Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 222 of 427
Found at i:62800208 original size:34 final size:34
Alignment explanation
Indices: 62800153--62800224 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 34
62800143 GGCTATTTTT
*
62800153 CTTTTATTTTTATTGATTTTTTTTATCATGAAAG
1 CTTTTATTTTTATAGATTTTTTTTATCATGAAAG
62800187 CTTTTGATTTTTATAGATTTTTTTTATCATGAAAG
1 CTTTT-ATTTTTATAGATTTTTTTTATCATGAAAG
62800222 CTT
1 CTT
62800225 GATTAAGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 5 0.14
35 31 0.86
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.60
Consensus pattern (34 bp):
CTTTTATTTTTATAGATTTTTTTTATCATGAAAG
Found at i:62804421 original size:24 final size:24
Alignment explanation
Indices: 62804394--62804456 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
62804384 CTTATTATGT
62804394 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62804418 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62804442 TCGCACACATAGTGC
1 TCGCACACATAGTGC
62804457 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:62812270 original size:24 final size:24
Alignment explanation
Indices: 62812243--62812305 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
62812233 CTTATTATGT
62812243 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62812267 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62812291 TCGCACACATAGTGC
1 TCGCACACATAGTGC
62812306 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:62815301 original size:46 final size:46
Alignment explanation
Indices: 62815241--62815515 Score: 426
Period size: 46 Copynumber: 6.0 Consensus size: 46
62815231 TTTGACATGA
* * * * * *
62815241 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
62815287 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62815333 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62815379 TGCCATGGTATCTTTCAAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTC-AACCATGGTCTTACACATTTCATATCAGGT
*
62815426 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62815472 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
62815516 AGAGCACACT
Statistics
Matches: 215, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
45 4 0.02
46 165 0.77
47 46 0.21
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:62815443 original size:93 final size:92
Alignment explanation
Indices: 62815241--62815515 Score: 426
Period size: 93 Copynumber: 3.0 Consensus size: 92
62815231 TTTGACATGA
* * * * * *
62815241 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
*** *
62815305 CCATGGTCTTGTTCATTTCATATCACGT
65 CCATGGTCTTACACATTTCATATCAGGT
62815333 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTC-AA
62815398 CCATGGTCTTACACATTTCATATCAGGT
65 CCATGGTCTTACACATTTCATATCAGGT
*
62815426 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
62815491 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
62815516 AGAGCACACT
Statistics
Matches: 170, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
91 4 0.02
92 79 0.46
93 87 0.51
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGT
Found at i:62815511 original size:139 final size:138
Alignment explanation
Indices: 62815241--62815515 Score: 426
Period size: 139 Copynumber: 2.0 Consensus size: 138
62815231 TTTGACATGA
* * * * *
62815241 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
*** *
62815306 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
62815371 TATCAGGT
131 TATCAGGT
*
62815379 TGCCATGGTATCTTTCAAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCA
1 TGCCATAGTATCTTTC-AACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTATCTTTCA
*
62815443 ACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
64 ACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
62815508 CATATCAG
129 CATATCAG
62815516 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
138 18 0.15
139 106 0.85
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:62815899 original size:14 final size:14
Alignment explanation
Indices: 62815880--62815909 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62815870 TCAATATTTC
62815880 ATCAAATATCATGA
1 ATCAAATATCATGA
62815894 ATCAAATATCATGA
1 ATCAAATATCATGA
62815908 AT
1 AT
62815910 TGAACATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (14 bp):
ATCAAATATCATGA
Found at i:62823504 original size:51 final size:49
Alignment explanation
Indices: 62823378--62823519 Score: 196
Period size: 51 Copynumber: 2.9 Consensus size: 49
62823368 AGAAGCTATG
*
62823378 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATA
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATAATA
* * * * *
62823427 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT-TTT
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATAATA
62823477 TGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
1 T-GGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
62823520 TCACAATAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
49 38 0.46
50 4 0.05
51 40 0.49
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
TGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATAATA
Found at i:62827211 original size:40 final size:40
Alignment explanation
Indices: 62827167--62827261 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
62827157 TAGTTATTTG
*
62827167 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATA
* * * * * *
62827207 TGGCACTTTGTGTGTGATTTGAGATAGCTTTAGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATA
*
62827247 CGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
62827262 AAGATATCGA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATA
Found at i:62832175 original size:20 final size:19
Alignment explanation
Indices: 62832147--62832184 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
62832137 GTCATACTTA
62832147 TTAGCCATGATT-CATTCAT
1 TTAGCCATG-TTCCATTCAT
62832166 TTAGCACATGTTCCATTCA
1 TTAGC-CATGTTCCATTCA
62832185 CCAAACATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (19 bp):
TTAGCCATGTTCCATTCAT
Found at i:62832630 original size:19 final size:19
Alignment explanation
Indices: 62832606--62832645 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62832596 TGTGTTATCA
62832606 TAAATTCATAGACAGAACT
1 TAAATTCATAGACAGAACT
** *
62832625 TAAATTTGTAGACATAACT
1 TAAATTCATAGACAGAACT
62832644 TA
1 TA
62832646 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (19 bp):
TAAATTCATAGACAGAACT
Found at i:62833679 original size:22 final size:22
Alignment explanation
Indices: 62833654--62833697 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62833644 CAAAAACCAC
62833654 TTAGTAAAAGATGTTAAACACA
1 TTAGTAAAAGATGTTAAACACA
*
62833676 TTAGTAAAATATGTTAAACACA
1 TTAGTAAAAGATGTTAAACACA
62833698 CATTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (22 bp):
TTAGTAAAAGATGTTAAACACA
Found at i:62838059 original size:49 final size:49
Alignment explanation
Indices: 62838006--62838180 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
62837996 CTAGTACGCA
* *
62838006 TAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACG
* * * * * *
62838055 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACCCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-AAATTATCCGGTACACG
* *
62838106 TAGTATCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACG
*
62838155 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
62838181 CGTGACCTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 64 0.60
50 2 0.02
51 40 0.38
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACG
Found at i:62838137 original size:100 final size:100
Alignment explanation
Indices: 62837999--62838185 Score: 320
Period size: 100 Copynumber: 1.9 Consensus size: 100
62837989 AGGCTATCTA
*
62837999 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCAGTACACGTAGTAGCCT
1 GTACCCATAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCAGTACACGTAGTAGCCT
62838064 GCACTTAGTACTACACACGTGATCGAAGTTATCGG
66 GCACTTAGTACTACACACGTGATCGAAGTTATCGG
* * * * *
62838099 GTACCCATAGTATCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCTT
1 GTACCCATAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCAGTACACGTAGTAGCCT
62838164 GCACTTAGTACTACACACGTGA
66 GCACTTAGTACTACACACGTGA
62838186 CCTCACAATA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
GTACCCATAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCAGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTTATCGG
Found at i:62843706 original size:66 final size:68
Alignment explanation
Indices: 62843630--62843816 Score: 272
Period size: 71 Copynumber: 2.7 Consensus size: 68
62843620 TAGTACCACT
*
62843630 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
62843692 CACG
65 CACG
62843696 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
62843761 ATCACG
63 ATCACG
*
62843767 CATGCGACCTAGCTACATTTACCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
62843817 GATACATCTC
Statistics
Matches: 113, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 92 0.81
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:62843741 original size:71 final size:71
Alignment explanation
Indices: 62843653--62843816 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
62843643 CGATTTGTCT
*
62843653 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
62843718 CTTTCA
66 CTTTCA
62843724 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
62843789 CTTTCA
66 CTTTCA
62843795 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62843817 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
CTTTCA
Found at i:62851198 original size:66 final size:68
Alignment explanation
Indices: 62851122--62851307 Score: 279
Period size: 71 Copynumber: 2.7 Consensus size: 68
62851112 TAGTACCACT
*
62851122 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
62851184 CACG
65 CACG
62851188 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
