Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 256 of 295
Found at i:88300982 original size:20 final size:21
Alignment explanation
Indices: 88300959--88301011 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
88300949 TATTAAGATG
*
88300959 AAAATATTGAGATTTAGAATAA
1 AAAATATTGAAATTTAGAAT-A
88300981 AAAATTATTGAAATTTAGAAT-
1 AAAA-TATTGAAATTTAGAATA
88301002 AAAATATTGA
1 AAAATATTGA
88301012 TTTGATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 4 0.14
23 15 0.52
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (21 bp):
AAAATATTGAAATTTAGAATA
Found at i:88300984 original size:22 final size:23
Alignment explanation
Indices: 88300959--88301005 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
88300949 TATTAAGATG
*
88300959 AAAA-TATTGAGATTTAGAATAA
1 AAAATTATTGAAATTTAGAATAA
88300981 AAAATTATTGAAATTTAGAATAA
1 AAAATTATTGAAATTTAGAATAA
88301004 AA
1 AA
88301006 TATTGATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (23 bp):
AAAATTATTGAAATTTAGAATAA
Found at i:88306580 original size:24 final size:24
Alignment explanation
Indices: 88306553--88306605 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
88306543 ATATGGAAAG
*
88306553 AAATAACAAAAAAATTTTACTAAT
1 AAATAACAAAAAAATTATACTAAT
* * * *
88306577 AAATATCAAATATATTATGCTAAT
1 AAATAACAAAAAAATTATACTAAT
88306601 AAATA
1 AAATA
88306606 CTAAATCTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATAACAAAAAAATTATACTAAT
Found at i:88308800 original size:17 final size:18
Alignment explanation
Indices: 88308766--88308800 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88308756 CGATTAAGTC
*
88308766 AGATTTTTTAGCTGAAAA
1 AGATTTTTGAGCTGAAAA
88308784 AGATTTTTGAGCT-AAAA
1 AGATTTTTGAGCTGAAAA
88308801 CTCCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
AGATTTTTGAGCTGAAAA
Found at i:88311362 original size:6 final size:6
Alignment explanation
Indices: 88311341--88311398 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
88311331 AAAGCAAAGA
* *
88311341 AAAAAT -AAAAT -GAAAT AAAAAT AAAAAT AAAAAGT -AGAA- AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT
*
88311386 AGAAAT AAAAAT A
1 AAAAAT AAAAAT A
88311399 TATAGTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 12 0.29
6 29 0.69
7 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:88311373 original size:23 final size:24
Alignment explanation
Indices: 88311341--88311397 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
88311331 AAAGCAAAGA
88311341 AAAAAT-AAAATG-A-AATAAAAAT
1 AAAAATAAAAATGTAGAA-AAAAAT
88311363 AAAAATAAAAA-GTAGAAAAAAAT
1 AAAAATAAAAATGTAGAAAAAAAT
*
88311386 AGAAATAAAAAT
1 AAAAATAAAAAT
88311398 ATATAGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.23
23 21 0.70
24 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (24 bp):
AAAAATAAAAATGTAGAAAAAAAT
Found at i:88311373 original size:29 final size:29
Alignment explanation
Indices: 88311340--88311398 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
88311330 AAAAGCAAAG
*
88311340 AAAAAATA-AAATGAAATAAAAATAAAAAT
1 AAAAAATAGAAA-AAAATAAAAATAAAAAT
* *
88311369 AAAAAGTAGAAAAAAATAGAAATAAAAAT
1 AAAAAATAGAAAAAAATAAAAATAAAAAT
88311398 A
1 A
88311399 TATAGTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (29 bp):
AAAAAATAGAAAAAAATAAAAATAAAAAT
Found at i:88313775 original size:12 final size:12
Alignment explanation
Indices: 88313757--88313797 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
88313747 AATAAGCATT
*
88313757 CATATATATATT
1 CATATATATATA
*
88313769 TATATATATATA
1 CATATATATATA
88313781 CATATATATTATA
1 CATATATA-TATA
88313794 CATA
1 CATA
88313798 AGTAAGCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (12 bp):
CATATATATATA
Found at i:88315175 original size:56 final size:56
Alignment explanation
Indices: 88315110--88315238 Score: 195
Period size: 56 Copynumber: 2.3 Consensus size: 56
88315100 GATAGGGTAT
* * *
88315110 TACTTGCACACATATATTGGAATCACATATCGATGCCAACATATTAAACGTGGACA
1 TACTCGCACACATATATTGGAATCACACATCGATCCCAACATATTAAACGTGGACA
* * *
88315166 TACTCGCACACATATATTGGAATCACACATCGATCCCAACGTATTAAACGTGGTCT
1 TACTCGCACACATATATTGGAATCACACATCGATCCCAACATATTAAACGTGGACA
*
88315222 TACTCGTACACATATAT
1 TACTCGCACACATATAT
88315239 CGATGCCATG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (56 bp):
TACTCGCACACATATATTGGAATCACACATCGATCCCAACATATTAAACGTGGACA
Found at i:88321998 original size:56 final size:58
Alignment explanation
Indices: 88321932--88322059 Score: 167
Period size: 56 Copynumber: 2.3 Consensus size: 58
88321922 GATAGGGTAT
* *
88321932 TACTCG-CACACATATAAT-GGAATCACATATCGATGCCAACATATTAAATGTGGTCA
1 TACTCGACACACATATAATCAGAATCACATATCGATCCCAACATATTAAATGTGGTCA
* ** *
88321988 TATTC-ACACACATAT-ATCAGAATCACATATCGATCCCAATGTATTAAATGTGGTCT
1 TACTCGACACACATATAATCAGAATCACATATCGATCCCAACATATTAAATGTGGTCA
88322044 TACTCGA-ACACATATA
1 TACTCGACACACATATA
88322060 TCGATGCCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 58 0.95
57 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.29
Consensus pattern (58 bp):
TACTCGACACACATATAATCAGAATCACATATCGATCCCAACATATTAAATGTGGTCA
Found at i:88324252 original size:13 final size:14
Alignment explanation
Indices: 88324234--88324262 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
88324224 CCTTCATTCC
88324234 TCTTTCTTTT-TTT
1 TCTTTCTTTTCTTT
88324247 TCTTTCTTTTCTTT
1 TCTTTCTTTTCTTT
88324261 TC
1 TC
88324263 GTTTTCTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTCTTTTCTTT
Found at i:88324808 original size:29 final size:28
Alignment explanation
Indices: 88324755--88324812 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
88324745 TTGTCGACGC
**
88324755 CACACGGGCGTGTGGCAGGCCGTGTGAAT
1 CACACGGGCGTGTGGCAAACCGTGT-AAT
* *
88324784 CACACGGTCGTGTGGCAAACTGTGTAAT
1 CACACGGGCGTGTGGCAAACCGTGTAAT
88324812 C
1 C
88324813 CACTGTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (28 bp):
CACACGGGCGTGTGGCAAACCGTGTAAT
Found at i:88328367 original size:21 final size:21
Alignment explanation
Indices: 88328342--88328383 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
88328332 CTTTCTTATA
88328342 TTTTTATATATTATTTATTTTG
1 TTTTTATAT-TTATTTATTTTG
*
88328364 TTTTTTTATTTATTTATTTT
1 TTTTTATATTTATTTATTTT
88328384 ACTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTATATTTATTTATTTTG
Found at i:88330165 original size:91 final size:91
Alignment explanation
Indices: 88330010--88330192 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
88330000 TAGAGCTATA
88330010 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
1 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
*
88330075 TCTTCTTTTGTTTGCATGTCATTTTG
66 TCTTCTTCTGTTTGCATGTCATTTTG
88330101 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
1 CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
88330166 TCTTCTTCTGTTTGCATGTCATTTTG
66 TCTTCTTCTGTTTGCATGTCATTTTG
88330192 C
1 C
88330193 ATTTGCAAAG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (91 bp):
CTTTAGATATTACCCTTATAAATTATCGTTGAGATTTATTGATATCATGTGATACTGACTATTTC
TCTTCTTCTGTTTGCATGTCATTTTG
Found at i:88340781 original size:207 final size:207
Alignment explanation
Indices: 88340421--88340908 Score: 870
Period size: 207 Copynumber: 2.4 Consensus size: 207
88340411 GCAGATCTGG
* * * *
88340421 CTGAGGCAAGATCCAATATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGTT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCT
* *
88340486 GCTTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
88340551 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
88340616 CAGATGTTTATA
196 CAGATGTTTATA
*
88340628 CTGAAGCAAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCT
88340693 GATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
88340758 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
88340823 CAGATGTTTATA
196 CAGATGTTTATA
* *
88340835 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA-CATAGC
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGC
*
88340899 TAATTTGGCT
65 TGATTTGGCT
88340909 GAAGCAGACC
Statistics
Matches: 269, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
207 268 1.00
208 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (207 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCT
GATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
CAGATGTTTATA
Found at i:88342603 original size:14 final size:14
Alignment explanation
Indices: 88342558--88342622 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
88342548 TTATTTTATC
*
88342558 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
88342573 AAATTATATTATATT
1 ATA-TATTTTATTTT
88342588 ATATATTTTATTTT
1 ATATATTTTATTTT
*
88342602 ATATA-TTT-CTTT
1 ATATATTTTATTTT
88342614 ATATATTTT
1 ATATATTTT
88342623 TATAAAATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:88342965 original size:22 final size:22
