGATGCCATGTCCTAGACATGGTCTTACACTGAC--ACATCTCGTAGC
1 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AGC
* *
36247893 CAATGCATGTCCTAGATATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGA-GC
** * * *
36247939 CGATGCATGTCCTAGACATGTCTTTACACTAACTCT-CGTCTCAATAC
1 CGATGCATGTCCTAGACATGTC-TTACACTGGCT-TACATCTCGA-GC
* * *
36247986 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTAATGT-G-GC
1 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TAC---ATCTCGAGC
*
36248034 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCTAGACATGTCTTACACT
36248063 AGCGCACAAA
Statistics
Matches: 253, Mismatches: 43, Indels: 39
0.76 0.13 0.12
Matches are distributed among these distances:
44 12 0.05
45 14 0.06
46 53 0.21
47 66 0.26
48 37 0.15
49 30 0.12
50 36 0.14
51 4 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGC
Found at i:36248006 original size:48 final size:45
Alignment explanation
Indices: 36247938--36248063 Score: 148
Period size: 48 Copynumber: 2.7 Consensus size: 45
36247928 CATCTCGAGG
*
36247938 CCGATGCATGTCCTAGACATGTCTTTACACTAACTCTCGTCTCAA-T-A
1 CCGATGCATGTCCCAGACATGTC-TTACACTAACTCTCG--T-AAGTGA
* *
36247985 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAACTCTCGTAA-GTGA
36248033 CCGATGCATGTCCCAGACATGTCTTACACTA
1 CCGATGCATGTCCCAGACATGTCTTACACTA
36248064 GCGCACAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
45 2 0.03
46 12 0.17
47 21 0.30
48 33 0.46
49 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTAAGTGA
Found at i:36248780 original size:13 final size:13
Alignment explanation
Indices: 36248762--36248788 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36248752 CTAAAAGTGC
36248762 AAAAATCATCAAG
1 AAAAATCATCAAG
36248775 AAAAATCATCAAG
1 AAAAATCATCAAG
36248788 A
1 A
36248789 TCACTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:36252223 original size:256 final size:256
Alignment explanation
Indices: 36251768--36252280 Score: 999
Period size: 256 Copynumber: 2.0 Consensus size: 256
36251758 TTCTTGTCTC
*
36251768 CATAAATGCACCAATAAATCCAATTATACAAGCAGTGATTTTTTCATTACTTAGCTTATCCAATT
1 CATAAATGCACCAATAAATCCAATTATACAAGCAATGATTTTTTCATTACTTAGCTTATCCAATT
36251833 AAGCCACAACCGAAAACACATTCATCAACCGATTCATTACTTAACCAAAACATGAAACCAAGACA
66 AAGCCACAACCGAAAACACATTCATCAACCGATTCATTACTTAACCAAAACATGAAACCAAGACA
36251898 CCATACACACATACCATGAAACATACTTCCCAAAATAAGCTTATACCATGCCTGAATATACACAA
131 CCATACACACATACCATGAAACATACTTCCCAAAATAAGCTTATACCATGCCTGAATATACACAA
*
36251963 ACATTAACCTTATTAACAAGCCATTTTCGCATGGCTACATATATATACAAATCAAAAGGAA
196 ACATTAACCTCATTAACAAGCCATTTTCGCATGGCTACATATATATACAAATCAAAAGGAA
36252024 CATAAATGCACCAATAAATCCAATTATACAAGCAATGATTTTTTCATTACTTAGCTTATCCAATT
1 CATAAATGCACCAATAAATCCAATTATACAAGCAATGATTTTTTCATTACTTAGCTTATCCAATT
*
36252089 AAGCCACAACCGAAAACACATTCATCAATCGATTCATTACTTAACCAAAACATGAAACCAAGACA
66 AAGCCACAACCGAAAACACATTCATCAACCGATTCATTACTTAACCAAAACATGAAACCAAGACA
36252154 CCATACACACATACCATGAAACATACTTCCCAAAATAAGCTTATACCATGCCTGAATATACACAA
131 CCATACACACATACCATGAAACATACTTCCCAAAATAAGCTTATACCATGCCTGAATATACACAA
36252219 ACATTAACCTCATTAACAAGCCATTTTCGCATGGCTACATATATATACAAATCAAAAGGAA
196 ACATTAACCTCATTAACAAGCCATTTTCGCATGGCTACATATATATACAAATCAAAAGGAA
36252280 C
1 C
36252281 CATATTGAAA
Statistics
Matches: 254, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 254 1.00
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.25
Consensus pattern (256 bp):
CATAAATGCACCAATAAATCCAATTATACAAGCAATGATTTTTTCATTACTTAGCTTATCCAATT
AAGCCACAACCGAAAACACATTCATCAACCGATTCATTACTTAACCAAAACATGAAACCAAGACA
CCATACACACATACCATGAAACATACTTCCCAAAATAAGCTTATACCATGCCTGAATATACACAA
ACATTAACCTCATTAACAAGCCATTTTCGCATGGCTACATATATATACAAATCAAAAGGAA
Found at i:36270048 original size:55 final size:55
Alignment explanation
Indices: 36269989--36270113 Score: 153
Period size: 55 Copynumber: 2.3 Consensus size: 55
36269979 GTTAATTTAA
* * * *
36269989 CAGGTTCGACCATGGGTGTTTCACACGGGCGTGTCAAACACCCGTGTTGTTTTGG
1 CAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCAAACACCCATGTTGTTTTGG
* ** *
36270044 CAGGTTC-ACCCACGGTTCTTCCACACGGGCGTGTCGCACGCCCATGTTGTTTTGG
1 CAGGTTCGA-CCACGGGTCTTCCACACGGGCGTGTCAAACACCCATGTTGTTTTGG
*
36270099 CAGGCTCGACCACGG
1 CAGGTTCGACCACGG
36270114 CCATATCGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 1 0.02
55 57 0.97
56 1 0.02
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (55 bp):
CAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCAAACACCCATGTTGTTTTGG
Found at i:36277110 original size:32 final size:32
Alignment explanation
Indices: 36277073--36277136 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
36277063 AGTATTCCCT
36277073 GGATACAACTCATTAGAAACTTGAGAAGACAA
1 GGATACAACTCATTAGAAACTTGAGAAGACAA
*
36277105 GGATACATCTCATTAGAAACTTGAGAAGACAA
1 GGATACAACTCATTAGAAACTTGAGAAGACAA
36277137 TGTATTGCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (32 bp):
GGATACAACTCATTAGAAACTTGAGAAGACAA
Found at i:36285412 original size:13 final size:13
Alignment explanation
Indices: 36285370--36285423 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 13
36285360 ATAGAACACG
*
36285370 AAAAAATTTTAAT
1 AAAAAATATTAAT
*
36285383 AAAAAA-ATT-CT
1 AAAAAATATTAAT
**
36285394 TGAAAATATTAAT
1 AAAAAATATTAAT
36285407 AAAAAATA-TAAT
1 AAAAAATATTAAT
36285419 AAAAA
1 AAAAA
36285424 TTAGAATTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
11 5 0.16
12 14 0.44
13 13 0.41
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:36285811 original size:28 final size:28
Alignment explanation
Indices: 36285753--36285820 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
36285743 GCTAGACGCG
* * * * *
36285753 TTTTAACAAAATCGGCCTATTTTCGTCA
1 TTTTAAAAAAATCGGCCTAGTTCCATAA
*
36285781 TTTTAAAAAAATTGGCCTAGTTCCATAA
1 TTTTAAAAAAATCGGCCTAGTTCCATAA
36285809 TTTTGAAAAAAA
1 TTTT-AAAAAAA
36285821 AGGGTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.79
29 7 0.21
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (28 bp):
TTTTAAAAAAATCGGCCTAGTTCCATAA
Found at i:36289615 original size:16 final size:15
Alignment explanation
Indices: 36289581--36289611 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
36289571 AATCATTCTC
36289581 TATTTTTTTAATATT
1 TATTTTTTTAATATT
36289596 TATTTTTTTAATATT
1 TATTTTTTTAATATT
36289611 T
1 T
36289612 TATTATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTTTTAATATT
Found at i:36291324 original size:15 final size:15
Alignment explanation
Indices: 36291304--36291353 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
36291294 TATTTAAATA
36291304 ATTAAAAAGATATAC
1 ATTAAAAAGATATAC
36291319 ATT---AA-ATATAC
1 ATTAAAAAGATATAC
36291330 ATTAAAAAGATATTAC
1 ATTAAAAAGATA-TAC
*
36291346 TTTAAAAA
1 ATTAAAAA
36291354 CAAAAGTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
11 9 0.31
12 2 0.07
14 2 0.07
15 6 0.21
16 10 0.34
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (15 bp):
ATTAAAAAGATATAC
Found at i:36293276 original size:31 final size:31
Alignment explanation
Indices: 36293241--36293304 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
36293231 CAATATAGAT
36293241 AGGATTTAAATGAAATTTTTAGTTTAAGTTG
1 AGGATTTAAATGAAATTTTTAGTTTAAGTTG
36293272 AGGATTTAAATGAAATTTTTAGTTTAAGTTG
1 AGGATTTAAATGAAATTTTTAGTTTAAGTTG
36293303 AG
1 AG
36293305 TTATTCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (31 bp):
AGGATTTAAATGAAATTTTTAGTTTAAGTTG
Found at i:36295698 original size:18 final size:18
Alignment explanation
Indices: 36295675--36295713 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
36295665 AACAGGAGTG
36295675 AAGCCAGATATTTATTTT
1 AAGCCAGATATTTATTTT
*
36295693 AAGCCAGATATTTGTTTT
1 AAGCCAGATATTTATTTT
36295711 AAG
1 AAG
36295714 GGGTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (18 bp):
AAGCCAGATATTTATTTT
Found at i:36296475 original size:33 final size:33
Alignment explanation
Indices: 36296418--36296496 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
36296408 ATTATTTTAT
36296418 AACTTATTAA-AA--TTAAATTACCAAAATATA
1 AACTTATTAATAATTTTAAATTACCAAAATATA
*
36296448 AACTTATTAATAATTTTAAATTGCCAAAATATA