62851253 ATCACG
63 ATCACG
62851259 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATG
62851308 CATGGGATAG
Statistics
Matches: 113, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 92 0.81
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:62851233 original size:71 final size:71
Alignment explanation
Indices: 62851145--62851307 Score: 326
Period size: 71 Copynumber: 2.3 Consensus size: 71
62851135 CGATTTGTCT
62851145 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62851210 CTTTCA
66 CTTTCA
62851216 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62851281 CTTTCA
66 CTTTCA
62851287 CGTAGCTCTCTTGTCTACATG
1 CGTAGCTCTCTTGTCTACATG
62851308 CATGGGATAG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62854133 original size:24 final size:24
Alignment explanation
Indices: 62854101--62854173 Score: 101
Period size: 24 Copynumber: 2.9 Consensus size: 24
62854091 CGGGTTCAAA
62854101 TTGTATAGCACTAAGTGTGCGAGT
1 TTGTATAGCACTAAGTGTGCGAGT
62854125 TTGTATAGCACTAAGTGTGCGAGT
1 TTGTATAGCACTAAGTGTGCGAGT
*
62854149 TCGACTATTAAGCACTAAGTGTGCG
1 TTG--TA-T-AGCACTAAGTGTGCG
62854174 GGCTTATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
24 26 0.59
26 2 0.05
27 1 0.02
28 15 0.34
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (24 bp):
TTGTATAGCACTAAGTGTGCGAGT
Found at i:62872203 original size:21 final size:22
Alignment explanation
Indices: 62872172--62872212 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62872162 AAAAATATTA
62872172 ACTTTATTAAACAATAAATGAT
1 ACTTTATTAAACAATAAATGAT
* *
62872194 ACTTT-TTAAATAGTAAATG
1 ACTTTATTAAACAATAAATG
62872213 TTGCATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
ACTTTATTAAACAATAAATGAT
Found at i:62874102 original size:9 final size:9
Alignment explanation
Indices: 62874070--62874119 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
62874060 ATTCAAAAAG
*
62874070 AATTATAAA
1 AATTATTAA
*
62874079 AACTATTAA
1 AATTATTAA
62874088 AA--ATTAA
1 AATTATTAA
62874095 AATTATTAA
1 AATTATTAA
*
62874104 AATGTATAAA
1 AAT-TATTAA
62874114 AATTAT
1 AATTAT
62874120 AATTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 7 0.20
9 20 0.57
10 8 0.23
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (9 bp):
AATTATTAA
Found at i:62874105 original size:25 final size:25
Alignment explanation
Indices: 62874070--62874123 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
62874060 ATTCAAAAAG
62874070 AATTATAAAAACTAT-TAAAAATTAA
1 AATTATAAAAA-TATATAAAAATTAA
* * *
62874095 AATTATTAAAATGTATAAAAATTAT
1 AATTATAAAAATATATAAAAATTAA
62874120 AATT
1 AATT
62874124 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AATTATAAAAATATATAAAAATTAA
Found at i:62874696 original size:13 final size:13
Alignment explanation
Indices: 62874678--62874702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62874668 TTAAAATATT
62874678 TTATAAATAAAAA
1 TTATAAATAAAAA
62874691 TTATAAATAAAA
1 TTATAAATAAAA
62874703 GTTTTTTAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTATAAATAAAAA
Found at i:62878744 original size:44 final size:44
Alignment explanation
Indices: 62878694--62878781 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
62878684 TTTGAATGTA
62878694 TGACAATTTAAACATTCATTGCATGATAAACCATGAAATGTGGT
1 TGACAATTTAAACATTCATTGCATGATAAACCATGAAATGTGGT
*
62878738 TGACAATTTAGACATTCATTGCATGATAAACCATGAAATGTGGT
1 TGACAATTTAAACATTCATTGCATGATAAACCATGAAATGTGGT
62878782 AGTATAGGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (44 bp):
TGACAATTTAAACATTCATTGCATGATAAACCATGAAATGTGGT
Found at i:62880931 original size:40 final size:40
Alignment explanation
Indices: 62880886--62881015 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
62880876 CGGAATATAA
62880886 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62880926 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
62880966 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
62881006 CCGGATATAA
1 CCGGATATAA
62881016 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:62881030 original size:40 final size:39
Alignment explanation
Indices: 62880902--62881052 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
62880892 ATAACCATGT
* * *
62880902 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
62880942 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
62880982 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
62881021 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
62881053 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:62881036 original size:80 final size:79
Alignment explanation
Indices: 62880886--62881052 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
62880876 CGGAATATAA
*
62880886 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
62880951 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
62880966 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
62881028 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
62881045 CCGGATAT
1 CCGGATAT
62881053 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:62882756 original size:28 final size:29
Alignment explanation
Indices: 62882716--62882770 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
62882706 CATAGGCGAT
*
62882716 GACATGGGCGTGT-CTAGGCCGTGTGAGG
1 GACACGGGCGTGTGCTAGGCCGTGTGAGG
* * *
62882744 GACACGGGTGTGTGCTCGGCTGTGTGA
1 GACACGGGCGTGTGCTAGGCCGTGTGA
62882771 AAATCCCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.13, C:0.18, G:0.45, T:0.24
Consensus pattern (29 bp):
GACACGGGCGTGTGCTAGGCCGTGTGAGG
Found at i:62891350 original size:53 final size:53
Alignment explanation
Indices: 62891173--62891379 Score: 166
Period size: 53 Copynumber: 3.8 Consensus size: 53
62891163 ATTAGGGTTT
* * * * *
62891173 AAGGATACCAAGTAAGACCATGCCAAAGCATGGCATTGGTAAGTT-TTGCAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCAT--AAGGC
* * * * * * * *
62891227 AAGGAAATCATGTAAGACCATGTC-AGGACATTGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGG-CATGGCAATGGT-AAGTTC-ATAAGGC
* * *
62891282 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
* * ** *
62891335 AAGGATACCACGTAAGACCATGTCAAGAAATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT
62891380 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
53 46 0.39
54 33 0.28
55 35 0.30
56 3 0.03
57 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
Found at i:62899654 original size:24 final size:24
Alignment explanation
Indices: 62899627--62899959 Score: 247
Period size: 24 Copynumber: 13.9 Consensus size: 24
62899617 GAAATGACTT
*
62899627 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
62899651 TGGCACTATGTGTGTGAATTGGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
62899675 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
62899699 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
62899724 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
62899747 TGGCACTAAATGTGTG-G-ATTT-ATA
1 TGGCACT--ATGTGTGCGAATTTGA-A
*
62899771 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
62899795 TGTCAATATGTATGTGAA-TT-AA
1 TGGCACTATGTGTGCGAATTTGAA
*
62899817 TAAGGCACTATGTGTGCGAATTTGTA
1 T--GGCACTATGTGTGCGAATTTGAA
* *
62899843 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
62899867 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
62899891 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
62899916 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
62899939 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
62899960 CCTTGCTTGA
Statistics
Matches: 240, Mismatches: 47, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
21 1 0.00
22 12 0.05
23 6 0.03
24 199 0.83
25 11 0.05
26 11 0.05
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:62899683 original size:48 final size:48
Alignment explanation
Indices: 62899627--62899930 Score: 338
Period size: 48 Copynumber: 6.3 Consensus size: 48
62899617 GAAATGACTT
* * * **
62899627 TGGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTGGTA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTAATA
* * *
62899675 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTAATA
* * * ** * * *
62899723 AGGCACTATGTGTGCGAATTTGTATGGCACTAAATGTGTGGATTTATA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTAATA
* *
62899771 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTAATA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTAATA
* * * * * * * *
62899819 AGGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTAATA
* * *
62899867 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTAATA
*
62899915 AGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
62899931 GGTTAACATG
Statistics
Matches: 206, Mismatches: 50, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 206 1.00
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (48 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTAATA
Found at i:62899947 original size:96 final size:96
Alignment explanation
Indices: 62899628--62899930 Score: 525
Period size: 96 Copynumber: 3.2 Consensus size: 96
62899618 AAATGACTTT
* * * * **
62899628 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTGGTATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
62899693 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
62899724 GGCACTATGTGTGCGAATTTGTATGGCACTAAATGTGTGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
*
62899789 TTTGAATGTCAATATGTATGTGAATTAATAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
62899820 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
62899885 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
62899916 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
62899931 GGTTAACATG
Statistics
Matches: 196, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 196 1.00
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:62925463 original size:48 final size:48
Alignment explanation