Alignment explanation
Indices: 88342940--88342982 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
88342930 CTTTCTTATA
*
88342940 TTTTTATATATTATTTATTTTG
1 TTTTTATATACTATTTATTTTG
*
88342962 TTTTTTTATACTATTTATTTT
1 TTTTTATATACTATTTATTTT
88342983 ACTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATACTATTTATTTTG
Found at i:88346564 original size:8 final size:7
Alignment explanation
Indices: 88346544--88346578 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
88346534 GGTATTCTAC
88346544 TTTTTCT
1 TTTTTCT
88346551 TTTTTCT
1 TTTTTCT
88346558 TTGTTTCTT
1 TT-TTTC-T
88346567 TTTTTCT
1 TTTTTCT
88346574 TTTTT
1 TTTTT
88346579 AGAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:88346566 original size:15 final size:16
Alignment explanation
Indices: 88346546--88346575 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88346536 TATTCTACTT
88346546 TTTC-TTTTTTCTTTG
1 TTTCTTTTTTTCTTTG
88346561 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
88346576 TTTAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTG
Found at i:88349156 original size:16 final size:16
Alignment explanation
Indices: 88349135--88349186 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
88349125 TTTGGTTCGC
88349135 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
88349151 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
88349167 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
88349183 TGTA
1 TGTA
88349187 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:88349439 original size:16 final size:16
Alignment explanation
Indices: 88349415--88349456 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
88349405 AACATAATTA
88349415 TTATT-AAATA-TATT
1 TTATTAAAATATTATT
88349429 TTAATTAAAATATTTATT
1 TT-ATTAAAATA-TTATT
88349447 TTATTAAAAT
1 TTATTAAAAT
88349457 TCTTAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 5 0.21
17 8 0.33
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTAAAATATTATT
Found at i:88349618 original size:120 final size:120
Alignment explanation
Indices: 88349405--88349787 Score: 712
Period size: 120 Copynumber: 3.2 Consensus size: 120
88349395 ATCATATTTA
* * * *
88349405 AACATAATTATTATTAAATATATTTTAATTAAAATATTTATTTTATTAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
88349470 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
88349525 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
88349590 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
88349645 AACATTATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
88349710 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
88349765 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
88349788 AACTTGAAAA
Statistics
Matches: 256, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 256 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:88357093 original size:15 final size:15
Alignment explanation
Indices: 88357058--88357109 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
88357048 TTAAGAATTT
*
88357058 TATTAAATTAT-ATA
1 TATTTAATTATAATA
88357072 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
88357086 TATTTAATAATAAT-
1 TATTTAATTATAATA
88357100 TATGTTAATT
1 TAT-TTAATT
88357110 TATATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:88357169 original size:119 final size:121
Alignment explanation
Indices: 88356933--88357229 Score: 483
Period size: 119 Copynumber: 2.5 Consensus size: 121
88356923 AATTATTTTA
* * * *
88356933 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATCATT
88356997 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
88357053 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATCATT
* *
88357116 TATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
88357172 AATTTTATTAAATTCTATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAAT
88357230 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 107 0.65
120 56 0.34
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (121 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATCATT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:88357464 original size:16 final size:16
Alignment explanation
Indices: 88357443--88357510 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
88357433 GATTTGCTAT
88357443 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
88357459 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
88357475 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
88357491 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
88357507 TACA
1 TACA
88357511 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:88362690 original size:52 final size:49
Alignment explanation
Indices: 88362586--88362694 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 49
88362576 ACTTAATCAC
* *
88362586 TTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAGACTAAA
1 TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAGAATAAA
* *
88362635 TTTATTATTAAATTAATAAAATATTTATCTATAAGATAAATATTA-AATAACA
1 TTTAATATTAAATTAATAAAATACTTATC---AAGATAAATATTAGAATAA-A
88362687 TTTAATAT
1 TTTAATAT
88362695 AAGATAATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
49 26 0.51
51 4 0.08
52 21 0.41
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (49 bp):
TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAGAATAAA
Found at i:88365021 original size:27 final size:27
Alignment explanation
Indices: 88364990--88365139 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
88364980 TTAGTTTACC
*
88364990 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
88365017 AAATTAC-CAAAGGACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
88365044 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
88365071 AAATTA-TCGAAATACCCTCAATTTGCA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
88365098 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
88365125 AATTTACTGAAATAC
1 AAATTACTGAAATAC
88365140 TCTTGTAAGA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
26 3 0.03
27 94 0.92
28 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:88365181 original size:27 final size:27
Alignment explanation
Indices: 88365151--88365320 Score: 241
Period size: 27 Copynumber: 6.3 Consensus size: 27
88365141 CTTGTAAGAT
*
88365151 AGAATTACCATTTTACCCTCTATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
88365178 AGAATTACCGTTTTACTCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
88365205 AGAATTACCATTTTACCGTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
88365232 AGAATTACCGTCTTACCCTTGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
88365259 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
88365286 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
88365313 AAAATTAC
1 AGAATTAC
88365321 TGAAATACCC
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:88365329 original size:27 final size:26
Alignment explanation
Indices: 88365272--88365411 Score: 102
Period size: 27 Copynumber: 5.2 Consensus size: 26
88365262 ATTACCATTT
* ***
88365272 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CAAAA
*
88365299 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTAC-AAAA
**
88365326 TACCCTTAATTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTA-CAAAA
** *
88365353 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTA-CAAAA
* **
88365380 TACGCCTAG-TTTGTAAAATTACCAAAA
1 TAC-CCTCGATTTACAAAATTA-CAAAA
88365407 TACCC
1 TACCC
88365412 CTAATTTGTG
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.03
27 85 0.91
28 5 0.05
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACAAAA
Found at i:88365330 original size:81 final size:80
Alignment explanation
Indices: 88365164--88365349 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 80
88365154 ATTACCATTT
* * * *
88365164 TACCCTCTATTTACAGAATTACCGTTTTACTCTCGATTTATAGAATTACCATTTTACCGTCGATT
1 TACCCT-TATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
* * ***
88365229 TATAGAATTACCGTCT
65 TACAAAATTACCGAAA
*
88365245 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTT-ATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
88365310 TACAAAATTACTGAAA
65 TACAAAATTACCGAAA
*
88365326 TACCCTTAATTTACAAAATTACCA
1 TACCCTT-ATTTACAGAATTACCA
88365350 AAATACCCTC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 89 0.99
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (80 bp):
TACCCTTATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTT
ACAAAATTACCGAAA
Found at i:88365357 original size:54 final size:54
Alignment explanation
Indices: 88365280--88365411 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
88365270 TTTACCCTCG
* *** ** **
88365280 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATAC-CCTTA
1 ATTTACAAAATTACCAAAATACCCTCGATCAACAAAATTACCAAAATACGCC-TA
*
88365334 ATTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACGCCTA
1 ATTTACAAAATTACCAAAATACCCTCGATCAACAAAATTACCAAAATACGCCTA
* **
88365388 GTTTGTAAAATTACCAAAATACCC
1 ATTTACAAAATTACCAAAATACCC
88365412 CTAATTTGTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 63 0.97
55 2 0.03
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (54 bp):
ATTTACAAAATTACCAAAATACCCTCGATCAACAAAATTACCAAAATACGCCTA
Found at i:88365373 original size:81 final size:81
Alignment explanation
Indices: 88365207--88365376 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 81
88365197 CGATTTATAG
* * * *** * * * ***
88365207 AATTACCATTTTACCGTCGATTTATAGAATTACCGTCTTACCCTTGATTTATAGAATTACCATTT
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTTAATTTACAAAATTACCAAAA
** *
88365272 TACCCTCGATTTACAG
66 TACCCTCGATCAACAA
*
88365288 AATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTAATTTACAAAATTACCAAAA
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTTAATTTACAAAATTACCAAAA
*
88365353 TACCCTCGATCAATAA
66 TACCCTCGATCAACAA
88365369 AATTACCA
1 AATTACCA
88365377 AAATACGCCT
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTTAATTTACAAAATTACCAAAA
TACCCTCGATCAACAA
Found at i:88365414 original size:27 final size:27
Alignment explanation
Indices: 88365307--88365440 Score: 117
Period size: 27 Copynumber: 5.0 Consensus size: 27
88365297 TTTACCCTCG
* ** *
88365307 ATTTACAAAATTACTGAAATACCCTTA
1 ATTTATAAAATTACCAAAATACCCCTA
* *
88365334 ATTTACAAAATTACCAAAATA-CCCTCG
1 ATTTATAAAATTACCAAAATACCCCT-A
** *
88365361 ATCAATAAAATTACCAAAATACGCCTA
1 ATTTATAAAATTACCAAAATACCCCTA
* *
88365388 GTTTGTAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACCAAAATACCCCTA
* * * *
88365415 ATTTGTGAAATTATCGAAATACCCCT
1 ATTTATAAAATTACCAAAATACCCCT
88365441 GTAGGGTAGA
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
26 3 0.03
27 81 0.93
28 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (27 bp):
ATTTATAAAATTACCAAAATACCCCTA
Found at i:88365453 original size:27 final size:27
Alignment explanation
Indices: 88365423--88365591 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
88365413 TAATTTGTGA
*
88365423 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88365450 AATTACCGAAATACCCTTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88365477 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88365504 AATTACCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88365531 AAATACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
88365558 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
88365585 AATTACC
1 AATTACC
88365592 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:88365589 original size:81 final size:81
Alignment explanation
Indices: 88365392--88365591 Score: 224
Period size: 81 Copynumber: 2.5 Consensus size: 81
88365382 CGCCTAGTTT
* * * * *
88365392 GTAAAATTACCAAAATACCCC--TAATTTGTGAAATTATCGAAATACCCCTGTAGGGTAGAATTA
1 GTAAAATTACCGAAATACCCCTGTAA--GGTAAAATTACCGAAATACCCCTGTAGGGTAGAAATA
*
88365455 CCGAAATACCCTTGTAGA
64 CCGAAATACCCCTGTAGA
* * * * *
88365473 GTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACTCTTGTAGGGTAGAAATACC
1 GTAAAATTACCGAAATACCCCTGTAAGGTAAAATTACCGAAATACCCCTGTAGGGTAGAAATACC
*
88365538 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGA
* * **
88365554 GTAAAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAAAATTACCGAAATACCCCTGTAAGGTAAAATTACC
88365592 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 95 0.97
83 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (81 bp):
GTAAAATTACCGAAATACCCCTGTAAGGTAAAATTACCGAAATACCCCTGTAGGGTAGAAATACC
GAAATACCCCTGTAGA
Found at i:88366018 original size:6 final size:6
Alignment explanation
Indices: 88365986--88366073 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
88365976 TTGCATTCAC
* *
88365986 ATTCTG ATTTTG ATTCT- ATTACGTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
88366035 ATTCTG -TCACCTG ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
88366074 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.07
6 53 0.79
7 6 0.09
8 3 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:88366037 original size:37 final size:37
Alignment explanation
Indices: 88365986--88366073 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
88365976 TTGCATTCAC
* * * *
88365986 ATTCTGATTTTGATTCTATTACGTGATACTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTGATTCTA
* *
88366023 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTATCACCTGATACTGATTCTA
88366060 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
88366074 AATGTTTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTATCACCTGATACTGATTCTA
Found at i:88368076 original size:27 final size:27
Alignment explanation
Indices: 88368029--88368332 Score: 251
Period size: 27 Copynumber: 11.3 Consensus size: 27
88368019 CCAAACTACT
*
88368029 AAAATACCCTCGACTTGTAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
* *
88368056 AAAGTACCCTCGATTTATAAAA-TACC
1 AAAATACCCTCGATTTGTAAAATTACC
* *
88368082 CAAATATCCTCGATTTGTAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
* * *
88368109 GAAATACCCTC-AGTTTGCAAAATTACT
1 AAAATACCCTCGA-TTTGTAAAATTACC
*
88368136 AAAATACCCTCGATTTGTAAAATTACT
1 AAAATACCCTCGATTTGTAAAATTACC
** * *
88368163 AAAATACTCCT-G-TAAGATAGAATTGCC
1 AAAATAC-CCTCGATTTG-TAAAATTACC
*** ** *
88368190 ATTTTACCCTCGATTTACAAAATTACT
1 AAAATACCCTCGATTTGTAAAATTACC
* * * **
88368217 GAAATACCCTTGGTTTACAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
* ***
88368244 AAAATACCCTTGATCAATAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
88368271 AAAATACCC-CTGATTTGTAAAATTACC
1 AAAATACCCTC-GATTTGTAAAATTACC
** *
88368298 AAAATA-CCTTAATTTGTGAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
88368324 AAAATACCC
1 AAAATACCC
88368333 CTGTAGGGTA
Statistics
Matches: 220, Mismatches: 47, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
26 50 0.23
27 165 0.75
28 5 0.02
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATACCCTCGATTTGTAAAATTACC
Found at i:88368355 original size:27 final size:27
Alignment explanation
Indices: 88368317--88368512 Score: 302
Period size: 27 Copynumber: 7.3 Consensus size: 27
88368307 TAATTTGTGA
* *
88368317 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
88368344 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
88368371 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
88368398 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
88368425 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
88368452 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
88368479 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
88368506 AATTACC
1 AATTACC
88368513 ATTTTGCCCC
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:88368958 original size:25 final size:25
Alignment explanation
Indices: 88368917--88368973 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
88368907 ATTCTGATTT
* *
88368917 TGATTCTGTTACGTGATACTAATTC
1 TGATTCTGTCACCTGATACTAATTC
* *
88368942 TGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGTCACCTGATACTAATTC
*
88368967 TAATTCT
1 TGATTCT
88368974 AGTTCTGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (25 bp):
TGATTCTGTCACCTGATACTAATTC
Found at i:88370938 original size:67 final size:67
Alignment explanation
Indices: 88370746--88371067 Score: 360
Period size: 67 Copynumber: 4.8 Consensus size: 67
88370736 GCATTTATTT
* * * * *
88370746 TCCTGGTAGACTCTATGTGCTGTCATAATCGAACTATGGTCTTACACATCATACCCCATGTTTAA
1 TCCTGGCAGACTCTCTATGTTGTCATAATCGAGCTATGGTCTTACACATCATACCCCATGTTTAA
*
88370811 TA
66 TG
* *** * * * * *
88370813 TTCTGATGGACTCTCTATATGGTCAT-ACCCAGCTATGGTCTTACACATCATACACCATGTTTAA
1 TCCTGGCAGACTCTCTATGTTGTCATAATCGAGCTATGGTCTTACACATCATACCCCATGTTTAA
88370877 TG
66 TG
* * * * *
88370879 TCCTAGCAGACTCTCGATGTTGTCATAACCGAGCTATGGTTTTACACATCATACTCCATGTTTAA
1 TCCTGGCAGACTCTCTATGTTGTCATAATCGAGCTATGGTCTTACACATCATACCCCATGTTTAA
88370944 TG
66 TG
* * * * * *
88370946 GCCTGGCAGACTCCCTATGTTGCCATAGTTGAGCTATGGTCTTACACATCACACCCCATGTTTAA
1 TCCTGGCAGACTCTCTATGTTGTCATAATCGAGCTATGGTCTTACACATCATACCCCATGTTTAA
88371011 TG
66 TG
* * *
88371013 TCCTGGCAGACTCTCTATGTTG-CTATAGTCGAGCTATGGTATTACACATTATACC
1 TCCTGGCAGACTCTCTATGTTGTC-ATAATCGAGCTATGGTCTTACACATCATACC
88371068 TAATACAACC
Statistics
Matches: 212, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
66 54 0.25
67 158 0.75
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (67 bp):
TCCTGGCAGACTCTCTATGTTGTCATAATCGAGCTATGGTCTTACACATCATACCCCATGTTTAA
TG
Found at i:88373899 original size:12 final size:12
Alignment explanation
Indices: 88373884--88373914 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
88373874 TTCTCTTTTA
88373884 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
88373896 TTTTTCTTTCTC
1 TTTTTCTTTCCC
88373908 TTTTTCT
1 TTTTTCT
