Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 91 of 167
Found at i:30137007 original size:140 final size:140
Alignment explanation
Indices: 30136763--30137118 Score: 543
Period size: 140 Copynumber: 2.5 Consensus size: 140
30136753 CTTTTTTAAA
* *
30136763 TGTTGGAATAGACTTGTCGACATACGCTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
* *
30136828 CCTAAGGCAACGCTTAAATAAAAGTCGGCTTTATCCAACACTATACT-GACACTTTCGGGCCGAC
66 CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTAT-CTCGACACTTTCGGACCGAC
*
30136892 ACTTTCCTATG
130 ACTTTCCTAAG
* *
30136903 TGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATG
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
* * * * *
30136968 CCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGACACTTTTGGACCGACA
66 CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTATCTCGACACTTTCGGACCGACA
30137033 CTTTCCTAAG
131 CTTTCCTAAG
** * *
30137043 TGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGAGTTGGGATATGCATC
1 TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
*
30137108 CCTAAGACAAC
66 CCTAAGGCAAC
30137119 ACTTGTTCAA
Statistics
Matches: 196, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
139 1 0.01
140 195 0.99
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (140 bp):
TGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGCATG
CCTAAGGCAACGCTTAAATAAAAGTCGACTTTATCCAACACTATCTCGACACTTTCGGACCGACA
CTTTCCTAAG
Found at i:30137221 original size:109 final size:109
Alignment explanation
Indices: 30137028--30137231 Score: 264
Period size: 109 Copynumber: 1.9 Consensus size: 109
30137018 ACTTTTGGAC
* **
30137028 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCTTTGTATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
*
30137093 GTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
66 GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * *** * ** *
30137137 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
* * *
30137202 GTAGGTATATGCATGCCTAAGGCAACACTT
66 GTAGGGATATGCATCCCTAAGACAACACTT
30137232 AAATAAGAGT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (109 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAAGA
GTAGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:30137326 original size:249 final size:249
Alignment explanation
Indices: 30136888--30137355 Score: 632
Period size: 249 Copynumber: 1.9 Consensus size: 249
30136878 ACTTTCGGGC
* *
30136888 CGACACTTTCCTATGTGTTGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* * *
30136953 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACTTTGTTCAACACTATGTCGAC
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
* * ***
30137018 ACTTTTGGACCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGTTATACACTTTGGCCAACCCT
131 ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
* *
30137083 TTGTATAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
196 TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
* * * * *** * * * *
30137137 CGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATATGTTTTTGCCAACTTTTTGTATAATA
1 CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
* *
30137202 GTAGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATG-CGGA
66 GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTC-GA
** * ** *
30137266 CACTTTTGGGGCAACACTTTCTTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTC
130 CACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCC
*
30137331 TTTGGACAAGGGTTGGGATATGCAT
195 TTTGGACAAGAGTTGGGATATGCAT
30137356 GTCTAAGGCA
Statistics
Matches: 186, Mismatches: 32, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
248 1 0.01
249 185 0.99
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (249 bp):
CGACACTTTCCTAAGTGATGGGATAGACTTGACGACATACACTTTGGCCAACTCTTTATATAAGA
GTAGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCCAACACTATGTCGAC
ACTTTTGGACCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCT
TTGGACAAGAGTTGGGATATGCATCCCTAAGACAACACTTGTTCAACAGTATAT
Found at i:30140310 original size:40 final size:40
Alignment explanation
Indices: 30140247--30140473 Score: 337
Period size: 40 Copynumber: 5.7 Consensus size: 40
30140237 CAATTGAGGA
* *
30140247 TTATATCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
30140287 CTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
30140327 TTATTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
30140367 TTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
30140407 CTATTTCTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
30140447 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGGGTTAAGTCCCGAAGGCA
30140474 ATTGGGTTGG
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:30143828 original size:30 final size:30
Alignment explanation
Indices: 30143792--30143852 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
30143782 TGTTACAAGC
*
30143792 TTGATTGGTATTAGAGCTAATTAGGTTTAG
1 TTGATTGGTATTAGAGCTAATTACGTTTAG
30143822 TTGATTGGTATTAGAGCTAATTACGTTTAG
1 TTGATTGGTATTAGAGCTAATTACGTTTAG
30143852 T
1 T
30143853 CGGTTCTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (30 bp):
TTGATTGGTATTAGAGCTAATTACGTTTAG
Found at i:30149074 original size:92 final size:93
Alignment explanation
Indices: 30148964--30149148 Score: 336
Period size: 92 Copynumber: 2.0 Consensus size: 93
30148954 AATAATAGTA
30148964 TAATAAGTAAAATTGATAAAATAGAAAAAGAAGATAGAAAGACTAAC-AGAGAGCAAACGTGAAA
1 TAATAAGTAAAATTGATAAAATAGAAAAAGAAGATAGAAAGACTAACAAGAGAGCAAACGTGAAA
* * *
30149028 GAAAGAAGAAATAAATAAATAAATAAAT
66 GAAAGAAGAAAGAAAGAAAGAAATAAAT
30149056 TAATAAGTAAAATTGATAAAATAGAAAAAGAAGATAGAAAGACTAACAAGAGAGCAAACGTGAAA
1 TAATAAGTAAAATTGATAAAATAGAAAAAGAAGATAGAAAGACTAACAAGAGAGCAAACGTGAAA
30149121 GAAAGAAGAAAGAAAGAAAGAAATAAAT
66 GAAAGAAGAAAGAAAGAAAGAAATAAAT
30149149 AAGGGAAATT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 47 0.53
93 42 0.47
ACGTcount: A:0.63, C:0.04, G:0.18, T:0.15
Consensus pattern (93 bp):
TAATAAGTAAAATTGATAAAATAGAAAAAGAAGATAGAAAGACTAACAAGAGAGCAAACGTGAAA
GAAAGAAGAAAGAAAGAAAGAAATAAAT
Found at i:30159183 original size:53 final size:53
Alignment explanation
Indices: 30159004--30159207 Score: 169
Period size: 53 Copynumber: 3.8 Consensus size: 53
30158994 AGGGTTTAAG
* * * * * * * *
30159004 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAATTTTACAAGGCAAG
1 GATACCACGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCATAAGGCAAA
* * * * * * * *
30159058 GAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCACGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * *
30159113 GATCCCATGTAAGACCATG-CTAAGGA-ATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCACGTAAGACCATGTC-AA-GACATGGCAATGGTAAGTTCATAAGGCAAA
30159166 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
30159208 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 43 0.36
54 38 0.32
55 35 0.29
56 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:30163206 original size:27 final size:27
Alignment explanation
Indices: 30163176--30163353 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30163166 ATATTGAGTC
* * * *
30163176 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30163203 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30163230 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30163258 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30163285 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30163312 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30163339 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30163354 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30163315 original size:82 final size:81
Alignment explanation
Indices: 30163197--30163352 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30163187 TGCTATATAA
* *
30163197 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30163262 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30163279 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30163343 CACTTAGTGC
65 CACTTAGTGC
30163353 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30172558 original size:27 final size:27
Alignment explanation
Indices: 30172528--30172705 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30172518 ATATTGAGTC
* * * *
30172528 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30172555 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30172582 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30172610 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30172637 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30172664 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30172691 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30172706 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30172667 original size:82 final size:81
Alignment explanation
Indices: 30172549--30172704 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30172539 TGCTATATAA
* *
30172549 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30172614 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30172631 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30172695 CACTTAGTGC
65 CACTTAGTGC
30172705 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30182215 original size:43 final size:42
Alignment explanation
Indices: 30182099--30182218 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 42
30182089 CGTACAATGC
* * * *
30182099 CAACGTCCCAGACGTGATCTTACA-TGTAATCAAATAATGATG
1 CAACATCCCAGACATGATCTTACACT-AAATCAAATAACGATG
* * * * *
30182141 CCACTATCCCAGAGAGGGTCTTACACGAAATCAAAT-ACGATG
1 CAAC-ATCCCAGACATGATCTTACACTAAATCAAATAACGATG
30182183 CAAACATCCCAGACATGATCTTACACATAAATCAAA
1 C-AACATCCCAGACATGATCTTACAC-TAAATCAAA
30182219 AGTCAATGCT
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (42 bp):
CAACATCCCAGACATGATCTTACACTAAATCAAATAACGATG
Found at i:30185036 original size:46 final size:44
Alignment explanation
Indices: 30184977--30185095 Score: 168
Period size: 46 Copynumber: 2.6 Consensus size: 44
30184967 GTGAGACGAG
*
