Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 281 of 297
Found at i:95662211 original size:82 final size:81
Alignment explanation
Indices: 95662098--95662253 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
95662088 AAATTGTACA
* *
95662098 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
95662162 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
95662179 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
95662244 TGCGAGTTGA
65 TGCGAATTGA
95662254 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:95662265 original size:82 final size:81
Alignment explanation
Indices: 95662094--95662274 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
95662084 GATTAAATTG
* *
95662094 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
95662159 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
95662175 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
95662239 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
95662257 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
95662275 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:95669440 original size:48 final size:48
Alignment explanation
Indices: 95669399--95669668 Score: 335
Period size: 48 Copynumber: 5.6 Consensus size: 48
95669389 ATATTGGTGT
* * *
95669399 CGATGCCATGTCCTAGACATGGTATTACACTAGCACACATATC-ATCGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAT-GC
** * *
95669447 TAATGCCATGTTCCAGACATGGTCTTACACTGGTACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* *
95669495 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACATATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* * **
95669543 CGATGTCATGTCCCAGACATGATCTTACACTGGCACACATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* * * * * *
95669591 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATCTCGGATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AATGC
*
95669640 TGATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
95669669 TGGGATCTCA
Statistics
Matches: 189, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
48 159 0.84
49 30 0.16
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
Found at i:95669572 original size:144 final size:145
Alignment explanation
Indices: 95669399--95669668 Score: 382
Period size: 144 Copynumber: 1.9 Consensus size: 145
95669389 ATATTGGTGT
* * * * *
95669399 CGATGCCATGTCCTAGACATGGTATTACACTAGCACACATATCATCGCTAATGCCATGTTCCAGA
1 CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACACCAATGCCATGTTCCAGA
95669464 CATGGTCTTACACTGG-TACACATATC-AATGCCGATGCCATGTCCCAAACATGGTCTTACACTG
66 CATGGTCTTACACTGGCT-CACATATCGAATGCCGATGCCATGTCCCAAACATGGTCTTACACTG
95669527 GCACATATATCAATGC
130 GCACATATATCAATGC
* * * *
95669543 CGATGTCATGTCCCAGACATGATCTTACACTGGCACACATATCAACACCGATGCCATGTTCCAGA
1 CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACACCAATGCCATGTTCCAGA
* * * ** *
95669608 CATGGTCTTACACTGGCTCTCATCTCGGATGTTGATGCCATGTCCCAGACATGGTCTTACA
66 CATGGTCTTACACTGGCTCACATATCGAATGCCGATGCCATGTCCCAAACATGGTCTTACA
95669669 TGGGATCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
144 78 0.72
145 31 0.28
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (145 bp):
CGATGCCATGTCCCAGACATGATATTACACTAGCACACATATCAACACCAATGCCATGTTCCAGA
CATGGTCTTACACTGGCTCACATATCGAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGG
CACATATATCAATGC
Found at i:95673533 original size:92 final size:96
Alignment explanation
Indices: 95673318--95673543 Score: 257
Period size: 97 Copynumber: 2.4 Consensus size: 96
95673308 CACAGGGTAT
* * * * *
95673318 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCTATTAAGTCGATGCCATGTCC
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGACACATCTATTAAGTCGATGACATGTCC
*
95673383 CATACATGGTCTTACACTAACTCTCACATATC
66 CAGACATGGTCTTACACTAACTCT-ACATATC
** * * *
95673415 CGTGCCAAAGCCATATCCCAGACATGGTCTTACATTGACACATCT-TGT-AG-CAGAT-ACATGT
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGACACATCTAT-TAAGTC-GATGACATGT
* *
95673476 CCCAGACAT-GTCTTACACTAGCTCT-CATCTC
64 CCCAGACATGGTCTTACACTAACTCTACATATC
*
95673507 AATGCGGATGCCATATCCCAGACATGGTCTTACACTG
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTG
95673544 GCTCTCATAA
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
92 36 0.33
94 15 0.14
95 14 0.13
96 6 0.06
97 37 0.34
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (96 bp):
AATGCCGATGCCATATCCCAGACATGGTCTTACACTGACACATCTATTAAGTCGATGACATGTCC
CAGACATGGTCTTACACTAACTCTACATATC
Found at i:95673572 original size:94 final size:93
Alignment explanation
Indices: 95673318--95673591 Score: 274
Period size: 94 Copynumber: 2.9 Consensus size: 93
95673308 CACAGGGTAT
* *
95673318 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCTATTAA-GT-CGATGCCATGT
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATC-A-TAATGTGCGATG-CATGT
*
95673381 CCCATACATGGTCTTACACTAACTCTCACATATC
63 CCCA-ACAT-GTCTTACACTAGCTCT-ACATATC
** * * * * * *
95673415 CGTGCCAAAGCCATATCCCAGACATGGTCTTACATTGACACATC-T--TGTAGCAGATACATGTC
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATCATAATGT-GC-GATGCATGTC
*
95673477 CCAGACATGTCTTACACTAGCTCT-CATCTC
64 CCA-ACATGTCTTACACTAGCTCTACATATC
*
95673507 AATGCGGATGCCATATCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCTGATGCATGTC
1 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATCATAATGT-GC-GATGCATGTC
95673571 CCTAACATGTCTTACACTAGC
64 CC-AACATGTCTTACACTAGC
95673592 ACACAATTAA
Statistics
Matches: 145, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
91 2 0.01
92 39 0.27
93 2 0.01
94 49 0.34
95 15 0.10
96 3 0.02
97 35 0.24
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (93 bp):
AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATCATAATGTGCGATGCATGTCCC
AACATGTCTTACACTAGCTCTACATATC
Found at i:95676154 original size:8 final size:8
Alignment explanation
Indices: 95676141--95676165 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
95676131 TTATCAGCTC
95676141 TTATTATT
1 TTATTATT
95676149 TTATTATT
1 TTATTATT
95676157 TTATTATT
1 TTATTATT
95676165 T
1 T
95676166 CAAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:95676819 original size:13 final size:14
Alignment explanation
Indices: 95676803--95676835 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
95676793 ATATGATTTT
95676803 TATTTTA-AAAATC
1 TATTTTATAAAATC
95676816 TATTTTATAAAATC
1 TATTTTATAAAATC
95676830 TATTTT
1 TATTTT
95676836 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTATAAAATC
Found at i:95676924 original size:16 final size:17
Alignment explanation
Indices: 95676903--95676934 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
95676893 TCTACATAGA
95676903 TTTTTAATTTT-AATAT
1 TTTTTAATTTTGAATAT
95676919 TTTTTAATTTTGAATA
1 TTTTTAATTTTGAATA
95676935 AAACATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTAATTTTGAATAT
Found at i:95685920 original size:15 final size:15
Alignment explanation
Indices: 95685900--95685937 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
95685890 CTCCATCACC
95685900 TCATATCATTTTATA
1 TCATATCATTTTATA
95685915 TCATATCATTTTATA
1 TCATATCATTTTATA
95685930 TCATATCA
1 TCATATCA
95685938 GAAGCAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (15 bp):
TCATATCATTTTATA
Found at i:95689180 original size:19 final size:19
Alignment explanation
Indices: 95689156--95689192 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95689146 TAATTAGGCT
*
95689156 TTAATTAAGTGAAATTAGC
1 TTAATTAAGAGAAATTAGC
95689175 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
95689193 GAAAAAGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:95689528 original size:7 final size:7
Alignment explanation
Indices: 95689516--95689540 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
95689506 AGTAAATATA
95689516 TATTTAT
1 TATTTAT
95689523 TATTTAT
1 TATTTAT
95689530 TATTTAT
1 TATTTAT
95689537 TATT
1 TATT
95689541 ACTAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:95689866 original size:14 final size:15
Alignment explanation
Indices: 95689849--95689877 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95689839 GAAATGAAAT
95689849 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
95689863 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
95689878 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:95690760 original size:13 final size:14
Alignment explanation
Indices: 95690739--95690778 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
95690729 ATTCGATTGG
95690739 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
95690752 AATATGAATTAAAT
1 AAAATGAATTAAAT
95690766 AAAAGTGAATTAA
1 AAAA-TGAATTAA
95690779 TTTATCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:95692416 original size:26 final size:26
Alignment explanation
Indices: 95692387--95692494 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
95692377 TGGTACAAAT
*
95692387 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
95692413 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
95692439 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
95692465 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
95692491 TGAT
1 TGAT
95692495 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:95700015 original size:43 final size:43
Alignment explanation
Indices: 95699949--95700146 Score: 279
Period size: 43 Copynumber: 4.6 Consensus size: 43
95699939 CATAGGATTT
* *
95699949 TCGAAATGTGATTACATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
* *
95699992 TCGATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
95700035 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
* * * * * *
95700078 TCGATATGTGATTATGTGTAAGATCGCGTCTGGAATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
* * *
95700121 TCGATATGCGATTACGAGTAATACCA
1 TCGATATGTGATTACGTGTAAGACCA