1 AACTTATTAATAATTTTAAATTACCAAAATATA
36296481 AACTTATTAATAATTT
1 AACTTATTAATAATTT
36296497 AACAACCTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 10 0.22
31 2 0.04
33 33 0.73
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (33 bp):
AACTTATTAATAATTTTAAATTACCAAAATATA
Found at i:36297611 original size:20 final size:20
Alignment explanation
Indices: 36297586--36297627 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36297576 GAATGCCACA
36297586 AACTTTAAAGAAAGTTTGGT
1 AACTTTAAAGAAAGTTTGGT
36297606 AACTTTAAAGAAAGTTTGGT
1 AACTTTAAAGAAAGTTTGGT
36297626 AA
1 AA
36297628 GTTCAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (20 bp):
AACTTTAAAGAAAGTTTGGT
Found at i:36298347 original size:52 final size:50
Alignment explanation
Indices: 36298284--36298405 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
36298274 TGAACAAATA
* * * *
36298284 AGTTACTTAATGCATGACTTATTTTAAAGATGCAAACTTTAACTAACAT-AGG
1 AGTTACATAATGCATGACTTAATTT-AAGATACAAAC-TTAACTAAAATGA-G
* * * *
36298336 AGTTACATAATGCATGACATAATTTATGATATAATCTTAACTAAAATGAG
1 AGTTACATAATGCATGACTTAATTTAAGATACAAACTTAACTAAAATGAG
36298386 AGTTACATAATGCATGACTT
1 AGTTACATAATGCATGACTT
36298406 TATTAAATGC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
50 30 0.50
51 8 0.13
52 22 0.37
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (50 bp):
AGTTACATAATGCATGACTTAATTTAAGATACAAACTTAACTAAAATGAG
Found at i:36298862 original size:24 final size:24
Alignment explanation
Indices: 36298826--36298872 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
36298816 GCTAAGTAGT
* *
36298826 AATAATAACATAAATAATATATAC
1 AATAATAAAATAAAAAATATATAC
* *
36298850 AATATTAAAATAAAAAATTTATA
1 AATAATAAAATAAAAAATATATA
36298873 TTAATTTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAATAAAATAAAAAATATATAC
Found at i:36304125 original size:28 final size:29
Alignment explanation
Indices: 36304092--36304192 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
36304082 TATAGTAAGT
* * *
36304092 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
36304120 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
36304149 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
36304178 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
36304193 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:36307916 original size:13 final size:11
Alignment explanation
Indices: 36307897--36307930 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
36307887 AATAAAGAGT
36307897 TAAATCCAAAA
1 TAAATCCAAAA
36307908 TCCAAATCCAAAA
1 T--AAATCCAAAA
36307921 TAAATCCAAA
1 TAAATCCAAA
36307931 CAATCCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.18
Consensus pattern (11 bp):
TAAATCCAAAA
Found at i:36309458 original size:27 final size:27
Alignment explanation
Indices: 36309429--36309754 Score: 145
Period size: 27 Copynumber: 12.1 Consensus size: 27
36309419 CAAAACAGCC
* * *
36309429 ATTTTACCCTACAAGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGGTA
*
36309456 ATTTCACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* *
36309483 ATTTTACACTATAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * *
36309510 ATTTTACA-AATCGAGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * *
36309537 ATTTTACA-AATCGATGATATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* ** * *
36309564 ATTTTACA-AATTGAGGGTGTTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
36309591 A-TTT-CAC-A-AATTGGGCATATTTCGGTA
1 ATTTTACACTACAA--GGG--TATTTCGGTA
* ** *
36309618 ATTTTACA-AATGAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * * *
36309644 ATTTCACAAT-CGAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * *
36309670 ATTTTACA-AATC-GGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* ** *
36309696 ATTTTACA-AATTGAGGGTATTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
** * *
36309723 ATTTTACAAAACCAATGGTATTTTGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
36309751 ATTT
1 ATTT
36309755 CTCTTTATTA
Statistics
Matches: 241, Mismatches: 43, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.00
25 6 0.02
26 64 0.27
27 143 0.59
28 23 0.10
29 3 0.01
30 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:36309644 original size:26 final size:26
Alignment explanation
Indices: 36309469--36309732 Score: 291
Period size: 27 Copynumber: 9.9 Consensus size: 26
36309459 TCACACTACA
* *
36309469 AGGGTATTTCGGTAATTTTACACTATA
1 AGGGTATTTCGGTAATTTTACA-AATG
*
36309496 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-G
*
36309523 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-G
* *
36309550 ATGATATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAA-TG
* * *
36309577 AGGGTGTTTCAGTAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAA-TG
*
36309604 -GGCATATTTCGGTAATTTTACAAATG
1 AGG-GTATTTCGGTAATTTTACAAATG
* *
36309630 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAAT-G
*
36309656 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-G
*
36309683 -GGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAA-TG
*
36309709 AGGGTATTTCAGTAATTTTACAAA
1 AGGGTATTTCGGTAATTTTACAAA
36309733 ACCAATGGTA
Statistics
Matches: 204, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.01
26 64 0.31
27 136 0.67
28 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAAATG
Found at i:36310105 original size:28 final size:28
Alignment explanation
Indices: 36310072--36310133 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
36310062 GCCCCTTTAG
* * *
36310072 GCCCAATCTCGTTCGCATGGCCCATCAA
1 GCCCAATCACATTCACATGGCCCATCAA
* *
36310100 GCCCAATCACATTCATATGGCCCATCAG
1 GCCCAATCACATTCACATGGCCCATCAA
36310128 GCCCAA
1 GCCCAA
36310134 CTACTTCCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.19
Consensus pattern (28 bp):
GCCCAATCACATTCACATGGCCCATCAA
Found at i:36316815 original size:29 final size:29
Alignment explanation
Indices: 36316780--36316853 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
36316770 GTTGTGAGAT
* *
36316780 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
36316809 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
36316838 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36316854 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:36324927 original size:29 final size:29
Alignment explanation
Indices: 36324892--36324965 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
36324882 GTTGTGAGAT
* *
36324892 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
36324921 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
36324950 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36324966 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:36329634 original size:29 final size:30
Alignment explanation
Indices: 36329602--36329659 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
36329592 TTCAACCCTA
*
36329602 GACTAAATTG-ATCAATT-TAATAATAGATG
1 GACTAAATTGAACCAATTCT-ATAATAGATG
*
36329631 GACTAATTTGAACCAATTCTATAATAGAT
1 GACTAAATTGAACCAATTCTATAATAGAT
36329660 AAAACTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 15 0.60
31 1 0.04
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (30 bp):
GACTAAATTGAACCAATTCTATAATAGATG
Found at i:36331975 original size:27 final size:27
Alignment explanation
Indices: 36331944--36332013 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 27
36331934 CTTGAATTTC
36331944 TTAGATATTGATTATGTTTCAAGCTTG
1 TTAGATATTGATTATGTTTCAAGCTTG
*
36331971 TTAGATATTGAATTTATTATGTTTTAAGCTTG
1 TTAGATATTG-----ATTATGTTTCAAGCTTG
*
36332003 TTGGATATTGA
1 TTAGATATTGA
36332014 AATGATTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
27 11 0.31
32 25 0.69
ACGTcount: A:0.27, C:0.04, G:0.19, T:0.50
Consensus pattern (27 bp):
TTAGATATTGATTATGTTTCAAGCTTG
Found at i:36331993 original size:32 final size:32
Alignment explanation
Indices: 36331954--36332014 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
36331944 TTAGATATTG
36331954 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
36331986 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
