Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_pilon, whole genome shotgun sequence
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: 2253222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 12
Found at i:173324 original size:20 final size:20
Alignment explanation
Indices: 173301--173341 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
173291 TTGAAAATCG
*
173301 CATTGCGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
173321 CATTACGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
173341 C
1 C
173342 CTATATCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (20 bp):
CATTACGATAGTACTATTTA
Found at i:173489 original size:57 final size:57
Alignment explanation
Indices: 173321--173491 Score: 279
Period size: 57 Copynumber: 3.0 Consensus size: 57
173311 GTACTATTTA
* *
173321 CATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
* * *
173378 AATTGCGATAGTATTGTTTACCTATATCGGTACTTAGCGTTGCGAATTTGAAAATCG
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
* *
173435 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCG
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
173492 TGTTGCGAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 104 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (57 bp):
CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
Found at i:173543 original size:77 final size:77
Alignment explanation
Indices: 173416--173560 Score: 254
Period size: 77 Copynumber: 1.9 Consensus size: 77
173406 GGTACTTAGC
*
173416 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
1 GTTGCGAATTCGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
173481 TTTAAAAATCGT
66 TTTAAAAATCGT
* * *
173493 GTTGCGAATTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAA
1 GTTGCGAATTCGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
173558 TTT
66 TTT
173561 GAAGATCGCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (77 bp):
GTTGCGAATTCGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
TTTAAAAATCGT
Found at i:173576 original size:191 final size:191
Alignment explanation
Indices: 173244--173614 Score: 548
Period size: 191 Copynumber: 1.9 Consensus size: 191
173234 GTACTGTTTA
* * *
173244 CATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGA
* * *
173309 TAGTACTATTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
66 TAGTACAAATCACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
* * *
173374 ATCGAATTGCGATAGTATTGTTTACCTATATCGGTACTTAGCGTTGCGAATTTGAAAATCG
131 ATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAATTTGAAAATCG
**
173435 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGA
* * ** *
173500 -A-TTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
66 TAGTAC-AA-ATCACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
* *
173563 AGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAA
129 AAATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAA
173615 ATCAAAATTC
Statistics
Matches: 160, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
189 2 0.01
190 2 0.01
191 156 0.98
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (191 bp):
CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGA
TAGTACAAATCACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
ATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAATTTGAAAATCG
Found at i:173581 original size:57 final size:57
Alignment explanation
Indices: 173493--173614 Score: 217
Period size: 57 Copynumber: 2.1 Consensus size: 57
173483 TAAAAATCGT
* *
173493 GTTGCGAATTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGC
1 GTTGCGAATTCGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTACC
*
173550 GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTACC
1 GTTGCGAATTCGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTACC
173607 GTTGCGAA
1 GTTGCGAA
173615 ATCAAAATTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (57 bp):
GTTGCGAATTCGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTACC
Found at i:173599 original size:134 final size:134
Alignment explanation
Indices: 173167--173640 Score: 505
Period size: 134 Copynumber: 3.5 Consensus size: 134
173157 GTACTGTTTA
* * *
173167 CATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCGTTGCGAATTTGAAAATC-TCATTGC
1 CATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCATTGCGAATTTAAAAATCGT-GTTGC
* * ** *
173230 G-A-TAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTT
64 GAATTAG-A-AGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
173293 GAAAATCG
127 GAAAATCG
* * * * * * **** * * *
173301 CATTGCGATAGTACTATTTACAT-TA-CGAT-AGTA-CTATTTACCTATATCGGTAATTAGCGTT
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGC-A-TT-GCGA-ATTTAAAAATCGTGTT
* * * * *
173362 GCGAATTTGAAAATCGAATTGCGATAGTATTGTTTACCTATATCGGTACTTAGCGTTGCGAATTT
62 GCGAATTAGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
173427 GAAAATCG
127 GAAAATCG
173435 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCGA
* * *
173500 ATTCGAAGATCGCATTGTGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAG
66 ATTAGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
173565 ATCG
131 ATCG
* * * * *
173569 CATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAATCAAAATTCGTGTTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCGA
*
173634 TTTAGAA
66 ATTAGAA
173641 AATCTTGTTG
Statistics
Matches: 277, Mismatches: 51, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
130 1 0.00
131 3 0.01
132 3 0.01
133 5 0.02
134 247 0.89
135 6 0.02
136 7 0.03
137 4 0.01
138 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (134 bp):
CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCGA
ATTAGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
ATCG
Found at i:173739 original size:20 final size:20
Alignment explanation
Indices: 173714--173793 Score: 124
Period size: 20 Copynumber: 4.0 Consensus size: 20
173704 TGTGTTACGT
*
173714 TTTACAAATTCGCGTTGCGA
1 TTTACATATTCGCGTTGCGA
173734 TTTACATATTCGCGTTGCGA
1 TTTACATATTCGCGTTGCGA
**
173754 TTTACATATTATCGTTGCGA
1 TTTACATATTCGCGTTGCGA
*
173774 TTTACATATTCACGTTGCGA
1 TTTACATATTCGCGTTGCGA
173794 ATTTGGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTACATATTCGCGTTGCGA
Found at i:173758 original size:40 final size:41
Alignment explanation
Indices: 173714--173817 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 41
173704 TGTGTTACGT
*
173714 TTTACAAATTCGCGTTGCGATTTACATATTCGCGTTGCG-A
1 TTTACAAATTCGCGTTGCGATTTACATATTCACGTTGCGAA
* **
173754 TTTACATATTATCGTTGCGATTTACATATTCACGTTGCGAA
1 TTTACAAATTCGCGTTGCGATTTACATATTCACGTTGCGAA
** * *
173795 TTTGGAAAATCGCATTGCGATTT
1 TTTACAAATTCGCGTTGCGATTT
173818 TGGAACTTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 35 0.67
41 17 0.33
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTACAAATTCGCGTTGCGATTTACATATTCACGTTGCGAA
Found at i:176839 original size:20 final size:20
Alignment explanation
Indices: 176814--176854 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
176804 TTGAAAATCG
176814 CATTGCGATAATACTGTTTA
1 CATTGCGATAATACTGTTTA
*
176834 CATTGCGATAGTACTGTTTA
1 CATTGCGATAATACTGTTTA
176854 C
1 C
176855 CTATATCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
CATTGCGATAATACTGTTTA
Found at i:176855 original size:77 final size:77
Alignment explanation
Indices: 176771--176931 Score: 241
Period size: 77 Copynumber: 2.1 Consensus size: 77
176761 GCGATAGATG
* * * *
176771 TGTTTACCTATATTGGTAAATAGCGTTGTGAATTTGAAAATCGCATTGCGATAATACTGTTTACA
1 TGTTTACCTATATCGGTAAATAGCATTGCGAATTTAAAAATCGCATTGCGATAATACTGTTTACA
*
176836 TTGCGATAGTAC
66 TTGCGATAATAC
* *
176848 TGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGCATTGCGATAGTACTGTTTACA
1 TGTTTACCTATATCGGTAAATAGCATTGCGAATTTAAAAATCGCATTGCGATAATACTGTTTACA
* *
176913 TTGTGATAATAT
66 TTGCGATAATAC
176925 TGTTTAC
1 TGTTTAC
176932 ATTGCAATAG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (77 bp):
TGTTTACCTATATCGGTAAATAGCATTGCGAATTTAAAAATCGCATTGCGATAATACTGTTTACA
TTGCGATAATAC
Found at i:176914 original size:20 final size:20
Alignment explanation
Indices: 176891--176953 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
176881 TTAAAAATCG
176891 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
* * *
176911 CATTGTGATAATATTGTTTA
1 CATTGCGATAGTACTGTTTA
*
176931 CATTGCAATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
176951 CAT
1 CAT
176954 ATATCGGTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:176985 original size:97 final size:97
Alignment explanation
Indices: 176814--177134 Score: 421
Period size: 97 Copynumber: 3.2 Consensus size: 97
176804 TTGAAAATCG
*
176814 CATTGCGATAATACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGA
1 CATTGCGATAATACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
*
176879 ATTTAAAAATCGCATTGCGATAGTACTGTTTA
66 ATTTGAAAATCGCATTGCGATAGTACTGTTTA
* * * * ***
176911 CATTGTGATAATATTGTTTACATTGCAATAGTACTGTTTACATATATCGGTAATTAGCGTTATAA
1 CATTGCGATAATACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
176976 ATTTGAAAATCGCGA-TGCGATAGTACTGTTTA
66 ATTTGAAAATCGC-ATTGCGATAGTACTGTTTA
*
177008 CCTAATTCGCAACGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATAT-GTGTAATT
1 -C--ATT------GCGATAATACTGTTTACATTGCGATAGTACTGTTTACCTATATCG-GTAATT
*
177072 AGCGTTGCGAATTTGAAAATCGCATTGCGATAATACTGTTTA
56 AGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTA
*
177114 CATTGCGATAGTACTGTTTAC
1 CATTGCGATAATACTGTTTAC
177135 CTATATTGGT
Statistics