30184977 AGCTAGTGTAAGACACGTCTGGGACATGCATCATCCT-CGAGATGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAT-CTACGAG-T-TA
*
30185023 AGCTAGTGTAAGACATGTCTGGGACATGCATCGTCTACGAGTTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCATCTACGAGTTA
*
30185067 AGCTAGTGTAAGACCATGTCCGGGACATG
1 AGCTAGTGTAAGA-CATGTCTGGGACATG
30185096 GCACCGACAT
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
44 15 0.22
45 17 0.25
46 36 0.53
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (44 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCATCTACGAGTTA
Found at i:30195330 original size:34 final size:34
Alignment explanation
Indices: 30195282--30195349 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
30195272 ATACTGCATG
*
30195282 ACTGCTACTGATACT-ATAATGGGCTAAGGCCCAA
1 ACTGCTACTGATACTGA-AAGGGGCTAAGGCCCAA
* *
30195316 ACTGTTACTGATACTGAAAGGGGCTTAGGCCCAA
1 ACTGCTACTGATACTGAAAGGGGCTAAGGCCCAA
30195350 TTGTATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (34 bp):
ACTGCTACTGATACTGAAAGGGGCTAAGGCCCAA
Found at i:30197482 original size:48 final size:48
Alignment explanation
Indices: 30197404--30197495 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
30197394 AGGGTTATAA
* * *
30197404 GTGATTCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTCAC
1 GTGATCCCATGTAAGACAATGTCTAGGACATGGCATTGGCATCGTCAC
* *
30197452 GTGATCCCATGTAAGACAATGTTTATGACATGGCATTGGCATCG
1 GTGATCCCATGTAAGACAATGTCTAGGACATGGCATTGGCATCG
30197496 ATATGAGACA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (48 bp):
GTGATCCCATGTAAGACAATGTCTAGGACATGGCATTGGCATCGTCAC
Found at i:30198594 original size:42 final size:42
Alignment explanation
Indices: 30198531--30198612 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
30198521 CAAAGTTGTC
*
30198531 CACACTGGTGCACACACGGGCATGT-GTCTAGGCCGTGTGTGA
1 CACACTGCTGCACACACGGGCATGTGGTCTA-GCCGTGTGTGA
*
30198573 CACACTGCCTGCAC-CATGGGCATGTGGTCTAGCCGTGTGT
1 CACACTG-CTGCACACACGGGCATGTGGTCTAGCCGTGTGT
30198613 CCCCTACACC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (42 bp):
CACACTGCTGCACACACGGGCATGTGGTCTAGCCGTGTGTGA
Found at i:30214103 original size:43 final size:41
Alignment explanation
Indices: 30214026--30214152 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 41
30214016 GAAAACACAT
* * *
30214026 ATATCACATA-CAATGCCATATCCCAGATATGGTCTTACATG
1 ATATCACATATCAATGCCATGTCCCAGACATGGTCTTACA-C
* * *
30214067 TTATCACATATCAATGCCTCTGTCCCAGACAGGGTCTTACAC
1 ATATCACATATCAATGCC-ATGTCCCAGACATGGTCTTACAC
*
30214109 ATAGTCTCATATCAATGCCAATGTCCCAGACATGGTCTTACAC
1 ATA-TCACATATCAATGCC-ATGTCCCAGACATGGTCTTACAC
30214152 A
1 A
30214153 AAATCACACC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
41 9 0.12
42 9 0.12
43 54 0.75
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (41 bp):
ATATCACATATCAATGCCATGTCCCAGACATGGTCTTACAC
Found at i:30224137 original size:43 final size:43
Alignment explanation
Indices: 30224081--30224194 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
30224071 AATGCCATAC
* * * **
30224081 CCCAGATATGGTCTTACATGTTATCACATATCGATGCCTCTGT
1 CCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGT
* * *
30224124 CCCAGACAGGGTCTTTCACGTAATCTCATATCGATGCCAATGT
1 CCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGT
*
30224167 CCCAGACATGGTCTTACACGAAATCACA
1 CCCAGACATGGTCTTACACGTAATCACA
30224195 CCTTGAAAGC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGT
Found at i:30225654 original size:27 final size:27
Alignment explanation
Indices: 30225624--30225730 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 27
30225614 GGCTGCTAGA
* *
30225624 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
30225651 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
30225678 ACAGATATATGTGGCAGAGCCACTAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
30225706 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
30225731 GATGCTTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.75
28 17 0.24
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:30225710 original size:54 final size:54
Alignment explanation
Indices: 30225621--30225730 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
30225611 CATGGCTGCT
*
30225621 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
* * * *
30225675 AGAACAGATATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
30225729 AG
1 AG
30225731 GATGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
Found at i:30233353 original size:27 final size:27
Alignment explanation
Indices: 30233323--30233429 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
30233313 GGCTGCTAGA
* **
30233323 ACAGATAATGTGACAGATTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
30233350 ACAGATAATCGTGGCAGAGCCACCA-AA
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
30233377 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
30233405 -CAGATAATTGTGGCATAACCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
30233430 GACGATTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.77
28 15 0.22
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:30233409 original size:54 final size:54
Alignment explanation
Indices: 30233322--30233428 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
30233312 TGGCTGCTAG
** *
30233322 AACAGATAATGTGACAGATTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACCAA
* * *
30233376 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAACCACCA
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACCA
30233429 GGACGATTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACCAA
Found at i:30239335 original size:17 final size:18
Alignment explanation
Indices: 30239313--30239350 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
30239303 GGACCGATTT
30239313 GGGCGTGTGGG-CCACAC
1 GGGCGTGTGGGTCCACAC
30239330 GGGCGTGTGGGTCCACAC
1 GGGCGTGTGGGTCCACAC
30239348 GGG
1 GGG
30239351 TAAGCCACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.11, C:0.26, G:0.50, T:0.13
Consensus pattern (18 bp):
GGGCGTGTGGGTCCACAC
Found at i:30244367 original size:40 final size:38
Alignment explanation
Indices: 30244301--30244406 Score: 142
Period size: 40 Copynumber: 2.7 Consensus size: 38
30244291 TTTGAATGAT
30244301 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-TACTAA
1 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGA-ATTACT-A
30244340 TTCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTA
1 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA
* *
30244379 TAACCGGGCTATGTCCCGAAGGCATTTG
1 T-TCCGGGCTAAG-CCCGAAGGCATTTG
30244407 AACGAGGAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
39 15 0.25
40 46 0.75
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (38 bp):
TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTA
Found at i:30244608 original size:151 final size:151
Alignment explanation
Indices: 30244333--30244639 Score: 578
Period size: 151 Copynumber: 2.0 Consensus size: 151
30244323 TTTGTGCGAG
*
30244333 ATACTAATTCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGA
1 ATACTAAATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGA
30244398 AGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAA
66 AGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAA
30244463 CTTGCTGTAAAATTCCAGTTA
131 CTTGCTGTAAAATTCCAGTTA
* * *
30244484 TTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGA
1 ATACTAAATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGA
30244549 AGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAA
66 AGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAA
30244614 CTTGCTGTAAAATTCCAGTTA
131 CTTGCTGTAAAATTCCAGTTA
30244635 ATACT
1 ATACT
30244640 CTCGAAACAT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (151 bp):
ATACTAAATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGA
AGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAA
CTTGCTGTAAAATTCCAGTTA
Found at i:30245993 original size:40 final size:40
Alignment explanation
Indices: 30245929--30246180 Score: 303
Period size: 40 Copynumber: 6.3 Consensus size: 40
30245919 TCTTCGGAAT
* ** * *
30245929 TTAG-CCGGATATAACAACAAGCACAATTGCCTTCGAGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
30245968 TTAACCTGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
30246008 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
*
30246048 TTAGCCCGAATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
30246088 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
30246128 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
30246168 TTAGCCCGGATAT
1 TTAGCCCGGATAT
30246181 CATTCAAATG
Statistics
Matches: 192, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 4 0.02
40 184 0.96
41 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:30256123 original size:25 final size:25
Alignment explanation
Indices: 30256089--30256140 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
30256079 AAGGTAAGGA
30256089 CTGCAATCTAATTTCTATAACTTAT
1 CTGCAATCTAATTTCTATAACTTAT
30256114 CTGCAATCTAATTTCTATAACTTAT
1 CTGCAATCTAATTTCTATAACTTAT
30256139 CT
1 CT
30256141 TAGTGAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.44
Consensus pattern (25 bp):
CTGCAATCTAATTTCTATAACTTAT
Found at i:30256894 original size:41 final size:41
Alignment explanation
Indices: 30256849--30256929 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
30256839 ATTCATGAAG
* * *
30256849 GATATCCTGTCCAAGAAATGAAGACTAGGAGAATTTGAGAA
1 GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGAA
30256890 GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGA
1 GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGA
30256930 TGGTAGCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (41 bp):
GATATCCTATCCAAGAAATAAAGACTAGGACAATTTGAGAA
Found at i:30262788 original size:173 final size:173
Alignment explanation
Indices: 30262494--30262838 Score: 636
Period size: 173 Copynumber: 2.0 Consensus size: 173
30262484 CCTCCGAGTC
30262494 TCTCACAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
1 TCTCACAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
*
30262559 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAGTCAGATGTATGGTATGCAGAAACAGACT