95700147 TGTTTAATAC
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 137 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCA
Found at i:95700099 original size:86 final size:86
Alignment explanation
Indices: 95699949--95700146 Score: 315
Period size: 86 Copynumber: 2.3 Consensus size: 86
95699939 CATAGGATTT
* *
95699949 TCGAAATGTGATTACATGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTATGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTATGTGTAAG
*
95700014 ACCACGTCTGGGACGTTGGCA
66 ACCACGTCTGGAACGTTGGCA
95700035 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTATGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTATGTGTAAG
* * *
95700100 ATCGCGTCTGGAATGTTGGCA
66 ACCACGTCTGGAACGTTGGCA
* * *
95700121 TCGATATGCGATTACGAGTAATACCA
1 TCGATATGTGATTACGTGTAAGACCA
95700147 TGTTTAATAC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 103 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (86 bp):
TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTATGTGTAAG
ACCACGTCTGGAACGTTGGCA
Found at i:95700159 original size:86 final size:86
Alignment explanation
Indices: 95699949--95700176 Score: 278
Period size: 86 Copynumber: 2.7 Consensus size: 86
95699939 CATAGGATTT
* * **
95699949 TCGAAATGTGATTAC-ATGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTATGTGTAA
1 TCGATATGCGATTACGA-GTAAGACCACATCTAAGACGTTGGCATCGATATGTGATTATGTGTAA
*
95700013 GACCACGTCTGGGACGTTGGCA
65 GACCACGTCTGGAACGTTGGCA
* * **
95700035 TCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATGTGATTATGTGTAAG
1 TCGATATGCGATTACGAGTAAGACCACATCTAAGACGTTGGCATCGATATGTGATTATGTGTAAG
* * *
95700100 ATCGCGTCTGGAATGTTGGCA
66 ACCACGTCTGGAACGTTGGCA
* ** * * *
95700121 TCGATATGCGATTACGAGTAATACCATGTTTAATACGTTGGCATCAATATGTGATT
1 TCGATATGCGATTACGAGTAAGACCACATCTAAGACGTTGGCATCGATATGTGATT
95700177 TCGATATGTG
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
86 125 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (86 bp):
TCGATATGCGATTACGAGTAAGACCACATCTAAGACGTTGGCATCGATATGTGATTATGTGTAAG
ACCACGTCTGGAACGTTGGCA
Found at i:95700208 original size:56 final size:56
Alignment explanation
Indices: 95700135--95700285 Score: 232
Period size: 56 Copynumber: 2.7 Consensus size: 56
95700125 TATGCGATTA
* * *
95700135 CGAGTAATACCATGTTTAATACGTTGGCATCAATATGTGATT-TCGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCT-GATATGTGTGTG
*
95700191 CGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCTGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTG
* *
95700247 CAAGTAAGACCACGTTTAATACGTTGGCATTGATATGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTG
95700286 TGTGTGAGTA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
56 86 0.99
57 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTG
Found at i:95700282 original size:43 final size:43
Alignment explanation
Indices: 95700234--95700324 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
95700224 TAGGTGATTC
*
95700234 TGATATGTGTGTGCAAGTAAGACCACGTTTAATACGTTGGCAT
1 TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
** * *
95700277 TGATATGTGTGTGTGAGTAAGACCATGCTTAATATGTTGGCAT
1 TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
*
95700320 CGATA
1 TGATA
95700325 GGTGATTCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATATGTGTGTGCAAGTAAGACCACGCTTAATACGTTGGCAT
Found at i:95700381 original size:99 final size:99
Alignment explanation
Indices: 95700177--95700383 Score: 245
Period size: 99 Copynumber: 2.1 Consensus size: 99
95700167 ATATGTGATT
*
95700177 TCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
1 TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
* * * * * * *
95700242 GTGTGCAAGTAAGACCACGTTTAATACGTTGGCA
66 GTGTACAAGAAAAACCACGTCTAAGACCTTGACA
* * * *
95700276 TTGATATGTGTGTGTGAGTAAGACCATGCTTAATATGTTGGCATCGATAGGTGATTCTGATATGT
1 TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
* * * **
95700341 TTTTACGAGAAAAACC-CTGTCTGGGACCTTGACA
66 GTGTACAAGAAAAACCAC-GTCTAAGACCTTGACA
95700375 TCGATATGT
1 TCGATATGT
95700384 AATTACATGT
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
98 1 0.01
99 88 0.99
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (99 bp):
TCGATATGTGTGTGCGAGTAAGACCACGCTTAATACGTTGGCATCGATAGGTGATTCTGATATGT
GTGTACAAGAAAAACCACGTCTAAGACCTTGACA
Found at i:95702387 original size:25 final size:25
Alignment explanation
Indices: 95702328--95702421 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
95702318 CTCTTTTAAT
* * *
95702328 AACTAGGGCAAAACCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
95702352 AGCTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
95702377 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
95702402 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
95702422 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 17 0.27
25 46 0.73
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:95703165 original size:27 final size:27
Alignment explanation
Indices: 95703103--95703204 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 27
95703093 GGGCATATTC
*
95703103 GTCATTTTACCATACAGGGGTATTATG
1 GTCATTTTACCATACAGGGGTATTATA
* *
95703130 GTCACTTTACCCTACAGGGGCT-TTATA
1 GTCATTTTACCATACAGGGG-TATTATA
* *
95703157 GTCTTTTTACCTAATA-A-GGGTATTTTA
1 GTCATTTTACC--ATACAGGGGTATTATA
* * *
95703184 GTCATTTCACCCTACAAGGGT
1 GTCATTTTACCATACAGGGGT
95703205 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
25 2 0.03
26 2 0.03
27 51 0.86
28 2 0.03
29 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTATA
Found at i:95703241 original size:27 final size:27
Alignment explanation
Indices: 95703211--95703263 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
95703201 GGGTGTTTTG
95703211 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * * *
95703238 GTAATTTTATAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
95703264 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:95703269 original size:27 final size:27
Alignment explanation
Indices: 95703221--95703306 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
95703211 GTAAATCTAC
95703221 AAACCAAGGGTATTTC-AGTAATTTTAT
1 AAACCAAGGGTATTTCTA-TAATTTTAT
* *
95703248 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCTATAA-TTTTAT
* *
95703276 AAAGTCAAGGGTATTTCTATAATTTTGT
1 AAA-CCAAGGGTATTTCTATAATTTTAT
95703304 AAA
1 AAA
95703307 TTAGGGGTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 18 0.36
28 16 0.32
29 16 0.32
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTAT
Found at i:95703291 original size:29 final size:28
Alignment explanation
Indices: 95703221--95703301 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
95703211 GTAAATCTAC
*
95703221 AAACCAAGGGTATTTC-AGTAA-TTTTAT
1 AAACCAAGGGTATTTCTA-TAATTTTTAG
*
95703248 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCTATAATTTTTAG
*
95703276 AAAGTCAAGGGTATTTCTATAATTTT
1 AAA-CCAAGGGTATTTCTATAATTTT
95703302 GTAAATTAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.38
28 9 0.19
29 20 0.43
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTATAATTTTTAG
Found at i:95711211 original size:7 final size:7
Alignment explanation
Indices: 95711199--95711229 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
95711189 CGTGCATTTG
95711199 CTCTGAC
1 CTCTGAC
95711206 CTCTGAC
1 CTCTGAC
95711213 CTCTGAC
1 CTCTGAC
95711220 CTCTGAC
1 CTCTGAC
95711227 CTC
1 CTC
95711230 ATAGTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.45, G:0.13, T:0.29
Consensus pattern (7 bp):
CTCTGAC
Found at i:95720049 original size:27 final size:27
Alignment explanation
Indices: 95720019--95720196 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
95720009 ATATTGAGTC
* * * *
95720019 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
95720046 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
95720073 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
95720101 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
95720128 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
95720155 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
95720182 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95720197 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:95720158 original size:82 final size:81
Alignment explanation
Indices: 95720040--95720195 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
95720030 TGCTATATAA
* *
95720040 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
95720105 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
95720122 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
95720186 CACTTAGTGC
65 CACTTAGTGC
95720196 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:95728239 original size:27 final size:27
Alignment explanation
Indices: 95728209--95728386 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
95728199 ATATTGAGTC
* * * *
95728209 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
95728236 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
95728263 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
95728291 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
95728318 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
95728345 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
95728372 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95728387 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:95728348 original size:82 final size:81
Alignment explanation
Indices: 95728230--95728385 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
95728220 TGCTATATAA
* *
95728230 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
95728295 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
95728312 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
95728376 CACTTAGTGC
65 CACTTAGTGC