Matches: 194, Mismatches: 18, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
97 103 0.53
98 2 0.01
100 3 0.02
103 3 0.02
105 3 0.02
106 80 0.41
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (97 bp):
CATTGCGATAATACTGTTTACATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
ATTTGAAAATCGCATTGCGATAGTACTGTTTA
Found at i:177117 original size:20 final size:20
Alignment explanation
Indices: 177094--177134 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
177084 TTGAAAATCG
177094 CATTGCGATAATACTGTTTA
1 CATTGCGATAATACTGTTTA
*
177114 CATTGCGATAGTACTGTTTA
1 CATTGCGATAATACTGTTTA
177134 C
1 C
177135 CTATATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
CATTGCGATAATACTGTTTA
Found at i:177147 original size:77 final size:77
Alignment explanation
Indices: 177021--177268 Score: 417
Period size: 77 Copynumber: 3.2 Consensus size: 77
177011 AATTCGCAAC
177021 GCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATA-TGTGTAATTAGCGTTGCGAATT
1 GCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTG-GTAATTAGCGTTGCGAATT
177085 TGAAAATCGCATT
65 TGAAAATCGCATT
*
177098 GCGATAATACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTT
1 GCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTT
177163 GAAAATCGCATT
66 GAAAATCGCATT
* * * *
177175 GCGATAGTGCTGTTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTT
1 GCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTT
*
177240 GAAAATCGAATT
66 GAAAATCGCATT
*
177252 GCGATAGTACTATTTAC
1 GCGATAGTACTGTTTAC
177269 CTATATCGGT
Statistics
Matches: 161, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
77 159 0.99
78 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (77 bp):
GCGATAGTACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTT
GAAAATCGCATT
Found at i:177210 original size:20 final size:20
Alignment explanation
Indices: 177171--177211 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
177161 TTGAAAATCG
* * *
177171 CATTGCGATAGTGCTGTTTA
1 CATTACGATAGTACTATTTA
177191 CATTACGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
177211 C
1 C
177212 CTATATCGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
CATTACGATAGTACTATTTA
Found at i:177361 original size:57 final size:57
Alignment explanation
Indices: 177191--177382 Score: 305
Period size: 57 Copynumber: 3.4 Consensus size: 57
177181 GTGCTGTTTA
*
177191 CATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
1 CATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
* *
177248 AATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCG
1 CATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
* *
177305 CATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCATTGCGAATTTGAAAATCG
1 CATTGCGATAGTACTATTTACCTATATCG-GTAATTAGCGTTGCGAATTTGAAAATCG
* *
177362 CATTGCGATAATACTGTTTAC
1 CATTGCGATAGTACTATTTAC
177383 ATTGCGATAG
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
56 1 0.01
57 125 0.99
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (57 bp):
CATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
Found at i:177385 original size:20 final size:20
Alignment explanation
Indices: 177362--177402 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
177352 TTGAAAATCG
177362 CATTGCGATAATACTGTTTA
1 CATTGCGATAATACTGTTTA
*
177382 CATTGCGATAGTACTGTTTA
1 CATTGCGATAATACTGTTTA
177402 C
1 C
177403 CTATATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
CATTGCGATAATACTGTTTA
Found at i:177394 original size:268 final size:268
Alignment explanation
Indices: 177037--177727 Score: 1163
Period size: 268 Copynumber: 2.6 Consensus size: 268
177027 GTACTGTTTA
*
177037 CATTGCGATAGTACTGTTTACCTATATGTGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
1 CATTGCGATAGTACTGTTTACCTATATGTGTAATTAGCATTGCGAATTTGAAAATCGCATTGCGA
177102 TAATACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAA
66 TAATACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAA
*
177167 ATCGCATTGCGATAGTGCTGTTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTT
131 ATCGCATTGCGATAGTACTGTTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTT
*
177232 GCGAATTTGAAAATCGAATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTT
196 GCGAATTGGAAAATCGAATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTT
177297 AAAAATCG
261 AAAAATCG
177305 CATTGCGATAGTACTGTTTACCTATATGTGTAATTAGCATTGCGAATTTGAAAATCGCATTGCGA
1 CATTGCGATAGTACTGTTTACCTATATGTGTAATTAGCATTGCGAATTTGAAAATCGCATTGCGA
*
177370 TAATACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCAAATTTGAAA
66 TAATACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAA
*
177435 ATCGCATTGTGATAGTACTGTTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTT
131 ATCGCATTGCGATAGTACTGTTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTT
* *
177500 GCGAATTGGAAAATCGAATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
196 GCGAATTGGAAAATCGAATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTT
*
177565 GAAAATCG
261 AAAAATCG
* **
177573 CATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCATTGCGAATTTAAAAATCGTGTTGCG
1 CATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCATTGCGAATTTGAAAATCGCATTGCG
* * * ** **
177637 A-ATTTGA-AGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGCGTTGCGAATTTG
65 ATA-AT-ACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTG
*
177700 AAGATCGCATTGCGATAGTACTGTTTAC
128 AAAATCGCATTGCGATAGTACTGTTTAC
177728 CTATATCGGT
Statistics
Matches: 399, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
267 1 0.00
268 396 0.99
269 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (268 bp):
CATTGCGATAGTACTGTTTACCTATATGTGTAATTAGCATTGCGAATTTGAAAATCGCATTGCGA
TAATACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAA
ATCGCATTGCGATAGTACTGTTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTT
GCGAATTGGAAAATCGAATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTT
AAAAATCG
Found at i:177415 original size:77 final size:77
Alignment explanation
Indices: 177305--177536 Score: 358
Period size: 77 Copynumber: 3.0 Consensus size: 77
177295 TTAAAAATCG
*
177305 CATTGCGATAGTACTGTTTACCTATA-TGTGTAATTAGCATTGCGAATTTGAAAATCGCATTGCG
1 CATTGCGATAGTACTGTTTACCTATATTG-GTAATTAGCGTTGCGAATTTGAAAATCGCATTGCG
*
177369 ATAATACTGTTTA
65 ATAGTACTGTTTA
* *
177382 CATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCAAATTTGAAAATCGCATTGTGA
1 CATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
177447 TAGTACTGTTTA
66 TAGTACTGTTTA
* * * * *
177459 CATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTGGAAAATCGAATTGCGA
1 CATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
*
177524 TAGTATTGTTTA
66 TAGTACTGTTTA
177536 C
1 C
177537 CTATATCGGT
Statistics
Matches: 142, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
77 140 0.99
78 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (77 bp):
CATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
TAGTACTGTTTA
Found at i:177635 original size:134 final size:133
Alignment explanation
Indices: 177037--177742 Score: 734
Period size: 134 Copynumber: 5.3 Consensus size: 133
177027 GTACTGTTTA
* *
177037 CATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCG
1 CATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCATTGCGAATTTGAAAATCGCGTTGCG
* *** ** *
177101 ATAAT-ACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCGAATTTGA
65 A-ATTGAAAATCGA-ATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
177165 AAATCG
128 AAATCG
* * * * * * ** * * *
177171 CATTGCGATAGTGCTGTTTACAT-TA-CGAT-AGTA-CTATTTACCTATATCGGTAATTAGCGTT
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGC-A-TT-GCGA-ATTTGAAAATCGCGTT
*
177232 GCGAATTTGAAAATCGAATTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTT
62 GCGAA-TTGAAAATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
*
177297 AAAAATCG
126 GAAAATCG
*
177305 CATTGCGATAGTACTGTTTACCTATAT-GTGTAATTAGCATTGCGAATTTGAAAATCGCATTGCG
1 CATTGCGATAGTACTGTTTACCTATATCG-GTAATTAGCATTGCGAATTTGAAAATCGCGTTGCG
* *** ** * *
177369 ATAAT-ACTGTTTACATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCAAATTTGA
65 A-ATTGAAAATCGA-ATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
177433 AAATCG
128 AAATCG
* * * * * * ** * * *
177439 CATTGTGATAGTACTGTTTACAT-TA-CGAT-AGTA-CTATTTACCTATATCGGTAATTAGCGTT
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGC-A-TT-GCGA-ATTTGAAAATCGCGTT
*
177500 GCGAATTGGAAAATCGAATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
62 GCGAATT-GAAAATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT
177565 GAAAATCG
126 GAAAATCG
* *
177573 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTGAAAATCGCGTTGCGA
* * * *
177638 ATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGCGTTGCGAATTTGAAG
66 A-TTGAAAATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAA
177703 ATCG
130 ATCG
177707 CATTGCGATAGTACTGTTTACCTATATCGGTAATTA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTA
177743 CCGTTGCAAA
Statistics
Matches: 463, Mismatches: 83, Indels: 52
0.77 0.14 0.09
Matches are distributed among these distances:
130 2 0.00
131 7 0.02
132 6 0.01
133 16 0.03
134 396 0.86
135 18 0.04
136 8 0.02
137 8 0.02
138 2 0.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (133 bp):
CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTGAAAATCGCGTTGCGA
ATTGAAAATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAA
TCG
Found at i:177637 original size:57 final size:57
Alignment explanation
Indices: 177464--177629 Score: 278
Period size: 57 Copynumber: 2.9 Consensus size: 57