66 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
30262624 GGGCCTAAGCCCATCACAGACAGTATTAGGTGGGCCTTAGCCA
131 GGGCCTAAGCCCATCACAGACAGTATTAGGTGGGCCTTAGCCA
* *
30262667 TCTCGCAGCTCCAAATTTCCTAAGGCTGGGGATTACTTGCACAGTTAGACAGAAGGGTGAGTTTG
1 TCTCACAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
30262732 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
66 CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
* * *
30262797 GGGCCTGAGCCTATCACAGATAGTATTAGGTGGGCCTTAGCC
131 GGGCCTAAGCCCATCACAGACAGTATTAGGTGGGCCTTAGCC
30262839 TAATAACTGA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 166 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (173 bp):
TCTCACAGCTCCAAATTTCCTAAGGCTGGGGATTACCTGCACAGTTAGACAGAAGGGTGAGTTTG
CGAAAATTCAGTGTGTAATCCCTTATAATACAAACAATCAGATGTATGGTATGCAGAAACAGACT
GGGCCTAAGCCCATCACAGACAGTATTAGGTGGGCCTTAGCCA
Found at i:30266574 original size:46 final size:45
Alignment explanation
Indices: 30266507--30266675 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 45
30266497 TGTAACCCGC
30266507 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTC-GAT
* * * *
30266553 CCATAAGTGAACTCAGACTCAACTCAACAAGCTTGGATGCCTAGTTAC-AT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TT-CGAT
* * * *
30266603 -C-TCA-CGAACTGGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCG-AT
*
30266646 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGCGAACTCGGACTCAACTCAACGA
30266676 ATATCCCAGC
Statistics
Matches: 97, Mismatches: 15, Indels: 22
0.72 0.11 0.16
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 53 0.55
47 23 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
52 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGAT
Found at i:30266780 original size:33 final size:32
Alignment explanation
Indices: 30266743--30266807 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
30266733 TTTTCCCAAT
*
30266743 CATGTGTCTCAACCATCTTTTACGGAATGCCG
1 CATGTGTCTCAACCATCTTCTACGGAATGCCG
30266775 NCATGTGTCTCAACCATCTTCTACGGAATGCCG
1 -CATGTGTCTCAACCATCTTCTACGGAATGCCG
30266808 ATACCGATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.29
Consensus pattern (32 bp):
CATGTGTCTCAACCATCTTCTACGGAATGCCG
Found at i:30270048 original size:43 final size:43
Alignment explanation
Indices: 30269922--30270087 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
30269912 AGCTTGCACA
* ** *
30269922 ATGCC-ATAGCCCAGATATGGTCTTACATGTTATCAC-ATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACATAATCACAATA-CG
* * * * * *
30269964 ATGCCAGTGTCCTAGATAGGGTCTTACACGA-ATTCATAATACG
1 ATGCCAATATCCCAGATATGGTCTTACAC-ATAATCACAATACG
30270007 ATGCCAATATCCCAGATATGGTCTTACACATAATCACAATAC-
1 ATGCCAATATCCCAGATATGGTCTTACACATAATCACAATACG
* * **
30270049 ATTGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 A-TGCCAATATCCCAGATATGGTCTTACACATAATCACA
30270088 TCTTGATAAC
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
42 7 0.07
43 89 0.90
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGATATGGTCTTACACATAATCACAATACG
Found at i:30271436 original size:43 final size:43
Alignment explanation
Indices: 30271389--30271472 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
30271379 TTTGATACGT
*
30271389 TGGCATCAATATGTGATTACGA-GAAAGACC-CTGTCTGGGACAA
1 TGGCACCAATATGTGATTAC-ATGAAAGACCAC-GTCTGGGACAA
* *
30271432 TGGCACCGATATGTGATTACATGTAAGACCACGTCTGGGAC
1 TGGCACCAATATGTGATTACATGAAAGACCACGTCTGGGAC
30271473 GTTGGTATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (43 bp):
TGGCACCAATATGTGATTACATGAAAGACCACGTCTGGGACAA
Found at i:30277836 original size:43 final size:43
Alignment explanation
Indices: 30277763--30277847 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
30277753 ATGTGAATCT
*
30277763 GATATGTGTTTACGAGTAAGACCCTATCTGGGACAG-TGGCATC
1 GATATGTGATTACGAGTAAGACCCTATCTGGGAC-GTTGGCATC
*
30277806 GATATGTGATTAC-ATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 GATATGTGATTACGA-GTAAGACC-CTATCTGGGACGTTGGCAT
30277848 TGTTCGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 34 0.92
44 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
GATATGTGATTACGAGTAAGACCCTATCTGGGACGTTGGCATC
Found at i:30286266 original size:26 final size:24
Alignment explanation
Indices: 30286224--30286292 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
30286214 TATGTCTTTC
* **
30286224 AAAATAAAATAATAAAATTTAAAT
1 AAAATAAAAAAATAAAATGAAAAT
30286248 GAAAATAGAAAAAATAAAAATGAAAAT
1 -AAAATA-AAAAAAT-AAAATGAAAAT
30286275 AAAATAAAATAAAATAAA
1 AAAAT-AAA-AAAATAAA
30286293 TAAGAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 6 0.16
26 16 0.43
27 15 0.41
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAATAAAAAAATAAAATGAAAAT
Found at i:30286268 original size:21 final size:22
Alignment explanation
Indices: 30286234--30286303 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 22
30286224 AAAATAAAAT
** *
30286234 AATAAAATTTAAATGAAAATAG
1 AATAAAATAAAAATGAAAATAA
30286256 AA-AAAATAAAAATGAAAATAA
1 AATAAAATAAAAATGAAAATAA
30286277 AATAAAAT-AAAAT--AAATAA
1 AATAAAATAAAAATGAAAATAA
30286296 GAATAAAA
1 -AATAAAA
30286304 AGATAGGAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
19 6 0.14
20 7 0.16
21 23 0.53
22 7 0.16
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (22 bp):
AATAAAATAAAAATGAAAATAA
Found at i:30286294 original size:31 final size:32
Alignment explanation
Indices: 30286224--30286304 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 32
30286214 TATGTCTTTC
* *
30286224 AAAATAAAATAATAAAATTTAAATGAAAATAGAA
1 AAAAT-AAA-AATAAAAATAAAATGAAAATAGAA
*
30286258 AAAATAAAAATGAAAATAAAAT-AAAATA-AA
1 AAAATAAAAATAAAAATAAAATGAAAATAGAA
*
30286288 ATAAATAAGAATAAAAA
1 A-AAATAAAAATAAAAA
30286305 GATAGGAGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 3 0.07
31 19 0.46
32 11 0.27
33 3 0.07
34 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (32 bp):
AAAATAAAAATAAAAATAAAATGAAAATAGAA
Found at i:30286295 original size:4 final size:5
Alignment explanation
Indices: 30286224--30286303 Score: 69
Period size: 5 Copynumber: 15.8 Consensus size: 5
30286214 TATGTCTTTC
* *
30286224 AAAAT AAAAT --AAT AAAATT TAAAT GAAAAT AGAA- AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT -AAAAT
30286269 GAAAAT AAAAT AAAAT AAAAT -AAAT AAGAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
30286304 AGATAGGAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.05
4 7 0.11
5 29 0.47
6 23 0.37
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:30291671 original size:13 final size:13
Alignment explanation
Indices: 30291649--30291681 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30291639 AAGGGTTTGT
30291649 TTAT-TAAACTAA
1 TTATCTAAACTAA
30291661 TTATCTAAACTAA
1 TTATCTAAACTAA
*
30291674 TTAACTAA
1 TTATCTAA
30291682 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:30292932 original size:39 final size:39
Alignment explanation
Indices: 30292878--30292956 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
30292868 ATAAATATGC
* *
30292878 TAAGTATTTGGGGTATAAATGTGTATAATTTGGCATTTA
1 TAAGTATTTAGGGTATAAATATGTATAATTTGGCATTTA
*
30292917 TAAGTATTTAGGGTATAAATATGTATAATTTGGCGTTTA
1 TAAGTATTTAGGGTATAAATATGTATAATTTGGCATTTA
30292956 T
1 T
30292957 CACATAGCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.44
Consensus pattern (39 bp):
TAAGTATTTAGGGTATAAATATGTATAATTTGGCATTTA
Found at i:30297536 original size:137 final size:138
Alignment explanation
Indices: 30297303--30297567 Score: 331
Period size: 137 Copynumber: 1.9 Consensus size: 138
30297293 ATGGGCCTGT
* * *
30297303 TTACACAAGCTGATGGTTGGAATGTAAGTTACACGATGCTACTCACACAAGTTGATGAGTATCCA
1 TTACACAAGCTGACGGTCGGAATGTAAGCTACACGATGCTACTCACACAAGTTGATGAGTATCCA
* * * * *
30297368 CAACTAATGCTAGACCACAGCCATCGATAGGACATTCAGGACCAGCACCCAAAATATTGTAACCT
66 CAACTAATGCTAGAACACAACCATAGATAGGACATTCAGGACCAGCACCCAAAACATGGTAACCT
30297433 GGGATTGC
131 GGGATTGC
* * *
30297441 TTACACAAGCTGACGGTCGGAATGT-AGCTACACGATGAC-GCTTACACAAGTTGATGAGTATTC
1 TTACACAAGCTGACGGTCGGAATGTAAGCTACACGATG-CTACTCACACAAGTTGATGAGTATCC
** * * *
30297504 GTAACTAATG-TCGGAACTCAACCATTAG-TAGGATATTCAGGACCAGCACCCAAAACATGGTAA
65 ACAACTAATGCT-AGAACACAACCA-TAGATAGGACATTCAGGACCAGCACCCAAAACATGGTAA
30297567 C
128 C
30297568 ACTAATGGCA
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
136 1 0.01
137 81 0.75
138 26 0.24
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (138 bp):
TTACACAAGCTGACGGTCGGAATGTAAGCTACACGATGCTACTCACACAAGTTGATGAGTATCCA
CAACTAATGCTAGAACACAACCATAGATAGGACATTCAGGACCAGCACCCAAAACATGGTAACCT
GGGATTGC
Found at i:30298141 original size:13 final size:13
Alignment explanation
Indices: 30298123--30298147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30298113 GTAAATTCAT
30298123 CAAAATTACTTAA
1 CAAAATTACTTAA
30298136 CAAAATTACTTA
1 CAAAATTACTTA
30298148 TAAATAACAA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAAATTACTTAA
Found at i:30311464 original size:40 final size:40
Alignment explanation
Indices: 30311395--30311562 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
30311385 CGGGGTTTAG
** * *
30311395 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
30311434 CTGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
30311474 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
** * * * * *
30311514 CCGGATGCAGTCGCTTAGCACAAAAGCCTTCAGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
30311555 CCGGATAT
1 CCGGATAT
30311563 CATTCAAGTA
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 61 0.60
41 27 0.26
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:30311553 original size:41 final size:39
Alignment explanation
Indices: 30311447--30311561 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 39
30311437 GATATGGTCA
* *
30311447 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCG
1 CTAGCACAAATGCCTTC-GGACTTAGCCCGGATACAGTCG
* *
30311487 CTAGCACAAATGCCTTCGGATCTTAGTCCGGATGCAGTCG
1 CTAGCACAAATGCCTTCGGA-CTTAGCCCGGATACAGTCG
*
30311527 CTTAGCACAAAAGCCTTCAGGACTTAGCCCGGATA
1 C-TAGCACAAATGCCTTC-GGACTTAGCCCGGATA