95728386 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:95752095 original size:48 final size:48
Alignment explanation
Indices: 95752039--95752134 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
95752029 CTTGGAGGAG
* *
95752039 TTAGTTTGTTAAAGAAGTTGTTAAGTTGTTGAGTCAGTTATTGAAGCT
1 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
95752087 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
1 TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
95752135 CTTTGCTTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.28, C:0.05, G:0.24, T:0.43
Consensus pattern (48 bp):
TTAGTTTGTTAAAGAAGTTGTTAAGCTGTTGAGTCAATTATTGAAGCT
Found at i:95753256 original size:26 final size:26
Alignment explanation
Indices: 95753220--95753272 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
95753210 CAATGCTAAG
95753220 TTCTCCTTGAAAGATCTTGGTTGTCT
1 TTCTCCTTGAAAGATCTTGGTTGTCT
95753246 TTCTCCTTGAAAGATCTTGGTTGTCT
1 TTCTCCTTGAAAGATCTTGGTTGTCT
95753272 T
1 T
95753273 GCATACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (26 bp):
TTCTCCTTGAAAGATCTTGGTTGTCT
Found at i:95756127 original size:68 final size:68
Alignment explanation
Indices: 95756052--95756185 Score: 187
Period size: 68 Copynumber: 2.0 Consensus size: 68
95756042 TAGACATGGG
* * * ** *
95756052 GTTGTATTATGTAAGACCACAGCTTGGTTATGGTAGCATATGGAGTCCGCTGGGACAGTAAACAC
1 GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
95756117 GGA
66 GGA
* * *
95756120 GTTGTATTGTGTAAAACCATATCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
1 GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
95756185 G
66 G
95756186 AGGTAGTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (68 bp):
GTTGTATTATGTAAAACCACAGCTTAGCTATGGTAGCATATAAAGTCCACTGGGACAGTAAACAC
GGA
Found at i:95774151 original size:30 final size:30
Alignment explanation
Indices: 95774095--95774151 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
95774085 ATGCAGGGAG
*
95774095 TAAAACAGTCACTTAATTTTTAAAAAATAA
1 TAAAACAGTCACTTAATTTATAAAAAATAA
* *
95774125 TAAATCAGTCAC-TAATGTTATCAAAAA
1 TAAAACAGTCACTTAAT-TTATAAAAAA
95774152 GTGACAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (30 bp):
TAAAACAGTCACTTAATTTATAAAAAATAA
Found at i:95775655 original size:3 final size:3
Alignment explanation
Indices: 95775649--95775705 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
95775639 GTTGCTGCTG
* *
95775649 TTC TTC TTA TT- TTC TT- TTC ATTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
*
95775693 -TC TAC TTC TTC TT
1 TTC TTC TTC TTC TT
95775706 TTTATTTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:95775674 original size:20 final size:19
Alignment explanation
Indices: 95775649--95775707 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
95775639 GTTGCTGCTG
95775649 TTCTTCTTATTTTCTTTTC
1 TTCTTCTTATTTTCTTTTC
* *
95775668 ATTCTTCTTCTTTT-TCTTC
1 -TTCTTCTTATTTTCTTTTC
95775687 TTCTTCTCTACTTCTTCTTTT
1 TTCTTCT-TA-TT-TTCTTTT
95775708 TATTTTACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 7 0.23
19 5 0.16
20 14 0.45
21 2 0.06
22 3 0.10
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTCTTATTTTCTTTTC
Found at i:95778157 original size:30 final size:30
Alignment explanation
Indices: 95778121--95778180 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
95778111 GAGGTAAAAG
95778121 TTTGTTCATCATTCTTATTCTTTCCAATTC
1 TTTGTTCATCATTCTTATTCTTTCCAATTC
*
95778151 TTTGTTCATCATTTTTATTCTTTCCAATTC
1 TTTGTTCATCATTCTTATTCTTTCCAATTC
95778181 ACTCAAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.22, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTGTTCATCATTCTTATTCTTTCCAATTC
Found at i:95779365 original size:9 final size:9
Alignment explanation
Indices: 95779351--95779392 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
95779341 CATGCAAATT
95779351 AGAAAAGAA
1 AGAAAAGAA
95779360 AGAAAAAGAA
1 AG-AAAAGAA
95779370 A-ACAAAGAA
1 AGA-AAAGAA
*
95779379 AGAAAAGAG
1 AGAAAAGAA
95779388 AGAAA
1 AGAAA
95779393 GGGGTTCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.66
10 9 0.31
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:95780543 original size:18 final size:18
Alignment explanation
Indices: 95780520--95780592 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 18
95780510 TGAAATGGCC
95780520 AAGATGAGAAATGAATAT
1 AAGATGAGAAATGAATAT
95780538 AAGATGAGAAATATTGAAT-T
1 AAGATGAG-AA-A-TGAATAT
95780558 GGCAAAGATGAGAAATGAATAT
1 ----AAGATGAGAAATGAATAT
95780580 AAGATGAGAAATG
1 AAGATGAGAAATG
95780593 TGATATGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
18 21 0.45
19 2 0.04
20 2 0.04
21 10 0.21
22 2 0.04
23 2 0.04
24 8 0.17
ACGTcount: A:0.52, C:0.01, G:0.25, T:0.22
Consensus pattern (18 bp):
AAGATGAGAAATGAATAT
Found at i:95780566 original size:42 final size:42
Alignment explanation
Indices: 95780506--95780591 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
95780496 TATGTGATTG
*
95780506 ATATTGAAATGGCCAAGATGAGAAATGAATATAAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
*
95780548 ATATTGAATTGGCAAAGATGAGAAATGAATATAAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
95780590 AT
1 AT
95780592 GTGATATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATAAGATGAGAA
Found at i:95780576 original size:21 final size:21
Alignment explanation
Indices: 95780510--95780577 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
95780500 TGATTGATAT
* *
95780510 TGAAATGGCCAAGATGAGAAA
1 TGAATTGGCAAAGATGAGAAA
95780531 TGAA-T---ATAAGATGAGAAATA
1 TGAATTGGCA-AAGATGAG-AA-A
95780551 TTGAATTGGCAAAGATGAGAAA
1 -TGAATTGGCAAAGATGAGAAA
95780573 TGAAT
1 TGAAT
95780578 ATAAGATGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
18 8 0.21
19 2 0.05
20 2 0.05
21 13 0.34
22 2 0.05
23 2 0.05
24 8 0.21
25 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.25, T:0.22
Consensus pattern (21 bp):
TGAATTGGCAAAGATGAGAAA
Found at i:95780612 original size:20 final size:19
Alignment explanation
Indices: 95780565--95780622 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
95780555 ATTGGCAAAG
95780565 ATGAGAAATGA-ATAT-AA
1 ATGAGAAATGAGATATGAA
*
95780582 GATGAGAAATGTGATATGAA
1 -ATGAGAAATGAGATATGAA
*
95780602 ATGATGAAATGAGATGTGAA
1 ATGA-GAAATGAGATATGAA
95780622 A
1 A
95780623 CCTGAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.29
19 8 0.24
20 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (19 bp):
ATGAGAAATGAGATATGAA
Found at i:95781109 original size:20 final size:20
Alignment explanation
Indices: 95781090--95781183 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 20
95781080 CTAACGGAAG
*
95781090 CCCATAGGGTTGAACAGAAG
1 CCCATAGGGTTGAACAGAAA
** * *
95781110 CTTATAGGAGCTGAACGGAAA
1 CCCATAGG-GTTGAACAGAAA
* *
95781131 CCCACAGGGTTGAACATAAA
1 CCCATAGGGTTGAACAGAAA
* *
95781151 CTCATATGAGTTGAACAGAAA
1 CCCATA-GGGTTGAACAGAAA
*
95781172 CTCATAAGGGTT
1 CCCAT-AGGGTT
95781184 AAACTAAAGC
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
20 19 0.35
21 35 0.64
22 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (20 bp):
CCCATAGGGTTGAACAGAAA
Found at i:95781166 original size:41 final size:41
Alignment explanation
Indices: 95781082--95781172 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
95781072 CATAAGTGCT
* * * *
95781082 AACGGAAGCCCATAGGGTTGAACAGAAGCTTATAGGAGCTG
1 AACGGAAACCCACAGGGTTGAACAGAAACTCATAGGAGCTG
* * *
95781123 AACGGAAACCCACAGGGTTGAACATAAACTCATATGAGTTG
1 AACGGAAACCCACAGGGTTGAACAGAAACTCATAGGAGCTG
*
95781164 AACAGAAAC
1 AACGGAAAC
95781173 TCATAAGGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (41 bp):
AACGGAAACCCACAGGGTTGAACAGAAACTCATAGGAGCTG
Found at i:95781196 original size:21 final size:21
Alignment explanation
Indices: 95781172--95781236 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
95781162 TGAACAGAAA
95781172 CTCATAAGGGTTAAACTAAAG
1 CTCATAAGGGTTAAACTAAAG
* ** * *
95781193 CTCAAAAAAGCTAAACGAGAA-
1 CTCATAAGGGTTAAACTA-AAG
* *
95781214 CCCATAAGGGTTAAACTGAAG
1 CTCATAAGGGTTAAACTAAAG
95781235 CT
1 CT
95781237 TAAAAGAGCT
Statistics
Matches: 29, Mismatches: 13, Indels: 4
0.63 0.28 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (21 bp):
CTCATAAGGGTTAAACTAAAG
Found at i:95782077 original size:17 final size:17
Alignment explanation
Indices: 95782055--95782089 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
95782045 CACTTGTAGA
95782055 AAAAAATATGAAAAACC
1 AAAAAATATGAAAAACC
95782072 AAAAAATATGAAAAACC
1 AAAAAATATGAAAAACC
95782089 A
1 A
95782090 GCTTATAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.71, C:0.11, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAAAATATGAAAAACC
Found at i:95783674 original size:118 final size:118
Alignment explanation
Indices: 95783522--95783811 Score: 438
Period size: 118 Copynumber: 2.5 Consensus size: 118
95783512 AGTGCTGGCC
* *
95783522 ATTAGTGTCCCAAAGT-AAAAAAAATTACATTGGGACCAAAAAAATGTACTTGGTGCCAACTATT
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
* * * * *
95783586 TACTGGCCAGCATTCAAAATTTTTTTTCTTACTTTGGGATAATGGTGTCGGCT
66 TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACAATAGTATCGACT
* * *
95783639 ATTAGTGTCCCAAGGTAAAAAAAAATTATATTGGGACCCAAAAAATGTACTTGGTGTCAACCATT
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
* *
95783704 TACTGGCTAGCAATCAAAATTTTTTTTCTTACTTTGGGACACTAGTATCGACT
66 TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACAATAGTATCGACT
* **
95783757 ATGAGTGTCCCAAAGTAAAAAAAAATTACATTAAGACCCAAAAAATGTACTTGGT
1 ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGT
95783812 ATGCCGACCA
Statistics
Matches: 155, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
117 15 0.10
118 140 0.90
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (118 bp):
ATTAGTGTCCCAAAGTAAAAAAAAATTACATTGGGACCCAAAAAATGTACTTGGTGCCAACCATT
TACTGGCCAGCAATCAAAATTTTTTTTCTTACTTTGGGACAATAGTATCGACT