36332015 ATGATTAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:36333466 original size:20 final size:20
Alignment explanation
Indices: 36333421--36333466 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
36333411 CATCCAAACA
36333421 CCAGAAAAGTAAATCATTGT
1 CCAGAAAAGTAAATCATTGT
*
36333441 -CAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTGT
36333460 CCAGAAA
1 CCAGAAA
36333467 TCATTTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTGT
Found at i:36335703 original size:191 final size:191
Alignment explanation
Indices: 36335376--36335750 Score: 660
Period size: 191 Copynumber: 2.0 Consensus size: 191
36335366 ACTACACCTT
*
36335376 TAAGTTTCTACTTAGGAGTTCAATCAATGTCGTTCATGATCCTCTCGGCTGCCTCCAACCAATAC
1 TAAGTTTCTACTTAGGAGTTCAATCAATGTCGTTCATAATCCTCTCGGCTGCCTCCAACCAATAC
*
36335441 TTAGCCACAGCAGGGGTGACTCTAGTGACACCCCTAAACAGCTCAGCTCCATTGGACCAGAGTCA
66 TCAGCCACAGCAGGGGTGACTCTAGTGACACCCCTAAACAGCTCAGCTCCATTGGACCAGAGTCA
* * *
36335506 TTCAGTTACTGACCTACGACACTCAGATCCAGAATGGGGTCCAGTGACCCTCTCCAAATCC
131 TTCAGTTACTGACCCACGACACTAAGATCCAGAATGGGGTCCAGCGACCCTCTCCAAATCC
**
36335567 TAAGTTTCTGTTTAGGAGTTCAATCAATGTCGTTCATAATCCTCTCGGCTGCCTCCAACCAATAC
1 TAAGTTTCTACTTAGGAGTTCAATCAATGTCGTTCATAATCCTCTCGGCTGCCTCCAACCAATAC
* *
36335632 TCAGCCACAGCAGGGGTGACTCTAGTGATACCCCTAAACAGCTCAGCTCCATTGGACCAGAGTCG
66 TCAGCCACAGCAGGGGTGACTCTAGTGACACCCCTAAACAGCTCAGCTCCATTGGACCAGAGTCA
*
36335697 TTCAGTTACTGACCCACGACACTAAGATCTAGAATGGGGTCCAGCGACCCTCTC
131 TTCAGTTACTGACCCACGACACTAAGATCCAGAATGGGGTCCAGCGACCCTCTC
36335751 TAACACCTTC
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
191 174 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (191 bp):
TAAGTTTCTACTTAGGAGTTCAATCAATGTCGTTCATAATCCTCTCGGCTGCCTCCAACCAATAC
TCAGCCACAGCAGGGGTGACTCTAGTGACACCCCTAAACAGCTCAGCTCCATTGGACCAGAGTCA
TTCAGTTACTGACCCACGACACTAAGATCCAGAATGGGGTCCAGCGACCCTCTCCAAATCC
Found at i:36340702 original size:9 final size:9
Alignment explanation
Indices: 36340693--36340753 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
36340683 CTTTAAGTCG
*
36340693 GTTAATTCG
1 GTTAATTCA
*
36340702 GTTGATTCA
1 GTTAATTCA
***
36340711 GTTGCGTCA
1 GTTAATTCA
*
36340720 GTTAATTCG
1 GTTAATTCA
*
36340729 GTTACTTCA
1 GTTAATTCA
*
36340738 GTTAATTTA
1 GTTAATTCA
36340747 GTTAATT
1 GTTAATT
36340754 TTATAATTAT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (9 bp):
GTTAATTCA
Found at i:36340738 original size:18 final size:18
Alignment explanation
Indices: 36340685--36340744 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
36340675 ATTCAATACT
* * *
36340685 TTAAGTCGGTTAATTCGG
1 TTAATTCGGTTACTTCAG
* * * *
36340703 TTGATTCAGTTGCGTCAG
1 TTAATTCGGTTACTTCAG
36340721 TTAATTCGGTTACTTCAG
1 TTAATTCGGTTACTTCAG
36340739 TTAATT
1 TTAATT
36340745 TAGTTAATTT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (18 bp):
TTAATTCGGTTACTTCAG
Found at i:36340749 original size:27 final size:27
Alignment explanation
Indices: 36340685--36340753 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
36340675 ATTCAATACT
*
36340685 TTAAGTCGGTTAATTCGGTTGATTCAG
1 TTAAGTCAGTTAATTCGGTTGATTCAG
**
36340712 TTGCGTCAGTTAATTCGGTT-ACTTCAG
1 TTAAGTCAGTTAATTCGGTTGA-TTCAG
* *
36340739 TTAATTTAGTTAATT
1 TTAAGTCAGTTAATT
36340754 TTATAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (27 bp):
TTAAGTCAGTTAATTCGGTTGATTCAG
Found at i:36344523 original size:34 final size:33
Alignment explanation
Indices: 36344484--36344570 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 33
36344474 ATTATCACCT
36344484 TATTAAAATA-TAAATAAATAAAAATTAATATTAA
1 TATTAAAATATTAAATAAA-AAAAATT-ATATTAA
* *
36344518 TATTAATATTATTAAATAAAAATAATTATATTAA
1 TATTAA-AATATTAAATAAAAAAAATTATATTAA
*
36344552 TATT-AAATAAT-AATAAAAA
1 TATTAAAATATTAAATAAAAA
36344571 TATCTCACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 8 0.17
32 4 0.09
33 1 0.02
34 17 0.36
35 9 0.19
36 8 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (33 bp):
TATTAAAATATTAAATAAAAAAAATTATATTAA
Found at i:36344563 original size:28 final size:33
Alignment explanation
Indices: 36344484--36344571 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 33
36344474 ATTATCACCT
*
36344484 TATTAAAATATAAATAAATAAAAATTAATATTAA
1 TATTAATAT-TAAATAAATAAAAATTAATATTAA
*
36344518 TATTAATATT-ATTAAATAAAAA-T-A-ATT-A
1 TATTAATATTAAATAAATAAAAATTAATATTAA
36344546 TATTAATATTAAATAATAATAAAAAT
1 TATTAATATTAAAT-A-AATAAAAAT
36344572 ATCTCACCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 11 0.23
29 5 0.11
30 2 0.04
31 9 0.19
32 11 0.23
33 1 0.02
34 8 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
TATTAATATTAAATAAATAAAAATTAATATTAA
Found at i:36345281 original size:30 final size:30
Alignment explanation
Indices: 36345245--36345307 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
36345235 ACTTAATAAG
36345245 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
36345275 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
36345305 CAA
1 CAA
36345308 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:36345382 original size:11 final size:11
Alignment explanation
Indices: 36345344--36345383 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
36345334 ACAATAACAA
36345344 CAAAATAGTAG
1 CAAAATAGTAG
*
36345355 CAACATA-TAG
1 CAAAATAGTAG
*
36345365 TAAAATAGTAG
1 CAAAATAGTAG
36345376 CAAAATAG
1 CAAAATAG
36345384 AGATAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:36346143 original size:13 final size:13
Alignment explanation
Indices: 36346125--36346149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36346115 TATTTTCCAA
36346125 AAAATTAAAAAAT
1 AAAATTAAAAAAT
36346138 AAAATTAAAAAA
1 AAAATTAAAAAA
36346150 AATATGTATA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATTAAAAAAT
Found at i:36346726 original size:18 final size:18
Alignment explanation
Indices: 36346680--36346729 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
36346670 TATCAATATT
* *
36346680 AAAAAAGTATAAAAAATG
1 AAAAAAATATATAAAATG
*
36346698 AAAATAAATATATAAAATT
1 AAAA-AAATATATAAAATG
*
36346717 CAAAAAATATATA
1 AAAAAAATATATA
36346730 TATAAAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAAAAATATATAAAATG
Found at i:36346745 original size:22 final size:22
Alignment explanation
Indices: 36346698--36346798 Score: 75
Period size: 22 Copynumber: 4.5 Consensus size: 22
36346688 ATAAAAAATG
36346698 AAAATAAATATATAAAATTCAA
1 AAAATAAATATATAAAATTCAA
*
36346720 AAAATATATATATAAAA-TCTATA
1 AAAATAAATATATAAAATTC-A-A
* *
36346743 AAAAGAAACATATAAATTATT-AA
1 AAAATAAATATATAAA--ATTCAA
*
36346766 AAATATAAA-A-ATAAAATTTACA
1 AAA-ATAAATATATAAAATTCA-A
36346788 AAAATATAATA
1 AAAATA-AATA
36346799 ATTGAAAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
20 3 0.05
21 6 0.09
22 28 0.44
23 20 0.31
24 5 0.08
25 1 0.02
26 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (22 bp):
AAAATAAATATATAAAATTCAA
Found at i:36346895 original size:15 final size:15
Alignment explanation
Indices: 36346872--36346902 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36346862 TTTATGAAAT
36346872 TATGAAATTATAAAA
1 TATGAAATTATAAAA
*
36346887 TATGCAATTATAAAA
1 TATGAAATTATAAAA
36346902 T
1 T
36346903 TCTAAAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (15 bp):
TATGAAATTATAAAA
Found at i:36346895 original size:23 final size:23
Alignment explanation
Indices: 36346864--36346909 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36346854 TAAATTTTTT
*
36346864 TATGAAATTATGAAATTATAAAA
1 TATGAAATTATAAAATTATAAAA
* *
36346887 TATGCAATTATAAAATTCTAAAA
1 TATGAAATTATAAAATTATAAAA
36346910 GATATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (23 bp):
TATGAAATTATAAAATTATAAAA
Found at i:36347256 original size:19 final size:21
Alignment explanation
Indices: 36347212--36347258 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
36347202 TTAATTTTGA
36347212 AATA-TTTAATATTATAATTT
1 AATATTTTAATATTATAATTT
**
36347232 GCTATTTTAAT-TTA-AATTT
1 AATATTTTAATATTATAATTT
36347251 AATATTTT
1 AATATTTT
36347259 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 11 0.50
20 5 0.23
21 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