30311562 TCATTCAAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
39 3 0.05
40 33 0.51
41 26 0.40
42 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (39 bp):
CTAGCACAAATGCCTTCGGACTTAGCCCGGATACAGTCG
Found at i:30314866 original size:24 final size:23
Alignment explanation
Indices: 30314830--30314875 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
30314820 TATATTAGTG
*
30314830 AAAGATTTATTGATCAGAAGCAT
1 AAAGATTTATTGAGCAGAAGCAT
* *
30314853 AAAGAATTTCTTGAGCTGAAGCA
1 AAAG-ATTTATTGAGCAGAAGCA
30314876 AGGTAATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAGATTTATTGAGCAGAAGCAT
Found at i:30315300 original size:64 final size:64
Alignment explanation
Indices: 30315221--30315345 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
30315211 GGAATTATAA
* *
30315221 GAATTATAAGAAGCAAAATGTGGGTCCTAAATCCCAGACTACTTCGGCAGCCAGTGTAGGGTGG
1 GAATTATAAGAAGCAAAATGTGGGTCCTAAATCCCAGAATACTTCGGCAGCCAATGTAGGGTGG
* *
30315285 GAATTATAAGAAGCAAAATGTGGGTCCTAAATCTCAGAATACTTCTGCAGCCAATGTAGGG
1 GAATTATAAGAAGCAAAATGTGGGTCCTAAATCCCAGAATACTTCGGCAGCCAATGTAGGG
30315346 AACTCGAGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (64 bp):
GAATTATAAGAAGCAAAATGTGGGTCCTAAATCCCAGAATACTTCGGCAGCCAATGTAGGGTGG
Found at i:30320610 original size:141 final size:141
Alignment explanation
Indices: 30320356--30320640 Score: 543
Period size: 141 Copynumber: 2.0 Consensus size: 141
30320346 AAATTATTAA
30320356 GATACTTAGTGCATAAAAACTCATAAGAGGGATGAAATTTGCCATAAACAGAATACTGCAGCAAC
1 GATACTTAGTGCATAAAAACTCATAAGAGGGATGAAATTTGCCATAAACAGAATACTGCAGCAAC
30320421 ACTGACGCGAGTTTGAAAATCTACTAAAAATCATAGAAATTTAATTTGGTGATGGATTACATATC
66 ACTGACGCGAGTTTGAAAATCTACTAAAAATCATAGAAATTTAATTTGGTGATGGATTACATATC
30320486 AAATTGAAGAT
131 AAATTGAAGAT
*
30320497 GATACTTAGTGCATAAAAACTCATAAGAGGGATGAAATTTGCCATAAATAGAATACTGCAGCAAC
1 GATACTTAGTGCATAAAAACTCATAAGAGGGATGAAATTTGCCATAAACAGAATACTGCAGCAAC
* *
30320562 ACTGATGCGAGTTTGAAAATCTACTAAAAATCATAGAAATTTTATTTGGTGATGGATTACATATC
66 ACTGACGCGAGTTTGAAAATCTACTAAAAATCATAGAAATTTAATTTGGTGATGGATTACATATC
30320627 AAATTGAAGAT
131 AAATTGAAGAT
30320638 GAT
1 GAT
30320641 TATGTCTAGT
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (141 bp):
GATACTTAGTGCATAAAAACTCATAAGAGGGATGAAATTTGCCATAAACAGAATACTGCAGCAAC
ACTGACGCGAGTTTGAAAATCTACTAAAAATCATAGAAATTTAATTTGGTGATGGATTACATATC
AAATTGAAGAT
Found at i:30327587 original size:17 final size:17
Alignment explanation
Indices: 30327565--30327620 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
30327555 CCAATTGGGT
30327565 CGTGTGGGCCACACAGG
1 CGTGTGGGCCACACAGG
30327582 CGTGTGGGCC-CACA--
1 CGTGTGGGCCACACAGG
* **
30327596 CATGTGAACCACACAGG
1 CGTGTGGGCCACACAGG
30327613 CGTGTGGG
1 CGTGTGGG
30327621 ATTTTGGGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 4 0.13
17 15 0.50
ACGTcount: A:0.20, C:0.29, G:0.38, T:0.14
Consensus pattern (17 bp):
CGTGTGGGCCACACAGG
Found at i:30328622 original size:40 final size:40
Alignment explanation
Indices: 30328567--30328642 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
30328557 TTTAAATCAG
*
30328567 ATCAAATAGAATGCATTTTCTAAGACTAAATACAAGTAAA
1 ATCAAATAAAATGCATTTTCTAAGACTAAATACAAGTAAA
*
30328607 ATCAAATAAAATGCATTTTCTCAGACTAAATACAAG
1 ATCAAATAAAATGCATTTTCTAAGACTAAATACAAG
30328643 ATAATAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (40 bp):
ATCAAATAAAATGCATTTTCTAAGACTAAATACAAGTAAA
Found at i:30328919 original size:33 final size:33
Alignment explanation
Indices: 30328882--30328948 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
30328872 ATTAACTGAG
30328882 TAGTTTAGTGTAGTTTAAAGCTTGGGAATTAGT
1 TAGTTTAGTGTAGTTTAAAGCTTGGGAATTAGT
30328915 TAGTTTAGTGTAGTTTAAAGCTTGGGAATTAGT
1 TAGTTTAGTGTAGTTTAAAGCTTGGGAATTAGT
30328948 T
1 T
30328949 GTAGGTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (33 bp):
TAGTTTAGTGTAGTTTAAAGCTTGGGAATTAGT
Found at i:30340713 original size:10 final size:11
Alignment explanation
Indices: 30340672--30340711 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
30340662 AAGGCCGTAA
30340672 TGACCGAAGAG
1 TGACCGAAGAG
*
30340683 TGAGCGAAGAG
1 TGACCGAAGAG
30340694 TGACCGAA-AG
1 TGACCGAAGAG
30340704 TGACCGAA
1 TGACCGAA
30340712 AGGTTGGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.38, C:0.17, G:0.35, T:0.10
Consensus pattern (11 bp):
TGACCGAAGAG
Found at i:30349400 original size:29 final size:27
Alignment explanation
Indices: 30349364--30349426 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 27
30349354 GACGAAAGGT
*
30349364 TTAAAGGAACAATGAAAATGAAAAACTAA
1 TTAAAGGAACAATG-AAAGGAAAAA-TAA
30349393 TTAAAGGAACAATGAAAGGAAAAATAA
1 TTAAAGGAACAATGAAAGGAAAAATAA
*
30349420 ATAAAGG
1 TTAAAGG
30349427 GGACGAGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 9 0.28
28 9 0.28
29 14 0.44
ACGTcount: A:0.62, C:0.05, G:0.17, T:0.16
Consensus pattern (27 bp):
TTAAAGGAACAATGAAAGGAAAAATAA
Found at i:30354448 original size:27 final size:27
Alignment explanation
Indices: 30354417--30354594 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
30354407 TAAATTGTAC
30354417 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
30354444 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
30354470 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30354498 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30354526 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30354553 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30354580 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30354595 GACTCGATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30354585 original size:82 final size:81
Alignment explanation
Indices: 30354414--30354594 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
30354404 GATTAAATTG
*
30354414 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
30354479 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30354495 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
30354558 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
30354577 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30354595 GACTCGATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30356966 original size:15 final size:16
Alignment explanation
Indices: 30356948--30356977 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30356938 AATTGTTTTA
30356948 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
30356963 TTACATAATTTCACT
1 TTACATAATTTCACT
30356978 TACTTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:30357414 original size:50 final size:50
Alignment explanation
Indices: 30357174--30357415 Score: 215
Period size: 50 Copynumber: 4.8 Consensus size: 50
30357164 GTAACTGAAG
* * * *
30357174 CTATCTGGTACGCATAGTAGCCTGAACTTAGTACTACACATGCGAC-CAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
* ** * * * * ** *
30357223 CAATCCAGTATACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
* *
30357273 CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACA--CATGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCA--ACTT-AA
* * *
30357323 GT-TGTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
1 CTAT-CT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
* *
30357374 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTGCACATG
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
30357416 TAGTAGCCTG
Statistics
Matches: 152, Mismatches: 31, Indels: 19
0.75 0.15 0.09
Matches are distributed among these distances:
49 38 0.25
50 72 0.47
51 37 0.24
52 3 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACTTAA
Found at i:30357419 original size:28 final size:28
Alignment explanation
Indices: 30357387--30357444 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
30357377 TCTGGTACAC
* *
30357387 GTAGTAGCCTGCACTTAGTACTGCACAT
1 GTAGTAGCCTGCACATAGTACTACACAT
30357415 GTAGTAGCCTGCACATAGTACTACACAT
1 GTAGTAGCCTGCACATAGTACTACACAT
30357443 GT
1 GT
30357445 GTTCTCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (28 bp):
GTAGTAGCCTGCACATAGTACTACACAT
Found at i:30357428 original size:16 final size:16
Alignment explanation
Indices: 30357387--30357430 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
30357377 TCTGGTACAC
30357387 GTAGTAGCCTGCAC-T
1 GTAGTAGCCTGCACAT
30357402 -TAGTA--CTGCACAT
1 GTAGTAGCCTGCACAT
30357415 GTAGTAGCCTGCACAT
1 GTAGTAGCCTGCACAT
30357431 AGTACTACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 10 0.40
16 8 0.32
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (16 bp):
GTAGTAGCCTGCACAT
Found at i:30365652 original size:49 final size:49
Alignment explanation
Indices: 30365421--30366437 Score: 1796
Period size: 49 Copynumber: 21.1 Consensus size: 49
30365411 GAAATGATAG
30365421 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
30365468 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
30365515 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
30365562 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30365609 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
30365658 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
30365705 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30365754 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30365803 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30365852 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30365901 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30365950 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30365999 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30366048 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30366097 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30366146 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30366195 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30366244 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30366293 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
30366340 TAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
30366387 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
30366434 TAAG
1 TAAG
30366438 TCCCGAAGGG
Statistics