Indices: 62925217--62925587 Score: 230
Period size: 48 Copynumber: 7.8 Consensus size: 48
62925207 AGGGTATAAT
* *
62925217 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAAT-GTCTCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATCTCAAG
* * * *** * **
62925264 GTCGATGCCATGTTCGAGACAT-GTCTTACACTAATTATCATCATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-TCAAG
* * ** * *
62925312 GTCGATGGCATGTCCCATTCATGGTCTTACACTGGCTCTCGCATATC-CG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAAG
** * * * *
62925361 TATCGATGCCATGTCTCAGACATGATCTTACACTGACAC-C-TCT-ATACG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-A-G
* * * *
62925409 TACCGATGCCATGCCCCAGACATGGTCTTACACTGGCT-T-ACTTTACGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TCT-CAAG
* *
62925458 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAG
* **
62925504 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTCAAG
* * *
62925552 GCTGATG-CATGTCCTAGACAT-GTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
62925588 ACAATAACTC
Statistics
Matches: 251, Mismatches: 53, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
45 2 0.01
46 51 0.20
47 65 0.26
48 81 0.32
49 17 0.07
50 32 0.13
51 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAG
Found at i:62925514 original size:94 final size:94
Alignment explanation
Indices: 62925411--62925587 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 94
62925401 TCTATACGTA
* *
62925411 CCGATGCCATGCCCCAGACATGGTCTTACACTGGCT-TACTTTACGAGGCCGATGCATGTCCCAG
1 CCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCT-CATAACGAGGCCGATGCATGTCCCAG
62925475 ACATGTCTTACACTAGCTCTCATCTCAATG
65 ACATGTCTTACACTAGCTCTCATCTCAATG
* * * * *
62925505 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCTAGA
1 CCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAACGAGGCCGATGCATGTCCCAGA
62925570 CATGTCTTACACTAGCTC
66 CATGTCTTACACTAGCTC
62925588 ACAATAACTC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 74 0.99
95 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (94 bp):
CCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAACGAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTCATCTCAATG
Found at i:62926275 original size:13 final size:13
Alignment explanation
Indices: 62926257--62926281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62926247 CTAAAAGTAC
62926257 AAAAATCATCAAG
1 AAAAATCATCAAG
62926270 AAAAATCATCAA
1 AAAAATCATCAA
62926282 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:62935128 original size:40 final size:39
Alignment explanation
Indices: 62935070--62935147 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
62935060 ACTTAATTCA
* * *
62935070 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCT-AACCCGGATACAATC
* *
62935110 CCAGCATGAAGCCAGCGGGTCTCTAACCCGGATGCAAT
1 CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAAT
62935148 TCAGCACAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 13 0.39
40 20 0.61
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.18
Consensus pattern (39 bp):
CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAATC
Found at i:62935278 original size:45 final size:46
Alignment explanation
Indices: 62935224--62935332 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 46
62935214 TGCACACTTT
* *
62935224 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
62935270 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
62935317 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
62935333 ATCTTAAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 25 0.44
46 5 0.09
47 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:62937918 original size:22 final size:20
Alignment explanation
Indices: 62937878--62937918 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
62937868 AGTCGTATTA
*
62937878 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
62937898 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
62937919 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:62940504 original size:71 final size:71
Alignment explanation
Indices: 62940418--62940581 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62940408 CGATTTGTCT
62940418 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62940483 CTTTCA
66 CTTTCA
62940489 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62940554 CTTTCA
66 CTTTCA
62940560 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62940582 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62940619 original size:71 final size:70
Alignment explanation
Indices: 62940418--62940615 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62940408 CGATTTGTCT
* * * *
62940418 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62940483 CTTTCA
65 CTTTCA
* * * *
62940489 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62940554 CTTTCA
65 CTTTCA
* *
62940560 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62940616 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62953522 original size:93 final size:93
Alignment explanation
Indices: 62953410--62953579 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
62953400 CGCCCATAAG
*
62953410 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
62953474 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
62953503 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62953568 ACGAGTTCGGAT
66 ACGAGTTCGGAT
62953580 ACTCAACCAT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:62953576 original size:46 final size:46
Alignment explanation
Indices: 62953403--62953578 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
62953393 TGTAACCCGC
* *
62953403 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
62953449 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
62953499 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62953542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
62953579 TACTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62953597 original size:46 final size:46
Alignment explanation
Indices: 62953411--62953597 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
62953401 GCCCATAAGC
* * * * *
62953411 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATACTCAACCATCCAAGT
* *
62953457 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATACTC-A---ACCATC-CAAGT
* * *
62953504 GAACTCGGACTCAACTCAACGAGTTCGGACATTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATACTCAACCATCC--AAGT
*
62953550 GAACTCGGACTCAACTCAACGAGTTCGGATACTCAACCATCCCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATACTCAACCATCCAAGT
62953596 GA
1 GA
62953598 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 3 0.03
45 3 0.03
46 65 0.58
47 29 0.26
48 7 0.06
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATACTCAACCATCCAAGT
Found at i:62958393 original size:18 final size:18
Alignment explanation
Indices: 62958367--62958407 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
62958357 TAGGGATTTT
*
62958367 CGTTCCCGAAAATCTTAC
1 CGTTACCGAAAATCTTAC
62958385 CGTTACCGAAAATCTTAC
1 CGTTACCGAAAATCTTAC
62958403 CGTTA
1 CGTTA
62958408 AACAGATTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (18 bp):
CGTTACCGAAAATCTTAC
Found at i:62964371 original size:43 final size:42
Alignment explanation
Indices: 62964322--62964457 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 42
62964312 CCCGGATCTA
* * *
62964322 GTCTTACATGTAATTCAATAACAATGCCTCTGTCCCAGACAAG
1 GTCTTACACGTAATTCAAT-ACAATGCCTATGTCCCAGACATG
* *
62964365 GTCTTACACG-AAATCAGATACAATG-CTGATGTCCCAAACATG
1 GTCTTACACGTAATTCA-ATACAATGCCT-ATGTCCCAGACATG
* * *
62964407 GTCTTAAACGTAAATCTCAAT-CAAGGCCTGTGTCCCAGACATG
1 GTCTTACACGT-AAT-TCAATACAATGCCTATGTCCCAGACATG
62964450 GTCTTACA
1 GTCTTACA
62964458 TGATGTCTCA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.03
42 31 0.41
43 34 0.45
44 6 0.08
45 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
GTCTTACACGTAATTCAATACAATGCCTATGTCCCAGACATG
Found at i:62967028 original size:6 final size:6
Alignment explanation
Indices: 62967017--62967041 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62967007 TATTCAAAAT
62967017 TCAGAA TCAGAA TCAGAA TCAGAA T
1 TCAGAA TCAGAA TCAGAA TCAGAA T
62967042 TACATTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TCAGAA
Found at i:62970232 original size:55 final size:55
Alignment explanation
Indices: 62970126--62970232 Score: 124
Period size: 55 Copynumber: 1.9 Consensus size: 55
62970116 GTACACGGGT
* * *
62970126 AGGCCACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAGTGTCGTCCACGAGC
1 AGGCAACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAATGTCGCCCACGAGC
* ** * * * *
62970181 AGGCAACACGGGTGTGTGCCATGGCCGTGTTGATAAGTCAATGTTGCCCACG
1 AGGCAACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAATGTCGCCCACG
62970233 GCTAAAGGGC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.19
Consensus pattern (55 bp):
AGGCAACACGGGCGTGCACCATGGCCGTGTTAAAAAGACAATGTCGCCCACGAGC
Found at i:62970405 original size:13 final size:13
Alignment explanation
Indices: 62970387--62970412 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62970377 CTGCCTCTAG
62970387 GTATGTTATAGGC
1 GTATGTTATAGGC
62970400 GTATGTTATAGGC
1 GTATGTTATAGGC
62970413 CTCGGAGGCC
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:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
GTATGTTATAGGC
Found at i:62975547 original size:30 final size:30
Alignment explanation
Indices: 62975513--62975572 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62975503 TTCCCGAGCC
62975513 TAGGGGAAAAA-GTGTAAATATGCAAAAGTT
1 TAGGGGAAAAATG-GTAAATATGCAAAAGTT
* * *
62975543 TAGGGGCAAAATGGTAATTTTGCAAAAGTT
1 TAGGGGAAAAATGGTAAATATGCAAAAGTT
62975573 CGTACTAGGG
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:0.42, C:0.05, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGAAAAATGGTAAATATGCAAAAGTT
Found at i:62981487 original size:27 final size:27