88373915 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:88374015 original size:16 final size:16
Alignment explanation
Indices: 88373994--88374024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88373984 TTTATTATTT
88373994 TATTAACATAATATAA
1 TATTAACATAATATAA
*
88374010 TATTAATATAATATA
1 TATTAACATAATATA
88374025 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:88379005 original size:40 final size:40
Alignment explanation
Indices: 88378938--88379143 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
88378928 CCTTCGGAGT
* *
88378938 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
88378977 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
88379017 TTAGCCTGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
88379057 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
88379096 TTAG-CC-GAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
88379135 TTAGCCCGG
1 TTAGCCCGG
88379144 GTATCAATCG
Statistics
Matches: 152, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
37 3 0.02
38 26 0.17
39 15 0.10
40 107 0.70
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:88384801 original size:12 final size:12
Alignment explanation
Indices: 88384786--88384816 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
88384776 TTCTCTTTTA
88384786 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
88384798 TTTTTCTTTCTC
1 TTTTTCTTTCCC
88384810 TTTTTCT
1 TTTTTCT
88384817 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:88384917 original size:16 final size:16
Alignment explanation
Indices: 88384896--88384926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88384886 TTTATTATTT
88384896 TATTAACATAATATAA
1 TATTAACATAATATAA
*
88384912 TATTAATATAATATA
1 TATTAACATAATATA
88384927 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:88389905 original size:40 final size:40
Alignment explanation
Indices: 88389838--88390044 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
88389828 CCTTCGGAGT
* *
88389838 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
88389877 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
88389917 TTAGCCTGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
88389957 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
88389996 TTAG-CCTGAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
88390036 TTAGCCCGG
1 TTAGCCCGG
88390045 GTATCAATCC
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
38 5 0.03
39 34 0.22
40 110 0.72
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:88395716 original size:12 final size:12
Alignment explanation
Indices: 88395701--88395731 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
88395691 TTCTCTTTTA
88395701 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
88395713 TTTTTCTTTCTC
1 TTTTTCTTTCCC
88395725 TTTTTCT
1 TTTTTCT
88395732 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:88400711 original size:45 final size:44
Alignment explanation
Indices: 88400660--88400809 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 44
88400650 AGTACAATAT
** *
88400660 TGATAAACCACTCATTGGTGCAGATAAAAGTTGCTAGTACGTTA
1 TGATAAACCACTCATCAGTGCAGATAAAAGTTGCTAGTAAGTTA
* * * *
88400704 TGCATAAACCATTCATCAATGCATATAAAA-TCTGCTAGTAAATTA
1 TG-ATAAACCACTCATCAGTGCAGATAAAAGT-TGCTAGTAAGTTA
* * * * *
88400749 TGGATAAATCACTCATCAGTGAAAATAAAAGCTGCTAGTATGTTA
1 T-GATAAACCACTCATCAGTGCAGATAAAAGTTGCTAGTAAGTTA
*
88400794 CAGATAAACCACTCAT
1 -TGATAAACCACTCAT
88400810 TGGTATGGAT
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
44 3 0.04
45 80 0.95
46 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (44 bp):
TGATAAACCACTCATCAGTGCAGATAAAAGTTGCTAGTAAGTTA
Found at i:88400801 original size:90 final size:90
Alignment explanation
Indices: 88400645--88400809 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
88400635 TGAAGACAAG
* ** * * * *
88400645 CTGCTAGTACAATATTGATAAACCACTCATTGGTGCAGATAAAAGTTGCTAGTACGTTATGCATA
1 CTGCTAGTACAATATGGATAAACCACTCATCAGTGAAAATAAAAGCTGCTAGTACGTTAAGCATA
*
88400710 AACCATTCATCAATGCATATAAAAT
66 AACCACTCATCAATGCATATAAAAT
* *
88400735 CTGCTAGTA-AATTATGGATAAATCACTCATCAGTGAAAATAAAAGCTGCTAGTATGTTACAG-A
1 CTGCTAGTACAA-TATGGATAAACCACTCATCAGTGAAAATAAAAGCTGCTAGTACGTTA-AGCA
88400798 TAAACCACTCAT
64 TAAACCACTCAT
88400810 TGGTATGGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 2 0.03
90 60 0.95
91 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (90 bp):
CTGCTAGTACAATATGGATAAACCACTCATCAGTGAAAATAAAAGCTGCTAGTACGTTAAGCATA
AACCACTCATCAATGCATATAAAAT
Found at i:88404544 original size:64 final size:64
Alignment explanation
Indices: 88404442--88404570 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
88404432 TGTTAAATTC
* *
88404442 TGAAAGAATAACTCTGTAAAAGATGCATGAACAATAAGATATAAGTATAAGGCTTTGCATTAAA
1 TGAAAGAATAACTCTATAAAAGATGCATGAACAATAAGATATAAGTATAAGGATTTGCATTAAA
* * * * *
88404506 TGAAAGAATAACTCTATAAGAGGTGCATGAATAGTAAGATATAAGTATGAGGATTTGCATTAAA
1 TGAAAGAATAACTCTATAAAAGATGCATGAACAATAAGATATAAGTATAAGGATTTGCATTAAA
88404570 T
1 T
88404571 TGTATATGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (64 bp):
TGAAAGAATAACTCTATAAAAGATGCATGAACAATAAGATATAAGTATAAGGATTTGCATTAAA
Found at i:88405260 original size:27 final size:27
Alignment explanation
Indices: 88405216--88405267 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
88405206 GACAGCTAAA
*
88405216 AATAGTCTTAGTGACAAACTCTAAAAG
1 AATAGCCTTAGTGACAAACTCTAAAAG
* * *
88405243 AATAGCCTTTGTGGCAAATTCTAAA
1 AATAGCCTTAGTGACAAACTCTAAA
88405268 TGTATCACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (27 bp):
AATAGCCTTAGTGACAAACTCTAAAAG
Found at i:88411249 original size:45 final size:45
Alignment explanation
Indices: 88411198--88411350 Score: 198
Period size: 45 Copynumber: 3.4 Consensus size: 45
88411188 GGGTATTACA
* * *
88411198 ATAAACCACTCATCGGTGTAGATAAAAGTTGCTAGTACCTTGTAG
1 ATAAACCACTCATCGGTGTAGATAAAAGCTGCTAGTACATTGTGG
* * *
88411243 ATAAACCACTCATCGATGCAGATAAAAGCTACTAGTACATTGTGG
1 ATAAACCACTCATCGGTGTAGATAAAAGCTGCTAGTACATTGTGG
* * * * * *
88411288 ATAAACCATTCATCTGTGTATATAAAAGCTGGTAATACATTATGG
1 ATAAACCACTCATCGGTGTAGATAAAAGCTGCTAGTACATTGTGG
88411333 ATAAACCACTCATCGGTG
1 ATAAACCACTCATCGGTG
88411351 CAAATAATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (45 bp):
ATAAACCACTCATCGGTGTAGATAAAAGCTGCTAGTACATTGTGG
Found at i:88414345 original size:34 final size:34
Alignment explanation
Indices: 88414297--88414390 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
88414287 TATGCAATGC
* * *
88414297 AATATGACATGCTTATAATAAATCAAAATGGTAGT
1 AATA-GACATGCTTATAACAAATCAAAACGGTAGG
* * *
88414332 AATGGACATGCTTATAACGAATTAAAACGGTAGG
1 AATAGACATGCTTATAACAAATCAAAACGGTAGG
*
88414366 AATAGATATGCTTATAACAAATCAA
1 AATAGACATGCTTATAACAAATCAA
88414391 GATAGTAGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
34 46 0.94
35 3 0.06
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (34 bp):
AATAGACATGCTTATAACAAATCAAAACGGTAGG
Found at i:88415394 original size:59 final size:61
Alignment explanation
Indices: 88415325--88415441 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 61
88415315 ATCACTTTAA
* * *
88415325 TATTAAATTAATATAATATTTA-T-CAATATAAATATTAAATTAAATTTAATATTAAATAT
1 TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATAT
88415384 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
88415442 GATAATCACT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 21 0.40
61 1 0.02
62 30 0.58
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATAT
Found at i:88415467 original size:20 final size:18
Alignment explanation
Indices: 88415420--88415468 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
88415410 CAAGATAAAC
88415420 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
88415437 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
88415457 ATTAAATTAATA
1 ATTAAATTAATA
88415469 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:88415527 original size:36 final size:36
Alignment explanation
Indices: 88415455--88415528 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
88415445 AATCACTTTA
* *
88415455 ATATTAAATTAATAAAATACTATTAATATAAGTATT
1 ATATTAAATTAATAAAATACAATTAAAATAAGTATT
88415491 ATATTAAATTAATAGTAAAT-CAATTAAAATAA-TATT
1 ATATTAAATTAATA--AAATACAATTAAAATAAGTATT
88415527 AT
1 AT
88415529 TTTTGGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 20 0.59
37 10 0.29
38 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
ATATTAAATTAATAAAATACAATTAAAATAAGTATT
Found at i:88424364 original size:16 final size:16
Alignment explanation
Indices: 88424345--88424375 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88424335 ACAAATTATT
88424345 ATAATTAATAATTAAA
1 ATAATTAATAATTAAA
*
88424361 ATAATTAATTATTAA
1 ATAATTAATAATTAA
88424376 TTATGTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTAATAATTAAA
Found at i:88425936 original size:25 final size:24