Matches: 943, Mismatches: 21, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
47 309 0.33
48 1 0.00
49 633 0.67
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:30366612 original size:37 final size:37
Alignment explanation
Indices: 30366556--30366634 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30366546 CCGAGCTCTA
* *
30366556 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
30366593 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30366630 AAGAC
1 AAGAC
30366635 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30383540 original size:59 final size:59
Alignment explanation
Indices: 30383467--30383586 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
30383457 AGTGCCATAG
* *
30383467 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCCACTCAAAAGCACCCAGACCCTAGCATGT
* * *
30383526 ATCACATATTCACATGCCTTTCAATGGGGCCACTCAAAAGCACCCAGACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCCACTCAAAAGCACCCAGACCCTAGCATGT
30383585 AT
1 AT
30383587 TACGTATCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.21
Consensus pattern (59 bp):
ATCACATAATCACATGCCTCTCAACGGGGCCACTCAAAAGCACCCAGACCCTAGCATGT
Found at i:30384897 original size:13 final size:13
Alignment explanation
Indices: 30384871--30384904 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30384861 AATTAGGCAC
30384871 TTTTCACATAAAA
1 TTTTCACATAAAA
* *
30384884 TTTTCTCATGAAA
1 TTTTCACATAAAA
30384897 TTTTCACA
1 TTTTCACA
30384905 CAAGCATAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.44
Consensus pattern (13 bp):
TTTTCACATAAAA
Found at i:30390691 original size:18 final size:20
Alignment explanation
Indices: 30390651--30390693 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
30390641 CACAATCAAA
*
30390651 AGTCATATATCATCATATCAT
1 AGTCAAATATCA-CATATCAT
30390672 AGTCAAATATCA-ATAT-AT
1 AGTCAAATATCACATATCAT
30390690 AGTC
1 AGTC
30390694 CCTTTCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
21 11 0.52
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (20 bp):
AGTCAAATATCACATATCAT
Found at i:30392601 original size:43 final size:43
Alignment explanation
Indices: 30392477--30392588 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
30392467 GCTGGTATTA
* *
30392477 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
30392520 TATTCGAGCCTTCGTGCCTTGCAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
30392563 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
30392589 GTAATGCCGG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:30397166 original size:38 final size:38
Alignment explanation
Indices: 30397115--30397316 Score: 278
Period size: 38 Copynumber: 5.3 Consensus size: 38
30397105 ATATTCGATG
30397115 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
30397153 TATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
30397191 TATATCCGGGCTTAAAGACCTGCAGGCTTCGTACTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
30397231 AATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
30397269 TATATCCGGGATAAATCCTGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
30397307 TATATTCGGG
1 TATATCCGGG
30397317 CCTTCGTGCC
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
38 106 0.74
39 10 0.07
40 27 0.19
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:30397221 original size:78 final size:76
Alignment explanation
Indices: 30397115--30397316 Score: 287
Period size: 78 Copynumber: 2.6 Consensus size: 76
30397105 ATATTCGATG
*
30397115 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCTT
1 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCTT
30397180 CGTGCTGGTAT
66 CGTGCTGGTAT
* * ** * *
30397191 TATATCCGGGCTTAAAGACCTGCAGGCTTCGTACTGGTAAAATATCCGGGTTAAATCCCGTAGGC
1 TATATCCGGG-TTAAA-TCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGC
30397256 TTCGTGCTGGTAT
64 TTCGTGCTGGTAT
* * * *
30397269 TATATCCGGGATAAATCCTGCAGGCCTAGTGCTGGTATTATATTCGGG
1 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCCGGG
30397317 CCTTCGTGCC
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
76 36 0.33
77 9 0.08
78 64 0.59
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCTT
CGTGCTGGTAT
Found at i:30397357 original size:43 final size:43
Alignment explanation
Indices: 30397309--30397420 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
30397299 GCTGGTATTA
30397309 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
30397352 TATTCGGGCCTTCGTGCCTTGTAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
30397395 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
30397421 GTAATGCTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.09, C:0.25, G:0.34, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:30397433 original size:43 final size:43
Alignment explanation
Indices: 30397288--30397420 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
30397278 GATAAATCCT
* * *
30397288 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
30397329 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTT
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
30397372 GTAGGTTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
30397415 GCAGGC
1 GCAGGC
30397421 GTAATGCTGG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 14 0.17
42 2 0.03
43 64 0.80
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.32
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:30399374 original size:43 final size:43
Alignment explanation
Indices: 30399308--30399480 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 43
30399298 AGCTTGTACA
* *
30399308 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATTG
* *
30399351 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATATTG
*** * * * * * **
30399393 ATGTTGATGTCCCAAACATGGTCTTACGCATAAATCTCAA-ATCA
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-GAAATC-AAATATTG
* * * * *
30399437 ATGCCAACGTCCCAGATGTGTTCTGACACGAAATCACATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATTG
30399480 A
1 A
30399481 AATCCTATGT
Statistics
Matches: 95, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 23 0.24
43 49 0.52
44 23 0.24
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATTG
Found at i:30413500 original size:44 final size:42
Alignment explanation
Indices: 30413445--30413551 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 42
30413435 CTCATTATGG
*
30413445 GCACTTGGTGTGCGAAATTGAGATAGCTACAGATATATATATTT
1 GCACTTAGTGTGCGAAATTGAGATAGCTACAGATATATATA--T
* ***
30413489 GCACTTAGTGTGCGAGAA-CGAGATAGCTTTGGATATATATAT
1 GCACTTAGTGTGCGA-AATTGAGATAGCTACAGATATATATAT
*
30413531 GCACTTAGTGTGCGAGATTGA
1 GCACTTAGTGTGCGAAATTGA
30413552 TACAGCTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.02
42 18 0.33
44 33 0.61
45 2 0.04
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (42 bp):
GCACTTAGTGTGCGAAATTGAGATAGCTACAGATATATATAT
Found at i:30413559 original size:42 final size:42
Alignment explanation
Indices: 30413479--30413562 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
30413469 AGCTACAGAT
* *
30413479 ATATATATTTGCACTTAGTGTGCGAGAACGAGATAGCTTTGG
1 ATATATATATGCACTTAGTGTGCGAGAACGAGACAGCTTTGG
** *
30413521 ATATATATATGCACTTAGTGTGCGAGATTGATACAGCTTTGG
1 ATATATATATGCACTTAGTGTGCGAGAACGAGACAGCTTTGG
30413563 TTACTTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (42 bp):
ATATATATATGCACTTAGTGTGCGAGAACGAGACAGCTTTGG
Found at i:30416757 original size:23 final size:22
Alignment explanation
Indices: 30416727--30416771 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
30416717 CATTTCATAT
30416727 ACCAAAACCAAACCATAATCACA
1 ACCAAAACCAAACCAT-ATCACA
*
30416750 ACCAAAACCAAGCCATATCACA
1 ACCAAAACCAAACCATATCACA
30416772 TGGCTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.53, C:0.36, G:0.02, T:0.09
Consensus pattern (22 bp):
ACCAAAACCAAACCATATCACA
Found at i:30421600 original size:40 final size:41
Alignment explanation
Indices: 30421541--30421621 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
30421531 TGATAAATCG
*
30421541 GATCTTTAGTCCGTATTTAGACAGATTTGTTGTTGTGTTCA
1 GATCTTTAGTACGTATTTAGACAGATTTGTTGTTGTGTTCA
30421582 GATCTTTAG-ACGTATTTAGACAGATTTGTTGTTGTGTTCA
1 GATCTTTAGTACGTATTTAGACAGATTTGTTGTTGTGTTCA
30421622 TTGACGACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 30 0.77
41 9 0.23
ACGTcount: A:0.21, C:0.11, G:0.22, T:0.46
Consensus pattern (41 bp):
GATCTTTAGTACGTATTTAGACAGATTTGTTGTTGTGTTCA
Found at i:30426397 original size:40 final size:40
Alignment explanation
Indices: 30426156--30426389 Score: 371
Period size: 40 Copynumber: 5.9 Consensus size: 40
30426146 ATTCGGATTG
* *
30426156 ATAACCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
30426195 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30426235 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30426275 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
30426315 GTAACCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
30426355 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
30426390 AAGCTATATC
Statistics
Matches: 180, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.07
40 167 0.93
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:30426397 original size:120 final size:119
Alignment explanation
Indices: 30426156--30426416 Score: 364
Period size: 120 Copynumber: 2.2 Consensus size: 119
30426146 ATTCGGATTG
* * * *
30426156 ATAACCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
* *
30426221 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
* * *
30426275 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTGTAACCGGGCTAAGTCTCGAAGGCA
1 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* *
30426340 ATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCT
65 ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAA-CT
* *
30426395 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCT-AAGCCCGAAGG
30426417 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
119 27 0.21
120 99 0.79
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (119 bp):
ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