Alignment explanation
Indices: 62981438--62981552 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
62981428 CGGCATGGCT
* * *
62981438 ACCAG-AACAGAGATTGTGACAGAGTC
1 ACCAGAAACAGATATTGTGGCAGAGCC
* *
62981464 ACCAGATACAGATATTATGGCAGAGCC
1 ACCAGAAACAGATATTGTGGCAGAGCC
*
62981491 ACCA-AAACAGATATTTGTGGCATAGCC
1 ACCAGAAACAGATA-TTGTGGCAGAGCC
* *
62981518 ACCAGAAACAGAAATTTGTGGCATAGCC
1 ACCAGAAACAGATA-TTGTGGCAGAGCC
62981546 ACCAGAA
1 ACCAGAA
62981553 CGCTTCCTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 13 0.17
27 35 0.45
28 29 0.38
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
ACCAGAAACAGATATTGTGGCAGAGCC
Found at i:62987093 original size:42 final size:42
Alignment explanation
Indices: 62987034--62987152 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
62987024 TTAGGGCTAC
*
62987034 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATAGATA
* * * *
62987076 TGAGACTT-CGTGTAAGACCATAGCTGGGCTGTTGGCATAGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGAT-ATGGAATAGATA
* *
62987119 CGAGATTACATGTAAGACCATATCTGGGATATGG
1 TGAGATTACGTGTAAGACCATATCTGGGATATGG
62987153 CATTGGTACG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGAATAGATA
Found at i:62989503 original size:79 final size:81
Alignment explanation
Indices: 62989326--62989509 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
62989316 GCTACTCGTT
* * *
62989326 CAAATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCG
* *
62989390 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* *
62989407 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGA-TCT-AGTCC
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACT-TAACT-C
*
62989467 GGATATAGTCACTTAGCA-
64 GGATATAGTAAC-TAGCAC
62989485 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
62989510 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
77 3 0.03
78 27 0.30
79 46 0.52
80 10 0.11
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGG
ATATAGTAACTAGCAC
Found at i:62989509 original size:40 final size:40
Alignment explanation
Indices: 62989308--62989509 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 40
62989298 GGAATTTAAT
** * *
62989308 CGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCT
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
* * *
62989348 CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACT
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
62989388 CGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
*
62989427 CGGA-ATTAGTAACTCGCACAAATGCCTTC-GGA-TCTAGTC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGACT-TAGCC
* *
62989466 CGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
62989506 CGGA
1 CGGA
62989510 CATCATTCGA
Statistics
Matches: 138, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 3 0.02
39 52 0.38
40 82 0.59
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:62997510 original size:79 final size:81
Alignment explanation
Indices: 62997401--62997583 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
62997391 TACTCGTTCA
* *
62997401 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
62997464 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
62997481 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
62997544 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
62997560 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62997584 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:62997583 original size:40 final size:40
Alignment explanation
Indices: 62997380--62997583 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
62997370 CGGAATTTAA
** *
62997380 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62997420 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62997460 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
62997499 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
62997539 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62997579 CCGGA
1 CCGGA
62997584 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:63008145 original size:40 final size:40
Alignment explanation
Indices: 63008090--63008252 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
63008080 GATACCTGGG
* *
63008090 CTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGT
1 CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGT
* * *
63008130 CTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATCCGGT
* * ** *
63008170 CTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGT
1 CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC-GGT
* * *
63008211 -TAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG-
1 CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGT
63008249 CTAA
1 CTAA
63008253 ATTCCGAAGA
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 6 0.06
40 89 0.90
41 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGT
Found at i:63008220 original size:80 final size:80
Alignment explanation
Indices: 63008087--63008252 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
63008077 AATGATACCT
* * ** *
63008087 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGTCTAAGACCCGAAGGC-ATTCGT
1 GGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGTCTAAGACCCGAAGGCAATT-GT
*
63008151 GCGAGTTGTTATATCC
65 GCGAGTGGTTATATCC
* *
63008167 GGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGT-TAAGACCCGAAGGCAATTGT
1 GGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCC-GGTCTAAGACCCGAAGGCAATTGT
**
63008231 GCTTGTGGTTATATCC
65 GCGAGTGGTTATATCC
63008247 -GGCTAA
1 GGGCTAA
63008253 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 6 0.08
80 62 0.84
81 6 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGTCTAAGACCCGAAGGCAATTGTG
CGAGTGGTTATATCC
Found at i:63013924 original size:53 final size:52
Alignment explanation
Indices: 63013837--63014008 Score: 188
Period size: 53 Copynumber: 3.3 Consensus size: 52
63013827 TGGCAACAAA
* * *
63013837 TGATAAGTGATATTCGTTTAAGACCATAGTTGGGCTATGGCATCGAAAAACAAG
1 TGATAAGTGAT-TTCATATAAGACCATAGCTGGGCTATGGCATCGAAAAA-AAG
* * **
63013891 TGATAAGTGATTTCATATAAGACCATAGCTGGGCTATGGCTTCGGATTAAAG
1 TGATAAGTGATTTCATATAAGACCATAGCTGGGCTATGGCATCGAAAAAAAG
* * *
63013943 TGATACAACTGA-TCCATATAAGACCATAGCTGGGCTATGGCATC-AAAGAAATG
1 TGAT--AAGTGATTTCATATAAGACCATAGCTGGGCTATGGCATCGAAA-AAAAG
63013996 TGATAAGTG-TTTC
1 TGATAAGTGATTTC
63014009 CGTGTAAGAC
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
51 6 0.06
52 8 0.08
53 68 0.69
54 16 0.16
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (52 bp):
TGATAAGTGATTTCATATAAGACCATAGCTGGGCTATGGCATCGAAAAAAAG
Found at i:63029153 original size:53 final size:52
Alignment explanation
Indices: 63029076--63029281 Score: 238
Period size: 53 Copynumber: 3.9 Consensus size: 52
63029066 CCATGTCAAC
*
63029076 AAGTGATAAGTGATATCCGTATAAGA-CATAGTTGGGCTATGGCATCGGAAAA
1 AAGTGATAAGTGAT-TCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * **
63029128 CAAGTGATAAGTGATTTCCGTATAAGACCATAGCCGGGCTATGGCTTCGGATTA
1 -AAGTGATAAGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
*
63029182 AAGTGATACAAGTGA-TCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAA
1 AAGTGAT--AAGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
* * * ***
63029235 ATGTGATAAGTG-TTCCGTGTAAGACCATATCTGAAATATGGCATCGG
1 AAGTGATAAGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGG
63029282 TATGATATAT
Statistics
Matches: 133, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
51 34 0.26
53 71 0.53
54 22 0.17
55 6 0.05
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (52 bp):
AAGTGATAAGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA
Found at i:63030970 original size:18 final size:19
Alignment explanation
Indices: 63030943--63030979 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
63030933 GAAGGGAATG
63030943 AAGAGGGAAAA-ATGAGAA
1 AAGAGGGAAAAGATGAGAA
*
63030961 AAGAGTGAAAAGATGAGAA
1 AAGAGGGAAAAGATGAGAA
63030980 GGGTTGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (19 bp):
AAGAGGGAAAAGATGAGAA
Found at i:63035537 original size:53 final size:52
Alignment explanation
Indices: 63035368--63035617 Score: 246
Period size: 53 Copynumber: 4.8 Consensus size: 52
63035358 ATTAGGGTTT
* *
63035368 AAGG-TACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTATAAGGC
* * *
63035421 AAGGAAATCATGTAAGACCATG-CAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-T--TATAAGGC
* * *
63035475 -AGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-ATAAGGC
* *
63035526 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTAT-AAGGC
* * * * *
63035575 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
63035618 GTACCGTGTA
Statistics
Matches: 168, Mismatches: 20, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
49 39 0.23
50 1 0.01
51 9 0.05
52 28 0.17
53 69 0.41
54 22 0.13
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTATAAGGC
Found at i:63035559 original size:106 final size:106
Alignment explanation
Indices: 63035369--63035619 Score: 318
Period size: 106 Copynumber: 2.4 Consensus size: 106
63035359 TTAGGGTTTA
* *
63035369 AGGTACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTTAAGGCAAGGAAATCATGT
1 AGGTACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTATAAGGCAAGGAAACCATGT
*
63035434 AAGACCATGCAAGACATGGCATTGATAAGTTACTATAAGGC
66 AAGACCATGCAAGACATGGCAATGATAAGTTACTATAAGGC
* * *
63035475 AGGTCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTCATAAGGCAAGGATACCATG
1 AGGTACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-ATAAGGCAAGGAAACCATG
* * *
63035538 TAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AAAAGG-
65 TAAGACCATG-CAAGACATGGCAATGATAAGTTACTATAAGGC
* * * *
63035579 A--TACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAGGT
1 AGGTACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
63035620 ACCGTGTATC
Statistics