177454 GTTTACATTA
* *
177464 CGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTGGAAAATCGAATTG
1 CGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGAATTG
* *
177521 CGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTG
1 CGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGAATTG
* *
177578 CGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCG
1 CGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
177630 TGTTGCGAAT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 102 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (57 bp):
CGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGAATTG
Found at i:177652 original size:77 final size:77
Alignment explanation
Indices: 177554--177698 Score: 263
Period size: 77 Copynumber: 1.9 Consensus size: 77
177544 GGTAATTAGC
*
177554 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAA
1 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGCATTGCGAA
177619 TTTAAAAATCGT
66 TTTAAAAATCGT
* *
177631 GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGCGTTGCGAA
1 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGCATTGCGAA
177696 TTT
66 TTT
177699 GAAGATCGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (77 bp):
GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGCATTGCGAA
TTTAAAAATCGT
Found at i:177655 original size:20 final size:20
Alignment explanation
Indices: 177609--177657 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
177599 TCGGTAATTA
177609 GCATTGCGAATTTAAAAATC
1 GCATTGCGAATTTAAAAATC
** * *
177629 GTGTTGCGAATTTGAAGATC
1 GCATTGCGAATTTAAAAATC
177649 GCATTGCGA
1 GCATTGCGA
177658 TAGTACTGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (20 bp):
GCATTGCGAATTTAAAAATC
Found at i:177719 original size:57 final size:57
Alignment explanation
Indices: 177631--177749 Score: 220
Period size: 57 Copynumber: 2.1 Consensus size: 57
177621 TAAAAATCGT
*
177631 GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGC
1 GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTACC
*
177688 GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTACC
1 GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTACC
177745 GTTGC
1 GTTGC
177750 AAAATCAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (57 bp):
GTTGCGAATTTGAAGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTACC
Found at i:177772 original size:191 final size:191
Alignment explanation
Indices: 177382--177760 Score: 512
Period size: 191 Copynumber: 2.0 Consensus size: 191
177372 ATACTGTTTA
* * * *
177382 CATTGCGATAGTACTGTTTACCTATATTGGTAATTAGCGTTGCAAATTTGAAAATCGCATTGTGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAAATTTAAAAATCGCATTGCGA
* * * *
177447 TAGTACTGTTTACATTACGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCGAATTGGAAA
66 TAGTACAGATCACATTACGATAGTACTATTTACCTATATCAGTAATTAGCGTTGCGAATTGGAAA
* * ** *
177512 ATCGAATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
131 ATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAAATCAAAATCG
* **
177573 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCGAATTTAAAAATCGTGTTGCGA
1 CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAAATTTAAAAATCGCATTGCGA
* * * * *
177638 -ATTTGA-AGATCGCATTGCGATAGTACTGTTTACCTATATCAGTAATTAGCGTTGCGAATTTGA
66 TA-GT-ACAGATCACATTACGATAGTACTATTTACCTATATCAGTAATTAGCGTTGCGAATTGGA
* *
177701 AGATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGC-AAAATCAAAAT
129 AAATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAAATCAAAAT
177761 TCGTGTTGCG
Statistics
Matches: 163, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
190 9 0.06
191 153 0.94
192 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (191 bp):
CATTGCGATAGTACTGTTTACCTATATCGGTAATTAGCATTGCAAATTTAAAAATCGCATTGCGA
TAGTACAGATCACATTACGATAGTACTATTTACCTATATCAGTAATTAGCGTTGCGAATTGGAAA
ATCGAATTGCGATAGTACTGTTTACCTATATCGGTAATTACCGTTGCGAAAATCAAAATCG
Found at i:177882 original size:20 final size:20
Alignment explanation
Indices: 177859--177949 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
177849 TGACTTCTGT
177859 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* *
177879 GTTGCGATTTACATATTCGA
1 GTTGCGATTTACAAATTCGC
* *
177899 GTTGCGATTTATATATTCGC
1 GTTGCGATTTACAAATTCGC
** *
177919 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
*
177940 ATTGCGATTT
1 GTTGCGATTT
177950 TGGAACCTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 46 0.75
21 15 0.25
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:177939 original size:21 final size:21
Alignment explanation
Indices: 177915--177954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
177905 ATTTATATAT
*
177915 TCGCGTTGCGAATTTGGAAAA
1 TCGCATTGCGAATTTGGAAAA
*
177936 TCGCATTGCGATTTTGGAA
1 TCGCATTGCGAATTTGGAA
177955 CCTGTGTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGAATTTGGAAAA
Found at i:181918 original size:13 final size:13
Alignment explanation
Indices: 181897--181964 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
181887 AATGACTCTC
*
181897 AATGAGCGTCATA
1 AATGCGCGTCATA
181910 AATGCGCGTCATA
1 AATGCGCGTCATA
***
181923 AATGTTTGTCATA
1 AATGCGCGTCATA
*
181936 AATGCGTGTCATA
1 AATGCGCGTCATA
* *
181949 AATGCACATCATA
1 AATGCGCGTCATA
181962 AAT
1 AAT
181965 TTATGACGCA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:185107 original size:13 final size:13
Alignment explanation
Indices: 185089--185113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185079 TTCATTTAAT
185089 AAATTGAAAGTAA
1 AAATTGAAAGTAA
185102 AAATTGAAAGTA
1 AAATTGAAAGTA
185114 CAATTAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (13 bp):
AAATTGAAAGTAA
Found at i:185376 original size:12 final size:12
Alignment explanation
Indices: 185359--185386 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
185349 GTTTTAATTA
185359 TAAATTGGTCCC
1 TAAATTGGTCCC
185371 TAAATTGGTCCC
1 TAAATTGGTCCC
185383 TAAA
1 TAAA
185387 GTGTATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (12 bp):
TAAATTGGTCCC
Found at i:186542 original size:112 final size:112
Alignment explanation
Indices: 186235--186594 Score: 542
Period size: 112 Copynumber: 3.2 Consensus size: 112
186225 AACTTTCAAA
* * * * *
186235 AAAGTATCGTTCATTTTTATAAAAAGTATCTATACTTTCAACATATTAGGTAAATTTTACCGATT
1 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
* * * *
186300 TTGCCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
66 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
* * * *
186347 AAAGTATCGATCCTTTTTAT-AAAAGGATCGATACTTTTAACATATCAAGTAAATTTTACCATTT
1 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
186411 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
66 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
186458 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
1 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
* * * *
186523 TTGTCATAATAAAATTGGTTTTATCACATTTTTACATGTTATATTGT
66 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
*
186570 AAAATATCGATACATTTTTATAAAA
1 AAAGTATCGAT-CATTTTTATAAAA
186595 CATCAATACT
Statistics
Matches: 224, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
111 99 0.44
112 112 0.50
113 13 0.06
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (112 bp):
AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
Found at i:187203 original size:111 final size:111
Alignment explanation
Indices: 186999--187364 Score: 504
Period size: 111 Copynumber: 3.3 Consensus size: 111
186989 AACTTTCAAA
* ** * * *
186999 AAAGTATCGATCATTTTTATAAAAAGTATTTATACTTTCAACATATTAGGTAAATTTTATCGGTT
1 AAAGTATCGATCATTTTTAT-AAAAGGATCGATACTTTCAACATATCAAGTAAATTTTATCGTTT
* * *
187064 TTGTCATAATG-AACTGGTTTTGTCATATTTATACTTCTTATATTGT
65 TTGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
* *
187110 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAAGTAAATGTTATTGTTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTATCGTTTT
*
187175 TGTCATAATGAAACTGATTTTGTCATATTTGTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
* * * *
187221 AAAGTATCTATCATTTTTATAAAATGATCTATACTTTCAACA-ATTCAAGTAAATTTTACCGTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATA-TCAAGTAAATTTTATCGTTT
*
187285 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
65 TTGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
* * *
187332 AAAATATTGATACATTTTTAT-AAAGTATCGATA
1 AAAGTATCGAT-CATTTTTATAAAAGGATCGATA
187365 TTTTATAGGC
Statistics
Matches: 227, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
110 48 0.21
111 170 0.75
112 9 0.04
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (111 bp):
AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTATCGTTTT
TGTCATAATGAAACTGATTTTGTCATATTTATACCTGTTATATTGT
Found at i:187940 original size:87 final size:87
Alignment explanation
Indices: 187849--188012 Score: 260
Period size: 87 Copynumber: 1.9 Consensus size: 87
187839 TATAAACACT
* *
187849 ACTTATTATATTATATAAGCGTTATCAT-TTAC-ATTATATAAGCGGTACCTAATATGTTATTGT
1 ACTTATTATATTATATAAACGCTA-CATATT-CTATTATATAAGCGGTACCTAATATGTTATTGT
*
187912 GCTTGATAATATTTCTAGTAATTA
64 GCTTAATAATATTTCTAGTAATTA
*
187936 ACTTATTTTATTATATAAACGCTACATATTCTATTATATAAGCGGTACCTAATATGTTATTGTGC
1 ACTTATTATATTATATAAACGCTACATATTCTATTATATAAGCGGTACCTAATATGTTATTGTGC
188001 TTAATAATATTT
66 TTAATAATATTT
188013 TCGGTTAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
86 4 0.06
87 67 0.94
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (87 bp):
ACTTATTATATTATATAAACGCTACATATTCTATTATATAAGCGGTACCTAATATGTTATTGTGC