Found at i:30434118 original size:18 final size:20
Alignment explanation
Indices: 30434095--30434133 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
30434085 GAAAGTGAAA
*
30434095 TATTGATGTGT-CAT-GATT
1 TATTGATATGTGCATGGATT
30434113 TATTGATATGTGCATGGATT
1 TATTGATATGTGCATGGATT
30434133 T
1 T
30434134 TCATATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
TATTGATATGTGCATGGATT
Found at i:30434383 original size:40 final size:40
Alignment explanation
Indices: 30434142--30434375 Score: 371
Period size: 40 Copynumber: 5.9 Consensus size: 40
30434132 TTTCATATTG
*
30434142 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
30434181 ATATCCGGGCTAAGTCCCGCAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
30434221 ATAACCTGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30434261 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
30434301 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
30434341 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
30434376 AAGCTATATC
Statistics
Matches: 179, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.07
40 166 0.93
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:30434383 original size:120 final size:119
Alignment explanation
Indices: 30434142--30434402 Score: 366
Period size: 120 Copynumber: 2.2 Consensus size: 119
30434132 TTTCATATTG
* * *
30434142 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGCAGGCAT
1 ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAA
* * *
30434207 TTGTGCGAGTTACTATAACCTGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
*
30434261 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAAT-CGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTAT-ATCCGGGCTAAGTCCCGAAGGC
* *
30434325 AATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCT
64 AATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAA-CT
* *
30434381 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCT-AAGCCCGAAGG
30434403 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
119 27 0.21
120 98 0.77
121 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (119 bp):
ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAA
TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
Found at i:30441745 original size:23 final size:22
Alignment explanation
Indices: 30441713--30441795 Score: 103
Period size: 23 Copynumber: 3.7 Consensus size: 22
30441703 CTCGTAAGAT
* *
30441713 CTTACTGTTTCATCTCATTAGAG
1 CTTACTGTTT-AGCTCAATAGAG
*
30441736 CTTACCGTTTAGCTCAATAGAG
1 CTTACTGTTTAGCTCAATAGAG
*
30441758 CTTACTGTTTTAGCTTAATAGAG
1 CTTACTG-TTTAGCTCAATAGAG
*
30441781 CTTACTGTTCAGCTC
1 CTTACTGTTTAGCTC
30441796 GAAGGAGCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 22 0.42
23 30 0.58
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (22 bp):
CTTACTGTTTAGCTCAATAGAG
Found at i:30441756 original size:22 final size:22
Alignment explanation
Indices: 30441726--30441809 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
30441716 ACTGTTTCAT
*
30441726 CTCATTAGAGCTTACCGTTTAG
1 CTCAATAGAGCTTACCGTTTAG
*
30441748 CTCAATAGAGCTTACTGTTTTAG
1 CTCAATAGAGCTTACCG-TTTAG
* * *
30441771 CTTAATAGAGCTTACTGTTCAG
1 CTCAATAGAGCTTACCGTTTAG
*
30441793 CTCGAA-GGAGCTTACCG
1 CTC-AATAGAGCTTACCG
30441810 ACCATGACTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 30 0.57
23 23 0.43
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (22 bp):
CTCAATAGAGCTTACCGTTTAG
Found at i:30448549 original size:17 final size:17
Alignment explanation
Indices: 30448527--30448559 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30448517 AAGTAGAACA
30448527 AATGAATCTTAAAAACG
1 AATGAATCTTAAAAACG
30448544 AATGAATCTTAAAAAC
1 AATGAATCTTAAAAAC
30448560 TTAATAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
AATGAATCTTAAAAACG
Found at i:30454595 original size:21 final size:21
Alignment explanation
Indices: 30454549--30454599 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
30454539 GTGTTTTGAA
* **
30454549 GTTTCTTAATAGATTATGAGT
1 GTTTGTTAATAGATTACAAGT
30454570 GTTTGTTAATAGATATACAAGT
1 GTTTGTTAATAGAT-TACAAGT
30454592 -TTTGTTAA
1 GTTTGTTAA
30454600 GTGATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (21 bp):
GTTTGTTAATAGATTACAAGT
Found at i:30455158 original size:40 final size:42
Alignment explanation
Indices: 30455100--30455182 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 42
30455090 TGTGTGAAGT
30455100 CGAGATAGCTTCAG-ATATATATA-CACTTAGTGTGCGAGAA
1 CGAGATAGCTTCAGAATATATATAGCACTTAGTGTGCGAGAA
*
30455140 CGAGATAGCTT-TGTATATATATATATGCACTTAGTGTGCGAGA
1 CGAGATAGCTTCAG-A-ATATATATA-GCACTTAGTGTGCGAGA
30455183 TTGATACAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 1 0.03
40 11 0.30
42 9 0.24
44 16 0.43
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (42 bp):
CGAGATAGCTTCAGAATATATATAGCACTTAGTGTGCGAGAA
Found at i:30457600 original size:37 final size:37
Alignment explanation
Indices: 30457535--30457677 Score: 241
Period size: 37 Copynumber: 3.9 Consensus size: 37
30457525 TAGCTCGAAT
* * *
30457535 AATCCCCACACGTAGTTATTGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
30457572 AATCTCCACACGTAGTCATCGGGCCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
30457609 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
30457646 AATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AATCTCCACACGTAGTCATCGGGTCTTACCCG
30457678 AAATATATTT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:30457872 original size:48 final size:48
Alignment explanation
Indices: 30457812--30458013 Score: 287
Period size: 48 Copynumber: 4.2 Consensus size: 48
30457802 CGGCCACAAT
* *
30457812 ATATACACATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * **
30457860 ATATATATATCTCATACATGTTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * * *
30457908 ATATACATATCTCGTAGATATTCCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
30457956 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
30458004 ACATATATAT
1 ATATACATAT
30458014 ATTTATCTTG
Statistics
Matches: 135, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:30462001 original size:40 final size:40
Alignment explanation
Indices: 30461939--30462154 Score: 314
Period size: 40 Copynumber: 5.4 Consensus size: 40
30461929 AAACCAAGTA
* * *
30461939 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
30461978 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30462018 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30462058 CCTTCGGGACTTAGCCTGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
30462098 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
30462138 CCTTCGGGATTTAGCCC
1 CCTTCGGGACTTAGCCC
30462155 CGTTATCATC
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.08
40 152 0.92
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30464706 original size:58 final size:58
Alignment explanation
Indices: 30464611--30464775 Score: 242
Period size: 58 Copynumber: 2.9 Consensus size: 58
30464601 CCACTGACCG
* * *
30464611 ATCTCGCACACATAGTGCTCGATTGAA-GAAATCGCACACACAGTGCCTCAATTACCA
1 ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCA
* * **
30464668 ATCTCGCACACATAATGCTTGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACTG
1 ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCA
* *
30464726 ATCTCGCACACATAGTGCTCGGTTAACGGAATTTGCACACACAGTGCCTC
1 ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
30464776 TAATCATTCA
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 23 0.24
58 73 0.76
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (58 bp):
ATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCA
Found at i:30464763 original size:29 final size:29
Alignment explanation
Indices: 30464614--30464772 Score: 96
Period size: 29 Copynumber: 5.5 Consensus size: 29
30464604 CTGACCGATC
* * *
30464614 TCGCACACATAGTGCTCGATTGAA--GAAA
1 TCGCACACACAGTGCTCGGTT-AACGGAAT
** *
30464642 TCGCACACACAGTGCCTCAATT-AC-CAAT
1 TCGCACACACAGTG-CTCGGTTAACGGAAT
* * * *
30464670 CTCGCACACATAATGCTTGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAACGGAAT
** *
30464700 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAACGGAAT
*
30464728 CTCGCACACATAGTGCTCGGTTAACGGAAT
1 -TCGCACACACAGTGCTCGGTTAACGGAAT
*
30464758 TTGCACACACAGTGC
1 TCGCACACACAGTGC
30464773 CTCTAATCAT
Statistics
Matches: 98, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
27 1 0.01
28 26 0.27
29 62 0.63
30 9 0.09
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAACGGAAT
Found at i:30464990 original size:43 final size:43
Alignment explanation
Indices: 30464929--30465010 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
30464919 CCTTGCTCGA
**
30464929 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCGAATACAT
*
30464972 ATCACCGGCACGAAGCCTGCTAGGCACGAAGTCCCGAAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCGAAT
30465011 TGTAACACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.15
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCCGAATACAT
Found at i:30466027 original size:47 final size:47
Alignment explanation
Indices: 30465956--30466593 Score: 1114
Period size: 47 Copynumber: 13.6 Consensus size: 47
30465946 CCCTTCGGGA
* * * * * * *
30465956 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * * *
30466003 CCTATCACATATATAGACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
30466050 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466097 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466144 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466191 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466238 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466285 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466332 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466379 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
30466426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
30466473 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
30466520 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
30466567 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