Found at i:95788394 original size:15 final size:15
Alignment explanation
Indices: 95788374--95788405 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
95788364 CATGAAAATA
95788374 AAATATTTCCGAACG
1 AAATATTTCCGAACG
95788389 AAATATTTCCGAACG
1 AAATATTTCCGAACG
95788404 AA
1 AA
95788406 CTGTTGGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (15 bp):
AAATATTTCCGAACG
Found at i:95789575 original size:17 final size:16
Alignment explanation
Indices: 95789545--95789579 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
95789535 GTATAATAAA
*
95789545 TTTAATTTTCAAAATT
1 TTTAATTTTAAAAATT
95789561 TTTACATTTTAAAAATT
1 TTTA-ATTTTAAAAATT
95789578 TT
1 TT
95789580 ATTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAATTTTAAAAATT
Found at i:95804020 original size:12 final size:12
Alignment explanation
Indices: 95804003--95804027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95803993 GTAGTGAAAG
95804003 AATTATGGTGTA
1 AATTATGGTGTA
95804015 AATTATGGTGTA
1 AATTATGGTGTA
95804027 A
1 A
95804028 CCAACTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATTATGGTGTA
Found at i:95808274 original size:12 final size:12
Alignment explanation
Indices: 95808257--95808281 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95808247 GTAGTGAAAG
95808257 AATTATGGTGTA
1 AATTATGGTGTA
95808269 AATTATGGTGTA
1 AATTATGGTGTA
95808281 A
1 A
95808282 CCAACTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATTATGGTGTA
Found at i:95811407 original size:21 final size:21
Alignment explanation
Indices: 95811382--95811446 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
95811372 TAGCCTTCGG
95811382 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
95811403 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
95811421 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
95811442 GCTTC
1 GCTTC
95811447 AGTTAGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:95811460 original size:39 final size:39
Alignment explanation
Indices: 95811364--95811452 Score: 178
Period size: 39 Copynumber: 2.3 Consensus size: 39
95811354 GCTCTGATGA
95811364 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
95811403 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
95811442 GCTTCAGTTAG
1 GCTTCAGTTAG
95811453 ATTTCGGGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.13, C:0.25, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:95816489 original size:32 final size:32
Alignment explanation
Indices: 95816448--95816511 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
95816438 GGGATGGGGT
95816448 TGAATGGTTTCATTCTATATGAGTAGAGAACC
1 TGAATGGTTTCATTCTATATGAGTAGAGAACC
95816480 TGAATGGTTTCATTCTATATGAGTAGAGAACC
1 TGAATGGTTTCATTCTATATGAGTAGAGAACC
95816512 AGAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
TGAATGGTTTCATTCTATATGAGTAGAGAACC
Found at i:95817073 original size:70 final size:70
Alignment explanation
Indices: 95816996--95817566 Score: 460
Period size: 70 Copynumber: 8.2 Consensus size: 70
95816986 GTGCTAAGTG
* * * *
95816996 TTTTGGAGACTGCGGTATTGAACCTGCAAGCCTTAAGATACCAACTGGGAGTGTAGGCTCGCACT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
*
95817061 AACTG
66 AACTA
* * * * * * * *
95817066 TTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATACCAGTTGGGAGCATAGGCTTGCACT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
95817131 AACTA
66 AACTA
* * * * * *
95817136 TTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATAAGCTCGCGCT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
95817201 AACTA
66 AACTA
* * * * * * * ** * * **
95817206 TTTTGTAGGTTGCGGTATTGAACTTGTGTGCCTTAGGATATCAATTGGGAACGTAGCCTCGTGCT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
95817271 AACTA
66 AACTA
* * * * * *
95817276 TTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATACCAGCTGAGAGCGTAAGCTCGCACT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
*
95817341 AACTG
66 AACTA
** * ** ****
95817346 TTTTGGAGGCTGCGGTATTGAACCTATGAGCCTTAAGATATCAGCTGGGAGCGTAAACTCATGTT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
*
95817411 AACAA
66 AACTA
* * * * * * * * * * **
95817416 TTTTGGAGGCTACGGTATTAAACATGCTAGCCTTAGGATATCAGCTAGGAGCATAGGTTGGCGTT
1 TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
95817481 AACTA
66 AACTA
* * * * * * * * * * * *
95817486 TTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTAGGATATCAACTAGGAGAGTAGGTTCACGC
1 TTTTGGAGGCTGCG-GTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCAC
*
95817550 TAACTG
65 TAACTA
95817556 TTTTGGAGGCT
1 TTTTGGAGGCT
95817567 ATGTGTAACA
Statistics
Matches: 403, Mismatches: 97, Indels: 2
0.80 0.19 0.00
Matches are distributed among these distances:
69 1 0.00
70 402 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (70 bp):
TTTTGGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATACCAGCTGGGAGCGTAGGCTCGCACT
AACTA
Found at i:95817434 original size:210 final size:209
Alignment explanation
Indices: 95816996--95817520 Score: 530
Period size: 210 Copynumber: 2.5 Consensus size: 209
95816986 GTGCTAAGTG
* * * * * ** *
95816996 TTTTGGAGACTGCGGTATTGAACCTGCAAGCCTTAAGATACCAACTGGGAGTGTAGGCTCGCACT
1 TTTTGGAGGCTGCGGTATTGAACATG-TAGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACT
* * * * * * *
95817061 AACTGTTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATACCAGTTGGGAGCATAGGCTT
65 AACTATTTTAGAGGCTGTGATATTGAACCTGCAAGCCTTAAAATACCAGCTGAGAGCATAAGCTC
95817126 GCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
130 GCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
* * *
95817191 AGCTCGCGCTAACTA
195 AACTCACGCTAACAA
* * * * * **
95817206 TTTTGTAGGTTGCGGTATTGAACTTGTGTGCCTTAGGATATCAATTGGGAACGTAGCCTCGTGCT
1 TTTTGGAGGCTGCGGTATTGAACATGT-AGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACT
* * * ** *
95817271 AACTATTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATACCAGCTGAGAGCGTAAGCTC
65 AACTATTTTAGAGGCTGTGATATTGAACCTGCAAGCCTTAAAATACCAGCTGAGAGCATAAGCTC
* * * * * *
95817336 GCACTAACTGTTTTGGAGGCTGCGGTATTGAACCTATGAGCCTTAAGATATCAGCTGGGAGCGTA
130 GCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATA
* *
95817401 AACTCATGTTAACAA
195 AACTCACGCTAACAA
* * * * * * ** * **
95817416 TTTTGGAGGCTACGGTATTAAACATGCTAGCCTTAGGATATCAGCTAGGAGCATAGGTTGGCGTT
1 TTTTGGAGGCTGCGGTATTGAACATG-TAGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACT
* * *
95817481 AACTATTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTA
65 AACTATTTTAGAGGCTGTG-ATATTGAACCTGCAAGCCTTA
95817521 GGATATCAAC
Statistics
Matches: 254, Mismatches: 58, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
209 1 0.00
210 252 0.99
211 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (209 bp):
TTTTGGAGGCTGCGGTATTGAACATGTAGCCTTAGGATATCAACTGGGAACGTAGCCTCGCACTA
ACTATTTTAGAGGCTGTGATATTGAACCTGCAAGCCTTAAAATACCAGCTGAGAGCATAAGCTCG
CACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTGGGAGCATAA
ACTCACGCTAACAA
Found at i:95817523 original size:210 final size:210
Alignment explanation
Indices: 95817053--95817566 Score: 539
Period size: 210 Copynumber: 2.4 Consensus size: 210
95817043 GGAGTGTAGG
* * * * * ** * *
95817053 CTCGCACTAACTGTTTTGGAGGTTGTGATATTGAACCTGCAAGCCTTAAAATACCAGTTGGGAGC
1 CTCGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAGGATACCAGCTGAGAGC
* * * *
95817118 ATAGGCTTGCACTAACTATTTTGAAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
66 GTAGGCTCGCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
* * * * * * * * *
95817183 GGAGCATAAGCTCGCGCTAACTATTTTGTAGGTTGCGGTATTGAACTTGTGTGCCTTAGGATATC
131 GGAGCATAAACTCACGCTAACAATTTTGGAGGCTACGGTATTAAACATGTGAGCCTTAGGATATC
* * *
95817248 AATTGGGAACGTAGC
196 AACTAGGAACATAGC
* * *
95817263 CTCGTGCTAACTATTTTAGAGGCTGTGGTATTGAACTTGCGAGCCTTAGGATACCAGCTGAGAGC
1 CTCGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAGGATACCAGCTGAGAGC
* * * *
95817328 GTAAGCTCGCACTAACTGTTTTGGAGGCTGCGGTATTGAACCTATGAGCCTTAAGATATCAGCTG
66 GTAGGCTCGCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
* * *
95817393 GGAGCGTAAACTCATGTTAACAATTTTGGAGGCTACGGTATTAAACATGCT-AGCCTTAGGATAT
131 GGAGCATAAACTCACGCTAACAATTTTGGAGGCTACGGTATTAAACATG-TGAGCCTTAGGATAT
* * *
95817457 CAGCTAGGAGCATAGG
195 CAACTAGGAACATAGC
* * * * * * *
95817473 TTGGCGTTAACTATTTTAGAGGCTG-GCGTATTAAACCTGCAAGGCTTAGGATATCAACT-AGGA
1 CTCGCGCTAACTATTTTAGAGGCTGTG-GTATTGAACCTGCAAGCCTTAGGATACCAGCTGA-GA
* * * *
95817536 GAGTAGGTTCACGCTAACTGTTTTGGAGGCT
64 GCGTAGGCTCGCACTAACTGTTTTGGAGGCT
95817567 ATGTGTAACA
Statistics
Matches: 248, Mismatches: 53, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
209 2 0.01
210 245 0.99
211 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (210 bp):
CTCGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTGCAAGCCTTAGGATACCAGCTGAGAGC
GTAGGCTCGCACTAACTGTTTTGGAGGCTGCGATATTGAACCTACGAGCCTTAAGATACCAGCTG
GGAGCATAAACTCACGCTAACAATTTTGGAGGCTACGGTATTAAACATGTGAGCCTTAGGATATC
AACTAGGAACATAGC
Found at i:95818895 original size:40 final size:40
Alignment explanation
Indices: 95818853--95818987 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 40
95818843 GTACAATTAG
* * *
95818853 GGGTATCGAAGTACAAACAACGGCACGTATGTGTAATCAG
1 GGGTATCAAAGTACAAACAACGGCACGTATGTGCAATCAA
* * * * * *
95818893 GGGTACCGAAGTACAAATAAGGGTACGTATATGCAATCAA
1 GGGTATCAAAGTACAAACAACGGCACGTATGTGCAATCAA
** *
95818933 GGGTA-CTAAAGTACAAACAGTGACACGTATGTGCAATCAA
1 GGGTATC-AAAGTACAAACAACGGCACGTATGTGCAATCAA
*
95818973 GGCTATCAAAGTACA
1 GGGTATCAAAGTACA
95818988 GTAATTTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 76 0.97
41 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (40 bp):
GGGTATCAAAGTACAAACAACGGCACGTATGTGCAATCAA
Found at i:95820250 original size:70 final size:70
Alignment explanation
Indices: 95820106--95820356 Score: 182
Period size: 70 Copynumber: 3.6 Consensus size: 70