Matches: 126, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
102 30 0.24
103 2 0.02
104 4 0.03
105 38 0.30
106 52 0.41
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (106 bp):
AGGTACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTATAAGGCAAGGAAACCATGT
AAGACCATGCAAGACATGGCAATGATAAGTTACTATAAGGC
Found at i:63035828 original size:16 final size:16
Alignment explanation
Indices: 63035807--63035837 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63035797 ATAAATTTGA
63035807 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
63035823 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
63035838 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:63043005 original size:55 final size:54
Alignment explanation
Indices: 63042918--63043171 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
63042908 ATTAGGGTTT
*
63042918 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
63042973 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
63043028 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
63043081 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
63043130 AAGGATACCACGTAAGACCATGACAAGTCATGG-AA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
63043172 GTACCCGCGT
Statistics
Matches: 171, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
48 9 0.05
49 30 0.18
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:63043124 original size:108 final size:110
Alignment explanation
Indices: 63042925--63043125 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
63042915 TTTAAGGATA
*
63042925 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
63042990 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
63043035 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
63043097 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
63043126 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:63043382 original size:16 final size:16
Alignment explanation
Indices: 63043361--63043391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63043351 ATAAATTTGA
63043361 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
63043377 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
63043392 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:63045061 original size:25 final size:24
Alignment explanation
Indices: 63045011--63045068 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
63045001 CTTAAAATAC
* ** *
63045011 TAAAAAATTATAAAAAATTTGTAA
1 TAAAAAATAATAAAAAATAAGAAA
63045035 TAAAAAATAATAAAATAATAAGAAA
1 TAAAAAATAATAAAA-AATAAGAAA
*
63045060 TAAGAAATA
1 TAAAAAATA
63045069 CAATATTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (24 bp):
TAAAAAATAATAAAAAATAAGAAA
Found at i:63048805 original size:60 final size:60
Alignment explanation
Indices: 63048736--63048860 Score: 250
Period size: 60 Copynumber: 2.1 Consensus size: 60
63048726 TTAAAGGAGA
63048736 TAAATTTTCAAACTTGGTTTCTTTAAATCAAATGTTTGAGAAATGGATTTTAAAAAGGCC
1 TAAATTTTCAAACTTGGTTTCTTTAAATCAAATGTTTGAGAAATGGATTTTAAAAAGGCC
63048796 TAAATTTTCAAACTTGGTTTCTTTAAATCAAATGTTTGAGAAATGGATTTTAAAAAGGCC
1 TAAATTTTCAAACTTGGTTTCTTTAAATCAAATGTTTGAGAAATGGATTTTAAAAAGGCC
63048856 TAAAT
1 TAAAT
63048861 CTTTTGCGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (60 bp):
TAAATTTTCAAACTTGGTTTCTTTAAATCAAATGTTTGAGAAATGGATTTTAAAAAGGCC
Found at i:63050974 original size:12 final size:12
Alignment explanation
Indices: 63050957--63050982 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
63050947 AGAAGTCGAG
63050957 TTTGGAATTGAT
1 TTTGGAATTGAT
63050969 TTTGGAATTGAT
1 TTTGGAATTGAT
63050981 TT
1 TT
63050983 GCTGCCTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (12 bp):
TTTGGAATTGAT
Found at i:63055300 original size:49 final size:49
Alignment explanation
Indices: 63055243--63055535 Score: 509
Period size: 49 Copynumber: 5.9 Consensus size: 49
63055233 ATGTATGAGA
63055243 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
63055292 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
63055341 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
63055390 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
63055439 TATATATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--G
1 ----TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
63055490 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
63055536 TATATGTGTG
Statistics
Matches: 236, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
47 44 0.19
49 146 0.62
51 1 0.00
53 45 0.19
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:63055303 original size:27 final size:27
Alignment explanation
Indices: 63055272--63055354 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
63055262 CTAATGGCCG
63055272 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
63055299 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
63055322 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
63055348 ATGTGAT
1 ATGTGAT
63055355 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:63055601 original size:48 final size:47
Alignment explanation
Indices: 63055527--63055726 Score: 267
Period size: 48 Copynumber: 4.2 Consensus size: 47
63055517 CGATGTGATG
* * * * *
63055527 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGGAGGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
*
63055575 AATGTGAAACATATATAAGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
*
63055623 AATGTG-AAATATATGAGTGATATGTATATGTGGTAAAGCTGAATGGCT
1 AATGTGAAAATATAT-A-TGATATGTATATGTGGTAAAGCCGAATGGCT
* *
63055671 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAA-ATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
63055719 AATGTGAA
1 AATGTGAA
63055727 TGTTGTAACA
Statistics
Matches: 136, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
46 6 0.04
47 3 0.02
48 120 0.88
49 2 0.01
50 5 0.04
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (47 bp):
AATGTGAAAATATATATGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:63055635 original size:96 final size:96
Alignment explanation
Indices: 63055527--63055726 Score: 319
Period size: 96 Copynumber: 2.1 Consensus size: 96
63055517 CGATGTGATG
* * *
63055527 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGGAGGGCTAATGTGAAACATATATA
1 AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
63055592 AGATATGTATATGTGGTAAAGCCGAATGGCT
66 AGATATGTATATGTGGTAAAGCCGAATGGCT
* * * * *
63055623 AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTG
1 AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
*
63055688 TGATATGTATATGTGGTAAAGCCGAATGGCT
66 AGATATGTATATGTGGTAAAGCCGAATGGCT
63055719 AATGTGAA
1 AATGTGAA
63055727 TGTTGTAACA
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (96 bp):
AATGTGAAATATATGAGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAACATATATA
AGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:63055653 original size:200 final size:196
Alignment explanation
Indices: 63055245--63055677 Score: 450
Period size: 200 Copynumber: 2.2 Consensus size: 196
63055235 GTATGAGATG
*
63055245 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG-GTGTATATATGTGATAAGG
* * * *
63055310 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAAGCCGAAGGGCCAATGTG
* * * * * * *
63055375 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
130 ATAAATATGAAAGTATATATATATGTGATAAAGCCGAATGGCCAATGTGA-GAATATGAAAGTG-
63055440 ATATA
193 -TATA
63055445 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTGTATATATGTGATAAGGC
* * *
63055509 CTAATGGCCGATGTGATGAATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGGAGGGC
66 CTAATGGCCGATGTGATGAATGTG--A-A-A---GTG-TGTATATATGTGATAAAGCCGAAGGGC
* * * *
63055574 TAATGTGA-AACATAT-ATAAG-ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATAT
123 CAATGTGATAA-ATATGA-AAGTATATATATATGTGATAAAGCCGAATGGCCAATGTGAGAATAT
*
63055635 -ATGAGTG-ATA
186 GA-AAGTGTATA
* * * *
63055645 TGTATATGTGGTAAAG-CTGAATGGCTAATGTGA
1 TATATATGTGATAAGGCCT-AATGGCCAATGTGA
63055678 AATATATGTG
Statistics
Matches: 197, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
198 44 0.22
199 2 0.01
200 73 0.37
201 1 0.01
202 2 0.01
203 8 0.04
205 34 0.17
206 33 0.17
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (196 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTGTATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAAGCCGAAGGGCCAATGTGA
TAAATATGAAAGTATATATATATGTGATAAAGCCGAATGGCCAATGTGAGAATATGAAAGTGTAT
A
Found at i:63055820 original size:37 final size:37
Alignment explanation
Indices: 63055766--63055856 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
63055756 AACTTGGAAA
*
63055766 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
63055804 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
63055841 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
63055857 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:63064813 original size:37 final size:37
Alignment explanation
Indices: 63064749--63064894 Score: 206
Period size: 37 Copynumber: 3.9 Consensus size: 37
63064739 AGCTCAGATG
* *
63064749 AAATCTCCACACGAAGTTATCTG-GTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATC-GAGTCTTACCCGGACA
63064786 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
*
63064823 TAATCTCCACACGTAGTCATC-AGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGA-GTCTTACCCGGACA
* * *
63064860 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGA
63064895 ATATATTTCC
Statistics
Matches: 101, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
36 2 0.02
37 99 0.98
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
Found at i:63064871 original size:74 final size:74
Alignment explanation
Indices: 63064750--63064894 Score: 236
Period size: 74 Copynumber: 2.0 Consensus size: 74
63064740 GCTCAGATGA
* * *
63064750 AATCTCCACACGAAGTTATCTGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGAGTCTTA
1 AATCTCCACACGAAGTCATCAGGTCTTACCCGGACAAAATCTCCACACGTAATCATCGAGTCTTA