TTAATAATATTTCTAGTAATTA
Found at i:187943 original size:110 final size:110
Alignment explanation
Indices: 187767--187979 Score: 345
Period size: 110 Copynumber: 1.9 Consensus size: 110
187757 ACGCTACCTA
* * * * *
187767 TTACGTTATATAAGTGTTACTTAATATGTTATTGTGCTTGATAATGTTTCCAGTAATTAACTTAT
1 TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATATTTCCAGTAATTAACTTAT
*
187832 TTTATTATATAAACACTACTTATTATATTATATAAGCGTTATCAT
66 TTTATTATATAAACACTACATATTATATTATATAAGCGTTATCAT
*
187877 TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATATTTCTAGTAATTAACTTAT
1 TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATATTTCCAGTAATTAACTTAT
* *
187942 TTTATTATATAAACGCTACATATTCTATTATATAAGCG
66 TTTATTATATAAACACTACATATTATATTATATAAGCG
187980 GTACCTAATA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 94 1.00
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (110 bp):
TTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTGATAATATTTCCAGTAATTAACTTAT
TTTATTATATAAACACTACATATTATATTATATAAGCGTTATCAT
Found at i:191619 original size:18 final size:18
Alignment explanation
Indices: 191596--191642 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
191586 CATTAACTGC
191596 TACTGGTTTAGGGCATAA
1 TACTGGTTTAGGGCATAA
191614 TACTGGTTTAGGGCATAA
1 TACTGGTTTAGGGCATAA
*
191632 TACTGGCTTAG
1 TACTGGTTTAG
191643 TCGTGTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (18 bp):
TACTGGTTTAGGGCATAA
Found at i:195182 original size:57 final size:60
Alignment explanation
Indices: 195085--195217 Score: 157
Period size: 57 Copynumber: 2.3 Consensus size: 60
195075 GTCATTGGCC
* * * *
195085 ATTAAAA-TTACAAAATTATCTTCTGATTGTAGGGTATTGTTTTGTTGA-TC-CCCGACT
1 ATTAAAAGTTACAAAATGATCTTCTGACTATAGAGTATTGTTTTGTTGAGTCTCCCGACT
* ***
195142 ATTAAAAGTTACAAAATGATC-TCTGACTATAGAGTGTTGTTTTGTTGAGTCTTTTGACT
1 ATTAAAAGTTACAAAATGATCTTCTGACTATAGAGTATTGTTTTGTTGAGTCTCCCGACT
*
195201 ATTAAAAGTCACAAAAT
1 ATTAAAAGTTACAAAAT
195218 AGTCACCCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 30 0.47
58 14 0.22
59 20 0.31
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (60 bp):
ATTAAAAGTTACAAAATGATCTTCTGACTATAGAGTATTGTTTTGTTGAGTCTCCCGACT
Found at i:196165 original size:2 final size:2
Alignment explanation
Indices: 196158--196199 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
196148 TTTATTGCTA
196158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
196200 GGGTGTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:202377 original size:17 final size:19
Alignment explanation
Indices: 202350--202385 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
202340 CTCAAAGTTA
202350 TACATTATTTTA-AATAAT
1 TACATTATTTTATAATAAT
202368 TACA-TATTTTATAATAAT
1 TACATTATTTTATAATAAT
202386 ATCATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TACATTATTTTATAATAAT
Found at i:202855 original size:18 final size:18
Alignment explanation
Indices: 202800--202863 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
202790 TGAAACCGAT
*
202800 TTTTTCGGTTCGGATCGG
1 TTTTTCGGTTCGGTTCGG
202818 TTTTT---TTAACGGTTCGGG
1 TTTTTCGGTT--CGGTTC-GG
202836 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
*
202854 TTTATCGGTT
1 TTTTTCGGTT
202864 TTTCAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
17 5 0.13
18 23 0.61
19 6 0.16
21 2 0.05
ACGTcount: A:0.06, C:0.14, G:0.30, T:0.50
Consensus pattern (18 bp):
TTTTTCGGTTCGGTTCGG
Found at i:209575 original size:42 final size:42
Alignment explanation
Indices: 209529--209687 Score: 141
Period size: 42 Copynumber: 3.9 Consensus size: 42
209519 AATAGTATTT
209529 TTATATCTCTATTTTTATTGAATACAAATAATATTTTTTTAA
1 TTATATCTCTATTTTTATTGAATACAAATAATATTTTTTTAA
* * * *
209571 TTATATCTCTATTTTGATTGATTATAAATGATATTTTTTATAA
1 TTATATCTCTATTTTTATTGAATACAAATAATATTTTTT-TAA
* ** ** * **
209614 --ATATAT-TA-TTAAATAAAATA-ATAA-AAAATCTAATTTAA
1 TTATATCTCTATTTTTATTGAATACA-AATAATAT-TTTTTTAA
209652 TTATATCTCTATTTTTATTGAATACAAATAATATTT
1 TTATATCTCTATTTTTATTGAATACAAATAATATTT
209688 AGTGGAATAT
Statistics
Matches: 87, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
38 7 0.08
39 12 0.14
40 7 0.08
41 7 0.08
42 46 0.53
43 8 0.09
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (42 bp):
TTATATCTCTATTTTTATTGAATACAAATAATATTTTTTTAA
Found at i:215808 original size:21 final size:20
Alignment explanation
Indices: 215777--215816 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
215767 TTTACTTTTA
215777 AATTTTATAT-ACTTTAAACC
1 AATTTTATATAAC-TTAAACC
215797 AATTTATATATAACTTAAAC
1 AATTT-TATATAACTTAAAC
215817 TGTTGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 11 0.61
22 2 0.11
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTTATATAACTTAAACC
Found at i:216239 original size:31 final size:30
Alignment explanation
Indices: 216197--216264 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 30
216187 GAATTATAAA
*
216197 AAAAATATTAAA-TCATTATTTGAATATATTT
1 AAAAATATTAAACTC-TTATTTGAAAATA-TT
*
216228 AAAAATGTTAAACTCTTATTTGAAAATATT
1 AAAAATATTAAACTCTTATTTGAAAATATT
216258 AAAAATA
1 AAAAATA
216265 ATAAGTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 8 0.24
31 23 0.70
32 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (30 bp):
AAAAATATTAAACTCTTATTTGAAAATATT
Found at i:218732 original size:20 final size:19
Alignment explanation
Indices: 218693--218730 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
218683 GTCTCATAAT
218693 TTTAATTCATCCCCTTAAA
1 TTTAATTCATCCCCTTAAA
218712 TTTAAGTTCA-CCCCTTAAA
1 TTTAA-TTCATCCCCTTAAA
218731 ATAAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTAATTCATCCCCTTAAA
Found at i:222825 original size:23 final size:23
Alignment explanation
Indices: 222791--222859 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
222781 CACCACAGCT
*
222791 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
222814 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
222837 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
222860 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:222969 original size:20 final size:20
Alignment explanation
Indices: 222946--222995 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
222936 GACCTCACAC
222946 ATGTTCCGAAGAATACATAT
1 ATGTTCCGAAGAATACATAT
222966 ATG-TCCGAAGAATACATAT
1 ATGTTCCGAAGAATACATAT
*
222985 ATGTCCCGAAG
1 ATGTTCCGAAG
222996 GACCGCGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
ATGTTCCGAAGAATACATAT
Found at i:228549 original size:26 final size:26
Alignment explanation
Indices: 228494--228549 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
228484 ATTTGAGTTG
* * *
228494 TATTTTGTGGATTGACTCTCCGTATG
1 TATTTTGTAGATTGACTCTCCCTATA
228520 TATTTTGTAGATTGACTCTCCCCT-TA
1 TATTTTGTAGATTGACTCT-CCCTATA
228546 TATT
1 TATT
228550 ATGTCGTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (26 bp):
TATTTTGTAGATTGACTCTCCCTATA
Found at i:229452 original size:13 final size:13
Alignment explanation
Indices: 229408--229452 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
229398 TATTTTCTAT
229408 ATTAATTATAATC
1 ATTAATTATAATC
*
229421 CTTATATTATAAATC
1 ATTA-ATTAT-AATC
229436 -TTAATTATAATC
1 ATTAATTATAATC
229448 ATTAA
1 ATTAA
229453 ATTAATCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:233791 original size:2 final size:2
Alignment explanation
Indices: 233784--233821 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
233774 CAAATTTGCA
233784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
233822 TGTTTACGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:252681 original size:1 final size:1
Alignment explanation
Indices: 252675--252701 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
252665 AACATTCAGG
252675 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
252702 GGATAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:253118 original size:26 final size:26
Alignment explanation
Indices: 253081--253139 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
253071 CAGTTCACAG
*
253081 TTTTCCCTTGTAGCGAACGGCTTTCC
1 TTTTCCCCTGTAGCGAACGGCTTTCC
253107 TTTTCCCCTGTAGCGAACGGCTTTCC
1 TTTTCCCCTGTAGCGAACGGCTTTCC
253133 -TTTCCCC
1 TTTTCCCC
253140 ATTTCCTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.22
26 25 0.78
ACGTcount: A:0.10, C:0.36, G:0.17, T:0.37
Consensus pattern (26 bp):
TTTTCCCCTGTAGCGAACGGCTTTCC
Found at i:256671 original size:13 final size:13
Alignment explanation
Indices: 256649--256678 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
256639 TTCTTGGGAA
256649 TGAA-AGTAATTT
1 TGAATAGTAATTT
256661 TGAATAGTAATTT
1 TGAATAGTAATTT
256674 TGAAT
1 TGAAT
256679 GTTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (13 bp):
TGAATAGTAATTT
Found at i:257285 original size:7 final size:7
Alignment explanation
Indices: 257273--257301 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
257263 AATTGAGTAA
257273 TGGATTT
1 TGGATTT
257280 TGGATTT
1 TGGATTT
257287 TGGATTT
1 TGGATTT
257294 TGGATTT
1 TGGATTT
257301 T
1 T
257302 ATCTCCCCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (7 bp):
TGGATTT
Found at i:258083 original size:23 final size:22
Alignment explanation
Indices: 258045--258088 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
258035 GTGTCAAGAA
* *
258045 GCAGAAAAAATGTGTCGTAAAG
1 GCAGAAAAAATATGTCATAAAG
258067 GCAGAAAAAATCATGTCATAAA
1 GCAGAAAAAAT-ATGTCATAAA
258089 TACATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.18
Consensus pattern (22 bp):
GCAGAAAAAATATGTCATAAAG