95820096 TTGCACTATA
* * * * * * * * **
95820106 GTATTGAACTTGCGAGCCTTAGGATATCAGTTAGGAGCGTAGGCTCACGCTAACTATTTTTTTA-
1 GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATAGGCTCACACTAACTA-TTTTAGAG
* **
95820170 GATGCA
65 GTTGTG
* * * * * *
95820176 GTATTGAACTTGCGAG-CTTCAAGATAGCGGTTGGGAGCATAGGCTCGCACTAATTATTTTAGAG
1 GTATTGAACCTACGAGCCTT-AAGATAGCAGCTGGGAGCATAGGCTCACACTAACTATTTTAGAG
95820240 GTTGTG
65 GTTGTG
* ** * *
95820246 GTATTGAACCTACGAGCCTTAGGATATTAGCTGGGAGCGTAGGTTCACACTAACTATTTTAGAGG
1 GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATAGGCTCACACTAACTATTTTAGAGG
***
95820311 TTACA
66 TTGTG
* * * * *
95820316 GTATTGAACCTTCAAGCCTTAAGATACCAACTGAGAGCATA
1 GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATA
95820357 AGTTCGTGAG
Statistics
Matches: 143, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
69 8 0.06
70 132 0.92
71 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (70 bp):
GTATTGAACCTACGAGCCTTAAGATAGCAGCTGGGAGCATAGGCTCACACTAACTATTTTAGAGG
TTGTG
Found at i:95821143 original size:19 final size:21
Alignment explanation
Indices: 95821119--95821157 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
95821109 ATCCTATCAT
95821119 GAATTT-TTA-CATGATAATA
1 GAATTTATTAGCATGATAATA
*
95821138 GAATTTATTAGCATGCTAAT
1 GAATTTATTAGCATGATAAT
95821158 CACATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (21 bp):
GAATTTATTAGCATGATAATA
Found at i:95822875 original size:46 final size:44
Alignment explanation
Indices: 95822791--95822958 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 44
95822781 GTAAAGTACT
95822791 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGGCC
* * *
95822837 GATGCATGTCTCAAACATGTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGGCC
* * * * *
95822883 AATACATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-ACTGCC
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGA-GGCC
*
95822929 GATGCCATGTACCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
95822959 ATCTCTCATA
Statistics
Matches: 100, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 12 0.12
45 14 0.14
46 49 0.49
47 14 0.14
48 11 0.11
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGGCC
Found at i:95826277 original size:23 final size:23
Alignment explanation
Indices: 95826251--95826372 Score: 104
Period size: 23 Copynumber: 5.2 Consensus size: 23
95826241 TTTCGAGCCA
*
95826251 TGAT-CGGTAAGCTCCTCTTGAGC
1 TGATACGGTAAGCT-CTATTGAGC
* *
95826274 TGATAACAGTAAGCTCTAATGAGC
1 TGAT-ACGGTAAGCTCTATTGAGC
* *
95826298 TGATATGGTAAGCTCTATCGAGC
1 TGATACGGTAAGCTCTATTGAGC
* *
95826321 TGA-ACCGGTAAGCTCCAATGAGC
1 TGATA-CGGTAAGCTCTATTGAGC
* * *
95826344 TGAAAACAGTAAGCTCTTTTGAGC
1 TG-ATACGGTAAGCTCTATTGAGC
95826368 TGATA
1 TGATA
95826373 TATCGGTAAG
Statistics
Matches: 78, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
22 1 0.01
23 40 0.51
24 28 0.36
25 9 0.12
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (23 bp):
TGATACGGTAAGCTCTATTGAGC
Found at i:95826300 original size:24 final size:24
Alignment explanation
Indices: 95826269--95826372 Score: 106
Period size: 23 Copynumber: 4.4 Consensus size: 24
95826259 AAGCTCCTCT
95826269 TGAGCTGATAACAGTAAGCTCTAA
1 TGAGCTGATAACAGTAAGCTCTAA
**
95826293 TGAGCTGAT-ATGGTAAGCTCT-A
1 TGAGCTGATAACAGTAAGCTCTAA
* * *
95826315 TCGAGCTGA-ACCGGTAAGCTCCAA
1 T-GAGCTGATAACAGTAAGCTCTAA
* **
95826339 TGAGCTGAAAACAGTAAGCTCTTT
1 TGAGCTGATAACAGTAAGCTCTAA
95826363 TGAGCTGATA
1 TGAGCTGATA
95826373 TATCGGTAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
22 2 0.03
23 33 0.51
24 30 0.46
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (24 bp):
TGAGCTGATAACAGTAAGCTCTAA
Found at i:95830901 original size:18 final size:17
Alignment explanation
Indices: 95830869--95830905 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
95830859 TAAAAAATTT
*
95830869 ATTATTGAGTTGGTTAA
1 ATTATTGAATTGGTTAA
95830886 ATTATATGAATTGGTTAA
1 ATTAT-TGAATTGGTTAA
95830904 AT
1 AT
95830906 GTCCAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (17 bp):
ATTATTGAATTGGTTAA
Found at i:95832280 original size:3 final size:3
Alignment explanation
Indices: 95832272--95832312 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
95832262 TTTGATTCAC
* *
95832272 CAT CAT CAT CAC CAT CAT CAT CGT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
95832313 CTTTCTTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (3 bp):
CAT
Found at i:95833907 original size:72 final size:71
Alignment explanation
Indices: 95833733--95834014 Score: 395
Period size: 72 Copynumber: 3.9 Consensus size: 71
95833723 ATAATTTAGT
* * *
95833733 ATAAATAAGTAGAACATAAATTTAATATCCGAAAATCAAACATAAACAATTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCC-AAAACCAAACATAAACAACTATTGATAAAACTAG
*
95833798 CTCTA-AGC
65 AT-TACA-C
* * *
95833806 ATAAATAAGTAGACCATAAATTCAATATCCAAAGACCAAACATAAACAAATATTAATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAA-ACCAAACATAAACAACTATTGATAAAACTAG
95833871 ATTACAC
65 ATTACAC
*
95833878 ATAAATAAGTAGAACATAAATTCAATATCCAACAACCAAACATAAACAACCATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAA-AACCAAACATAAACAACTATTGATAAAACTAG
*
95833943 ATTACAT
65 ATTACAC
* * *
95833950 ATAAATAAGTAGAACGTAAATTCAATATCCAAAAACCAAACATAAATAACTATTGAGAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCC-AAAACCAAACATAAACAACTATTGATAAAACTAG
95834015 TTTAGCATTG
Statistics
Matches: 190, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
72 129 0.68
73 61 0.32
ACGTcount: A:0.54, C:0.16, G:0.07, T:0.23
Consensus pattern (71 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAACCAAACATAAACAACTATTGATAAAACTAGA
TTACAC
Found at i:95834472 original size:18 final size:18
Alignment explanation
Indices: 95834449--95834510 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
95834439 TCAATTTGAA
95834449 CATCATTTGAAATGTGAG
1 CATCATTTGAAATGTGAG
95834467 CATCATTTGAAATGTGAG
1 CATCATTTGAAATGTGAG
* * *
95834485 CATTATTTGAAATGTAAA
1 CATCATTTGAAATGTGAG
95834503 CATCATTT
1 CATCATTT
95834511 CTCACATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (18 bp):
CATCATTTGAAATGTGAG
Found at i:95834805 original size:16 final size:16
Alignment explanation
Indices: 95834784--95834815 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
95834774 AAAAATATTT
95834784 AGAATTATTAATGTAC
1 AGAATTATTAATGTAC
95834800 AGAATTATTAATGTAC
1 AGAATTATTAATGTAC
95834816 CTTTAGCCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
AGAATTATTAATGTAC
Found at i:95836304 original size:41 final size:41
Alignment explanation
Indices: 95836224--95836426 Score: 307
Period size: 41 Copynumber: 4.9 Consensus size: 41
95836214 TTGTAAAACA
* * * *
95836224 CAGAGCAATAGCGGCGTTTTTTGTTAAAATGCCGCTAAAGAC
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAGAC
*
95836266 CAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
*
95836307 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
95836348 TAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
95836389 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
95836427 AGTTATATAA
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 133 0.90
42 15 0.10
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:95837475 original size:18 final size:19
Alignment explanation
Indices: 95837452--95837490 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
95837442 AGATCTTTTT
95837452 TATTTTT-TATCAAAATAA
1 TATTTTTATATCAAAATAA
*
95837470 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAATAA
95837489 TA
1 TA
95837491 AATATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTTATATCAAAATAA
Found at i:95840363 original size:12 final size:13
Alignment explanation
Indices: 95840346--95840374 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95840336 ATCTAAATTC
95840346 AAAAAAGAAAAA-
1 AAAAAAGAAAAAG
95840358 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
95840371 AAAA
1 AAAA
95840375 TGCATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:95841787 original size:43 final size:43
Alignment explanation
Indices: 95841726--95841832 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
95841716 TTTCTGAATT
*
95841726 TCATGA-CTTTTAGCGGCGTTT-TTGAGAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGG
95841769 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
* *
95841812 TCGTGATCTTTAACGGCGTTT
1 TCATGATCTTTAGCGGCGTTT
95841833 ATTTGAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 55 0.93
44 4 0.07
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
Found at i:95844756 original size:7 final size:6
Alignment explanation
Indices: 95844715--95844755 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
95844705 ATAATTTAAT
*
95844715 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
95844756 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:95844756 original size:20 final size:20
Alignment explanation
Indices: 95844718--95844757 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
95844708 ATTTAATAAA
**
95844718 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
95844738 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
95844758 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:95844789 original size:9 final size:9
Alignment explanation
Indices: 95844775--95844842 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
95844765 TTTATACAAA
95844775 TAATTCGGT
1 TAATTCGGT
95844784 TAATTCGGT
1 TAATTCGGT
**
95844793 TAATTCAAT
1 TAATTCGGT
* *
95844802 TAATTTGGG
1 TAATTCGGT
*
95844811 TAATTCGGG
1 TAATTCGGT
95844820 TAATTCGGT
1 TAATTCGGT
95844829 TAATTCGGT
1 TAATTCGGT
95844838 TAATT
1 TAATT
95844843 TTATACTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:95844815 original size:36 final size:36
Alignment explanation