AATATTTTAATATTATAATTT
Found at i:36347880 original size:36 final size:37
Alignment explanation
Indices: 36347817--36347888 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
36347807 AAATAATAAT
* *
36347817 AATTTCATTTTTATCTATTATTTATATTATTAAATTA
1 AATTTCATATTTATCTACTATTTATATTATTAAATTA
* *
36347854 AATTTCATATTT-TGTACTATTTATATTATTGAATT
1 AATTTCATATTTATCTACTATTTATATTATTAAATT
36347889 GTTTAATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (37 bp):
AATTTCATATTTATCTACTATTTATATTATTAAATTA
Found at i:36352465 original size:17 final size:19
Alignment explanation
Indices: 36352432--36352473 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
36352422 GAATTACAAA
36352432 AAAAATCAAAATAATTT-T
1 AAAAATCAAAATAATTTAT
36352450 AAAAATCAAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
36352468 AAAAAT
1 AAAAAT
36352474 TCCAAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:36352890 original size:30 final size:30
Alignment explanation
Indices: 36352848--36352907 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
36352838 CTCGAGCCTT
36352848 GCCATGAGCTTGCT-TTTCAGCAACCATGGC
1 GCCATGAGCTTGCTCTTT-AGCAACCATGGC
*
36352878 GCCATGCA-CTTGCTCTTTGGCAACCATGGC
1 GCCATG-AGCTTGCTCTTTAGCAACCATGGC
36352908 TACTTCTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.27
Consensus pattern (30 bp):
GCCATGAGCTTGCTCTTTAGCAACCATGGC
Found at i:36355023 original size:6 final size:6
Alignment explanation
Indices: 36355014--36355039 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36355004 ATTTTTATTT
36355014 AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AA
36355040 ATTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:36358414 original size:48 final size:47
Alignment explanation
Indices: 36358355--36358519 Score: 201
Period size: 48 Copynumber: 3.5 Consensus size: 47
36358345 TATGATAGCC
* * *
36358355 AGTGTAAGACATGTCTGGGACATACATCGGTCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GTCTTGAGATATACGAGCT
* **
36358403 AGTGTAAGACATGTCTGGGACATGCATCCTCATTGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGTC-TTGAGATATACGAGCT
* *
36358449 AGTGTAAGACATGTCTGTGACATGCATCAGCCTTGAGATATACGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GTCTTGAGATATACGAGCT
*
36358497 AGTGTAAGACCTG-CTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
36358520 GCGTCAGCTT
Statistics
Matches: 100, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
46 37 0.37
47 14 0.14
48 49 0.49
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGTCTTGAGATATACGAGCT
Found at i:36364155 original size:13 final size:13
Alignment explanation
Indices: 36364137--36364161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36364127 AGGCCGTGTG
36364137 AAGGACACGGGCC
1 AAGGACACGGGCC
36364150 AAGGACACGGGC
1 AAGGACACGGGC
36364162 GTGTGCTTAG
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:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:36372876 original size:16 final size:16
Alignment explanation
Indices: 36372857--36372915 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
36372847 ACAAATCCCA
36372857 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
36372873 AAAAGCCGAAATGTCA
1 AAAAGCCGAAATGCCG
**
36372889 AAAAGTTGAAATGCCG
1 AAAAGCCGAAATGCCG
*
36372905 AAAAGCTGAAA
1 AAAAGCCGAAA
36372916 GTTTGGCTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.49, C:0.17, G:0.22, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:36372900 original size:32 final size:32
Alignment explanation
Indices: 36372855--36372915 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
36372845 CGACAAATCC
36372855 CAAAAAGCCGAAATGCCGAAAAGCCGAAATGT
1 CAAAAAGCCGAAATGCCGAAAAGCCGAAATGT
** *
36372887 CAAAAAGTTGAAATGCCGAAAAGCTGAAA
1 CAAAAAGCCGAAATGCCGAAAAGCCGAAA
36372916 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.11
Consensus pattern (32 bp):
CAAAAAGCCGAAATGCCGAAAAGCCGAAATGT
Found at i:36373171 original size:28 final size:28
Alignment explanation
Indices: 36373131--36373242 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
36373121 TATGACTGTA
*
36373131 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
36373159 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
*
36373188 AATGTGAATGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * * *
36373216 AAAGAGATTGGGCTTAGTGGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
36373243 ATATATAGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 58 0.81
29 14 0.19
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:36373237 original size:56 final size:57
Alignment explanation
Indices: 36373129--36373239 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 57
36373119 AGTATGACTG
* * * *
36373129 TAAATGTGATTTGGGCCTAGTGGCCATATGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATATGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
* *
36373186 TAAATGTGA-ATGGGCCTAATGGGCCATATGAAAGAGA-TTGGGCTTAGTGGGCCA
1 TAAATGTGATATGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
36373240 TATATATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 24 0.51
57 23 0.49
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (57 bp):
TAAATGTGATATGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
Found at i:36380851 original size:93 final size:93
Alignment explanation
Indices: 36380692--36380862 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
36380682 GCCCATAAGT
*
36380692 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
36380757 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
36380785 GAACTCGGACTCAACTCATCGAGTTCG-GACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
36380849 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
36380863 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:36380854 original size:46 final size:47
Alignment explanation
Indices: 36380684--36380859 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 47
36380674 TGTAACCCGC
* *
36380684 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
* * *
36380730 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-ATTTGCAT
* * *
36380780 CTC-T---CGAACTCGGACTCAACTCATCGAGTTCGGA-CATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
*
36380823 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
36380860 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 61 0.56
47 28 0.26
48 1 0.01
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
Found at i:36383313 original size:15 final size:15
Alignment explanation
Indices: 36383227--36383313 Score: 51
Period size: 14 Copynumber: 6.0 Consensus size: 15
36383217 ACAAGATAAC
*
36383227 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
36383241 AAGAAATCCAAG-TA
1 AAGAAATCCAAGATA
* *
36383255 GAGAAA-CGC-GGAATA
1 AAGAAATC-CAAG-ATA
36383270 AAGAAATCC-AGA-A
1 AAGAAATCCAAGATA
* *
36383283 TAAGAGATCCAGGATA
1 -AAGAAATCCAAGATA
*
36383299 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
36383314 CAATACTAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
13 3 0.05
14 27 0.49
15 23 0.42
16 2 0.04
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:36390636 original size:50 final size:49
Alignment explanation
Indices: 36390512--36390700 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
36390502 TGAGGTCGCA
* * * * *
36390512 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
36390563 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * * *
36390613 TATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
36390662 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
36390701 GCTTTGGCCA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 40 0.35
50 43 0.37
51 32 0.28
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:36397653 original size:48 final size:48
Alignment explanation
Indices: 36397455--36397669 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 48
36397445 TGATATGTGT
* * * * * *
36397455 GCTAGTGTAAGACATGTCTGTGACATGTATCAGCCA-C-A-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTAG-CATCGAGATATAAAA
* * * *