Found at i:258377 original size:21 final size:22
Alignment explanation
Indices: 258356--258404 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
258346 ATATATTTTT
258356 ATTTTATAATAATTTAA-ATTTA
1 ATTTT-TAATAATTTAATATTTA
* *
258378 AATTTTAATATTTTAATATTTA
1 ATTTTTAATAATTTAATATTTA
258400 ATTTT
1 ATTTT
258405 CTTAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTTAATAATTTAATATTTA
Found at i:258392 original size:8 final size:8
Alignment explanation
Indices: 258348--258433 Score: 56
Period size: 8 Copynumber: 11.1 Consensus size: 8
258338 CACTTATGAT
*
258348 ATATTTTT
1 ATATTTTA
258356 AT-TTTATA
1 ATATTT-TA
*
258364 ATAATTTA
1 ATATTTTA
258372 A-A-TTTA
1 ATATTTTA
258378 A-ATTTTA
1 ATATTTTA
258385 ATATTTTA
1 ATATTTTA
258393 ATA-TTTA
1 ATATTTTA
*
258400 ATTTTCTTA
1 ATATT-TTA
**
258409 ATATTAAA
1 ATATTTTA
*
258417 ATATTTTC
1 ATATTTTA
*
258425 CTATTTTA
1 ATATTTTA
258433 A
1 A
258434 AATGTATATT
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
6 6 0.10
7 15 0.25
8 30 0.50
9 9 0.15
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
ATATTTTA
Found at i:258409 original size:16 final size:15
Alignment explanation
Indices: 258362--258423 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
258352 TTTTATTTTA
258362 TAATAATTTAA-ATTT
1 TAAT-ATTTAATATTT
*
258377 AAAT-TTTAATATTT
1 TAATATTTAATATTT
*
258391 TAATATTTAATTTTCT
1 TAATATTTAATATT-T
*
258407 TAATATTAAAATATTT
1 TAATATT-TAATATTT
258423 T
1 T
258424 CCTATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 5 0.13
14 7 0.18
15 11 0.29
16 10 0.26
17 5 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATTTAATATTT
Found at i:262516 original size:3 final size:3
Alignment explanation
Indices: 262508--262537 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
262498 TTGGTTAGAG
262508 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
262538 ACTGCTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:266530 original size:30 final size:30
Alignment explanation
Indices: 266494--266550 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
266484 AAGCTACGCG
266494 TATTAAACATATGGTTAATGTATTTAGTTA
1 TATTAAACATATGGTTAATGTATTTAGTTA
266524 TATTAAACATATGGTTAATGTATTTAG
1 TATTAAACATATGGTTAATGTATTTAG
266551 GATCCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.46
Consensus pattern (30 bp):
TATTAAACATATGGTTAATGTATTTAGTTA
Found at i:269328 original size:30 final size:30
Alignment explanation
Indices: 269288--269369 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
269278 GGGAGCAGGC
*
269288 GGTGGGGTAGCTGGAGGAGGAGTTGCGGGT
1 GGTGGAGTAGCTGGAGGAGGAGTTGCGGGT
269318 GGTGGAGTAGCTGGAGGAGGAGTTGCGGGT
1 GGTGGAGTAGCTGGAGGAGGAGTTGCGGGT
* *
269348 GGTGGAGTAGCGGGAGGGGGAG
1 GGTGGAGTAGCTGGAGGAGGAG
269370 ATGTTGGCGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.16, C:0.06, G:0.61, T:0.17
Consensus pattern (30 bp):
GGTGGAGTAGCTGGAGGAGGAGTTGCGGGT
Found at i:269339 original size:15 final size:15
Alignment explanation
Indices: 269294--269369 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 15
269284 AGGCGGTGGG
*
269294 GTAGCTGGAGGAGGA
1 GTAGCGGGAGGAGGA
* * *
269309 GTTGCGGGTGGTGGA
1 GTAGCGGGAGGAGGA
*
269324 GTAGCTGGAGGAGGA
1 GTAGCGGGAGGAGGA
* * *
269339 GTTGCGGGTGGTGGA
1 GTAGCGGGAGGAGGA
*
269354 GTAGCGGGAGGGGGA
1 GTAGCGGGAGGAGGA
269369 G
1 G
269370 ATGTTGGCGG
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.17, C:0.07, G:0.59, T:0.17
Consensus pattern (15 bp):
GTAGCGGGAGGAGGA
Found at i:269427 original size:45 final size:45
Alignment explanation
Indices: 269306--269429 Score: 122
Period size: 45 Copynumber: 2.8 Consensus size: 45
269296 AGCTGGAGGA
* * * ** *
269306 GGAGTTGCGGGTGGTGGAGTAGCTGGAGGAGGAGTTGCGGGTGGT
1 GGAGTAGCGGGAGGTGGAGAAGCTGGAGGAGGAGAGGCAGGTGGT
* * * *
269351 GGAGTAGCGGGAGGGGGAGATGTTGGCGGAGGAGAGGCAGGTGGT
1 GGAGTAGCGGGAGGTGGAGAAGCTGGAGGAGGAGAGGCAGGTGGT
* * * *
269396 GGGGTGGCGGGAGGTGGAGAAGCGGGTGGAGGAG
1 GGAGTAGCGGGAGGTGGAGAAGCTGGAGGAGGAG
269430 TGACTGGAGG
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.17, C:0.06, G:0.61, T:0.15
Consensus pattern (45 bp):
GGAGTAGCGGGAGGTGGAGAAGCTGGAGGAGGAGAGGCAGGTGGT
Found at i:269439 original size:30 final size:32
Alignment explanation
Indices: 269405--269479 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 32
269395 TGGGGTGGCG
*
269405 GGAGGTGGAGAAGC-GGGTGGAGGAG-TG-ACT
1 GGAGGTGGAGAAGCTAGGTGGAGG-GTTGAACT
*
269435 GGAGGAGGAG-AGCTAGGTGGAGGGTTGAAACT
1 GGAGGTGGAGAAGCTAGGTGGAGGGTTG-AACT
*
269467 GGGGGTGGAGAAG
1 GGAGGTGGAGAAG
269480 ATGTCACTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
29 4 0.11
30 19 0.53
32 11 0.31
33 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.56, T:0.13
Consensus pattern (32 bp):
GGAGGTGGAGAAGCTAGGTGGAGGGTTGAACT
Found at i:269442 original size:60 final size:60
Alignment explanation
Indices: 269342--269454 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
269332 AGGAGGAGTT
* * * * *
269342 GCGGGTGGTGGAGTAGCGGGAGGGGGAGATGTTGGCGGAGGAGAGGC-AGGTGGTGGGGTG
1 GCGGGAGGTGGAGAAGCGGGAGGAGGAGATGCTGGAGGAGGAGA-GCTAGGTGGTGGGGTG
*
269402 GCGGGAGGTGGAGAAGCGGGTGGAGGAG-TGACTGGAGGAGGAGAGCTAGGTGG
1 GCGGGAGGTGGAGAAGCGGGAGGAGGAGATG-CTGGAGGAGGAGAGCTAGGTGG
269455 AGGGTTGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 4 0.09
60 41 0.91
ACGTcount: A:0.19, C:0.07, G:0.61, T:0.13
Consensus pattern (60 bp):
GCGGGAGGTGGAGAAGCGGGAGGAGGAGATGCTGGAGGAGGAGAGCTAGGTGGTGGGGTG
Found at i:270654 original size:60 final size:60
Alignment explanation
Indices: 270537--270654 Score: 132
Period size: 60 Copynumber: 2.0 Consensus size: 60
270527 GAGCACTTTG
* * * *
270537 TAACTTTTAATATTCGAAAGACTTAACAAAACAACAGTCTATAGTCAGGTGATCATTTTT
1 TAACTTTTAATAGTCGAAAGACTTAACAAAACAACAGTCTATAATCAGGGGACCATTTTT
* * * *
270597 TAACTTTTAATAGTC-AAGGGACTTAATAAAACAATA-TCATATAATCGGGGGACCATTT
1 TAACTTTTAATAGTCGAA-AGACTTAACAAAACAACAGTC-TATAATCAGGGGACCATTT
270655 GTGTATTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
59 4 0.08
60 44 0.92
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (60 bp):
TAACTTTTAATAGTCGAAAGACTTAACAAAACAACAGTCTATAATCAGGGGACCATTTTT
Found at i:276112 original size:115 final size:115
Alignment explanation
Indices: 275938--276167 Score: 460
Period size: 115 Copynumber: 2.0 Consensus size: 115
275928 TATTTTAGCT
275938 TTGTTTGGTACATAGATAAATAGACATATGGTGCTCAGATTTAGGCTTTGTCTTATGGATAAAAC
1 TTGTTTGGTACATAGATAAATAGACATATGGTGCTCAGATTTAGGCTTTGTCTTATGGATAAAAC
276003 GATCTTTCTCTGTATGAAGCTGCTGGTTAGCTGATTAATAAGAGACTGAG
66 GATCTTTCTCTGTATGAAGCTGCTGGTTAGCTGATTAATAAGAGACTGAG
276053 TTGTTTGGTACATAGATAAATAGACATATGGTGCTCAGATTTAGGCTTTGTCTTATGGATAAAAC
1 TTGTTTGGTACATAGATAAATAGACATATGGTGCTCAGATTTAGGCTTTGTCTTATGGATAAAAC
276118 GATCTTTCTCTGTATGAAGCTGCTGGTTAGCTGATTAATAAGAGACTGAG
66 GATCTTTCTCTGTATGAAGCTGCTGGTTAGCTGATTAATAAGAGACTGAG
276168 AGTGTTCCAT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (115 bp):
TTGTTTGGTACATAGATAAATAGACATATGGTGCTCAGATTTAGGCTTTGTCTTATGGATAAAAC
GATCTTTCTCTGTATGAAGCTGCTGGTTAGCTGATTAATAAGAGACTGAG
Found at i:292631 original size:23 final size:23
Alignment explanation
Indices: 292605--292650 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
292595 TAAAAAAAAA
292605 AGTCTTAATTTTTTTAATTTTTT
1 AGTCTTAATTTTTTTAATTTTTT
*
292628 AGTCTTAATTTTTTTTATTTTTT
1 AGTCTTAATTTTTTTAATTTTTT
292651 TCGTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (23 bp):
AGTCTTAATTTTTTTAATTTTTT
Found at i:296035 original size:2 final size:2
Alignment explanation
Indices: 295993--296025 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
295983 TTAGAATAAT
*
295993 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
296026 GAAAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:297932 original size:50 final size:50
Alignment explanation
Indices: 297827--297932 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
297817 TATTCAAATA
* * *
297827 GAGTTATTCGAATCAACTCGAATTGTCAATTCGGTTTTCGAGTTCGAGTC
1 GAGTTGTTCGAATCAACTCAAATTGTCAATTCGATTTTCGAGTTCGAGTC
* * *
297877 GAGTTGTTTGAATCTACTCAAATTGTCAGTTCGATTTTCGAGTTCGAGTC
1 GAGTTGTTCGAATCAACTCAAATTGTCAATTCGATTTTCGAGTTCGAGTC
297927 GAGTTG
1 GAGTTG
297933 AAGTTTTGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (50 bp):
GAGTTGTTCGAATCAACTCAAATTGTCAATTCGATTTTCGAGTTCGAGTC
Found at i:298463 original size:19 final size:21
Alignment explanation
Indices: 298420--298469 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
298410 ATACTTTGAA
298420 TTATAATATTATGATTATATT
1 TTATAATATTATGATTATATT
* *
298441 TTATAATTTTA-GATTGT-TT
1 TTATAATATTATGATTATATT
298460 TTAT-ATATTA
1 TTATAATATTA
298470 AATAAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 6 0.23
20 5 0.19
21 10 0.38
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (21 bp):
TTATAATATTATGATTATATT
Found at i:300643 original size:27 final size:26
Alignment explanation
Indices: 300605--300681 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 26
300595 TCATTTAAAT
300605 TTATTATTATTATTAAA-T-TTATTA
1 TTATTATTATTATTAAATTATTATTA
300629 TTATTATTATTATTAAA-TATTATTA
1 TTATTATTATTATTAAATTATTATTA
*
300654 TTAGTATATTATTATTAAATAATTATTA
1 TTA-T-TATTATTATTAAATTATTATTA
300682 CAAGCCCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
24 18 0.38
25 9 0.19
26 1 0.02
27 13 0.27
28 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (26 bp):
TTATTATTATTATTAAATTATTATTA
Found at i:300681 original size:3 final size:3
Alignment explanation
Indices: 300605--300670 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