Alignment explanation
Indices: 88425903--88425951 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
88425893 GGGTTTATCA
*
88425903 AATTTTTTTTA-TTTTTACATAAAT
1 AATTTTTTTAAGTTTTTA-ATAAAT
88425927 AATTTATTTTAAGTTTTTAATAAAT
1 AATTT-TTTTAAGTTTTTAATAAAT
88425952 TATATATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 11 0.50
26 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
AATTTTTTTAAGTTTTTAATAAAT
Found at i:88427871 original size:6 final size:6
Alignment explanation
Indices: 88427860--88427913 Score: 74
Period size: 6 Copynumber: 8.7 Consensus size: 6
88427850 AAAGGTTAGA
88427860 TTTTAT TTTTAT TTGTT-T TTGCTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TT-TTAT TT--TTAT TTTTAT TTTTAT TTTTAT TTTTAT
88427910 TTTT
1 TTTT
88427914 GATATGAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
6 37 0.84
7 4 0.09
8 3 0.07
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:88428620 original size:21 final size:21
Alignment explanation
Indices: 88428594--88428642 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
88428584 TTAGGGATCC
88428594 CACACGGGCGCCTGATACCCT
1 CACACGGGCGCCTGATACCCT
* **
88428615 CACACGGTCGTGTGATACCCT
1 CACACGGGCGCCTGATACCCT
*
88428636 CATACGG
1 CACACGG
88428643 TCGTGCCTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.37, G:0.24, T:0.18
Consensus pattern (21 bp):
CACACGGGCGCCTGATACCCT
Found at i:88428643 original size:21 final size:21
Alignment explanation
Indices: 88428606--88428647 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
88428596 CACGGGCGCC
88428606 TGATACCCTCACACGGTCGTG
1 TGATACCCTCACACGGTCGTG
*
88428627 TGATACCCTCATACGGTCGTG
1 TGATACCCTCACACGGTCGTG
88428648 CCTGCTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (21 bp):
TGATACCCTCACACGGTCGTG
Found at i:88432630 original size:40 final size:40
Alignment explanation
Indices: 88432568--88432660 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
88432558 CAATGGTATG
* *
88432568 AGGCATTAAGTGTGCGAATCAAAATAGCTTCGGCTATCTA
1 AGGCACTAAGTGTACGAATCAAAATAGCTTCGGCTATCTA
*
88432608 AGGCACTAAGTGTAC-AATTCAAAATAGCTTCGGCTATCTG
1 AGGCACTAAGTGTACGAA-TCAAAATAGCTTCGGCTATCTA
88432648 AGGCACTAAGTGT
1 AGGCACTAAGTGT
88432661 GCGGTATTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 2 0.04
40 47 0.96
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (40 bp):
AGGCACTAAGTGTACGAATCAAAATAGCTTCGGCTATCTA
Found at i:88439568 original size:30 final size:29
Alignment explanation
Indices: 88439504--88439570 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
88439494 TTTGAGTAAA
* **
88439504 ATGGACTAAATTGTGAAAATGAGAAATTG
1 ATGGACTAAAATGTGAAAAAAAGAAATTG
88439533 ATGGACTAAAATGTGAAAAAAATGAAATATG
1 ATGGACTAAAATGTGAAAAAAA-GAAAT-TG
88439564 -TGGACTA
1 ATGGACTA
88439571 GTATGAGTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 19 0.58
30 12 0.36
31 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.25
Consensus pattern (29 bp):
ATGGACTAAAATGTGAAAAAAAGAAATTG
Found at i:88440019 original size:40 final size:40
Alignment explanation
Indices: 88439958--88440050 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
88439948 ATCAATGGTA
* * *
88439958 TGAGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATC
1 TGAGGCACTAAGTATGAGATTCAAAATAGCTTCGGCTAAC
88439998 TGAGGCACTAAGTATGAGATTCAAAATAGCTTCGGCTAAC
1 TGAGGCACTAAGTATGAGATTCAAAATAGCTTCGGCTAAC
88440038 TGAGGCACTAAGT
1 TGAGGCACTAAGT
88440051 GTGCAATATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (40 bp):
TGAGGCACTAAGTATGAGATTCAAAATAGCTTCGGCTAAC
Found at i:88440134 original size:44 final size:44
Alignment explanation
Indices: 88440086--88440189 Score: 199
Period size: 44 Copynumber: 2.4 Consensus size: 44
88440076 AAATGAAATG
88440086 GCACTAAGTGTGCGGAATCGTTCTAGCTTCGGCTAACCCTTAAA
1 GCACTAAGTGTGCGGAATCGTTCTAGCTTCGGCTAACCCTTAAA
*
88440130 GCACTAAGTGTGCGGAATCGTTCTAGCTTCGGCTAATCCTTAAA
1 GCACTAAGTGTGCGGAATCGTTCTAGCTTCGGCTAACCCTTAAA
88440174 GCACTAAGTGTGCGGA
1 GCACTAAGTGTGCGGA
88440190 TGTTAAAGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (44 bp):
GCACTAAGTGTGCGGAATCGTTCTAGCTTCGGCTAACCCTTAAA
Found at i:88445462 original size:53 final size:54
Alignment explanation
Indices: 88445380--88445587 Score: 208
Period size: 53 Copynumber: 3.9 Consensus size: 54
88445370 TTTTCCTTTT
* * * **
88445380 GAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
88445434 -AACTCACCAATGCCATGCCTTGGA-ATGGTATTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTT-GACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * *
88445487 GTAACTCATCAATGCCATGTCTTAACACT-GTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACA-TGGTCTTACATGGTATCCTTGCCTTATA
* * * *
88445542 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
88445588 TGTGACAGCC
Statistics
Matches: 127, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
52 2 0.02
53 41 0.32
54 41 0.32
55 40 0.31
56 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:88445504 original size:55 final size:54
Alignment explanation
Indices: 88445422--88445580 Score: 173
Period size: 55 Copynumber: 2.9 Consensus size: 54
88445412 TATGTGGTAT
* *
88445422 CCTTGCCTTATA-AACTCACCAATGCCATGCCTTGGAATGGTATTACATG-GGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGAATGGTCTTACATGAGGA
* * ***
88445474 CCTTTGCCTTATAGTAACTCATCAATGCCATGTCTT-AACACT-GTCTTACATGATTT
1 CC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGA-A-TGGTCTTACATGAGGA
* *
88445530 CCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGAATGGTCTTACATGA
88445581 TATCCTTTGT
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
52 2 0.02
53 11 0.12
54 32 0.36
55 40 0.45
56 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (54 bp):
CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGAATGGTCTTACATGAGGA
Found at i:88447680 original size:40 final size:40
Alignment explanation
Indices: 88447450--88447673 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
88447440 TTGAATGATG
* * * *
88447450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
88447490 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-T-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88447528 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88447568 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88447608 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
88447649 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88447674 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
38 36 0.21
39 2 0.01
40 121 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88455846 original size:40 final size:40
Alignment explanation
Indices: 88455618--88455839 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
88455608 TTGAATGATG
* * * *
88455618 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
88455658 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
88455696 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88455734 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88455774 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
88455815 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88455840 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
36 19 0.11
37 4 0.02
38 23 0.14
39 2 0.01
40 108 0.65
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88457256 original size:47 final size:47
Alignment explanation
Indices: 88457187--88457289 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
88457177 GGGGTGTTAC
* * *
88457187 ATCCTTATCTTACCAAATGCCATGTTTCAAACATAGTCTTACATGGT
1 ATCCTTGTCATACCAAATGCCATGTTCCAAACATAGTCTTACATGGT
*
88457234 ATCCTTGTCATACCAAATGCCATGTTCCAAACATGGTCTTACATGGT
1 ATCCTTGTCATACCAAATGCCATGTTCCAAACATAGTCTTACATGGT
88457281 ATCCTTGTC
1 ATCCTTGTC
88457290 TTAGTGCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (47 bp):
ATCCTTGTCATACCAAATGCCATGTTCCAAACATAGTCTTACATGGT
Found at i:88457435 original size:44 final size:44
Alignment explanation
Indices: 88457386--88457469 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
88457376 ATGGTCTTAA
* * *
88457386 TCAATTCCTCTTTAAATGCCATGTTATGAA-CATGGACTTTTCCG
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCG
* *
88457430 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
88457470 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCG
Found at i:88460953 original size:40 final size:40
Alignment explanation
Indices: 88460916--88461141 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
88460906 GCTACTCGTT
* *
88460916 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
88460956 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88460996 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88461036 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
88461076 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