36397501 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCATCGAGATATAAAA
** * * * * ** *
36397549 GCTAGTGTAAGACACATCTGTGACATGCATTGGCAT-TA-AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCATCGAGATATAAAA
* * * *
36397595 GCTAGTGTAAGACTTGTCTGAGACATGCATTAACCTCGAGATATAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCATCGAGATATAAAA
*
36397643 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
36397670 GCGTCAGCTT
Statistics
Matches: 129, Mismatches: 35, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
45 1 0.01
46 63 0.49
47 3 0.02
48 62 0.48
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTAGCATCGAGATATAAAA
Found at i:36397668 original size:94 final size:94
Alignment explanation
Indices: 36397497--36397669 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
36397487 GCCACATTAT
* * * *
36397497 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTCGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGAGACATGCATCAACCTCGAGATATAAAAGCTAGTGTAAGAC
*
36397562 ACATCTGTGACATGCATTGGCATTAAGAC
66 ACATCTGGGACATGCATTGGCATTAAGAC
* * *
36397591 GAGAGCTAGTGTAAGACTTGTCTGAGACATGCATTAACCTCGAGATATAAAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGAGACATGCATCAACCTCGAGATATAAAAGCTAGTGTAAGAC
*
36397656 -CTGTCTGGGACATG
66 AC-ATCTGGGACATG
36397670 GCGTCAGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 1 0.01
94 68 0.99
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (94 bp):
GAGAGCCAGTGTAAGACATGTCTGAGACATGCATCAACCTCGAGATATAAAAGCTAGTGTAAGAC
ACATCTGGGACATGCATTGGCATTAAGAC
Found at i:36401186 original size:28 final size:28
Alignment explanation
Indices: 36401146--36401202 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
36401136 ATTATTTAGT
*
36401146 CGACTGTGTACATTCCCATATGCATACA
1 CGACTGTGTACATTCACATATGCATACA
36401174 CGACTGTGTACATTCACATATGCATACA
1 CGACTGTGTACATTCACATATGCATACA
36401202 C
1 C
36401203 ATGGTTCTCA
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:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGACTGTGTACATTCACATATGCATACA
Found at i:36401520 original size:43 final size:43
Alignment explanation
Indices: 36401401--36401694 Score: 396
Period size: 43 Copynumber: 6.8 Consensus size: 43
36401391 TGCTAACGTC
* *
36401401 CCCA-ACGTGGTCTTACATGTAATCACATATCGATGCC-ACTGTCT
1 CCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAC---AT
*
36401445 GGCCCAGACAG-GGACTTACACGTAATCACATATCGATGCCAACAT
1 --CCCAGAC-GTGGTCTTACACGTAATCACATATCGATGCCAACAT
* * *
36401490 CCTAGACGTGGTCTTACATGTAATCACATATCGATACCAACAT
1 CCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACAT
*
36401533 CCCAGATGTGGTCTTACACGTAATCACATATCGATGCCAACAT
1 CCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACAT
* * *
36401576 CCCAGACGTGGTCCTGCACGTAATCACATATCGATGCCAACGT
1 CCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACAT
* * *
36401619 CCCAGACGTGGTCCTGCACGTAATCACATATCGATGCCAACGT
1 CCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACAT
36401662 CCCAGACGTGGTCTTACACGTAATCACATATCG
1 CCCAGACGTGGTCTTACACGTAATCACATATCG
36401695 GAATCACATA
Statistics
Matches: 227, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.00
43 189 0.83
45 1 0.00
46 4 0.02
47 29 0.13
48 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
CCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAACAT
Found at i:36407762 original size:31 final size:31
Alignment explanation
Indices: 36407724--36407787 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
36407714 CCTTTTCATA
*
36407724 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
36407755 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
36407786 TT
1 TT
36407788 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:36408067 original size:25 final size:24
Alignment explanation
Indices: 36407981--36408197 Score: 282
Period size: 25 Copynumber: 9.0 Consensus size: 24
36407971 CTGCTTTATC
*
36407981 ATATAACTGGAGGCCT-AGCCTCTTT
1 ATATAACTGG-GGCATAAGCC-CTTT
* *
36408006 -TAGTAACTGGGGAAAAAGCCCTTT
1 ATA-TAACTGGGGCATAAGCCCTTT
*
36408030 TTATAACTGGGGCATAAGCCCTTT
1 ATATAACTGGGGCATAAGCCCTTT
* *
36408054 ATCATAACTAGGGCATAAGCCCTTC
1 AT-ATAACTGGGGCATAAGCCCTTT
*
36408079 ATCATAACTAGGGCATAAGCCCTTT
1 AT-ATAACTGGGGCATAAGCCCTTT
36408104 ATCATAACTGGGGCATAAGCCCTTT
1 AT-ATAACTGGGGCATAAGCCCTTT
36408129 A-ATAACTGGGGCATAAGCCCTTT
1 ATATAACTGGGGCATAAGCCCTTT
36408152 A-ATAACTGGGGCATAAGCCCTTT
1 ATATAACTGGGGCATAAGCCCTTT
36408175 A-ATAACTGGGGCATAAGCCCTTT
1 ATATAACTGGGGCATAAGCCCTTT
36408198 TGCACTTCCT
Statistics
Matches: 178, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
23 68 0.38
24 28 0.16
25 82 0.46
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (24 bp):
ATATAACTGGGGCATAAGCCCTTT
Found at i:36408137 original size:23 final size:23
Alignment explanation
Indices: 36408004--36408197 Score: 262
Period size: 23 Copynumber: 8.1 Consensus size: 23
36407994 CCTAGCCTCT
* * *
36408004 TTTAGTAACTGGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
36408027 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
36408051 TTTATCATAACTAGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
* *
36408076 TTCATCATAACTAGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
36408101 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
36408126 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
36408149 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
36408172 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
36408195 TTT
1 TTT
36408198 TGCACTTCCT
Statistics
Matches: 155, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
23 72 0.46
24 19 0.12
25 63 0.41
27 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:36408272 original size:20 final size:20
Alignment explanation
Indices: 36408244--36408314 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
36408234 GCATTTATGA
*
36408244 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
36408264 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
36408284 ACATGTCGTGTGCATATCAT
1 ACATATCATGTGCATATCAT
36408304 ACATATCATGT
1 ACATATCATGT
36408315 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:36409618 original size:27 final size:27
Alignment explanation
Indices: 36409556--36409633 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
36409546 GGGCATATTC
36409556 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
36409583 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
36409610 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
36409634 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:36409704 original size:27 final size:27
Alignment explanation
Indices: 36409674--36409725 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
36409664 GAAAATCTAC
36409674 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
36409701 AAACCAAAGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
36409726 TAGAAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:36409787 original size:27 final size:27
Alignment explanation
Indices: 36409757--36409942 Score: 168
Period size: 27 Copynumber: 6.9 Consensus size: 27
36409747 GTGACTTTGT
*
36409757 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTAGTAATTTTAC
* * *
36409784 AAAT-TGAGGGTATTTCAGTAATTTCAC
1 AAATCAG-GGGTATTTTAGTAATTTTAC
* * *
36409811 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTAGTAATTTTAC
*
36409838 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTAGTAATTTTAC
*
36409865 AAAT-TGAGGGTATTTCTA-TAATTTTAC
1 AAATCAG-GGGTATTT-TAGTAATTTTAC
* * *
36409892 AAACCAAGGGTATTTTAGCAATTTTAC
1 AAATCAGGGGTATTTTAGTAATTTTAC
*
36409919 AGA-CTA-GGGTATTTTAGTAATTTT
1 AAATC-AGGGGTATTTTAGTAATTTT
36409943 GTAAATCGAG
Statistics
Matches: 131, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
26 23 0.18
27 106 0.81
28 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTAGTAATTTTAC
Found at i:36409857 original size:81 final size:81
Alignment explanation
Indices: 36409762--36409956 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 81
36409752 TTTGTAAATC