300595 TCATTTAAAT
* *
300605 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTA TTAA ATA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
300651 TTA TTA GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
300671 AATAATTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
2 3 0.06
3 48 0.89
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:301482 original size:13 final size:13
Alignment explanation
Indices: 301464--301492 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
301454 ACCACCGTTA
301464 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
301477 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
301490 CGG
1 CGG
301493 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:303039 original size:10 final size:10
Alignment explanation
Indices: 303021--303082 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
303011 TTTCTTTCAA
*
303021 ATTTTTTATT
1 ATTTATTATT
303031 ATTTATTATT
1 ATTTATTATT
303041 -TTTATATATT
1 ATTTAT-TATT
303051 A-TTATTTATT
1 ATTTA-TTATT
303061 A-TT-TTATTT
1 ATTTATTA-TT
*
303070 ATTTATTTTT
1 ATTTATTATT
303080 ATT
1 ATT
303083 CAAGAATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 3 0.07
9 8 0.18
10 30 0.68
11 3 0.07
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTATT
Found at i:303044 original size:16 final size:16
Alignment explanation
Indices: 303023--303082 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 16
303013 TCTTTCAAAT
303023 TTTTTATTATTTATTA
1 TTTTTATTATTTATTA
303039 TTTTTA-TATATTATTA
1 TTTTTATTAT-TTATTA
303055 TTTATTATTTTATTTATTTA
1 TTT-TTA--TTATTTA-TTA
303075 TTTTTATT
1 TTTTTATT
303083 CAAGAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 3 0.08
16 15 0.39
17 5 0.13
19 6 0.16
20 9 0.24
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATTATTTATTA
Found at i:303045 original size:13 final size:13
Alignment explanation
Indices: 303029--303082 Score: 62
Period size: 12 Copynumber: 4.4 Consensus size: 13
303019 AAATTTTTTA
303029 TTATTTATTATTT
1 TTATTTATTATTT
*
303042 TTA--TA-TATTA
1 TTATTTATTATTT
303052 TTATTTATTA-TT
1 TTATTTATTATTT
303064 TTATTTATTTATTT
1 TTATTTA-TTATTT
303078 TTATT
1 TTATT
303083 CAAGAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 7 0.21
11 2 0.06
12 10 0.29
13 8 0.24
14 7 0.21
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTATTATTT
Found at i:303052 original size:20 final size:20
Alignment explanation
Indices: 303021--303082 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
303011 TTTCTTTCAA
*
303021 ATTTTTTATTATTTATTATT
1 ATTTTATATTATTTATTATT
303041 -TTTATATATTA-TTATTTATT
1 ATTT-TATATTATTTA-TTATT
*
303061 ATTTTAT-TTATTTATTTTT
1 ATTTTATATTATTTATTATT
303080 ATT
1 ATT
303083 CAAGAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 16 0.44
20 17 0.47
21 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTATATTATTTATTATT
Found at i:303055 original size:23 final size:23
Alignment explanation
Indices: 303025--303082 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
303015 TTTCAAATTT
303025 TTTATTATTTATTATTTT-TATA
1 TTTATTATTTATTATTTTATATA
*
303047 TATTATTATTTATTATTTTATTTA
1 T-TTATTATTTATTATTTTATATA
303071 TTTATT-TTTATT
1 TTTATTATTTATT
303083 CAAGAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTATTTATTATTTTATATA
Found at i:303062 original size:26 final size:26
Alignment explanation
Indices: 303026--303082 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
303016 TTCAAATTTT
303026 TTATTATTTATTA--TT-TTTATATA
1 TTATTATTTATTATTTTATTTATATA
*
303049 TTATTATTTATTATTTTATTTATTTA
1 TTATTATTTATTATTTTATTTATATA
*
303075 TTTTTATT
1 TTATTATT
303083 CAAGAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 13 0.45
25 2 0.07
26 14 0.48
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (26 bp):
TTATTATTTATTATTTTATTTATATA
Found at i:307368 original size:2 final size:2
Alignment explanation
Indices: 307361--307386 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
307351 TTATCCCTTA
307361 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
307387 CCTTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:312454 original size:22 final size:22
Alignment explanation
Indices: 312425--312479 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
312415 ATCTACACTC
312425 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
312447 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
312469 TTCAAAGATGA
1 TTCAAAGATGA
312480 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:313225 original size:29 final size:29
Alignment explanation
Indices: 313189--313255 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
313179 ATGTTTCCAA
*
313189 AAAGCCTTCGGGAGCTTTTTGATGTTTTT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
313218 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
*
313247 AAATCCTTC
1 AAAGCCTTC
313256 CCACATCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (29 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:313371 original size:76 final size:76
Alignment explanation
Indices: 313218--314130 Score: 1639
Period size: 76 Copynumber: 12.0 Consensus size: 76
313208 TGATGTTTTT
* ***
313218 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTC-CCACATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313282 GATGTTTCCAA
66 GATGTTTCCAA
313293 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313358 GATGTTTCCAA
66 GATGTTTCCAA
*
313369 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313434 GATGTTTCCAA
66 GATGTTTCCAA
*
313445 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313510 GATGTTTCCAA
66 GATGTTTCCAA
*
313521 AAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313586 GATGTTTCCAA
66 GATGTTTCCAA
*
313597 AAAGCCTTCGGGAGATTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313662 GATGTTTCCAA
66 GATGTTTCCAA
*
313673 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
*
313738 AATGTTTCCAAA
66 GATGTTTCC-AA
*
313750 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTCCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313815 GATGTTTCCAA
66 GATGTTTCCAA
* *
313826 AAAGCCTTAGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313891 GATGTTTCCAA
66 GATGTTTCCAA
313902 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
313967 GATGTTTCCAA
66 GATGTTTCCAA
* * *
313978 AAAGTCTTCGGGTGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
314043 GATGTTTCCAA
66 GATGTTTCCAA
* *
314054 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCATCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
*
314119 GATGTTTTCAA
66 GATGTTTCCAA
314130 A
1 A
314131 CATTTCCATC
Statistics
Matches: 806, Mismatches: 30, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
75 37 0.05
76 696 0.86
77 73 0.09
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (76 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
GATGTTTCCAA
Found at i:314281 original size:21 final size:22
Alignment explanation
Indices: 314255--314314 Score: 95
Period size: 21 Copynumber: 2.7 Consensus size: 22
314245 TCATTTAAAT
314255 TTATTATTATTATTAAAT-TTA
1 TTATTATTATTATTAAATATTA
314276 TTATTATTATTATTAAATATTA
1 TTATTATTATTATTAAATATTA
314298 TTATTAGTATATTATTA
1 TTATTA-T-TATTATTA
314315 TTAAATAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.50
22 9 0.25
23 1 0.03
24 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTATTATTATTAAATATTA
Found at i:314300 original size:31 final size:28
Alignment explanation
Indices: 314262--314328 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 28
314252 AATTTATTAT
*
314262 TATTATTAAATTTATTATTATTATTATTAAA
1 TATTATT-AA-TTAGTA-TATTATTATTAAA
314293 TATTATT-ATTAGTATATTATTATTAAA
1 TATTATTAATTAGTATATTATTATTAAA
314320 TAATTATTA
1 T-ATTATTA
314329 CAAGCCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 14 0.42
28 11 0.33
29 1 0.03
31 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TATTATTAATTAGTATATTATTATTAAA
Found at i:314310 original size:27 final size:25
Alignment explanation
Indices: 314255--314328 Score: 93
Period size: 21 Copynumber: 3.0 Consensus size: 25
314245 TCATTTAAAT
314255 TTATTATTATTATT-AA-A-T-TTA
1 TTATTATTATTATTAAATATTATTA
314276 TTATTATTATTATTAAATATTATTA
1 TTATTATTATTATTAAATATTATTA
314301 TTAGTATATTATTATTAAATAATTATTA
1 TTA-T-TATTATTATTAAAT-ATTATTA
314329 CAAGCCCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
21 14 0.30
22 2 0.04
23 1 0.02
24 1 0.02
25 6 0.13
26 1 0.02
27 14 0.30
28 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTATTATTATTATTAAATATTATTA
Found at i:314325 original size:14 final size:14
Alignment explanation
Indices: 314281--314328 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
314271 ATTTATTATT
314281 ATTATTATTAAAT-
1 ATTATTATTAAATA
*
314294 ATTATTATT-AGTA
1 ATTATTATTAAATA
314307 TATTATTATTAAATA
1 -ATTATTATTAAATA
314322 ATTATTA
1 ATTATTA
314329 CAAGCCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 2 0.07
13 9 0.30
14 16 0.53
15 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:314328 original size:3 final size:3
Alignment explanation
Indices: 314255--314317 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
314245 TCATTTAAAT
* *
314255 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
314301 TTA GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
314318 AATAATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.06
3 45 0.88
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:315131 original size:13 final size:13
Alignment explanation