88461117 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
88461142 CATCATTCAA
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.90
41 15 0.09
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:88487365 original size:20 final size:20
Alignment explanation
Indices: 88487324--88487368 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
88487314 AGCACATGTA
* *
88487324 TTCATAAAATTTCAGAATTT
1 TTCATAAAATTTCACAACTT
*
88487344 TTCATAAAATTTTACAACTT
1 TTCATAAAATTTCACAACTT
88487364 TTCAT
1 TTCAT
88487369 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTCACAACTT
Found at i:88491756 original size:23 final size:25
Alignment explanation
Indices: 88491710--88491756 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
88491700 AAATAATGAA
*
88491710 ATATAAAATTTAGAACTAAAATAAC
1 ATATAAAATTTAGAAATAAAATAAC
88491735 ATATAAAA-TTA-AAATAAAATAA
1 ATATAAAATTTAGAAATAAAATAA
88491757 ATTAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 3 0.14
25 8 0.38
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (25 bp):
ATATAAAATTTAGAAATAAAATAAC
Found at i:88492272 original size:45 final size:45
Alignment explanation
Indices: 88492221--88492311 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
88492211 AAACCTCACC
88492221 ATATGTAAGTTTTTTATTGGTTCTATTAGAAGTATAAAAAGAAAT
1 ATATGTAAGTTTTTTATTGGTTCTATTAGAAGTATAAAAAGAAAT
88492266 ATATGTAAGTTTTTTATTGGTTCTATTAGAAGTATAAAAAGAAAT
1 ATATGTAAGTTTTTTATTGGTTCTATTAGAAGTATAAAAAGAAAT
88492311 A
1 A
88492312 ACTCAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.42
Consensus pattern (45 bp):
ATATGTAAGTTTTTTATTGGTTCTATTAGAAGTATAAAAAGAAAT
Found at i:88492918 original size:22 final size:22
Alignment explanation
Indices: 88492890--88492934 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
88492880 TGTAAAGATG
88492890 TAAGGAAAAGGGAGGTGAGCTA
1 TAAGGAAAAGGGAGGTGAGCTA
88492912 TAAGGAAAAGGGAGGTGAGCTA
1 TAAGGAAAAGGGAGGTGAGCTA
88492934 T
1 T
88492935 GGACCTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.40, T:0.16
Consensus pattern (22 bp):
TAAGGAAAAGGGAGGTGAGCTA
Found at i:88493613 original size:40 final size:40
Alignment explanation
Indices: 88493548--88493641 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
88493538 TCAACTCCGT
* *
88493548 CCAACCCAACACACC--ATGTGGGGATAAAAACGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAAAAACGACCCAC
* * *
88493586 CCATCCCTACACACCAAATATGGGGATAAAATCGACCCAT
1 CCAACCCTACACACCAAATATGGGGATAAAAACGACCCAC
*
88493626 CCAACCTTACACACCA
1 CCAACCCTACACACCA
88493642 TAAAGTATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 13 0.28
40 34 0.72
ACGTcount: A:0.38, C:0.37, G:0.12, T:0.13
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAAAAACGACCCAC
Found at i:88497969 original size:27 final size:28
Alignment explanation
Indices: 88497917--88497973 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
88497907 TATAATAATA
*
88497917 TATTGTTATATTATTTTAATACTTTATT
1 TATTGTTATAATATTTTAATACTTTATT
88497945 TATTGTTATAATA-TTTAATACTTTATT
1 TATTGTTATAATATTTTAATACTTTATT
88497972 TA
1 TA
88497974 ATTATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (28 bp):
TATTGTTATAATATTTTAATACTTTATT
Found at i:88504222 original size:22 final size:22
Alignment explanation
Indices: 88504196--88504237 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
88504186 AATGATTAGA
88504196 TAGTTAATTAAAGAAAAAATTG
1 TAGTTAATTAAAGAAAAAATTG
88504218 TAGTTAATTAAAGAAAAAAT
1 TAGTTAATTAAAGAAAAAAT
88504238 GGCTAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (22 bp):
TAGTTAATTAAAGAAAAAATTG
Found at i:88505226 original size:39 final size:39
Alignment explanation
Indices: 88505183--88505371 Score: 263
Period size: 39 Copynumber: 4.8 Consensus size: 39
88505173 AATAGAAATA
88505183 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
*
88505222 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * * *
88505261 CAGTGATTATTCGGGCTAAGTTCCTAGCAAGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * *
88505300 TAGG-GATTATTCGGGCTATGTGCCTAGTAGGCTTTGTGG
1 -CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * *
88505339 TGGTGATTATTCAGGCTTTGTGCCTAGCAGGCT
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCT
88505372 ATGTACCGAT
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
38 2 0.02
39 130 0.98
40 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.32, T:0.34
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
Found at i:88507303 original size:26 final size:26
Alignment explanation
Indices: 88507274--88507326 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
88507264 GTTACAGTTT
88507274 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
88507300 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
88507326 T
1 T
88507327 GCATTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:88515401 original size:26 final size:26
Alignment explanation
Indices: 88515372--88515424 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
88515362 TTTACAGTTT
88515372 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
88515398 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
88515424 T
1 T
88515425 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:88517124 original size:21 final size:21
Alignment explanation
Indices: 88517090--88517148 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
88517080 TTAACCTACC
* *
88517090 ATGTCTCAAAACGTGTATGCT
1 ATGTCCCAAGACGTGTATGCT
88517111 ATGTCCCAAGACGTGTATGCT
1 ATGTCCCAAGACGTGTATGCT
*
88517132 ATGTCCCAAGACTTGTA
1 ATGTCCCAAGACGTGTA
88517149 CTTGTTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (21 bp):
ATGTCCCAAGACGTGTATGCT
Found at i:88522231 original size:23 final size:24
Alignment explanation
Indices: 88522199--88522264 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
88522189 ATTAACCACC
* * *
88522199 TAGGGTTCACATGCATTAGCAATT
1 TAGGTTTCACATGTATTAACAATT
*
88522223 TA-GTTTCACATTTATTAACAATT
1 TAGGTTTCACATGTATTAACAATT
88522246 TAGGTTT-ACATGTATTAAC
1 TAGGTTTCACATGTATTAAC
88522265 TAAGGCTCGC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 30 0.83
24 6 0.17
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (24 bp):
TAGGTTTCACATGTATTAACAATT
Found at i:88522678 original size:53 final size:52
Alignment explanation
Indices: 88522521--88522678 Score: 124
Period size: 53 Copynumber: 3.0 Consensus size: 52
88522511 ACAAGCTTGT
* * * * * * *
88522521 ATCAAAGGGTTCACTCATAGGCTCGCACATAGTGGGTTCGCACAC-AGGCTCAC
1 ATCAAAGGGTTCGCTCATAAGATTGCAAATA--GGGTTTGCACACAAGGCTCGC
* * * * *
88522574 ATCAAAGGGTCTCG-TGCATAAGTTTACATATGGGGTTTAGTACACAA-GCTCGC
1 ATCAAAGGGT-TCGCT-CATAAGATTGCAAATAGGGTTT-GCACACAAGGCTCGC
*
88522627 ATCAAAGGGTTCGCTCATATGATTGCAAATAGGGTTTGCACACAAGGGCTCG
1 ATCAAAGGGTTCGCTCATAAGATTGCAAATAGGGTTTGCACACAA-GGCTCG
88522679 TACTTAGGGT
Statistics
Matches: 82, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
51 7 0.09
52 25 0.30
53 37 0.45
54 13 0.16
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (52 bp):
ATCAAAGGGTTCGCTCATAAGATTGCAAATAGGGTTTGCACACAAGGCTCGC
Found at i:88522864 original size:22 final size:22
Alignment explanation
Indices: 88522821--88522867 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
88522811 GTAATAACAT
*
88522821 ATAAGTAGTTTGCATAGCTAAC
1 ATAAGTAGTTTGCATAGATAAC
*
88522843 ATAAGT-GTTTGCATGGTATAAC
1 ATAAGTAGTTTGCATAG-ATAAC
88522865 ATA
1 ATA
88522868 TCAGCTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAAGTAGTTTGCATAGATAAC
Found at i:88522999 original size:34 final size:35
Alignment explanation
Indices: 88522956--88523045 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 35
88522946 GGGGGTTCTG
* * *
88522956 CATATCATAGGGTTTGA-CACTA-CAAGGGATTTCG
1 CATACCATAGGGTTTCACCACTATCAAGGG-TTTCA
* *
88522990 TATACCATAGGG-TTCACCACTATGAAGGGTTTCA
1 CATACCATAGGGTTTCACCACTATCAAGGGTTTCA
88523024 CATACCATAGGG-TTCACCACTA
1 CATACCATAGGGTTTCACCACTA
88523046 AGGGGTTTCG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 3 0.06
34 40 0.83
35 5 0.10
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (35 bp):
CATACCATAGGGTTTCACCACTATCAAGGGTTTCA
Found at i:88524466 original size:46 final size:48
Alignment explanation
Indices: 88524406--88524599 Score: 134
Period size: 47 Copynumber: 4.1 Consensus size: 48
88524396 CATAATATAT
* *
88524406 ACATATACACATCTCATACATATCTCACATTAGCCATTTGGCCTTACC
1 ACATATACACATCTCATACACATCTCACATTAGCCATTCGGCCTTACC
* * * *
88524454 ACATAT-C-CATCTCATACGCATTTCGCATTAGCCATTCGGCTTTACC
1 ACATATACACATCTCATACACATCTCACATTAGCCATTCGGCCTTACC
* * * * * * *
88524500 ACATATATACA-CT--TCCACGTTCATCATATTGGCCATTCTGCCTTATC
1 ACATATACACATCTCATACAC-ATC-TCACATTAGCCATTCGGCCTTACC
** * * *
88524547 ACATATATGCATGT--T-CACATTTATCACATTAGCCATTCGGCCTTATC
1 ACATATACACATCTCATACACA--TCTCACATTAGCCATTCGGCCTTACC
88524594 ACATAT
1 ACATAT
88524600 GTGCATGTTC