30466594 TATTCAAATA
Statistics
Matches: 571, Mismatches: 20, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 571 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:30469162 original size:43 final size:43
Alignment explanation
Indices: 30469094--30469234 Score: 237
Period size: 43 Copynumber: 3.3 Consensus size: 43
30469084 GGCTGTCACA
*
30469094 CGAATACATATCACCGGTACGAAGCCTGCTAGGCACGAAGGCC
1 CGAATACATATCACCGGCACGAAGCCTGCTAGGCACGAAGGCC
* *
30469137 CGAATACATATCACCGGCACAAAGCCTGCTCGGCACGAAGGCC
1 CGAATACATATCACCGGCACGAAGCCTGCTAGGCACGAAGGCC
* *
30469180 CGAATACATATCACCGGCACGAAGCCTACTAGGCACGAAGACC
1 CGAATACATATCACCGGCACGAAGCCTGCTAGGCACGAAGGCC
30469223 CGAATACATATC
1 CGAATACATATC
30469235 CCCGAGTTTC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 91 1.00
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
CGAATACATATCACCGGCACGAAGCCTGCTAGGCACGAAGGCC
Found at i:30472090 original size:47 final size:47
Alignment explanation
Indices: 30472027--30472576 Score: 793
Period size: 47 Copynumber: 11.6 Consensus size: 47
30472017 CCCTTCGGGA
* * *
30472027 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
30472074 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
30472121 CTTAGCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
30472168 CTTATCACACATACACA-TGTTCACATTCATCACATTGCCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
30472215 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
30472262 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
30472309 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
30472358 CTTATCACATATATACACTTTCACATTAATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
30472405 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
30472454 CTTATCACATATATACACTTTCACATTAATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
30472501 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
30472550 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
30472577 TATTCAAATA
Statistics
Matches: 459, Mismatches: 36, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 325 0.71
49 132 0.29
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:30472390 original size:96 final size:96
Alignment explanation
Indices: 30472027--30472576 Score: 814
Period size: 96 Copynumber: 5.8 Consensus size: 96
30472017 CCCTTCGGGA
* *
30472027 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
30472090 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
30472121 CTTAGCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
*
30472183 CA-TGTTCACATTCATCACATTGCCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTCGGC
* * * * *
30472215 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGTCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
30472277 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTCGGC
30472309 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
30472374 ACTTTCACATTAATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
30472405 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
30472470 ACTTTCACATTAATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
*
30472501 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
30472566 ACTTTCACATT
66 ACTTTCACATT
30472577 TATTCAAATA
Statistics
Matches: 428, Mismatches: 20, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
93 3 0.01
94 177 0.41
96 246 0.57
97 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:30474098 original size:56 final size:56
Alignment explanation
Indices: 30474031--30474878 Score: 1678
Period size: 56 Copynumber: 15.1 Consensus size: 56
30474021 TATTAGTTTA
*
30474031 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474087 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474143 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474199 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474255 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474311 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474367 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474423 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474479 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474535 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474591 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474647 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474703 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
30474759 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474815 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
30474871 TTGCCCAT
1 TTGCCCAT
30474879 CATCCCTTGT
Statistics
Matches: 789, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 789 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:30475999 original size:48 final size:48
Alignment explanation
Indices: 30475939--30476140 Score: 296
Period size: 48 Copynumber: 4.2 Consensus size: 48
30475929 CGGCCACAAT
* *
30475939 ATATACACATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * **
30475987 ATATATATATCTCATACATGTTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
30476035 ATATACATATCTCATACATATTTCATATTAGCTATTTGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
30476083 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
30476131 ACATATATAT
1 ATATACATAT
30476141 ATTTATCTTG
Statistics
Matches: 137, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 137 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:30478969 original size:54 final size:54
Alignment explanation
Indices: 30478868--30478978 Score: 123
Period size: 54 Copynumber: 2.1 Consensus size: 54
30478858 TAGCAAGAGC
* ** * * * * *
30478868 CTTTCCTCGCTTTGAAGGTTGATAACTATTCACCTCTCATTGCTCTCTTCAGAT
1 CTTTCCTCACTTCCAAGGTTAATAACTATTCACCTCCCATGGCTCTCTCCAAAT
** *
30478922 CTTTCCTCACTTCCAAGGTTAATAACTATTCATTTCCCATGGTTCTCTCCAAAT
1 CTTTCCTCACTTCCAAGGTTAATAACTATTCACCTCCCATGGCTCTCTCCAAAT
30478976 CTT
1 CTT
30478979 CCATTTCTTC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.41
Consensus pattern (54 bp):
CTTTCCTCACTTCCAAGGTTAATAACTATTCACCTCCCATGGCTCTCTCCAAAT
Found at i:30484422 original size:31 final size:31
Alignment explanation
Indices: 30484364--30484423 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
30484354 TTATCCTTAT
* * *
30484364 TTAATTAAAATAATAAATTAACTCTATTTAA
1 TTAAGTAAAATAATAAACTAACCCTATTTAA
30484395 TTAAGTAAAAT-ATCAAACTAACCCTATTT
1 TTAAGTAAAATAAT-AAACTAACCCTATTT
30484424 CCATCCCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (31 bp):
TTAAGTAAAATAATAAACTAACCCTATTTAA
Found at i:30485792 original size:22 final size:22
Alignment explanation
Indices: 30485760--30485808 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
30485750 CCCTACAGGT
*
30485760 TTGGCATGGCCTAGCACACGGC
1 TTGGCACGGCCTAGCACACGGC
30485782 TTGGCACGGCCTAGCACACGGC
1 TTGGCACGGCCTAGCACACGGC
30485804 TTGGC
1 TTGGC
30485809 GCACAGACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (22 bp):
TTGGCACGGCCTAGCACACGGC
Found at i:30488628 original size:26 final size:26
Alignment explanation
Indices: 30488592--30488727 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
30488582 TGATACAAAT
*
30488592 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
30488618 TGATAATAGGTTAGGCAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30488644 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30488670 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30488696 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30488722 TGATAA
1 TGATAA
30488728 GAATTTCATG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30490214 original size:28 final size:26
Alignment explanation
Indices: 30490191--30490242 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30490181 ATCCCTATGT
**
30490191 ATGGAAAATTATTGTTATACCCCTAG
1 ATGGAAAATTACCGTTATACCCCTAG
* *
30490217 GTGTAAAATTACCGTTATACCCCTAG
1 ATGGAAAATTACCGTTATACCCCTAG
30490243 GGTTAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (26 bp):
ATGGAAAATTACCGTTATACCCCTAG
Found at i:30490387 original size:27 final size:27
Alignment explanation
Indices: 30490346--30490466 Score: 170
Period size: 27 Copynumber: 4.4 Consensus size: 27
30490336 GAGGAAGCGT
*
30490346 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
30490373 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
30490400 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
30490427 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
30490455 TCTGGTGACTCT
1 TCTGGTGGCTCT
30490467 ATCACATTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 73 0.88
28 10 0.12
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:30490431 original size:54 final size:55
Alignment explanation
Indices: 30490346--30490485 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
30490336 GAGGAAGCGT
* * * *
30490346 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
30490400 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* **
30490455 TCTGGTGACTCTATCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
30490486 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
Found at i:30490475 original size:27 final size:28
Alignment explanation
Indices: 30490346--30490485 Score: 157
Period size: 27 Copynumber: 5.2 Consensus size: 28
30490336 GAGGAAGCGT
* *
30490346 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAATTATCTGTA
*
30490373 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAATTATCTGTA
30490400 TCTGGTGGCTCTGCCAC-ATATATCTGT-
1 TCTGGTGGCTCTGCCACAAT-TATCTGTA
* *
30490427 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAATTATCTGTA
* **
30490455 TCTGGTGACTCTATCAC-ATTATCTGT-
1 TCTGGTGGCTCTGCCACAATTATCTGTA
30490481 TCTGG
1 TCTGG
30490486 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
26 6 0.06
27 81 0.79
28 15 0.15
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAATTATCTGTA
Found at i:30499295 original size:23 final size:23
Alignment explanation
Indices: 30499251--30499295 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30499241 ATTTTTCATA
*