63064815 CCCGGACAT
66 CCCGGACAT
* * *
63064824 AATCTCCACACGTAGTCATCAGGTCTTACCCGGACATAATCTCCACACGTAATCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCAGGTCTTACCCGGACAAAATCTCCACACGTAATCATCGAGTCTTA
63064889 CCCGGA
66 CCCGGA
63064895 ATATATTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.24
Consensus pattern (74 bp):
AATCTCCACACGAAGTCATCAGGTCTTACCCGGACAAAATCTCCACACGTAATCATCGAGTCTTA
CCCGGACAT
Found at i:63065095 original size:48 final size:48
Alignment explanation
Indices: 63065036--63065673 Score: 725
Period size: 48 Copynumber: 13.0 Consensus size: 48
63065026 AATACACACG
* * * *
63065036 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
63065084 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
63065132 TCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
63065180 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
63065228 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
63065276 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* * *
63065324 TCTCATATATATTTCACACTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* ** * * * * *
63065372 TCTCATACATATTTCACA-TGGATATTTC-ACATTAGCCATTCGGCTTTAC-CA
1 TCTCATACATATTTCACATTAGCCA-TTCGGCTTTA-CCA--C--ATATACATA
* ** ** * * ** * *
63065423 -CAT-ATACATATCTCATACATATTTCACATAAGCCATT-CGGCTTTACCACATA
1 TC-TCATACATATTTC--ACAT-TAGC-CATTCGGCTTTACCAC-ATA-TACATA
* * * *
63065475 TACAT-ATCTCATACATATT-TCACATTAGCCATTCGGCTTTACCACATATACATA
1 T-C-TCAT-ACAT--AT-TTCACA-TTA-GCCATTCGGCTTTACCACATATACATA
*
63065529 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
63065577 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
63065625 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
63065673 T
1 T
63065674 ATTTATCTTG
Statistics
Matches: 509, Mismatches: 55, Indels: 52
0.83 0.09 0.08
Matches are distributed among these distances:
47 7 0.01
48 421 0.83
49 3 0.01
50 17 0.03
51 5 0.01
52 12 0.02
53 4 0.01
54 13 0.03
55 21 0.04
56 3 0.01
57 2 0.00
58 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:63065155 original size:96 final size:96
Alignment explanation
Indices: 63065036--63065673 Score: 1051
Period size: 96 Copynumber: 6.5 Consensus size: 96
63065026 AATACACACG
* * * *
63065036 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
63065101 ATTAGCCATTCGGCTTTACCACATATACATA
66 ATTAGCCATTCGGCTTTACCACATATACATA
*
63065132 TCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
63065197 ATTAGCCATTCGGCTTTACCACATATACATA
66 ATTAGCCATTCGGCTTTACCACATATACATA
63065228 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
*
63065293 ACTAGCCATTCGGCTTTACCACATATACATA
66 ATTAGCCATTCGGCTTTACCACATATACATA
* * *
63065324 TCTCATATATATTTCACACTAGCCATTCGGCTTTATCACATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA--TC-T-C--A--T-AC
63065389 ATGGATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
57 ----ATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
63065433 TCTCATACATATTTCACATAAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
63065498 ATTAGCCATTCGGCTTTACCACATATACATA
66 ATTAGCCATTCGGCTTTACCACATATACATA
*
63065529 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
*
63065594 ATTAGCCATTCGGCTTTACCACATATACCTA
66 ATTAGCCATTCGGCTTTACCACATATACATA
63065625 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
63065674 ATTTATCTTG
Statistics
Matches: 510, Mismatches: 19, Indels: 26
0.92 0.03 0.05
Matches are distributed among these distances:
96 411 0.81
98 2 0.00
99 1 0.00
100 3 0.01
101 1 0.00
102 1 0.00
103 1 0.00
104 1 0.00
105 3 0.01
106 1 0.00
107 2 0.00
109 83 0.16
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (96 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
ATTAGCCATTCGGCTTTACCACATATACATA
Found at i:63065209 original size:144 final size:144
Alignment explanation
Indices: 63065036--63065673 Score: 1051
Period size: 144 Copynumber: 4.3 Consensus size: 144
63065026 AATACACACG
* * * *
63065036 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
*
63065101 ATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTT
66 ATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
63065166 ACCACATATACATA
131 ACCACATATACATA
63065180 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
*
63065245 ATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTT
66 ATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
63065310 ACCACATATACATA
131 ACCACATATACATA
* * *
63065324 TCTCATATATATTTCACACTAGCCATTCGGCTTTATCACATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA--TC-T-C--A--T-AC
*
63065389 ATGGATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATAA
57 ----ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
63065454 GCCATTCGGCTTTACCACATATACATA
118 GCCATTCGGCTTTACCACATATACATA
63065481 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
*
63065546 ATTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
66 ATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
63065611 ACCACATATACCTA
131 ACCACATATACATA
63065625 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
63065674 ATTTATCTTG
Statistics
Matches: 464, Mismatches: 17, Indels: 26
0.92 0.03 0.05
Matches are distributed among these distances:
144 317 0.68
146 2 0.00
147 1 0.00
148 3 0.01
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
153 3 0.01
154 1 0.00
155 2 0.00
157 131 0.28
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (144 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
ATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
ACCACATATACATA
Found at i:63065410 original size:61 final size:61
Alignment explanation
Indices: 63065332--63065451 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
63065322 TATCTCATAT
*
63065332 ATATTTCACACTAGCCATTCGGCTTTATCACATATACATATCTCATACATATTTCACATGG
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATGG
*
63065393 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
63065452 AAGCCATTCG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (61 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATGG
Found at i:63068935 original size:127 final size:128
Alignment explanation
Indices: 63068691--63068937 Score: 397
Period size: 127 Copynumber: 1.9 Consensus size: 128
63068681 TCTTTTTCTT
* *
63068691 TCTCCTCTCCACCCTTTTTTTCTCTCTTTTGACAACCACCACCACCACCCTTTTTTCTTTTCTCC
1 TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACCACCACCACCCATTTTTCTTTTCTCC
* * * * *
63068756 ATCGTAAGCTTATTTGTACCACCACATCACCACCATCCACAACTAACTTTTACTTTCCTTTTC
66 ACCATAAGCTTATTTGCACCACCACATCACCACCATCCACAACCAACCTTTACTTTCCTTTTC
*
63068819 TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACTACCACCA-CCATTTTTCTTTTCTCC
1 TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACCACCACCACCCATTTTTCTTTTCTCC
* *
63068883 GCCATAAGCTTATTTGCACCACTACATCACCACCATCCACAACCAACCTTTACTT
66 ACCATAAGCTTATTTGCACCACCACATCACCACCATCCACAACCAACCTTTACTT
63068938 CTATTTTCCT
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
127 64 0.59
128 45 0.41
ACGTcount: A:0.21, C:0.39, G:0.03, T:0.37
Consensus pattern (128 bp):
TCTCCTCTCCACCCTTCTTTTCTCTCTTTTGACAACCACCACCACCACCCATTTTTCTTTTCTCC
ACCATAAGCTTATTTGCACCACCACATCACCACCATCCACAACCAACCTTTACTTTCCTTTTC
Found at i:63075121 original size:28 final size:28
Alignment explanation
Indices: 63075081--63075203 Score: 131
Period size: 29 Copynumber: 4.3 Consensus size: 28
63075071 AAAGCATGAC
*
63075081 TATGAATGTGATTCGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* *
63075109 TATGAATCTGATTTGGCCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
*
63075138 -ATTGAATGTGATTTGGGCCCAATGGGCCA
1 TA-TGAATGTGA-TTGGGCCTAATGGGCCA
*** *
63075167 TATGAATAAAATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
63075195 TATGCATGT
1 TATGAATGT
63075204 ATGTAGACTT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 32 0.41
29 45 0.58
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:63078096 original size:4 final size:4
Alignment explanation
Indices: 63078087--63078117 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
63078077 GGTTTGTATT
*
63078087 TTTA TTTA TTTA TTTA GTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
63078118 TAGTATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:63079164 original size:29 final size:29
Alignment explanation
Indices: 63079126--63079228 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 29
63079116 GTGTGATTGA
63079126 GCCTAATGGGCCATATGAATATGATTTGG
1 GCCTAATGGGCCATATGAATATGATTTGG
* *
63079155 GCCTAATGGGCCAAATGAATGTGATTTGG
1 GCCTAATGGGCCATATGAATATGATTTGG
* *
63079184 GTCTAATGGGTCATATGAATGA-GA-TTGG
1 GCCTAATGGGCCATATGAAT-ATGATTTGG
*
63079212 GCCTAGTGGGCCATATG
1 GCCTAATGGGCCATATG
63079229 CATGTATGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 18 0.28
29 46 0.72
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (29 bp):
GCCTAATGGGCCATATGAATATGATTTGG
Found at i:63085337 original size:28 final size:27
Alignment explanation
Indices: 63085274--63085343 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
63085264 ATAGTGAGTC
*
63085274 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
63085301 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
63085329 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63085344 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:63089784 original size:26 final size:28
Alignment explanation
Indices: 63089732--63089800 Score: 97
Period size: 26 Copynumber: 2.5 Consensus size: 28
63089722 AAATTTGTAC
**
63089732 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
63089760 AGCACTATGTGTGCG-AGCTGA-TATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
63089786 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
63089801 GACTTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 19 0.51
27 4 0.11
28 14 0.38
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:63097658 original size:27 final size:28