Statistics
Matches: 115, Mismatches: 24, Indels: 15
0.75 0.16 0.10
Matches are distributed among these distances:
45 3 0.03
46 40 0.35
47 61 0.53
48 11 0.10
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (48 bp):
ACATATACACATCTCATACACATCTCACATTAGCCATTCGGCCTTACC
Found at i:88524550 original size:47 final size:47
Alignment explanation
Indices: 88524479--88525045 Score: 848
Period size: 47 Copynumber: 12.1 Consensus size: 47
88524469 ACGCATTTCG
* * * * * * *
88524479 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCA-TGTTCACATTCATCA
* * * *
88524526 TATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
88524573 CATTAGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* * *
88524620 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
88524667 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
88524714 CATTGGCCATTCAGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
88524761 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
88524808 CATTGGCCATTCGGCCTTATCTCATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
88524855 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCCTCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* * *
88524902 CATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* *
88524949 CATTGGCCATTCGGCCTTATCACATATGTGCATGTCCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* ** **
88524996 CATTGGCCATTCGGCCTTATCACATATATATACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
88525043 CAT
1 CAT
88525046 AAAATCCTAA
Statistics
Matches: 476, Mismatches: 43, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
46 1 0.00
47 475 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
Found at i:88524571 original size:25 final size:25
Alignment explanation
Indices: 88524542--88524669 Score: 78
Period size: 25 Copynumber: 5.4 Consensus size: 25
88524532 CCATTCTGCC
88524542 TTATCACATATATGCATGTTCACAT
1 TTATCACATATATGCATGTTCACAT
* *
88524567 TTATCACAT-TA-GCCA--TTCGGC-C
1 TTATCACATATATG-CATGTTC-ACAT
*
88524589 TTATCACATATGTGCATGTTCACAT
1 TTATCACATATATGCATGTTCACAT
* * * *
88524614 TCATCACAT-T-GGCCA--TTCGGC-C
1 TTATCACATATATG-CATGTTC-ACAT
*
88524636 TTATCACACATATGCATGTTCACAT
1 TTATCACATATATGCATGTTCACAT
88524661 TTATCACAT
1 TTATCACAT
88524670 TGGCCATTCG
Statistics
Matches: 74, Mismatches: 15, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
22 22 0.30
23 10 0.14
24 11 0.15
25 31 0.42
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (25 bp):
TTATCACATATATGCATGTTCACAT
Found at i:88530514 original size:13 final size:13
Alignment explanation
Indices: 88530496--88530520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88530486 AATGAGTTAG
88530496 TTATGATTAATAA
1 TTATGATTAATAA
88530509 TTATGATTAATA
1 TTATGATTAATA
88530521 GAGTTAACCC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTATGATTAATAA
Found at i:88531588 original size:10 final size:10
Alignment explanation
Indices: 88531574--88531631 Score: 82
Period size: 10 Copynumber: 5.8 Consensus size: 10
88531564 ATTTTAGCTT
*
88531574 TTATCTTTAT
1 TTATCTTTAA
88531584 TTATCTTTAA
1 TTATCTTTAA
88531594 TTATCTTTAA
1 TTATCTTTAA
88531604 TTATCTTTAA
1 TTATCTTTAA
*
88531614 TTAT-TTGTAT
1 TTATCTT-TAA
88531624 TTATCTTT
1 TTATCTTT
88531632 TAGAGTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.05
10 40 0.91
11 2 0.05
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:88531599 original size:20 final size:20
Alignment explanation
Indices: 88531574--88531631 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
88531564 ATTTTAGCTT
88531574 TTATCTTTATTTATCTTTAA
1 TTATCTTTATTTATCTTTAA
*
88531594 TTATCTTTAATTATCTTTAA
1 TTATCTTTATTTATCTTTAA
88531614 TTAT-TTGTATTTATCTTT
1 TTATCTT-TATTTATCTTT
88531632 TAGAGTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 33 0.94
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATCTTTATTTATCTTTAA
Found at i:88534378 original size:27 final size:27
Alignment explanation
Indices: 88534338--88534449 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
88534328 AGGAAGCGTC
*
88534338 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
88534365 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* **
88534392 CTGGTAGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
88534420 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
88534446 CTGG
1 CTGG
88534450 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.66
28 16 0.23
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:88537797 original size:78 final size:77
Alignment explanation
Indices: 88537661--88537875 Score: 267
Period size: 76 Copynumber: 2.8 Consensus size: 77
88537651 CTTTGTAAAT
* * *
88537661 ACAAAAA-CAACTGAACAA-TTCTATTTCACGATTTTATTCTTGTCGTTTAACAGGATTTGTTTG
1 ACAAAAATCAACTGAACAATTTC-GTTTCAAGATTTTATTCATGTCGTTTAACAGGATTTGTTT-
*
88537724 ATTTTTTGTTTCAA
64 AATTTTTGTTTCAA
* * *
88537738 ACAAAAATCAACTGAGCAATTTCGTTTCAGGATTTTATTCCTGTCGTTTAACAGGATTTGTTTAA
1 ACAAAAATCAACTGAACAATTTCGTTTCAAGATTTTATTCATGTCGTTTAACAGGATTTGTTTAA
88537803 TTTTTGTTTCAA
66 TTTTTGTTTCAA
* * * * *
88537815 A-AAAAATCAAATGAAAAATTAT-GTTTCAAGATTTTATTCATTTCATTTAGCAGGATTTGTT
1 ACAAAAATCAACTGAACAATT-TCGTTTCAAGATTTTATTCATGTCGTTTAACAGGATTTGTT
88537876 CGACTTCTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
76 50 0.41
77 22 0.18
78 47 0.39
79 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (77 bp):
ACAAAAATCAACTGAACAATTTCGTTTCAAGATTTTATTCATGTCGTTTAACAGGATTTGTTTAA
TTTTTGTTTCAA
Found at i:88539524 original size:56 final size:56
Alignment explanation
Indices: 88539450--88539572 Score: 228
Period size: 56 Copynumber: 2.2 Consensus size: 56
88539440 CTTAAGTCAT
*
88539450 TTAATTTATGGCATGGTAGGCTCAGACATGTTAATTATGATATTTTATGTAGATTAA
1 TTAATTTA-GACATGGTAGGCTCAGACATGTTAATTATGATATTTTATGTAGATTAA
88539507 TTAATTTAGACATGGTAGGCTCAGACATGTTAATTATGATATTTTATGTAGATTAA
1 TTAATTTAGACATGGTAGGCTCAGACATGTTAATTATGATATTTTATGTAGATTAA
88539563 TTAATTTAGA
1 TTAATTTAGA
88539573 GCATATTCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
56 57 0.88
57 8 0.12
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (56 bp):
TTAATTTAGACATGGTAGGCTCAGACATGTTAATTATGATATTTTATGTAGATTAA
Found at i:88542622 original size:17 final size:17
Alignment explanation
Indices: 88542597--88542643 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
88542587 TCATGTGGGG
*
88542597 GATTGTTGGAAAAAATA
1 GATTCTTGGAAAAAATA
88542614 GATTCTTGGAAAAAAAATA
1 GATTCTTGG--AAAAAATA
*
88542633 GATTCCTGGAA
1 GATTCTTGGAA
88542644 GCTTTGAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 10 0.38
19 16 0.62
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (17 bp):
GATTCTTGGAAAAAATA
Found at i:88542630 original size:19 final size:19
Alignment explanation
Indices: 88542606--88542643 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
88542596 GGATTGTTGG
*
88542606 AAAAAATAGATTCTTGGAA
1 AAAAAATAGATTCCTGGAA
88542625 AAAAAATAGATTCCTGGAA
1 AAAAAATAGATTCCTGGAA
88542644 GCTTTGAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.24
Consensus pattern (19 bp):
AAAAAATAGATTCCTGGAA
Found at i:88547456 original size:15 final size:16
Alignment explanation
Indices: 88547423--88547456 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88547413 TTGAGAGCCG
88547423 TTTTCACGAAATCATT
1 TTTTCACGAAATCATT
* *
88547439 TTTTCATGAAATTATT
1 TTTTCACGAAATCATT
88547455 TT
1 TT
88547457 CAAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTTCACGAAATCATT
Found at i:88547926 original size:16 final size:18
Alignment explanation
Indices: 88547871--88547925 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 18
88547861 GAAGGAAGAG
88547871 ATTAATTTATTTTTATATAA
1 ATTAATTTATTTTTA-A-AA
88547891 ATTAATTTATTTTTAAAA
1 ATTAATTTATTTTTAAAA
*
88547909 ATTAA-TTATTTTCAAAA
1 ATTAATTTATTTTTAAAA
88547926 TATATTTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 11 0.32
18 7 0.21
19 1 0.03
20 15 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTAATTTATTTTTAAAA
Found at i:88549009 original size:18 final size:19
Alignment explanation
Indices: 88548976--88549015 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
88548966 GGATGGTTTT
*
88548976 ATTTTGATTTAATTAATTA
1 ATTTTGATTAAATTAATTA
88548995 ATTTTGA-TAAATTAATTA
1 ATTTTGATTAAATTAATTA
88549013 ATT
1 ATT
88549016 AGTTTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTTGATTAAATTAATTA
Found at i:88550150 original size:16 final size:16
Alignment explanation
Indices: 88550125--88550158 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
88550115 TCATTTATGA
88550125 CCATGACAATTGACAT
1 CCATGACAATTGACAT
*
88550141 CCATGCCAATTGACAT
1 CCATGACAATTGACAT
88550157 CC
1 CC
88550159 TTTATCCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (16 bp):
CCATGACAATTGACAT
Found at i:88552512 original size:18 final size:18