Indices: 315113--315141 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
315103 ACCACCGTTA
315113 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
315126 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
315139 CGG
1 CGG
315142 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:319204 original size:19 final size:19
Alignment explanation
Indices: 319180--319218 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
319170 TAAACTTATA
319180 AAATTTT-AAGAAATAAAAT
1 AAATTTTCAAGAAA-AAAAT
*
319199 AAATTTTCAATAAAAAAAT
1 AAATTTTCAAGAAAAAAAT
319218 A
1 A
319219 CATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATTTTCAAGAAAAAAAT
Found at i:325629 original size:15 final size:15
Alignment explanation
Indices: 325611--325641 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
325601 GCCCCTTAAA
*
325611 CATTGATGCTCTGTG
1 CATTGATGCCCTGTG
325626 CATTGATGCCCTGTG
1 CATTGATGCCCTGTG
325641 C
1 C
325642 GATCGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.26, G:0.26, T:0.35
Consensus pattern (15 bp):
CATTGATGCCCTGTG
Found at i:326006 original size:20 final size:20
Alignment explanation
Indices: 325983--326022 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
325973 AATATTTGTT
325983 TTTCTAGAGAAGATGATGAA
1 TTTCTAGAGAAGATGATGAA
326003 TTTCTAGAGAAGATGATGAA
1 TTTCTAGAGAAGATGATGAA
326023 GAGACAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (20 bp):
TTTCTAGAGAAGATGATGAA
Found at i:328242 original size:7 final size:7
Alignment explanation
Indices: 328230--328276 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
328220 TACAACTTGG
328230 AAATTTA
1 AAATTTA
328237 AAATTTA
1 AAATTTA
328244 AAATTTA
1 AAATTTA
328251 AAATTTA
1 AAATTTA
328258 AAATTTA
1 AAATTTA
328265 AAATTTA
1 AAATTTA
328272 AAATT
1 AAATT
328277 GTTATTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATTTA
Found at i:334968 original size:24 final size:23
Alignment explanation
Indices: 334940--334995 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
334930 CCACTAGGGG
*
334940 CACTGAATATTTGTCCCAAAAGAC
1 CACTG-ATATATGTCCCAAAAGAC
* *
334964 CACTG-TATATGTCCCGAAGGAC
1 CACTGATATATGTCCCAAAAGAC
334986 CACTG-TATAT
1 CACTGATATAT
334996 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 24 0.83
24 5 0.17
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (23 bp):
CACTGATATATGTCCCAAAAGAC
Found at i:334986 original size:22 final size:22
Alignment explanation
Indices: 334951--334995 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
334941 ACTGAATATT
334951 TGTCCCAAAAGACCACTGTATA
1 TGTCCCAAAAGACCACTGTATA
* *
334973 TGTCCCGAAGGACCACTGTATA
1 TGTCCCAAAAGACCACTGTATA
334995 T
1 T
334996 CCCTCGACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (22 bp):
TGTCCCAAAAGACCACTGTATA
Found at i:338048 original size:29 final size:30
Alignment explanation
Indices: 338014--338089 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
338004 ATTCATTCTA
* *
338014 TAAAGTTCAGTGAGTATATTGAA-A-AAAT
1 TAAAGTTCAGTGAGTATATAGAAGAGAAAG
* * *
338042 TAAAAGTACAATGAGTGATATAGAAGAGAGAG
1 T-AAAGTTCAGTGAGT-ATATAGAAGAGAAAG
338074 TAAAGTTCAGTGAGTA
1 TAAAGTTCAGTGAGTA
338090 AACGTGTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
28 1 0.03
29 12 0.32
30 8 0.22
31 13 0.35
32 3 0.08
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (30 bp):
TAAAGTTCAGTGAGTATATAGAAGAGAAAG
Found at i:343299 original size:32 final size:32
Alignment explanation
Indices: 343259--343319 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
343249 TAATACTTAC
343259 TTTATTTTGTTAAT-TTGATTGGATTTTTTAAA
1 TTTATTTTGTTAATATTG-TTGGATTTTTTAAA
343291 TTTATTTTGTTAATATTGTTGGATTTTTT
1 TTTATTTTGTTAATATTGTTGGATTTTTT
343320 GTTAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (32 bp):
TTTATTTTGTTAATATTGTTGGATTTTTTAAA
Found at i:345696 original size:12 final size:12
Alignment explanation
Indices: 345679--345703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
345669 AACTATCGTG
345679 TCAAATGGAAAA
1 TCAAATGGAAAA
345691 TCAAATGGAAAA
1 TCAAATGGAAAA
345703 T
1 T
345704 ACACTGATTG
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (12 bp):
TCAAATGGAAAA
Found at i:346603 original size:14 final size:15
Alignment explanation
Indices: 346564--346610 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
346554 TATTTTTTTC
*
346564 AAATAATCATAATAA
1 AAATAATTATAATAA
346579 ACAATAATTATAATAA
1 A-AATAATTATAATAA
*
346595 AAA-AATTATAACAA
1 AAATAATTATAATAA
346609 AA
1 AA
346611 TTACCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.41
15 3 0.10
16 14 0.48
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATTATAATAA
Found at i:346861 original size:51 final size:51
Alignment explanation
Indices: 346766--346862 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
346756 AGCCGAGAAG
** *
346766 GTGCGGTACCTACACTGCGCCTTACATAATTGTATCTGAGTTAAAGCGAAT
1 GTGCGGTACCTACACTGCGCCTTACATAATTGTATCAAAATTAAAGCGAAT
* * *
346817 GTGCGGTACTTACACTGCGTCTTACATAATTGTGTCAAAATTAAAG
1 GTGCGGTACCTACACTGCGCCTTACATAATTGTATCAAAATTAAAG
346863 TAAAAACGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (51 bp):
GTGCGGTACCTACACTGCGCCTTACATAATTGTATCAAAATTAAAGCGAAT
Found at i:349885 original size:15 final size:15
Alignment explanation
Indices: 349854--349896 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
349844 TAAACTGAAT
349854 TTTAAAAATGAAT-AAA
1 TTTAAAAA--AATAAAA
349870 TTTAAAAAAATAAAA
1 TTTAAAAAAATAAAA
*
349885 TTTTAAAAAATA
1 TTTAAAAAAATA
349897 TAAACAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 3 0.12
15 14 0.56
16 8 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TTTAAAAAAATAAAA
Found at i:349889 original size:16 final size:16
Alignment explanation
Indices: 349851--349900 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
349841 TTTTAAACTG
349851 AATTTTAAAAATGAAT-A
1 AATTTTAAAAA--AATAA
349868 AA-TTTAAAAAAATAA
1 AATTTTAAAAAAATAA
349883 AATTTTAAAAAATATAA
1 AATTTTAAAAAA-ATAA
349900 A
1 A
349901 CAAATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 17 0.57
17 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AATTTTAAAAAAATAA
Found at i:351625 original size:140 final size:142
Alignment explanation
Indices: 351392--351649 Score: 398
Period size: 140 Copynumber: 1.8 Consensus size: 142
351382 TTTAGTCACT
* *
351392 AATTTCATTAGTTCTTCATTTCCTCATTCATTTTAAGTCTATTTTTTTTACCAAATTTGAACTAC
1 AATTTCATTAGTTCTTCATTTCCTCATTCATTTTAAGTCTATATTTTTTACCAAATTTGAACCAC
351457 ATGCTCCTAAATCATAGTAGAATACATGTGTACTTTCAATTCGTCTTTTTGATTTTCAATTTAGT
66 ATGCTCCTAAATCATAGTAGAATACATGTGTACTTTCAATTCGTCTTTTTGATTTTCAATTTAGT
351522 CCTTCAATTTTC
131 CCTTCAATTTTC
* * * *
351534 AATTTCCTTATTTCTTCGA-TTCGTCATTTATTTTAAGTC-A-ATTTTTTACCAAATTT-AAGCC
1 AATTTCATTAGTTCTTC-ATTTCCTCATTCATTTTAAGTCTATATTTTTTACCAAATTTGAA-CC
* *
351595 ACATGCTCCTAAATCATGGTAGAATACATGTGTACTTTCAATTCTTCTTTTTGAT
64 ACATGCTCCTAAATCATAGTAGAATACATGTGTACTTTCAATTCGTCTTTTTGAT
351650 AACAATTGTT
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
139 2 0.02
140 69 0.65
141 1 0.01
142 33 0.31
143 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (142 bp):
AATTTCATTAGTTCTTCATTTCCTCATTCATTTTAAGTCTATATTTTTTACCAAATTTGAACCAC
ATGCTCCTAAATCATAGTAGAATACATGTGTACTTTCAATTCGTCTTTTTGATTTTCAATTTAGT
CCTTCAATTTTC
Found at i:352043 original size:2 final size:2
Alignment explanation
Indices: 352036--352069 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
352026 TGAAAGAATA
352036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
352070 TATGGTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:359865 original size:80 final size:81
Alignment explanation
Indices: 359764--359966 Score: 340
Period size: 81 Copynumber: 2.5 Consensus size: 81
359754 TTAATATCCT
* * *
359764 CGTAGAGTTGGGAAAATATTAAT-TAATTTCTTTATTAAAATTATAATATCTTTTATCTTAATAT
1 CGTAGGGTTGGAAAAACATTAATGTAATTTCTTTATTAAAATTATAATATCTTTTATCTTAATAT
359828 TAATATATAGTTTACG
66 TAATATATAGTTTACG
359844 CGTAGGGTTGGAAAAACATTAATGT-ATTTCTTTATTAAAAATTATAATATCTTTTATCTTAATA
1 CGTAGGGTTGGAAAAACATTAATGTAATTTCTTTATT-AAAATTATAATATCTTTTATCTTAATA
359908 TTAATATATAGTTTACG
65 TTAATATATAGTTTACG
*
359925 CGTAGGGTTTGAAAAACATTAATGTAA-TTCTTTATTAAAATT
1 CGTAGGGTTGGAAAAACATTAATGTAATTTCTTTATTAAAATT
359967 TAACTCTAAA
Statistics
Matches: 116, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
80 37 0.32
81 78 0.67
82 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (81 bp):
CGTAGGGTTGGAAAAACATTAATGTAATTTCTTTATTAAAATTATAATATCTTTTATCTTAATAT
TAATATATAGTTTACG
Found at i:362849 original size:11 final size:11
Alignment explanation
Indices: 362835--362863 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
362825 TTAAATATTT
362835 ATCAAATTTTA
1 ATCAAATTTTA
362846 ATCAAATTTTA
1 ATCAAATTTTA
362857 ATCAAAT
1 ATCAAAT
362864 CAATCTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (11 bp):
ATCAAATTTTA
Found at i:373083 original size:12 final size:12
Alignment explanation
Indices: 373066--373092 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
373056 ATTTGTTTAA
373066 TCTTCTTCTCTC
1 TCTTCTTCTCTC
373078 TCTTCTTCTCTC
1 TCTTCTTCTCTC
373090 TCT
1 TCT
373093 CACCAGCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTCTTCTCTC
Found at i:378886 original size:24 final size:24
Alignment explanation
Indices: 378839--378887 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
378829 ATAGATTAAT
*
378839 TTTTAAAAAATTGTTAAGTTTATA
1 TTTTAAAAAATTGTTAAGTCTATA
*
378863 TTTTAAAATAATT-TTATGTCTATA
1 TTTTAAAA-AATTGTTAAGTCTATA