36409762 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-AGTAATTTCACAAACC-AGTGGTATT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTA-TAATTTCACAAACCAAG-GGTATT
* *
36409825 TTGGTAATTTTACAAACT
64 TTAGCAATTTTACAAACT
*
36409843 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTCACAAACCAAGGGTATTTT
*
36409908 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* ** *
36409924 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
36409957 AAACAATAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
80 28 0.27
81 73 0.70
82 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:36409966 original size:27 final size:27
Alignment explanation
Indices: 36409935--36410091 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 27
36409925 GGGTATTTTA
* *
36409935 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
36409962 ATAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36409989 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
36410016 GTACTTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
36410043 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
36410070 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
36410092 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:36409980 original size:80 final size:81
Alignment explanation
Indices: 36409762--36409983 Score: 225
Period size: 81 Copynumber: 2.8 Consensus size: 81
36409752 TTTGTAAATC
* * *** *
36409762 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATT-TCACAAACC-AGTGGTATT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCT-ACAAACCAAG-GGTATT
* *
36409825 TTGGTAATTTTACAAACT
64 TTAGCAATTTTACAAACT
* * *** * *
36409843 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAACCAAGGGTATTTT
*
36409908 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
** * *
36409924 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTA
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAACCAAGGGTA
36409984 AAACAGTAAT
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
80 48 0.39
81 72 0.59
82 3 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:36410069 original size:54 final size:54
Alignment explanation
Indices: 36409935--36410118 Score: 179
Period size: 54 Copynumber: 3.4 Consensus size: 54
36409925 GGGTATTTTA
* * ** * * * **
36409935 GTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAATG
* * *
36409989 GTAATTCTATAAATCAAGGGTAAAACGGTACTTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAATG
* * * ***
36410043 GTAATTCTGTAAGTCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAATG
* * *
36410097 GTAATTTTACAAGTCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
36410119 TTTCAATAAT
Statistics
Matches: 107, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAATG
Found at i:36411197 original size:43 final size:43
Alignment explanation
Indices: 36411127--36411246 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
36411117 GGGTGTTACA
* * *
36411127 ATCCTAGACGTGGTCTTACACGTAATCACATATCGATGCCAAC
1 ATCCCAGATGTGGTCTTACACGTAATCACATATCGATACCAAC
* * *
36411170 GTCCCATATGTGGTCTTGCACGTAATCACATATCGATACCAAC
1 ATCCCAGATGTGGTCTTACACGTAATCACATATCGATACCAAC
*
36411213 ATCCCAGATGTGG-CTTATACGTAATCACATATCG
1 ATCCCAGATGTGGTCTTACACGTAATCACATATCG
36411247 GAATCACATA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 19 0.28
43 48 0.72
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (43 bp):
ATCCCAGATGTGGTCTTACACGTAATCACATATCGATACCAAC
Found at i:36416326 original size:40 final size:39
Alignment explanation
Indices: 36416282--36416418 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 39
36416272 CAGTTATTTG
* *
36416282 TGGCACTTAGTGTGCAATACAACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAT-CGACATAGCTTCGGCTATATA
* *
36416322 TGGCACTTAGTGTGCGATTCGACCTAACTTCGGCTATATA
1 TGGCACTTAGTGTGCGA-TCGACATAGCTTCGGCTATATA
* * *
36416362 TGGCACTTAGTGTGCGATCTGAGATAGCTTCGACTATGTA
1 TGGCACTTAGTGTGCGATC-GACATAGCTTCGGCTATATA
*
36416402 TGACACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
36416419 GATATCGAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 82 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (39 bp):
TGGCACTTAGTGTGCGATCGACATAGCTTCGGCTATATA
Found at i:36416457 original size:28 final size:28
Alignment explanation
Indices: 36416399--36416458 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
36416389 CTTCGACTAT
* * *
36416399 GTATGACACTTAGTGTGCGAGATATCGA
1 GTATGACACTTAGTGTCCGAGACATCAA
* *
36416427 GTATGGCACTTAGTGTCCGAGACATTAA
1 GTATGACACTTAGTGTCCGAGACATCAA
36416455 GTAT
1 GTAT
36416459 TCAACGACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GTATGACACTTAGTGTCCGAGACATCAA
Found at i:36418142 original size:25 final size:25
Alignment explanation
Indices: 36418095--36418167 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
36418085 GGTGTGCTTT
36418095 TACGAGCTGTAA-AT-GGTAAGCTCA
1 TACGAGCTG-AATATCGGTAAGCTCA
36418119 TACGAGCTGAATATCGGTAAGCTCA
1 TACGAGCTGAATATCGGTAAGCTCA
* *
36418144 TGA-GAGCTTAATATCAGTAAGCTC
1 T-ACGAGCTGAATATCGGTAAGCTC
36418168 TCTCGAGTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 2 0.05
24 11 0.25
25 30 0.68
26 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (25 bp):
TACGAGCTGAATATCGGTAAGCTCA
Found at i:36432383 original size:42 final size:42
Alignment explanation
Indices: 36432336--36432490 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 42
36432326 TATCATACCA
* * **
36432336 ATGCCATATCCCAAATATGGTCTTACATGGGATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCACATCG
* * * *
36432378 ATGCCAATAGCCCAGGTATGGCCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCACATCG
* * *
36432421 ATGCCGTATCCCAGATATGGTCTTACACGAAATTTCACATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCACATCG
* * *
36432463 ATTCCATATCTCATATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
36432491 ATAGTCTCAG
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 59 0.63
43 34 0.37
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCACATCG
Found at i:36434367 original size:20 final size:21
Alignment explanation
Indices: 36434329--36434367 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
36434319 GCTCTTAAAA
* *
36434329 TATGAAAATTTTTCTAAGTGT
1 TATGAAAATTTTCCAAAGTGT
36434350 TATG-AAATTTTCCAAAGT
1 TATGAAAATTTTCCAAAGT
36434368 TCTCGGTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (21 bp):
TATGAAAATTTTCCAAAGTGT
Found at i:36438157 original size:13 final size:13
Alignment explanation
Indices: 36438139--36438163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36438129 CGGCTTAGAA
36438139 CATGGCTGTGTGG
1 CATGGCTGTGTGG
36438152 CATGGCTGTGTG
1 CATGGCTGTGTG
36438164 CACACCAAGA
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:0.08, C:0.16, G:0.44, T:0.32
Consensus pattern (13 bp):
CATGGCTGTGTGG
Found at i:36444459 original size:8 final size:8
Alignment explanation
Indices: 36444446--36444471 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36444436 GGTCGGAGAA
36444446 ATTATTTT
1 ATTATTTT
36444454 ATTATTTT
1 ATTATTTT
36444462 ATTATTTT
1 ATTATTTT
36444470 AT
1 AT
36444472 GTGTTATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTATTTT
Found at i:36451835 original size:36 final size:36
Alignment explanation
Indices: 36451788--36451858 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
36451778 GGGGACACAT
*
36451788 GGCCGTGTCACCTAACCGTGTGTCACACACGACTGA
1 GGCCGTGTCACCTAACCATGTGTCACACACGACTGA
*
36451824 GGCCGTGTCACCTGACCATGTGTCACACACGACTG
1 GGCCGTGTCACCTAACCATGTGTCACACACGACTG
36451859 CGACACACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.34, G:0.25, T:0.20
Consensus pattern (36 bp):
GGCCGTGTCACCTAACCATGTGTCACACACGACTGA
Found at i:36454325 original size:42 final size:43
Alignment explanation
Indices: 36454216--36454378 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
36454206 TTCTGAGATG
** *
36454216 TGATATCGTGTAAGAAAATGTCTGGGACATTGGCATCGATCTGA
1 TGATATCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-A
36454260 -GATTAT-GTGTAAGACCATGTCTGGGACATTGGCATC-ATATA
1 TGA-TATCGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