Indices: 95844775--95844843 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
95844765 TTTATACAAA
*
95844775 TAATTCGGTTAATTCGGTTAATTCAATTAATTTGGG
1 TAATTCGGGTAATTCGGTTAATTCAATTAATTTGGG
**
95844811 TAATTCGGGTAATTCGGTTAATTCGGTTAATTT
1 TAATTCGGGTAATTCGGTTAATTCAATTAATTT
95844844 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (36 bp):
TAATTCGGGTAATTCGGTTAATTCAATTAATTTGGG
Found at i:95846112 original size:31 final size:30
Alignment explanation
Indices: 95846065--95846122 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
95846055 GTGGAGGGTT
* *
95846065 TTTTTATTTTATTTAATGTTAATATAATTA
1 TTTTTATTTAATTTAATATTAATATAATTA
95846095 TTTTTATTTAATATTAATATTAATATAA
1 TTTTTATTTAAT-TTAATATTAATATAA
95846123 AAATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTTATTTAATTTAATATTAATATAATTA
Found at i:95855569 original size:91 final size:91
Alignment explanation
Indices: 95855443--95855650 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 91
95855433 TTGATTTTAG
* *
95855443 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
95855508 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
95855535 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
95855600 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
95855626 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
95855651 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 87 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:95855617 original size:47 final size:46
Alignment explanation
Indices: 95855475--95855618 Score: 106
Period size: 47 Copynumber: 3.1 Consensus size: 46
95855465 ATTATTAAGA
*
95855475 ATTTTATGAAATTATATATCATTATTAAATTATATTTAAT-ATTAATT
1 ATTTTATGAAATTATATATTATTATTAAATTATA-TTAATAATT-ATT
* * ** *
95855522 ATTTTA--AATTGTATAAATTCATATAAGAAAATT-TATT-ATCAA-GA--
1 ATTTTATGAAAT-TATATATT-AT-T-ATTAAATTATATTAAT-AATTATT
95855566 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATTATT
1 ATTTTATGAAATTATATATTATTATTAAATTATAT-TAATAATTATT
95855613 ATTTTA
1 ATTTTA
95855619 AATTATACAA
Statistics
Matches: 72, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
42 6 0.08
43 4 0.06
44 11 0.15
45 13 0.18
46 12 0.17
47 16 0.22
48 4 0.06
49 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (46 bp):
ATTTTATGAAATTATATATTATTATTAAATTATATTAATAATTATT
Found at i:95855625 original size:44 final size:43
Alignment explanation
Indices: 95855483--95855625 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 43
95855473 GAATTTTATG
*
95855483 AAATTATATATCATTATTAAATTATATTTAAT-ATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATT-ATTATTTT
* ** ** *
95855527 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATTATTATT-TT
95855574 AAATTATATATTATTATTAAATTATATGTAATAATTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATTATTATTTT
95855618 AAATTATA
1 AAATTATA
95855626 CAAATTCATA
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 20 0.27
45 12 0.16
46 11 0.15
47 11 0.15
48 4 0.05
49 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATTATTATTTT
Found at i:95855692 original size:17 final size:17
Alignment explanation
Indices: 95855667--95855700 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95855657 ATTATTTTAA
*
95855667 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
95855684 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
95855701 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:95855702 original size:15 final size:16
Alignment explanation
Indices: 95855667--95855705 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
95855657 ATTATTTTAA
*
95855667 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
95855684 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
95855699 ATTTAAT
1 ATTTAAT
95855706 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:95855709 original size:17 final size:18
Alignment explanation
Indices: 95855671--95855710 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
95855661 TTTTAAATTT
*
95855671 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
95855689 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
95855705 TATTAA
1 TATTAA
95855711 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:95855819 original size:16 final size:16
Alignment explanation
Indices: 95855798--95855839 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
95855788 TTATTAAATT
*
95855798 ATATATTTTAATTATA
1 ATATATTTTAATAATA
95855814 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
95855829 AT-TATGTTTAA
1 ATATAT-TTTAA
95855840 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:95855824 original size:15 final size:15
Alignment explanation
Indices: 95855789--95855830 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
95855779 TTAAGAATTT
*
95855789 TATTAAATTAT-ATA
1 TATTTAATTATAATA
95855803 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
95855817 TATTTAATAATAAT
1 TATTTAATTATAAT
95855831 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:95855857 original size:154 final size:153
Alignment explanation
Indices: 95855766--95856076 Score: 489
Period size: 154 Copynumber: 2.0 Consensus size: 153
95855756 AAATTCATAT
* *
95855766 AAGAATATTAATT-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAA
1 AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
*
95855830 TTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAAT
66 TTATGTTTAAATATGATTAAATTATTTATTATTGATATTAA-CTTATGAAAATTTAAATAACAAT
95855895 AACAATAATAATTTACCAAAACAA
130 AACAATAATAATTTACCAAAACAA
*** *
95855919 ATTTATGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
1 AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
*
95855984 TTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAAC
66 TTATGTTTAAATATGATTAAATTATTTATTATTGAT-AT--TAA-CTTATGAAAATTTAAATAAC
*
95856049 AATAACAATAATCATTTACCAAAACAA
127 AATAACAATAATAATTTACCAAAACAA
95856076 A
1 A
95856077 TTTCTGCTAA
Statistics
Matches: 147, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
153 8 0.05
154 86 0.59
155 2 0.01
157 51 0.35
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (153 bp):
AAGAATACTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAA
TTATGTTTAAATATGATTAAATTATTTATTATTGATATTAACTTATGAAAATTTAAATAACAATA
ACAATAATAATTTACCAAAACAA
Found at i:95855967 original size:18 final size:17
Alignment explanation
Indices: 95855939--95855973 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
95855929 ATTATTAAGA
*
95855939 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
95855956 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
95855974 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:95856227 original size:16 final size:16
Alignment explanation
Indices: 95856206--95856244 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
95856196 TTGATTTGCT
*
95856206 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
95856222 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
95856238 ATTACAC
1 ATTACAC
95856245 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:95856245 original size:16 final size:16
Alignment explanation
Indices: 95856219--95856275 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
95856209 ACACAGCTTT
* *
95856219 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
95856235 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
95856251 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
95856267 TCCAATACA
1 TCCAATACA
95856276 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:95858230 original size:130 final size:132
Alignment explanation
Indices: 95858061--95858331 Score: 352
Period size: 130 Copynumber: 2.1 Consensus size: 132
95858051 AAAATTCTTC
** * * * *
95858061 AAAACGAAGACGATATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGATATGCGATATTTGGCAATTCACGGAATCGTGCCCCAACGTGTTGGGTAGCAA
* * ** *
95858126 TTTCGCATTTGCTCAAAATAATCGAATA-CCACTTCAAAATTTCACTCATGTCTT-TTAAAATCC
66 TTTCCCATTTGCTCAAAATAATCAAATATCC-CTTCAAAATTTCACTCAAATCTTCTGAAAATCC
95858189 -CT
130 TCT
*
95858191 AAAACGAATG-CGATATGCGATATTTGGCAATTCATGGAATCGTGCCCCAACGTGTTGGGTAGCA
1 AAAACGAA-GACGATATGCGATATTTGGCAATTCACGGAATCGTGCCCCAACGTGTTGGGTAGCA
* * *
95858255 ATTTCCCATTTGTTTAAAATAATCAAATATCCCTTCAAAATTTTACTCAAATCTTCTGAAAATCC
65 ATTTCCCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAAATCTTCTGAAAATCC
*
95858320 TTT
130 TCT
95858323 AAAACGAAG
1 AAAACGAAG
95858332 GTAATACTCG
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
130 100 0.83
131 12 0.10
132 9 0.07
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (132 bp):
AAAACGAAGACGATATGCGATATTTGGCAATTCACGGAATCGTGCCCCAACGTGTTGGGTAGCAA
TTTCCCATTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAAATCTTCTGAAAATCCT
CT
Found at i:95870294 original size:44 final size:43
Alignment explanation
Indices: 95870245--95870388 Score: 103
Period size: 44 Copynumber: 3.3 Consensus size: 43
95870235 ACCATCCTAG
95870245 CTCCCTAAAGTTGTAATGGACTAGGCTGACATTTTACATCTTAT
1 CTCCCTAAAGTTGTAATGGACTAGGCTGA-ATTTTACATCTTAT
* * * * ** * *** * *
95870289 CTCCCTGAAGTTGCAGTGAAGC-AGATTTAA-GCCACCATCCTAG
1 CTCCCTAAAGTTGTAATGGA-CTAGGCTGAATTTTA-CATCTTAT
* *
95870332 CTCCCTAAAGTTGTAATGGAGTAGGCTGAAATTTTAAATCTTAT
1 CTCCCTAAAGTTGTAATGGACTAGGCTG-AATTTTACATCTTAT
*
95870376 CTCCCTGAAGTTG
1 CTCCCTAAAGTTG
95870389 CAGTGAAGCA
Statistics
Matches: 68, Mismatches: 27, Indels: 10
0.65 0.26 0.10
Matches are distributed among these distances:
42 1 0.01
43 26 0.38
44 39 0.57
45 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
CTCCCTAAAGTTGTAATGGACTAGGCTGAATTTTACATCTTAT
Found at i:95870305 original size:87 final size:87
Alignment explanation
Indices: 95870207--95870401 Score: 363
Period size: 87 Copynumber: 2.2 Consensus size: 87
95870197 CTTGGCTTCT
95870207 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGACTAGGCT
1 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGACTAGGCT
* *
95870272 GACATTTTACATCTTATCTCCC
66 GAAATTTTAAATCTTATCTCCC
*
95870294 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCT
1 TGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGACTAGGCT
95870359 GAAATTTTAAATCTTATCTCCC
66 GAAATTTTAAATCTTATCTCCC
95870381 TGAAGTTGCAGTGAAGCAGAT
1 TGAAGTTGCAGTGAAGCAGAT
95870402 CGAAGACGAT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 105 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (87 bp):
TGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGACTAGGCT
GAAATTTTAAATCTTATCTCCC
Found at i:95870435 original size:132 final size:134
Alignment explanation
Indices: 95870295--95870624 Score: 508
Period size: 132 Copynumber: 2.5 Consensus size: 134
95870285 TTATCTCCCT
* *
95870295 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
1 GAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTG
* * *
95870360 AAATTTTAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGAC-GATGAATCTTGGCTT
66 AAATTTTAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACAG-TGAATCTAGGCTT
95870424 CCT-A
130 CCTGA
*
95870428 -AAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGCGGAGTAGGCTG
1 GAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTG
* * * * *
95870492 AAATTTTAGATCTCGTTTCCCTGAAGTTGCAGTGGAGTAGATCAAAGACAGTGAATCTAGGCTTC
66 AAATTTTAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACAGTGAATCTAGGCTTC
95870557 CTGA
131 CTGA
*
95870561 GAA--TGCAGCGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTG
1 GAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTG
95870624 A
66 A
95870625 CGATTGCAGA
Statistics
Matches: 181, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
132 177 0.98
133 2 0.01
134 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (134 bp):
GAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTG
AAATTTTAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAGATCAAAGACAGTGAATCTAGGCTTC
CTGA
Found at i:95879451 original size:18 final size:18
Alignment explanation
Indices: 95879428--95879464 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
95879418 AAATAAATCC
95879428 ATACACTGTTTCATTTGA
1 ATACACTGTTTCATTTGA
95879446 ATACACTGTTTCATTTGA
1 ATACACTGTTTCATTTGA
95879464 A
1 A
95879465 CATTACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (18 bp):
ATACACTGTTTCATTTGA
Found at i:95880948 original size:11 final size:11
Alignment explanation
Indices: 95880932--95880959 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
95880922 TTGTAAAGTA
95880932 AATTAGGATTG
1 AATTAGGATTG
95880943 AATTAGGATTG
1 AATTAGGATTG
95880954 AATTAG
1 AATTAG
95880960 ATGCTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (11 bp):
AATTAGGATTG
Found at i:95881492 original size:76 final size:76
Alignment explanation
Indices: 95881366--95881528 Score: 256
Period size: 76 Copynumber: 2.1 Consensus size: 76
95881356 GCAGTTATAT
* * * * *
95881366 ATGTGTGCTAGTGTAATACCATAGCTAAGCTATGGCAATGTGATAAAGTGTGTGATCATGGA-AA
1 ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCAT-GACAA
*
95881430 AGCCATGGTAGA
65 AGCCATGGTAAA
95881442 ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
1 ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
95881507 GCCATGGTAAA
66 GCCATGGTAAA
95881518 ATGTGTGCAAG
1 ATGTGTGCAAG
95881529 ACCAAAGCGG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 2 0.03
76 78 0.98
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.25
Consensus pattern (76 bp):
ATGTGTGCAAGTGTAAGACCACAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
GCCATGGTAAA
Found at i:95881970 original size:40 final size:38
Alignment explanation
Indices: 95881885--95882024 Score: 133
Period size: 40 Copynumber: 3.6 Consensus size: 38
95881875 CCTTTGGTGG
95881885 CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGA
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGA
* *
95881923 CTATTAGCGGCACTTTTTTAAAAACGCCGCTATATG-TAC-A
1 CT-TTAGCGGCGC-TTTTTAAAAACGCCGCTA-AAGAT-CGA
* * * *
95881963 CCTTTAGCGGTGCTTTTTAGAAAACGCCGCTAATGCTTGA
1 -CTTTAGCGGCGCTTTTTA-AAAACGCCGCTAAAGATCGA
*
95882003 TCTTTAGCGGCG-TTTTAAAAAA
1 -CTTTAGCGGCGCTTTTTAAAAA
95882025 AACGCTGCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
38 6 0.07
39 23 0.27
40 52 0.60
41 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (38 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGA
Found at i:95882093 original size:194 final size:193
Alignment explanation
Indices: 95881708--95882175 Score: 604
Period size: 194 Copynumber: 2.4 Consensus size: 193
95881698 CGTTTGAATA
* *
95881708 AAAAACGCCACTAAAGAAT-GAGC-ATTAGCGGCGC-TTTTTAGAAAACGACGCTATACGTACAC
1 AAAAACGCCGCTAAAG-ATCGA-CTATTAGCGGCACTTTTTTA-AAAACGACGCTATA-GTACAC
**
95881770 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTTCAAAAAACG
62 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTAAAAAAAACG
* * ** * * * *
95881835 CCGTAAAAAAATTAACACAACGCTGTCGTTTTGTATTGAGCCTTTGGTGGCTTTAGCGGCGCTTT
127 CCGCAAAAAAATTAACAAAACGCCATCATTTTGTATTGAGACTTTAGTGGCTTTAGCAGCGCTTT
95881900 TT
192 TT
*
95881902 AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAAAAACGCCGCTATATGTACACCTT
1 AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAAAAACGACGCTATA-GTACACCTT
* * *
95881967 TAGCGGTGCTTTTTAGAAAACGCCGCTAATGCTTGATCTTTAGCGGCGTTTTAAAAAAAACGCTG
65 TAGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTAAAAAAAACGCCG
* * *** *
95882032 CAAATTAATTTTGTAAAACGCCATCATTTTGTATTGAGATTTTAGTGG-TTTAGCAGCGCTTTTT
130 CAAA-AAAATTAACAAAACGCCATCATTTTGTATTGAGACTTTAGTGGCTTTAGCAGCGCTTTTT
* * *
95882096 AAAAACACTGCTAAAGATCGAGTATTAGCGGCACTTTTTTAAGAAACGGA-GCTATAGTACACCT
1 AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAA-AAAC-GACGCTATAGTACACCT
95882160 TTAGCGGCGCTTTTTA
64 TTAGCGGCGCTTTTTA
95882176 ATACTCGATC
Statistics
Matches: 240, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
193 3 0.01
194 189 0.79
195 47 0.20
196 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (193 bp):
AAAAACGCCGCTAAAGATCGACTATTAGCGGCACTTTTTTAAAAACGACGCTATAGTACACCTTT
AGCGGCGCTTTTTAGAAAACGCCGCTAATGCTTGATATTTAGCGGCGTTTTAAAAAAAACGCCGC
AAAAAAATTAACAAAACGCCATCATTTTGTATTGAGACTTTAGTGGCTTTAGCAGCGCTTTTT
Found at i:95882385 original size:50 final size:50
Alignment explanation
Indices: 95882329--95882428 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
95882319 GTAAAAGAGA
95882329 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
1 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
95882379 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
1 TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
95882429 ACGATATATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (50 bp):
TAGTATTAATTTTAAAATATTAAATTAATTATCATTATAGTTTAGGGTTT
Found at i:95882496 original size:22 final size:21
Alignment explanation
Indices: 95882471--95882515 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
95882461 GTTACTATTG
* *
95882471 TAAGGTTTATGGATTATGAGTT
1 TAAGGATTATAGATTATG-GTT
*
95882493 TAAGGATTATAGTTTATGGTT
1 TAAGGATTATAGATTATGGTT
95882514 TA
1 TA
95882516 TGGGTTAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (21 bp):
TAAGGATTATAGATTATGGTT
Found at i:95882508 original size:14 final size:15
Alignment explanation
Indices: 95882475--95882508 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
95882465 CTATTGTAAG
*
95882475 GTTTATGGATTATGA
1 GTTTAAGGATTATGA
95882490 GTTTAAGGATTAT-A
1 GTTTAAGGATTATGA
95882504 GTTTA
1 GTTTA
95882509 TGGTTTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (15 bp):
GTTTAAGGATTATGA
Found at i:95882570 original size:7 final size:7
Alignment explanation
Indices: 95882554--95882630 Score: 55
Period size: 7 Copynumber: 10.9 Consensus size: 7
95882544 GGGGGTTGGT
*
95882554 GTTTAAG
1 GTTTAGG
95882561 GTTTAGG
1 GTTTAGG
* *
95882568 GTTAAAG
1 GTTTAGG
* *
95882575 GTTAATG
1 GTTTAGG
*
95882582 GTTTATG
1 GTTTAGG
* *
95882589 TTTTATG
1 GTTTAGG
*
95882596 GTTTAAG
1 GTTTAGG
95882603 GTTTAGG
1 GTTTAGG
*
95882610 GGTTAGG
1 GTTTAGG
95882617 GATTTAGG
1 G-TTTAGG
95882625 GTTTAG
1 GTTTAG
95882631 ATTAATTAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 52 0.90
8 6 0.10
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:95882577 original size:14 final size:14
Alignment explanation
Indices: 95882554--95882629 Score: 71
Period size: 14 Copynumber: 5.4 Consensus size: 14
95882544 GGGGGTTGGT
95882554 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
* * *
95882568 GTTAAAGGTTAATG
1 GTTTAAGGTTTAGG
* * *
95882582 GTTTATGTTTTATG
1 GTTTAAGGTTTAGG
95882596 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
* *
95882610 GGTTAGGGATTTAGG
1 GTTTAAGG-TTTAGG
95882625 GTTTA
1 GTTTA
95882630 GATTAATTAG
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 38 0.79
15 10 0.21
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:95898161 original size:46 final size:46
Alignment explanation
Indices: 95898060--95898147 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
95898050 TGTAACCCGC
* * * *
95898060 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
95898106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
95898148 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:95899912 original size:67 final size:67
Alignment explanation
Indices: 95899799--95899931 Score: 185
Period size: 67 Copynumber: 2.0 Consensus size: 67
95899789 GTGGATTCTA
* ** * *
95899799 TATGCTGTCATAGTTGGGCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTC
1 TATGCTGTCATAGTCGAACTATAGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
95899864 TC
66 TC
* * * *
95899866 TATGTTGTCATAGTCGAACTATAGTCTTATACATCATACCTTATGTTTAATGGCCTAGCAGACTC
1 TATGCTGTCATAGTCGAACTATAGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
95899931 T
66 T