378887 T
1 T
378888 GTAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
TTTTAAAAAATTGTTAAGTCTATA
Found at i:379952 original size:42 final size:42
Alignment explanation
Indices: 379889--380007 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
379879 TTCCCCGAAA
*
379889 TCTCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTT
1 TCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
*
379931 TCTCGTGTTTGTTTCACGTAATTCGTTTTCCAGAAAATGTTT
1 TCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
* *
379973 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAA
1 TCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
380008 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (42 bp):
TCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
Found at i:380222 original size:21 final size:23
Alignment explanation
Indices: 380179--380229 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
380169 CATTTTCATC
380179 AAAATATTATTTATTAAAATATTT
1 AAAATATTATTTATT-AAATATTT
380203 AAAATA-TATTTATT-AATATTT
1 AAAATATTATTTATTAAATATTT
*
380224 ATAATA
1 AAAATA
380230 ATATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
23 8 0.31
24 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATTATTTATTAAATATTT
Found at i:380243 original size:22 final size:23
Alignment explanation
Indices: 380196--380295 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 23
380186 TATTTATTAA
* *
380196 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
380217 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
380240 -ATATTTTTAATATTATATAAAATAATC
1 AATATTTATAATA--ATAT--AAT-ATT
380267 AATTATATTATAATAATATAATA-T
1 AA-TAT-TTATAATAATATAATATT
380291 AATAT
1 AATAT
380296 AAGATATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
21 11 0.17
22 15 0.24
23 7 0.11
24 6 0.10
25 1 0.02
26 6 0.10
27 2 0.03
28 5 0.08
29 3 0.05
30 7 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:380305 original size:33 final size:30
Alignment explanation
Indices: 380207--380309 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 30
380197 ATATTTAAAA
*
380207 TATATTTATTAATAT-TTATAATAATATAATAT
1 TATATTTA-TAATATAATATAAT-ATA-AATAT
* * *
380239 TATATTTTTAATATTATATAAAAT-AATCAAT
1 TATATTTATAATATAATATAATATAAAT--AT
380270 TATATTATAATAATATAATATAATATAAGATAT
1 TATATT-T-ATAATATAATATAATATAA-ATAT
380303 TATATTT
1 TATATTT
380310 TTATTTTAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
29 3 0.05
31 16 0.28
32 14 0.24
33 22 0.38
34 1 0.02
35 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TATATTTATAATATAATATAATATAAATAT
Found at i:380350 original size:30 final size:28
Alignment explanation
Indices: 380289--380383 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 28
380279 ATAATATAAT
*
380289 ATAATATA-AGATATTATATTTTTAT-TTTA
1 ATAATATATA-ATATT-T-TTTATATATTTA
380318 ATAATATATAATAATTTTTTTATATATTTA
1 ATAATATATAAT-A-TTTTTTATATATTTA
*
380348 ATAATGA-ATAATATTATTTATATATTTAA
1 ATAAT-ATATAATATTTTTTATATATTT-A
380377 ATAATAT
1 ATAATAT
380384 TTTAGTAAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
28 14 0.25
29 23 0.40
30 17 0.30
31 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
ATAATATATAATATTTTTTATATATTTA
Found at i:380511 original size:90 final size:86
Alignment explanation
Indices: 380399--380568 Score: 200
Period size: 90 Copynumber: 1.9 Consensus size: 86
380389 TAAAGATATT
* * * * * *
380399 TAAAATATACTAATTAATATTTTTA-AAATATAA-TATAACACTATTACTTTAATAAATAATTAA
1 TAAAATATACAAATTAATATTTTTATAAATAAAATTATAAAAATAATA-TTTAAT-AATAAATAA
380462 TATAATTTATAATATTTTATTTCAC
64 -ATAATTT-TAATATTTTATTTCAC
*
380487 TAAAATATACCAATATTAATATTTTTATTAATAAAATTATAAAAATAATATTTAATAATAAATAA
1 TAAAATATA-CAA-ATTAATATTTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAA
*
380552 ATTATTTTAATATTTTA
64 ATAATTTTAATATTTTA
380569 AAATAATAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
88 19 0.27
89 8 0.11
90 21 0.30
91 12 0.17
92 10 0.14
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (86 bp):
TAAAATATACAAATTAATATTTTTATAAATAAAATTATAAAAATAATATTTAATAATAAATAAAT
AATTTTAATATTTTATTTCAC
Found at i:380936 original size:21 final size:21
Alignment explanation
Indices: 380894--381009 Score: 114
Period size: 21 Copynumber: 5.6 Consensus size: 21
380884 ACTATCGCAA
380894 TGCGATAGTCCAAGTT--CGT
1 TGCGATAGTCCAAGTTCGCGT
** *
380913 TGCGATAGTAGAATTTCGCGT
1 TGCGATAGTCCAAGTTCGCGT
* *
380934 TGCGATTTATTCCAAATTCGCGT
1 TGCGA--TAGTCCAAGTTCGCGT
*
380957 TGCGATAGTCCAAGTT--AGT
1 TGCGATAGTCCAAGTTCGCGT
* *
380976 TGCGATAATCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGCGT
380997 TGCGATAGTCCAA
1 TGCGATAGTCCAA
381010 AATCGCAACG
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
19 29 0.38
21 30 0.39
23 17 0.22
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (21 bp):
TGCGATAGTCCAAGTTCGCGT
Found at i:381862 original size:21 final size:21
Alignment explanation
Indices: 381838--381989 Score: 131
Period size: 21 Copynumber: 7.4 Consensus size: 21
381828 ATTTTGGGCT
*
381838 ATCGCAACGAATTTGAAATAA
1 ATCGCAACGAATTTGGAATAA
* *
381859 ATCGCAACGAACTTGGACT--
1 ATCGCAACGAATTTGGAATAA
*
381878 ATCGCAACGAATTTGTAATAA
1 ATCGCAACGAATTTGGAATAA
* *
381899 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
381920 ATCGCAACAAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
381941 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
381962 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
381981 ATCGCAACG
1 ATCGCAACG
381990 CGAACTTCGA
Statistics
Matches: 104, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
19 42 0.40
21 44 0.42
23 18 0.17
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:381925 original size:42 final size:41
Alignment explanation
Indices: 381831--382010 Score: 276
Period size: 40 Copynumber: 4.4 Consensus size: 41
381821 CGTTGCGATT
*
381831 TTGGGCTATCGCAACGAATTTGAAATAAATCGCAA--CGAAC
1 TTGGACTATCGCAACGAATTTG-AATAAATCGCAACGCGAAC
381871 TTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTG-AATAAATCGCAACGCGAAC
*
381913 TTGGACTATCGCAACAAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTT-GAATAAATCGCAACGCGAAC
*
381955 TTGGACTATCGCAACGAATTTGGA-AAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGAATAAATCGCAACGCGAAC
*
381995 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
382011 CGAACTTCGA
Statistics
Matches: 131, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
40 64 0.49
41 2 0.02
42 64 0.49
43 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (41 bp):
TTGGACTATCGCAACGAATTTGAATAAATCGCAACGCGAAC
Found at i:381978 original size:61 final size:61
Alignment explanation
Indices: 381899--382029 Score: 140
Period size: 61 Copynumber: 2.1 Consensus size: 61
381889 TTTGTAATAA
** * * *
381899 ATCGCAACGCGAACTTGGACTATCGCAA-CAAATTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAAC-CGAACTTGGAAAATCGCAACCAAACTTCGAAT--ATCGCAACGCGAACTTCGACT
* * *
381962 ATCGCAA-CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTCGACT
1 ATCGCAACCGAACTTGGAAAATCGCAAC-CAAACTTCGAATATCGCAACGCGAACTTCGACT
382023 ATCGCAA
1 ATCGCAA
382030 TGCGAATATG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 43 0.74
63 15 0.26
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (61 bp):
ATCGCAACCGAACTTGGAAAATCGCAACCAAACTTCGAATATCGCAACGCGAACTTCGACT
Found at i:381983 original size:82 final size:82
Alignment explanation
Indices: 381831--382009 Score: 281
Period size: 82 Copynumber: 2.2 Consensus size: 82
381821 CGTTGCGATT
* *
381831 TTGGGCTATCGCAACGAATTTGAAATAAATCGCAACGAACTTGGACTATCGCAACGAATTTGTAA
1 TTGGACTATCGCAACAAATTTGAAATAAATCGCAACGAACTTGGACTATCGCAACGAATTTGTAA
381896 TAAATCGCAACGCGAAC
66 TAAATCGCAACGCGAAC
*
381913 TTGGACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTG-
1 TTGGACTATCGCAACAAATTTGAAATAAATCGCAA--CGAACTTGGACTATCGCAACGAATTTGT
*
381977 GA-AAATCGCAACGCGAAC
64 AATAAATCGCAACGCGAAC
*
381995 TTCGACTATCGCAAC
1 TTGGACTATCGCAAC
382010 GCGAACTTCG
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
82 62 0.69
83 1 0.01
84 27 0.30
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (82 bp):
TTGGACTATCGCAACAAATTTGAAATAAATCGCAACGAACTTGGACTATCGCAACGAATTTGTAA
TAAATCGCAACGCGAAC
Found at i:382005 original size:21 final size:21
Alignment explanation
Indices: 381859--382035 Score: 154
Period size: 21 Copynumber: 8.6 Consensus size: 21
381849 TTTGAAATAA
381859 ATCGCAA--CGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* * *
381878 ATCGCAA--CGAATTTGTAAT
1 ATCGCAACGCGAACTTGGACT
381897 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* * *
381920 ATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
381939 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* **
381962 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
381981 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
382002 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
382023 ATCGCAATGCGAA
1 ATCGCAACGCGAA
382036 TATGTAAATC
Statistics
Matches: 128, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
19 41 0.32
21 69 0.54
23 18 0.14
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:382266 original size:29 final size:30
Alignment explanation
Indices: 382232--382303 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
382222 TTCCAGAAAT
382232 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
382261 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
382291 ATAATTCATTTTC
1 GTAATTCATTTTC
382304 TGAAAAAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Done.