* * ** *
36454301 TGATTTCGTGTAAGACCCTGTCTGGGACGGTGGCATCGATATT
1 TGATATCGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
* ** *
36454344 TGATAACACGTAAGACCATGTCTGGGATA-TGGCAT
1 TGATATCGTGTAAGACCATGTCTGGGACATTGGCAT
36454379 TGTATGAGTT
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.03
42 38 0.38
43 56 0.56
44 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
TGATATCGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
Found at i:36460100 original size:27 final size:26
Alignment explanation
Indices: 36460052--36460111 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
36460042 GTGAGGCTGC
*
36460052 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
36460079 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
36460105 CAGATAT
1 CAGATAT
36460112 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36460198 original size:27 final size:26
Alignment explanation
Indices: 36460150--36460201 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36460140 GCGAGGCTGC
*
36460150 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
36460176 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
36460202 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36461779 original size:39 final size:39
Alignment explanation
Indices: 36461736--36461915 Score: 179
Period size: 39 Copynumber: 4.6 Consensus size: 39
36461726 TACTTGTTCA
*
36461736 AATGCCTTCGGGACATAGCCC-AATTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGAATT-TAGTAACTCGCAC
* *
36461775 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA-C
*
36461815 AATGCCTTCGGG-CTTAGCCCGGAA-TTAGTATCTCGCAC
1 AATGCCTTCGGGACTTAGCCC-GAATTTAGTAACTCGCAC
* * * * * *
36461853 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGAATTTAGTAAC-TCGCAC
*
36461894 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
36461916 GACATCATTC
Statistics
Matches: 117, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 3 0.03
39 61 0.52
40 45 0.38
41 8 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCAC
Found at i:36461863 original size:79 final size:81
Alignment explanation
Indices: 36461736--36461917 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 81
36461726 TACTTGTTCA
*
36461736 AATGCCTTCGGGACATAGCCC--AATTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATTATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCGG
* *
36461798 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
36461815 AATGCCTTCGGG-CTTAGCCCGGAA-T-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATTATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCGG
* *
36461877 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
36461894 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
36461918 CATCATTCGA
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
78 22 0.25
79 49 0.56
80 17 0.19
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATTATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:36464278 original size:27 final size:27
Alignment explanation
Indices: 36464247--36464407 Score: 154
Period size: 27 Copynumber: 6.1 Consensus size: 27
36464237 ATGGTGATTT
* * *
36464247 TACCCCACAAGGGTATCTCAGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
36464274 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
36464301 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
36464328 TATCCTAC-AGGGCTATTTCGATAATTC
1 TACCCTACAAGGG-TATTTCGGTAATTC
**
36464355 TA-CC--C--GGGATATTTCAATAATTC
1 TACCCTACAAGGG-TATTTCGGTAATTC
* * *
36464378 TACCCTACAGGGGTATTTAGGGAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
36464405 TAC
1 TAC
36464408 AACTTATCCA
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
23 18 0.16
24 3 0.03
26 7 0.06
27 82 0.73
28 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGGTAATTC
Found at i:36464311 original size:54 final size:53
Alignment explanation
Indices: 36464250--36464395 Score: 183
Period size: 54 Copynumber: 2.8 Consensus size: 53
36464240 GTGATTTTAC
* *
36464250 CCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTA
1 CCCACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTA
* * * *
36464303 CCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGCTATTTCGATAATTCTA
1 CCC-ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTA
*
36464357 -CC-C--GGGATATTTCAATAATTCTACCCTACAGGGGTATTT
1 CCCACAAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTT
36464396 AGGGAATTCT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
49 3 0.04
50 28 0.35
51 1 0.01
53 5 0.06
54 44 0.54
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (53 bp):
CCCACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTA
Found at i:36464367 original size:23 final size:24
Alignment explanation
Indices: 36464310--36464382 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 24
36464300 CTACCCTACA
*
36464310 AGGG-TATTTCGGTAATTCTATCCTAC
1 AGGGATATTTCGATAATTCTA-CC--C
*
36464336 AGGGCTATTTCGATAATTCTACCC
1 AGGGATATTTCGATAATTCTACCC
*
36464360 -GGGATATTTCAATAATTCTACCC
1 AGGGATATTTCGATAATTCTACCC
36464383 TACAGGGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 21 0.49
24 1 0.02
26 6 0.14
27 15 0.35
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (24 bp):
AGGGATATTTCGATAATTCTACCC
Found at i:36470956 original size:27 final size:27
Alignment explanation
Indices: 36470908--36470960 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
36470898 GCGAGGCTGC
*
36470908 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* *
36470935 CAGATATTGTGGCTAAGCCACCAGAT
1 CAGATATTGTGACGAAGCCACCAGAT
36470961 TGCAGTAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:36471804 original size:27 final size:27
Alignment explanation
Indices: 36471608--36471807 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
36471598 GGGGCAAAAT
* * * *
36471608 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36471635 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36471662 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
36471689 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
36471716 GGTAGTTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
36471743 AATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
36471770 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
36471797 GGTAATTCTAC
1 GGTAATTCTAC
36471808 AACTTATCCA
Statistics
Matches: 146, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:36476361 original size:30 final size:29
Alignment explanation
Indices: 36476327--36476389 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
36476317 ATGAATCGGA
*
36476327 AGCTTTGGCACTAAGTGTGTGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
36476357 AGCTTTGGCACTAATTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
36476386 AGCT
1 AGCT
36476390 ACGGCTACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:36478661 original size:40 final size:40
Alignment explanation
Indices: 36478604--36478807 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
36478594 TCGAATGATG
*
36478604 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
36478644 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
36478683 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
36478723 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
36478763 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
36478803 TCCGG
1 TCCGG
36478808 TTAAATTTCA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.25
40 98 0.69
41 8 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:36478740 original size:79 final size:81
Alignment explanation
Indices: 36478604--36478786 Score: 250
Period size: 79 Copynumber: 2.3 Consensus size: 81
36478594 TCGAATGATG
* * *
36478604 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
36478668 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
**
36478683 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA
36478745 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
36478763 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
36478787 TGAACGAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 61 0.66