95899932 TTATATTGCC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (67 bp):
TATGCTGTCATAGTCGAACTATAGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
TC
Found at i:95899972 original size:67 final size:68
Alignment explanation
Indices: 95899816--95899964 Score: 194
Period size: 67 Copynumber: 2.2 Consensus size: 68
95899806 TCATAGTTGG
* * * *
95899816 GCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTCTCTATGTTGTCATAGTC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
*
95899881 GAA
66 CAA
* * * * *
95899884 -CTATAGTCTTATACATCATACCTTATGTTTAATGGCCTAGCAGACTCTTTATATTGCCAT-GGC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
95899947 CAA
66 CAA
95899950 GCTATGGTCTTACAC
1 GCTATGGTCTTACAC
95899965 GTTATACCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 4 0.06
67 64 0.94
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (68 bp):
GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
CAA
Found at i:95905342 original size:10 final size:10
Alignment explanation
Indices: 95905321--95905353 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
95905311 GAATTGTATT
95905321 ATGAAT-GAA
1 ATGAATAGAA
95905330 ATGAATAGAA
1 ATGAATAGAA
*
95905340 ATGGATAGAA
1 ATGAATAGAA
95905350 ATGA
1 ATGA
95905354 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (10 bp):
ATGAATAGAA
Found at i:95918524 original size:97 final size:98
Alignment explanation
Indices: 95918405--95918705 Score: 311
Period size: 97 Copynumber: 3.0 Consensus size: 98
95918395 TTTTGAGTAG
* *
95918405 ATTAAGATAATTAGGAGTTTAAAATAAATTAGGATCATTAGAGTTTTAATTTAGATAATATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAATATAATT
* *
95918470 AGAAATTTAATTAATAGGTTAGATAA-ATTTTA
66 AGAAATTTAATTAATAGATTAGATAATATTTAA
* * * ** *
95918502 ATTAAGATAATTGGGATTTTAAATTAAATTAGGATAATTAGAGTTATAATTTATTTAAGATAATT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAATATAATT
* *
95918567 A-ATAATTTAAATTAATATATTTGAAAATATTTTATATTTAA
66 AGA-AATTT-AATTAATAGA-TT--AGATA----ATATTTAA
* * * * *
95918608 ATTAAGATAATTAGGAGTTTAAATTAAACTAGGATTACTAGATTTTTCATTTAGAT-ATGATAAT
1 ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAAT-ATAAT
* *
95918672 TAGGAATTTAATTAATAGATTGGATAATAATTTA
65 TAGAAATTTAATTAATAGATTAGATAAT-ATTTA
95918706 GATCTGGGAA
Statistics
Matches: 164, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
96 1 0.01
97 63 0.38
98 10 0.06
99 7 0.04
101 4 0.02
102 3 0.02
104 2 0.01
105 11 0.07
106 63 0.38
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.42
Consensus pattern (98 bp):
ATTAAGATAATTAGGAGTTTAAATTAAATTAGGATAATTAGAGTTTTAATTTAGATAATATAATT
AGAAATTTAATTAATAGATTAGATAATATTTAA
Found at i:95918660 original size:106 final size:105
Alignment explanation
Indices: 95918496--95918688 Score: 251
Period size: 106 Copynumber: 1.8 Consensus size: 105
95918486 GGTTAGATAA
* * * * * **
95918496 ATTTTAATTAAGATAATTGGGATTTTAAATTAAATTAGGATAATTAGAGTTATAATTTATTTAAG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAACTAGAGTTATAATTTAGATAAG
*
95918561 ATAATTAATAATTTAAATTAATATATTTGAAAATATTTTAT
66 ATAATTAAGAATTT-AATTAATATATTTGAAAATATTTTAT
* * * * *
95918602 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATTACTAGATTTTTCATTTAGATATG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAACTAGAGTTATAATTTAGATAAG
*
95918667 ATAATTAGGAATTTAATTAATA
66 ATAATTAAGAATTTAATTAATA
95918689 GATTGGATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
105 8 0.11
106 65 0.89
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (105 bp):
ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAACTAGAGTTATAATTTAGATAAG
ATAATTAAGAATTTAATTAATATATTTGAAAATATTTTAT
Found at i:95923490 original size:26 final size:26
Alignment explanation
Indices: 95923461--95923538 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 26
95923451 ATTATTAAAA
95923461 TAAAATTAAAATATTAAATAATTTAT
1 TAAAATTAAAATATTAAATAATTTAT
95923487 TAAAATAATAAATTATATT-AATAATTTAT
1 TAAAAT--TAAA--ATATTAAATAATTTAT
*
95923516 TATATGATT-AAATA-TAAATAATT
1 TA-A-AATTAAAATATTAAATAATT
95923539 AAATATGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
25 1 0.02
26 16 0.36
28 6 0.14
29 13 0.30
30 6 0.14
31 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAAATTAAAATATTAAATAATTTAT
Found at i:95923517 original size:16 final size:16
Alignment explanation
Indices: 95923471--95923520 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
95923461 TAAAATTAAA
95923471 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
95923488 A-A--AATAATAAATT
1 ATATTAATAATTTATT
95923501 ATATTAATAATTTATT
1 ATATTAATAATTTATT
95923517 ATAT
1 ATAT
95923521 GATTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:95926862 original size:11 final size:11
Alignment explanation
Indices: 95926848--95926873 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95926838 TGGAATTTTC
95926848 TATTGTATTAT
1 TATTGTATTAT
95926859 TATTGTATTAT
1 TATTGTATTAT
95926870 TATT
1 TATT
95926874 CATAGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TATTGTATTAT
Found at i:95927264 original size:42 final size:42
Alignment explanation
Indices: 95927215--95927314 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
95927205 TTCGGTTTAG
* * * *
95927215 CCGATGATGTACTTACTTGCTAGTATAATTGCTTCGGTATAT
1 CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
** *
95927257 CTTATGATGCACTTGCGTGCTAGTATAATTACTTCGATATAT
1 CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
95927299 CCGATGATGCACTTAC
1 CCGATGATGCACTTAC
95927315 ATGCCAGAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (42 bp):
CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
Found at i:95928310 original size:23 final size:23
Alignment explanation
Indices: 95928280--95928325 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
95928270 GTCTAAAAAA
95928280 CTATTCGTTATATGCTATAGCAT
1 CTATTCGTTATATGCTATAGCAT
95928303 CTATTCGTTATATGCTATAGCAT
1 CTATTCGTTATATGCTATAGCAT
95928326 GACAAGCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (23 bp):
CTATTCGTTATATGCTATAGCAT
Found at i:95971646 original size:13 final size:11
Alignment explanation
Indices: 95971618--95971660 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
95971608 AGTTAAATAT
95971618 TATTTTATTAA
1 TATTTTATTAA
95971629 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
95971642 TA-TTTATTAT
1 TATTTTATTAA
95971652 TATTTTATT
1 TATTTTATT
95971661 TTGAAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:95977216 original size:247 final size:247
Alignment explanation
Indices: 95976782--95977522 Score: 1200
Period size: 247 Copynumber: 3.0 Consensus size: 247
95976772 ACCAAGAACC
* * * * * *
95976782 TTCTAATAGATCAATTTTGAGTTGGAATATCTATTGAATTGTGGATTTCCTCTT-AGAATTCAAG
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCT-TTCAAAATTCAAG
* *
95976846 A--TACCATTAAAGCACCTTAAGCTTTTGAAGACGATAACATTAATAAAAAATCATGCAATTATC
65 ATCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATC
* *
95976909 TCTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAATTTTAGAAATAATAATTACCTTT
130 ACTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTT
*
95976974 GATTCGTTCTAAATCCTTTGATTGGAAATCTTGATTCAAGAATCTTGAGAAAT
195 GATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
95977027 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
* *
95977092 TCTACCACTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATAATGCAATTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
* * *
95977157 CTCAAATAATGTAAATATGCTTCTAATCATTATGAAAATAAGTTTAGAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
* *
95977222 ATTCTTTCTAAATTCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
* * *
95977274 TTCTAATAGATCCATATTGAGTTGGAACATCCATTGATTTGTCGATTTCCTCTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
* * * **
95977339 TCCACCATTAAAGCACCTTAAACTTTTGAAGAAGATGACATTAATAAAGAATCATGCAGCTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
*
95977404 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATCAGTTTAGAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
*
95977469 ATTCGTTCTAAATCCTTTCATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
95977521 TT
1 TT
95977523 TAGAATATTT
Statistics
Matches: 458, Mismatches: 35, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
244 2 0.00
245 56 0.12
247 400 0.87
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (247 bp):
TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
Found at i:95979068 original size:17 final size:18
Alignment explanation
Indices: 95979038--95979071 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
95979028 GTCTATTAGG
95979038 TTAATTTAGGTTAATAAT
1 TTAATTTAGGTTAATAAT
*
95979056 TTAA-TTAGTTTAATAA
1 TTAATTTAGGTTAATAA
95979072 ATACTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TTAATTTAGGTTAATAAT
Found at i:95986161 original size:15 final size:15
Alignment explanation
Indices: 95986099--95986162 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 15
95986089 GAGAAAGTAT
95986099 ATTGAATT-ATAAAT-
1 ATTGAATTGA-AAATG
95986113 ATGTGAATTGAAAATTG
1 AT-TGAATTGAAAA-TG
*
95986130 ATTGAAAAGTGGAAAATG
1 ATTG--AA-TTGAAAATG
95986148 ATTGAATTGAAAATG
1 ATTGAATTGAAAATG
95986163 TGACAAATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
14 2 0.05
15 17 0.41
16 6 0.15
17 2 0.05
18 8 0.20
19 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
ATTGAATTGAAAATG
Found at i:95989006 original size:9 final size:9
Alignment explanation
Indices: 95988983--95989025 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
95988973 GTGATAGAGA
*
95988983 AATAAGAGT
1 AATAATAGT
95988992 AATAATAGT
1 AATAATAGT
**
95989001 AATAATAAA
1 AATAATAGT
95989010 AATAATAGT
1 AATAATAGT
95989019 AATAATA
1 AATAATA
95989026 AAATGATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (9 bp):
AATAATAGT
Done.