Alignment explanation
Indices: 88552491--88552534 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
88552481 CTTCAAAAAC
88552491 TCACTTTCTATTTGTCTG
1 TCACTTTCTATTTGTCTG
88552509 TCACTTTCTATTTGTCTG
1 TCACTTTCTATTTGTCTG
88552527 TCACTTTC
1 TCACTTTC
88552535 AGTTAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.11, C:0.25, G:0.09, T:0.55
Consensus pattern (18 bp):
TCACTTTCTATTTGTCTG
Found at i:88556876 original size:5 final size:6
Alignment explanation
Indices: 88556851--88556879 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
88556841 ATATGCATAA
88556851 AATTTT AATTTT AATTTT AA-TTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
88556880 CACCTACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:88556876 original size:11 final size:12
Alignment explanation
Indices: 88556851--88556879 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
88556841 ATATGCATAA
88556851 AATTTTAATTTT
1 AATTTTAATTTT
88556863 AATTTTAA-TTT
1 AATTTTAATTTT
88556874 AATTTT
1 AATTTT
88556880 CACCTACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
AATTTTAATTTT
Found at i:88557488 original size:20 final size:20
Alignment explanation
Indices: 88557465--88557503 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88557455 AAAAATTGCA
88557465 AAAAAATTAAAATAATTTTC
1 AAAAAATTAAAATAATTTTC
**
88557485 AAAATTTTAAAATAATTTT
1 AAAAAATTAAAATAATTTT
88557504 TAAATTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAAATTAAAATAATTTTC
Found at i:88557510 original size:19 final size:20
Alignment explanation
Indices: 88557471--88557530 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
88557461 TGCAAAAAAA
88557471 TTAAAATAATTTTCAAAATT
1 TTAAAATAATTTTCAAAATT
*
88557491 TTAAAATAATTTT-TAAATT
1 TTAAAATAATTTTCAAAATT
* *
88557510 TCAAAAT-ATTTATAAAAATT
1 TTAAAATAATTT-TCAAAATT
88557530 T
1 T
88557531 CAAATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.11
19 12 0.34
20 19 0.54
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAATAATTTTCAAAATT
Found at i:88557535 original size:27 final size:27
Alignment explanation
Indices: 88557481--88557537 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
88557471 TTAAAATAAT
*
88557481 TTTCAAAATTTTAAAATAATTTTTAAA
1 TTTCAAAATTTTAAAATAATTTTCAAA
88557508 TTTCAAAATATTTATAAA-AA-TTTCAAA
1 TTTCAAAAT-TTTA-AAATAATTTTCAAA
88557535 TTT
1 TTT
88557538 TATATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 18 0.67
28 6 0.22
29 3 0.11
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTCAAAATTTTAAAATAATTTTCAAA
Found at i:88557620 original size:10 final size:9
Alignment explanation
Indices: 88557478--88557613 Score: 66
Period size: 9 Copynumber: 14.7 Consensus size: 9
88557468 AAATTAAAAT
*
88557478 AATTTTCAA
1 AATTTTAAA
88557487 AATTTTAAAA
1 AATTTT-AAA
*
88557497 TAATTTT-TA
1 -AATTTTAAA
*
88557506 AATTTCAAA
1 AATTTTAAA
88557515 ATATTTATAAA
1 A-ATTT-TAAA
*
88557526 AA-TTT-CA
1 AATTTTAAA
*
88557533 AATTTT-AT
1 AATTTTAAA
*
88557541 ATTTTTAAA
1 AATTTTAAA
88557550 AATATTATAAA
1 AAT-TT-TAAA
*
88557561 AATTCTAAA
1 AATTTTAAA
*
88557570 AATATATAAAAA
1 AAT-T-T-TAAA
**
88557582 AAAATT-AA
1 AATTTTAAA
88557590 AATTTTAAA
1 AATTTTAAA
88557599 AATTTTAAA
1 AATTTTAAA
88557608 AATTTT
1 AATTTT
88557614 CTAAAATAAT
Statistics
Matches: 95, Mismatches: 19, Indels: 26
0.68 0.14 0.19
Matches are distributed among these distances:
7 3 0.03
8 20 0.21
9 38 0.40
10 12 0.13
11 17 0.18
12 5 0.05
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTTTAAA
Found at i:88559452 original size:40 final size:40
Alignment explanation
Indices: 88559397--88559475 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
88559387 TCCTTTGATG
88559397 TTTAGAGAGGAAAACTGGTTTCGTGAAAGAGAATCAAACA
1 TTTAGAGAGGAAAACTGGTTTCGTGAAAGAGAATCAAACA
88559437 TTTAGAGAGGAAAACTGGTTTCGTGAAAGAGAATCAAAC
1 TTTAGAGAGGAAAACTGGTTTCGTGAAAGAGAATCAAAC
88559476 TTATACCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (40 bp):
TTTAGAGAGGAAAACTGGTTTCGTGAAAGAGAATCAAACA
Found at i:88563090 original size:5 final size:5
Alignment explanation
Indices: 88563080--88563104 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88563070 AGGAGGCAGA
88563080 TGATG TGATG TGATG TGATG TGATG
1 TGATG TGATG TGATG TGATG TGATG
88563105 GAAAGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
TGATG
Found at i:88564423 original size:37 final size:37
Alignment explanation
Indices: 88564357--88564502 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
88564347 TACGTATGAT
* * *
88564357 CACTTATCAC-TTG-TCCCTGATTAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
88564392 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
88564429 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
88564466 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
88564503 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:88564519 original size:46 final size:46
Alignment explanation
Indices: 88564466--88564687 Score: 275
Period size: 52 Copynumber: 4.6 Consensus size: 46
88564456 TAAGTGTAGC
* **
88564466 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
88564512 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
88564558 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
88564610 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
88564662 CACTTATCACTTT-TCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
88564688 AGTACTCAAA
Statistics
Matches: 163, Mismatches: 6, Indels: 15
0.89 0.03 0.08
Matches are distributed among these distances:
45 13 0.08
46 55 0.34
49 1 0.01
50 1 0.01
51 3 0.02
52 90 0.55
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:88564585 original size:52 final size:52
Alignment explanation
Indices: 88564509--88564681 Score: 292
Period size: 52 Copynumber: 3.3 Consensus size: 52
88564499 TAGCTAAAGC
* * *
88564509 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
88564562 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
88564614 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
88564666 TATCACTTTTCACTTG
1 TATCACTTTTCACTTG
88564682 ATCAGAAGTA
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 102 0.89
53 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:88564673 original size:104 final size:98
Alignment explanation
Indices: 88564466--88564681 Score: 306
Period size: 104 Copynumber: 2.1 Consensus size: 98
88564456 TAAGTGTAGC
* * * *
88564466 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
88564531 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
88564565 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCAC--T----TTG
* *
88564630 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
88564669 CACTTTTCACTTG
1 CACTTTTCACTTG
88564682 ATCAGAAGTA
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
98 42 0.40
99 9 0.09
100 1 0.01
104 52 0.50
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:88566296 original size:31 final size:31
Alignment explanation
Indices: 88566258--88566320 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
88566248 TCAAACCATC
88566258 AACCAAGGCTTTATATGCCTTATCTTGGTAT
1 AACCAAGGCTTTATATGCCTTATCTTGGTAT
88566289 AACCAAGGCTTTATATGCCTTATCTTGGTAT
1 AACCAAGGCTTTATATGCCTTATCTTGGTAT
88566320 A
1 A
88566321 CTTGGTATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (31 bp):
AACCAAGGCTTTATATGCCTTATCTTGGTAT
Found at i:88569371 original size:46 final size:46
Alignment explanation
Indices: 88569321--88569493 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
88569311 TGGTTGAGCA
88569321 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
88569367 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
88569412 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
88569460 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
88569494 GGGGCGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88569477 original size:93 final size:93
Alignment explanation
Indices: 88569318--88569488 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
88569308 GGATGGTTGA
* *
88569318 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88569383 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
88569411 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88569476 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
88569489 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:88570864 original size:29 final size:29
Alignment explanation
Indices: 88570831--88570893 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
88570821 GTCCGACGGT
* **
88570831 CGTGTGCCAAACCGTATGAGCCACATGAC
1 CGTGTGCCAAACCATATGAGCCACACAAC
* *
88570860 CGTGTGCCAGACCATGTGAGCCACACAAC
1 CGTGTGCCAAACCATATGAGCCACACAAC
88570889 CGTGT
1 CGTGT
88570894 ACCCACACAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.17
Consensus pattern (29 bp):
CGTGTGCCAAACCATATGAGCCACACAAC
Done.