80 30 0.33
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:36478810 original size:79 final size:79
Alignment explanation
Indices: 36478605--36478811 Score: 246
Period size: 79 Copynumber: 2.6 Consensus size: 79
36478595 CGAATGATGT
*
36478605 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
36478668 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
36478685 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AGCTATATCC-GGTTAAGAT-CCGAAGGCATT
36478747 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* **
36478764 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
36478812 ATTTCAAAGG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
78 3 0.03
79 64 0.58
80 43 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:36486829 original size:40 final size:40
Alignment explanation
Indices: 36486772--36486956 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
36486762 TCGAATGATG
*
36486772 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
36486812 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
36486851 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
36486891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
36486931 ACCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36486957 AACGAGCAGT
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.27
40 84 0.67
41 8 0.06
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:36486908 original size:79 final size:81
Alignment explanation
Indices: 36486772--36486954 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
36486762 TCGAATGATG
* * *
36486772 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
36486836 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
**
36486851 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA
36486913 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
36486931 ACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
36486955 TGAACGAGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 61 0.67
80 29 0.32
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:36486978 original size:79 final size:78
Alignment explanation
Indices: 36486773--36486979 Score: 199
Period size: 79 Copynumber: 2.6 Consensus size: 78
36486763 CGAATGATGT
* * *
36486773 CCGGGCTAAGTCCCGAAGGCTTTGTG--CTGAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTG-GAAC-GAGTCACTATATCCGG-TTAAGATCCGAAGGCATT
*
36486836 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
** *
36486853 CCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTATATCC-GGTTAAGAT-CCGAAGGCATTTG
36486917 TGCGAGTTACT-ATAA
64 TGCGAGTTACTAAT-A
* * * *
36486932 CCGGGCTATGTCTCGAAGGCATTTGAACGAG-CAGTTATATCCGGTTAA
1 CCGGGCTAAG-CCCGAAGGCATTGGAACGAGTCA-CTATATCCGGTTAA
36486980 ATTTCAAAGG
Statistics
Matches: 108, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
78 4 0.04
79 69 0.64
80 35 0.32
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTATATCCGGTTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:36494435 original size:27 final size:26
Alignment explanation
Indices: 36494387--36494438 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36494377 GTGAGGCTGC
*
36494387 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
36494413 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
36494439 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36494708 original size:8 final size:8
Alignment explanation
Indices: 36494695--36494730 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
36494685 AAAGTGGGCT
36494695 CGTTGGCC
1 CGTTGGCC
36494703 CGTTGGCC
1 CGTTGGCC
36494711 CGTTGGCC
1 CGTTGGCC
36494719 CGTTGGCC
1 CGTTGGCC
36494727 CGTT
1 CGTT
36494731 TTTGGCCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.00, C:0.36, G:0.36, T:0.28
Consensus pattern (8 bp):
CGTTGGCC
Found at i:36495136 original size:27 final size:27
Alignment explanation
Indices: 36495106--36495249 Score: 164
Period size: 27 Copynumber: 5.3 Consensus size: 27
36495096 GGCAAAATGG
* * * *
36495106 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
36495133 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
36495160 T-ATTCTTACCCCACAAGGGTATTTCGG
1 TAATTC-TACCCTACAGGGGTATTTCGA
* **
36495187 TAATTCTATCCTGGAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
36495214 TAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
36495241 TAATTCTAC
1 TAATTCTAC
36495250 AACTTATCCA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
26 4 0.04
27 90 0.92
28 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:36495175 original size:54 final size:55
Alignment explanation
Indices: 36495106--36495249 Score: 186
Period size: 54 Copynumber: 2.7 Consensus size: 55
36495096 GGCAAAATGG
* *
36495106 TAATT-TTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTTACCCCACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA
* * **
36495160 T-ATTCTTACCCCACAAGGGTATTTCGGTAATTCTATCCTGGAGGGGTATTTCGA
1 TAATTCTTACCCCACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA
** *
36495214 TAATTC-TACCTTACAGGGGTATTTCGATAATTCTAC
1 TAATTCTTACCCCACAAGGGTATTTCGATAATTCTAC
36495250 AACTTATCCA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.04
54 70 0.91
55 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (55 bp):
TAATTCTTACCCCACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA
Found at i:36502732 original size:40 final size:40
Alignment explanation
Indices: 36502670--36502886 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
36502660 AAGCCGAGTA
* * *
36502670 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* *
36502709 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* *
36502749 CCTTCGGGACTTAGCCCGGACATAATAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
36502789 CCTTCGGGAATTAGCCCGGGTATAATAACTCGCAC-AATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAA-TG
* * *
36502829 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
36502868 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
36502887 TTATCATCCG
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 43 0.28
40 111 0.72
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:36504716 original size:47 final size:47
Alignment explanation
Indices: 36504613--36504735 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 47
36504603 TGTCACAGCT
** * **
36504613 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTTCTCCAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCCACCC
*
36504660 GATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTACCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCAT-ATCTC-CACCC
*
36504708 GATG-CATGTCCCAGACAT-GTCCTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
36504736 GGCTTACATC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 11 0.16
47 50 0.75
48 6 0.09
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCCACCC
Found at i:36504873 original size:94 final size:93
Alignment explanation
Indices: 36504613--36504877 Score: 256
Period size: 94 Copynumber: 2.8 Consensus size: 93
36504603 TGTCACAGCT
* * *
36504613 GATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATTTCTCCAGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATTTGT--GGCCGATG-CATGTCCCAGA
* * *
36504676 CATGGTCTTACACTAACTATCATCTCGTACCC
63 CAT-GTCTTACACTAGCTATCATATCATACCC
* * * * *
36504708 GATG-CATGTCCCAGACAT-GTCCTACACTGGCTT-ACATCTTGAGGCCAATGCGA-GTCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGG-TTCTCAT-TTGTGGCCGATGC-ATGTCCCAGA
* * * *
36504769 AATGTCTTACACTAGCTCTCGTATCA-ATGCC
63 CATGTCTTACACTAGCTATCATATCATA-CCC
*
36504800 GATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCAT-TTGTGGCCGATGCATGTCCCAGACA
36504865 TGTCTTACACTAG
65 TGTCTTACACTAG
36504878 TTCAAAAACA
Statistics
Matches: 137, Mismatches: 23, Indels: 21
0.76 0.13 0.12
Matches are distributed among these distances:
91 1 0.01
92 24 0.18
93 38 0.28
94 65 0.47
95 7 0.05
96 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATTTGTGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTATCATATCATACCC
Done.