30499251 AATTATTTCACAATGAATAACAC
1 AATTATTTCACAATGAAGAACAC
*
30499274 AATTATATT-ACAATTAAGAACA
1 AATTAT-TTCACAATGAAGAACA
30499296 TATATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTATTTCACAATGAAGAACAC
Found at i:30507190 original size:20 final size:20
Alignment explanation
Indices: 30507165--30507206 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30507155 AATGTTGAAA
* *
30507165 ACCCTAGCTATGGGGAACAT
1 ACCCTAGCTACGGAGAACAT
30507185 ACCCTAGCTACGGAGAACAT
1 ACCCTAGCTACGGAGAACAT
30507205 AC
1 AC
30507207 AAATTTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (20 bp):
ACCCTAGCTACGGAGAACAT
Found at i:30517381 original size:40 final size:40
Alignment explanation
Indices: 30517326--30517496 Score: 220
Period size: 40 Copynumber: 4.3 Consensus size: 40
30517316 ATTTGAATGA
* *
30517326 TATCCGGGCTAAGTCCCGAAGGCATCTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
30517366 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
30517406 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * *
30517446 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
30517486 TATCC-GGCTAA
1 TATCCGGGCTAA
30517497 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
39 8 0.07
40 109 0.91
41 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:30525685 original size:44 final size:43
Alignment explanation
Indices: 30525618--30525744 Score: 157
Period size: 44 Copynumber: 3.0 Consensus size: 43
30525608 CATAGAATTC
*
30525618 CGATATGTGATT-CATGGAAGACCACGTCTGGGACATTGGCAT
1 CGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
* * * * * * *
30525660 CGATTTTTGATTTGCATGTATGACCATGTTTGGGACAGTGGCAT
1 CGATATGTGA-TTACATGTAAGACCACGTCTGGGACATTGGCAT
*
30525704 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 CGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGC
30525745 GTTGTACGAG
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
42 8 0.12
43 27 0.40
44 33 0.49
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
Found at i:30527606 original size:27 final size:27
Alignment explanation
Indices: 30527576--30527721 Score: 177
Period size: 27 Copynumber: 5.4 Consensus size: 27
30527566 TTAGTTTACC
*
30527576 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
30527603 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
30527630 AAATTACCAAAATACTCCTT-GTTTGTA
1 AAATTACCAAAATAC-CCTTGGTTTGTA
** *
30527657 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * **
30527684 AAATTACTGAAATACTCTTGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
30527711 AAATTACCAAA
1 AAATTACCAAA
30527722 GGACCCTCGA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.04
27 97 0.92
28 4 0.04
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:30527728 original size:54 final size:53
Alignment explanation
Indices: 30527576--30527746 Score: 175
Period size: 54 Copynumber: 3.2 Consensus size: 53
30527566 TTAGTTTACC
* * * *
30527576 AAATCACCAAAATAC-CCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACTCCTT-GCTTGTAAAATTACC-AAATACCCTTGATTTATA
* * *
30527630 AAATTACCAAAATACTCCTTGTTTGTAAAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCAAAATACTCCTTGCTTGTAAAATTAC-CAAATACCCTTGATTTATA
** * *
30527684 AAATTACTGAAATACT-CTTGACTTGTAAAATTACCAAAGGACCCTCGATTTATA
1 AAATTACCAAAATACTCCTTG-CTTGTAAAATTACCAAA-TACCCTTGATTTATA
*
30527738 GAATTACCA
1 AAATTACCA
30527747 TTTTACCCTC
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
53 7 0.07
54 87 0.89
55 4 0.04
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
AAATTACCAAAATACTCCTTGCTTGTAAAATTACCAAATACCCTTGATTTATA
Found at i:30527743 original size:81 final size:81
Alignment explanation
Indices: 30527585--30527744 Score: 187
Period size: 81 Copynumber: 2.0 Consensus size: 81
30527575 CAAATCACCA
* ** * *
30527585 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACTCCTT
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGACTTACAAAATTACCAAAAGACTCCTC
*
30527650 GTTTGTAAAATTACTG
66 GTTTATAAAATTACTG
** * ** *
30527666 AAATACCCTTGATTTGTAAAATTACTGAAATACTCTTGACTTGTAAAATTACCAAAGGAC-CCTC
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGACTTACAAAATTACCAAAAGACTCCTC
*
30527730 GATTTATAGAATTAC
66 G-TTTATAAAATTAC
30527745 CATTTTACCC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 4 0.06
81 61 0.94
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (81 bp):
AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGACTTACAAAATTACCAAAAGACTCCTC
GTTTATAAAATTACTG
Found at i:30527794 original size:27 final size:27
Alignment explanation
Indices: 30527764--30527873 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 27
30527754 CTCAATTGAA
* *
30527764 AAAATTACTAAAATACCCTTGTAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
* * *
30527791 AAAATTACCGAAATACCCCTATAGGAT
1 AAAATTACTGAAATACCCCTGTAGGGT
* *
30527818 AGAATTA-TCGAATTACCCCTGTAGGGT
1 AAAATTACT-GAAATACCCCTGTAGGGT
* *
30527845 AGAATTATTGAAATACCCCTGTAGGGT
1 AAAATTACTGAAATACCCCTGTAGGGT
30527872 AA
1 AA
30527874 GACTACCGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 68 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
AAAATTACTGAAATACCCCTGTAGGGT
Found at i:30527888 original size:54 final size:54
Alignment explanation
Indices: 30527777--30527891 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
30527767 ATTACTAAAA
* * *
30527777 TACCCTTGTAGGGTAAAATTACCGAAATACCCCTATAGGATAGAATTATCGAAT
1 TACCCCTGTAGGGTAAAATTACCGAAATACCCCTATAGGATAGAACTACCGAAT
* ** * * *
30527831 TACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTA-AGACTACCGATT
1 TACCCCTGTAGGGTAAAATTACCGAAATACCCCTATAGGATAGA-ACTACCGAAT
30527885 TACCCCT
1 TACCCCT
30527892 AGAGAGTAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (54 bp):
TACCCCTGTAGGGTAAAATTACCGAAATACCCCTATAGGATAGAACTACCGAAT
Found at i:30528576 original size:27 final size:26
Alignment explanation
Indices: 30528532--30528583 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
30528522 CTCGCTGCAA
*
30528532 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
30528559 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
30528584 GCAGCCTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:30528674 original size:27 final size:26
Alignment explanation
Indices: 30528622--30528680 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
30528612 CCACATATAT
*
30528622 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
30528648 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
30528675 ATATCT
1 ATATCT
30528681 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:30535628 original size:27 final size:27
Alignment explanation
Indices: 30535474--30535643 Score: 171
Period size: 27 Copynumber: 6.3 Consensus size: 27
30535464 TTAGTTTACC
* * * *
30535474 AAATCACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * **
30535501 AAATTACGAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
30535528 AAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
*
30535555 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
30535582 AAATTACTAAAATACTCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
30535609 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
30535636 GAATTACC
1 AAATTACC
30535644 GTTTTACCCT
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.04
27 112 0.92
28 5 0.04
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:30535762 original size:27 final size:27
Alignment explanation
Indices: 30535664--30535771 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
30535654 CGATTGACAA
* * *
30535664 AATTACTGAATTACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
*
30535691 AATTACTGAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCCTATAGGGTAG
* *
30535718 AATTA-TCGAAATATCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTATAGGGTAG
* *
30535745 AATTATTGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
30535772 GACTACCGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 67 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAGGGTAG
Found at i:30535790 original size:54 final size:54
Alignment explanation
Indices: 30535662--30535797 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 54
30535652 CTCGATTGAC
* * * *
30535662 AAAATTACTGAATTACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGT
1 AAAACTACCGAATTACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGT
* * * * *
30535716 AAAATTATCGAAATATCCCTGTAGGGTAGAATTATTGAAATACCCCTATAAGGT
1 AAAACTACCGAATTACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGT
** * *
30535770 AGGACTACCGATTTACCCCTGGAGGGTA
1 AAAACTACCGAATTACCCCTGTAGGGTA
30535798 AAATGACTAT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (54 bp):
AAAACTACCGAATTACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGT
Found at i:30536559 original size:27 final size:27
Alignment explanation
Indices: 30536519--30536578 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
30536509 ACATATATTT
* *
30536519 ATATCT-TTTCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
30536545 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
30536572 ATATCTG
1 ATATCTG
30536579 GCAGCCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:30547450 original size:28 final size:29
Alignment explanation
Indices: 30547410--30547465 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
30547400 CCAGGTTTTT
30547410 GGACACGGGCGTGT-CTAGGCCATGTGAG
1 GGACACGGGCGTGTGCTAGGCCATGTGAG
* *
30547438 GGACACGGGCGTGTGCTTGGCCGTGTGA
1 GGACACGGGCGTGTGCTAGGCCATGTGA
30547466 TAACCCCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.20
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCATGTGAG
Found at i:30549414 original size:32 final size:32
Alignment explanation
Indices: 30549373--30549436 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
30549363 GGAATTTGTG
*
30549373 ATTAAGGTGTCAAACCCTCTAGGCAAGTCAGT
1 ATTAAGGTGTCAAACACTCTAGGCAAGTCAGT
30549405 ATTAAGGTGTCAAACACTCTAGGCAAGTCAGT
1 ATTAAGGTGTCAAACACTCTAGGCAAGTCAGT
30549437 CCTAGTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (32 bp):
ATTAAGGTGTCAAACACTCTAGGCAAGTCAGT
Done.