Alignment explanation
Indices: 63097601--63097670 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
63097591 AAATTTGTAC
**
63097601 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
63097629 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
63097656 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
63097671 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:63097679 original size:27 final size:27
Alignment explanation
Indices: 63097601--63097682 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
63097591 AAATTTGTAC
* *
63097601 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
63097629 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
63097656 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
63097683 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:63104478 original size:27 final size:28
Alignment explanation
Indices: 63104417--63104486 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
63104407 AAATTTGTAC
** *
63104417 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGAGTATAT
*
63104445 AGCACTATGTGTGCG-AGCTGAGTATAT
1 AGCACTAAGTGTGCGAAGCTGAGTATAT
63104472 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
63104487 GACTTATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGAGTATAT
Found at i:63104497 original size:27 final size:27
Alignment explanation
Indices: 63104417--63104498 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
63104407 AAATTTGTAC
* *
63104417 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* * *
63104445 AGCACTATGTGTGC-GAGCTGAGTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
63104472 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
63104499 GCTTTTGCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 28 0.64
28 16 0.36
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:63108064 original size:32 final size:32
Alignment explanation
Indices: 63108023--63108084 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
63108013 AAGTCTTACT
63108023 TGATTCATGCTCTTTTTTAACTATATCACTCC
1 TGATTCATGCTCTTTTTTAACTATATCACTCC
63108055 TGATTCATGCTCTTTTTTAACTATATCACT
1 TGATTCATGCTCTTTTTTAACTATATCACT
63108085 GAAAAATGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (32 bp):
TGATTCATGCTCTTTTTTAACTATATCACTCC
Found at i:63108221 original size:23 final size:23
Alignment explanation
Indices: 63108188--63108236 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
63108178 GAAATCAGAG
63108188 TTCAAGCTTCAGCATATTGTCCT
1 TTCAAGCTTCAGCATATTGTCCT
* * *
63108211 TTCAAGTTTCAGCGTATTGTTCT
1 TTCAAGCTTCAGCATATTGTCCT
63108234 TTC
1 TTC
63108237 CAGACCTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.45
Consensus pattern (23 bp):
TTCAAGCTTCAGCATATTGTCCT
Found at i:63112511 original size:5 final size:5
Alignment explanation
Indices: 63112496--63112536 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
63112486 GGGTTTTTAA
*
63112496 TTTTCC TTTTC TTTTC GTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTT-C TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
63112537 GCTTTTTCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:63113199 original size:11 final size:12
Alignment explanation
Indices: 63113142--63113209 Score: 61
Period size: 12 Copynumber: 5.6 Consensus size: 12
63113132 ACTTCATAGT
63113142 TTTTTATTTGAA
1 TTTTTATTTGAA
63113154 TTTTTA--TGAA
1 TTTTTATTTGAA
*
63113164 CTTTTATATTTTTTAA
1 -TTTT-TA--TTTGAA
*
63113180 TTTTAATTTG-A
1 TTTTTATTTGAA
63113191 TTTTTATTTGAA
1 TTTTTATTTGAA
63113203 TTTTTAT
1 TTTTTAT
63113210 AATTTTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
10 4 0.09
11 14 0.31
12 19 0.42
14 1 0.02
15 4 0.09
16 3 0.07
ACGTcount: A:0.25, C:0.01, G:0.06, T:0.68
Consensus pattern (12 bp):
TTTTTATTTGAA
Found at i:63113898 original size:31 final size:31
Alignment explanation
Indices: 63113857--63113921 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
63113847 TTCCTGCATT
*
63113857 AAATCCAACCAAAAACAGCAAATATAACATA
1 AAATCCAACCAAAAACAGAAAATATAACATA
* * * *
63113888 AAATCTAACCAAAAATAGAAAATGTAGCATA
1 AAATCCAACCAAAAACAGAAAATATAACATA
63113919 AAA
1 AAA
63113922 AATACAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.62, C:0.17, G:0.06, T:0.15
Consensus pattern (31 bp):
AAATCCAACCAAAAACAGAAAATATAACATA
Found at i:63114638 original size:13 final size:14
Alignment explanation
Indices: 63114612--63114643 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
63114602 ACTAACGACG
63114612 AATTAAACCATTAT
1 AATTAAACCATTAT
63114626 AATTAAA-CATTAT
1 AATTAAACCATTAT
63114639 AATTA
1 AATTA
63114644 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:63117132 original size:18 final size:19
Alignment explanation
Indices: 63117093--63117135 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
63117083 AGTGAGCAAG
*
63117093 TATGATAATTGAATATATT
1 TATGATAATAGAATATATT
63117112 TATGA-AATAGAATATGA-T
1 TATGATAATAGAATAT-ATT
63117130 TATGAT
1 TATGAT
63117136 TATTGAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (19 bp):
TATGATAATAGAATATATT
Found at i:63117289 original size:18 final size:19
Alignment explanation
Indices: 63117252--63117289 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
63117242 TAAATAAAAG
* *
63117252 TTAATATAAGTTTTAAGAA
1 TTAATACAAGTTTAAAGAA
63117271 TTAATACAAG-TTAAAGAA
1 TTAATACAAGTTTAAAGAA
63117289 T
1 T
63117290 AATTTGAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (19 bp):
TTAATACAAGTTTAAAGAA
Found at i:63117911 original size:19 final size:19
Alignment explanation
Indices: 63117866--63117912 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
63117856 TAAATATTAA
*
63117866 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
63117885 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
63117904 AATAAAAAT
1 AATAAAAAT
63117913 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:63118368 original size:23 final size:23
Alignment explanation
Indices: 63118334--63118477 Score: 78
Period size: 23 Copynumber: 6.2 Consensus size: 23
63118324 ATCTCTTTTC
63118334 CAGCAACTAAACACTCCAATTTG
1 CAGCAACTAAACACTCCAATTTG
* * *
63118357 CAGCGA-TAAA-ACATCTGAATTTC
1 CAGCAACTAAACAC-TC-CAATTTG
*
63118380 CAGCAACTAAACACTTCAATTTG
1 CAGCAACTAAACACTCCAATTTG
* * *
63118403 CAG-TACTTAAAACACTTCAATTTA
1 CAGCAAC-T-AAACACTCCAATTTG
* ** * * *
63118427 CAACATTTAAGCACTTCAATTTA
1 CAGCAACTAAACACTCCAATTTG
** * *
63118450 CAGCATTTAAACACTTCAACTTG
1 CAGCAACTAAACACTCCAATTTG
63118473 CAGCA
1 CAGCA
63118478 CTTTAACATA
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.02
22 8 0.08
23 62 0.65
24 22 0.23
25 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (23 bp):
CAGCAACTAAACACTCCAATTTG
Found at i:63118535 original size:22 final size:23
Alignment explanation
Indices: 63118482--63118538 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
63118472 GCAGCACTTT
* * *
63118482 AACATATCAATTAACAACATTTA
1 AACATCTCAATTAACAACAATAA
* *
63118505 TACAACTCAATT-ACAACAATAA
1 AACATCTCAATTAACAACAATAA
63118527 AACATCTCAATT
1 AACATCTCAATT
63118539 TCCAGCAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACAATAA
Found at i:63118606 original size:69 final size:69
Alignment explanation
Indices: 63118330--63118668 Score: 282
Period size: 69 Copynumber: 4.9 Consensus size: 69
63118320 ATAGATCTCT
* * * * * * * **
63118330 TTTCCAGCAACTAAACACTCCAATTTGCAGCGA-TAAAACA-TCTGAATTTCCAGCAACTAAACA
1 TTTCCAGCAACTAAACACTTCAATTTACAAC-ATTTAAACACT-TCAATTTACAACATTTAAACA
63118393 CTTCAA
64 CTTCAA
* * * *
63118399 TTTGCAG-TACTTAAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAGCATTTAAACA
1 TTTCCAGCAAC-T-AAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACA
63118463 CTTCAA
64 CTTCAA
* * * * * * *
63118469 CTTGCAGC-ACTTTAACA-TATCAATTAACAACATTTATACAAC-TCAA-TTACAACAATAAAAC
1 TTTCCAGCAAC-TAAACACT-TCAATTTACAACATTTAAAC-ACTTCAATTTACAACATTTAAAC
63118530 A-TCTCAA
63 ACT-TCAA
* ** *
63118537 TTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACT
1 TTTCCAGCAACTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACACT
63118602 TCAA
66 TCAA
* ** *
63118606 TTTACTA-CATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAACATTTAAACA
1 TTT-CCAGCAACTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACA
63118669 TCAGCAGCCA
Statistics
Matches: 218, Mismatches: 38, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
67 3 0.01
68 49 0.22
69 106 0.49
70 59 0.27
71 1 0.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.31
Consensus pattern (69 bp):
TTTCCAGCAACTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTTAAACACT
TCAA
Found at i:63118666 original size:23 final size:23
Alignment explanation
Indices: 63118387--63118668 Score: 279
Period size: 23 Copynumber: 12.3 Consensus size: 23
63118377 TTCCAGCAAC
*
63118387 TAAACACTTCAATTTGCAGTAC-TT
1 TAAACACTTCAATTTACA--ACATT
*
63118411 AAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
* *
63118434 TAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAACATT
* * *
63118457 TAAACACTTCAACTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
*
63118481 T-AACA-TATCAATTAACAACATT
1 TAAACACT-TCAATTTACAACATT
* *
63118503 TATACAAC-TCAA-TTACAACAAT
1 TAAAC-ACTTCAATTTACAACATT
* * * **
63118525 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAACATT
* ** *
63118548 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAACATT
63118571 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
*
63118594 TAAACACTTCAATTTACTACATT
1 TAAACACTTCAATTTACAACATT
63118617 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
*
63118640 TAAACACTTCAATTTGCAACATT
1 TAAACACTTCAATTTACAACATT
63118663 TAAACA
1 TAAACA
63118669 TCAGCAGCCA
Statistics
Matches: 216, Mismatches: 32, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.00
22 21 0.10
23 173 0.80
24 21 0.10
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACTTCAATTTACAACATT
Found at i:63122026 original size:11 final size:12
Alignment explanation
Indices: 63122007--63122031 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63121997 ATTCACTAAA
63122007 TGACAAAAAAAT
1 TGACAAAAAAAT
63122019 TGACAAAAAAAT
1 TGACAAAAAAAT
63122031 T
1 T
63122032 TGCTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (12 bp):
TGACAAAAAAAT
Found at i:63122284 original size:29 final size:29
Alignment explanation
Indices: 63122251--63122331 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
63122241 TTAAGTCTAC
63122251 ATATTT-TTTAAAATTTATTTT-GTTGGAAA
1 ATATTTATTT-AAATTT-TTTTAGTTGGAAA
**
63122280 ATATTTATTTTGATTTTTTTAGTTGGAAA
1 ATATTTATTTAAATTTTTTTAGTTGGAAA
**
63122309 ATATTTATTTTGATTTTTTTAGT
1 ATATTTATTTAAATTTTTTTAGT
63122332 ATTTTGATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.08
29 41 0.85
30 3 0.06
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.60
Consensus pattern (29 bp):
ATATTTATTTAAATTTTTTTAGTTGGAAA
Found at i:63122341 original size:29 final size:29
Alignment explanation
Indices: 63122263--63122331 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
63122253 ATTTTTTAAA
63122263 ATTTATTTT-GTTGGAAAATATTTATTTTG
1 ATTT-TTTTAGTTGGAAAATATTTATTTTG
63122292 ATTTTTTTAGTTGGAAAATATTTATTTTG
1 ATTTTTTTAGTTGGAAAATATTTATTTTG
63122321 ATTTTTTTAGT
1 ATTTTTTTAGT
63122332 ATTTTGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 4 0.10
29 35 0.90
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAGTTGGAAAATATTTATTTTG
Found at i:63123989 original size:26 final size:25
Alignment explanation
Indices: 63123941--63123990 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
63123931 TTTATGAAAG
63123941 AAAAAAACAATGCTTATACTAATAA
1 AAAAAAACAATGCTTATACTAATAA
*
63123966 AAAAAATAGCAATGTTTATA-TAATA
1 AAAAAA-A-CAATGCTTATACTAATA
63123991 GTTAACGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 6 0.27
27 10 0.45
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (25 bp):
AAAAAAACAATGCTTATACTAATAA
Found at i:63126500 original size:11 final size:11
Alignment explanation
Indices: 63126486--63126530 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
63126476 AGATAAATAT
63126486 TATTTTATTAA
1 TATTTTATTAA
*
63126497 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
63126510 TATTTTATTAT
1 TATTTTATTAA
63126521 TATTTTATTA
1 TATTTTATTA
63126531 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:63128403 original size:46 final size:44
Alignment explanation
Indices: 63128351--63128619 Score: 324
Period size: 46 Copynumber: 5.8 Consensus size: 44
63128341 GCTCTCTGAA
*
63128351 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAA-A-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
63128397 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACTTGAC
1 ATGAAA--AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
63128443 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAAAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
63128489 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAA--AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
63128535 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAAAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
63128581 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAA--AGTAAGACCATGGTTGAAAGATACCATGGCA
63128620 TAATGTCAAA
Statistics
Matches: 196, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 190 0.97
48 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (44 bp):
ATGAAAAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:63128508 original size:92 final size:92
Alignment explanation
Indices: 63128361--63128609 Score: 417
Period size: 92 Copynumber: 2.7 Consensus size: 92
63128351 ATGAAATATG
* * *
63128361 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
*
63128426 TACCATGGAAACTTGACATGAAAAGAA
66 TACCATGGAAACATGACATGAAAAGAA
* *
63128453 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
*
63128518 TACCATGGCAACATGACATGAAAAGAA
66 TACCATGGAAACATGACATGAAAAGAA
* *
63128545 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
63128610 CACTATGGCA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 146 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
TACCATGGAAACATGACATGAAAAGAA
Found at i:63128605 original size:138 final size:138
Alignment explanation
Indices: 63128361--63128619 Score: 412
Period size: 138 Copynumber: 1.9 Consensus size: 138
63128351 ATGAAATATG
* * **
63128361 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
* * *
63128426 TACCATGGAAACTTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGAAACATGACATGAAAAGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
63128491 GAAATGAA
131 GAAATGAA
63128499 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
* * *
63128564 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
66 TACCATGGAAACATGACATGAAAA-GAATAAGACCATAGTTGAAAGACACCATGGCA
63128620 TAATGTCAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
137 5 0.05
138 105 0.95
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGAAACATGACATGAAAAGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATGAA
Found at i:63130822 original size:40 final size:40
Alignment explanation
Indices: 63130764--63130956 Score: 144
Period size: 40 Copynumber: 4.8 Consensus size: 40
63130754 GGATATAGCG
* * * *
63130764 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTA
* *
63130804 ATTCGCAC-AATTGCCTTCGGGA-ATTAGCCCGG-AATTAGTA
1 ACTCGCACGAA-TGCCTTCGGGACA-TAGCCCGGTTA-TAGTA
* * * * *
63130844 ACTCGCACGAATGCCTTCGGGACTTAACTCGGTTTTGGTA
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTA
* *
63130884 ACTCGCACGAATGCCTTCGGGA-ATTGACCCGGATT-TAGTC
1 ACTCGCACGAATGCCTTCGGGACATAG-CCCGG-TTATAGTA
* * * *
63130924 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACATAGCCCGG
63130957 ATACCATTTG
Statistics
Matches: 119, Mismatches: 24, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
39 4 0.03
40 87 0.73
41 26 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTA
Found at i:63130877 original size:80 final size:80
Alignment explanation
Indices: 63130764--63130956 Score: 201
Period size: 80 Copynumber: 2.4 Consensus size: 80
63130754 GGATATAGCG
* * * * * * *
63130764 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCAC-AATTGCCTTCGGGAAT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACGAA-TGCCTTCGGGAAT
63130828 T-AGCCCGGAATTAGTA
65 TGA-CCCGGAATTAGTA
* * *
63130844 ACTCGCACGAATGCCTTCGGGACTTAACTCGGTTTTGGTAACTCGCACGAATGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACGAATGCCTTCGGGAATT
* *
63130909 GACCCGGATTTAGTC
66 GACCCGGAATTAGTA
* * * *
63130924 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAACCCGG
63130957 ATACCATTTG
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 65 0.70
81 28 0.30
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACGAATGCCTTCGGGAATT
GACCCGGAATTAGTA
Found at i:63132284 original size:46 final size:47
Alignment explanation
Indices: 63132232--63132324 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 47
63132222 TCAACTCACG
63132232 GCAATGGGGGGAATCACACCTTCTCTCCTTTC-TTTTTTTTTCCTTT
1 GCAATGGGGGGAATCACACCTTCTCTCCTTTCTTTTTTTTTTCCTTT
63132278 GCAATGGGGGGAATCACACCTTCTCTCCTTTCTTTTTTTTTTCCTTT
1 GCAATGGGGGGAATCACACCTTCTCTCCTTTCTTTTTTTTTTCCTTT
63132325 CTTTATTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 32 0.70
47 14 0.30
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (47 bp):
GCAATGGGGGGAATCACACCTTCTCTCCTTTCTTTTTTTTTTCCTTT
Found at i:63137672 original size:2 final size:2
Alignment explanation
Indices: 63137665--63137691 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63137655 TCATGACATG
63137665 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
63137692 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63148497 original size:28 final size:28
Alignment explanation
Indices: 63148465--63148563 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
63148455 GCAATAAGCC
*
63148465 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
63148493 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
63148521 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
63148550 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63148564 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:63155090 original size:40 final size:40
Alignment explanation
Indices: 63155045--63155174 Score: 149
Period size: 41 Copynumber: 3.2 Consensus size: 40
63155035 CGGAATACAA
63155045 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
63155085 CCGGATAGAAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATA-TAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
63155126 CCGGATGTAGCCGCTAGCAC-AATTGCCTT-GGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
63155165 CCGGATATAA
1 CCGGATATAA
63155175 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 19 0.25
40 22 0.29
41 35 0.46
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:63157467 original size:39 final size:40
Alignment explanation
Indices: 63157409--63157509 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
63157399 AAATTGAATG
* *
63157409 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
63157448 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
63157488 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
63157510 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:63157502 original size:40 final size:40
Alignment explanation
Indices: 63157409--63157559 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
63157399 AAATTGAATG
* * * * *
63157409 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
63157448 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
63157488 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
63157528 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
63157560 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Done.