Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167999.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_255, 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: 42124
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Found at i:2970 original size:63 final size:63
Alignment explanation
Indices: 2903--3035 Score: 214
Period size: 63 Copynumber: 2.1 Consensus size: 63
2893 CATTTTTTGC
* * *
2903 AAAAAAATGCCTTCAATAATCCT-TTCCATTTTTATCAGGGGATTATTCAAGGCGTTTTACAAA
1 AAAAAAAGGCCTTCAATAAT-CTATTCCATTTTTATCAAGGGATTATTAAAGGCGTTTTACAAA
*
2966 AAAAAAAGGCCTTCAATAATCTATTCCATTTTTATCAAGGGATTATTAAAGGTGTTTTACAAA
1 AAAAAAAGGCCTTCAATAATCTATTCCATTTTTATCAAGGGATTATTAAAGGCGTTTTACAAA
3029 AAAAAAA
1 AAAAAAA
3036 AATACATTCA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
62 2 0.03
63 63 0.97
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (63 bp):
AAAAAAAGGCCTTCAATAATCTATTCCATTTTTATCAAGGGATTATTAAAGGCGTTTTACAAA
Found at i:3187 original size:62 final size:60
Alignment explanation
Indices: 3042--3239 Score: 159
Period size: 62 Copynumber: 3.2 Consensus size: 60
3032 AAAAAATACA
* * * * * * *
3042 TTCAATAATCCCTTTAAATTTTGACGAGAAGATTATTGAAGGTATTTTTTACTAG-AAACGCC
1 TTCAATAATCCCTTT-CATTTTTACAAGAA-ATTATTAAAGGTGTTTTTT-GTAGAAAATGCC
* *
3104 TTTAATAATCCGC-TTCAATTTTTTATAAGAAATTATTAAAGGTGTTCTTTTGTAGAAAATGCC
1 TTCAATAATCC-CTTTC-A-TTTTTACAAGAAATTATTAAAGGTGTT-TTTTGTAGAAAATGCC
* ** * **
3167 TTCAATAATCCCTTTCATTTTTACCAGGGGATTATTCAAGGTGTTTTTTGTTA-AAAATATC
1 TTCAATAATCCCTTTCATTTTTA-CAAGAAATTATTAAAGGTGTTTTTTG-TAGAAAATGCC
3228 TTCAATAATCCC
1 TTCAATAATCCC
3240 GTCCAATTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 17
0.77 0.12 0.12
Matches are distributed among these distances:
61 29 0.26
62 49 0.44
63 33 0.30
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (60 bp):
TTCAATAATCCCTTTCATTTTTACAAGAAATTATTAAAGGTGTTTTTTGTAGAAAATGCC
Found at i:3262 original size:62 final size:63
Alignment explanation
Indices: 3102--3269 Score: 150
Period size: 62 Copynumber: 2.7 Consensus size: 63
3092 ACTAGAAACG
* * * * *
3102 CCTTTAATAAT-CCGCTTCAATTTTTTATAAGAA-ATTATTAAAGGTGTTCTTTTGTAGAAAATG
1 CCTTCAATAATCCCG-TCCAATTTTTTACAA-AAGATTATTCAAGGTGTTCTTTTGTAGAAAATA
* * ***
3165 CCTTCAATAATCCCTTTC-A-TTTTTACCAGGGGATTATTCAAGGTGTT-TTTTGTTA-AAAATA
1 CCTTCAATAATCCCGTCCAATTTTTTA-CAAAAGATTATTCAAGGTGTTCTTTTG-TAGAAAATA
* *
3226 TCTTCAATAATCCCGTCCAATTTTTTAGAAAAGATTATTCAAGG
1 CCTTCAATAATCCCGTCCAATTTTTTACAAAAGATTATTCAAGG
3270 CATTTTCTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
61 31 0.37
62 32 0.38
63 19 0.23
64 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (63 bp):
CCTTCAATAATCCCGTCCAATTTTTTACAAAAGATTATTCAAGGTGTTCTTTTGTAGAAAATA
Found at i:3288 original size:253 final size:251
Alignment explanation
Indices: 2778--3301 Score: 567
Period size: 253 Copynumber: 2.1 Consensus size: 251
2768 GATATTTTCT
* *
2778 AAAAAAAAACCTTCAATAATCCCTCTAAATTTTGACGATGAGATTATTAAAGGTGTTTTTGACTA
1 AAAAAAAAACATTCAATAATCCCTCTAAATTTTGACGATGAGATTATTAAAGGTATTTTTGACTA
*
2843 AAAACACCTTCAATAATCCCTACCAATTTTTTACAAAAAATTAATGAAGGCATTTTTTGCAAAAA
66 AAAACACCTTCAATAATCCCTACCAATTTTTTACAAAAAATTAATAAAGGCATTTTTTGCAAAAA
*
2908 AATGCCTTCAATAATCCTTTCCATTTTTATCAGGGGATTATTCAAGGCGTTTTACAAAAAAAAAA
131 AATGCCTTCAATAATCCTTTCCATTTTTACCAGGGGATTATTCAAGGCGTTTTACAAAAAAAAAA
* * ** **
2973 GGCCTTCAATAATCTATTCCATTTTTATCAAGGGATTATTAAAGGTGTTTTACAAAA
196 -GCCTTCAATAATCCAGTCCATTTTTATCAAAAGATTATTAAAGGCATTTTACAAAA
* * *
3030 AAAAAAAATACATTCAATAATCCCTTTAAATTTTGACGA-GAAGATTATTGAAGGTATTTTTTAC
1 AAAAAAAA-ACATTCAATAATCCCTCTAAATTTTGACGATG-AGATTATTAAAGGTATTTTTGAC
* * * * * * * ** *
3094 TAGAAACGCCTTTAATAATCCGCT-TCAATTTTTTATAAGAAATTATTAAAGGTGTTCTTTTG-T
64 TAAAAACACCTTCAATAATCC-CTACCAATTTTTTACAAAAAATTAATAAAGGCATT-TTTTGCA
* * *****
3157 AGAAAATGCCTTCAATAATCCCTTT-CATTTTTACCAGGGGATTATTCAAGGTGTTTTTTGTTAA
127 AAAAAATGCCTTCAATAAT-CCTTTCCATTTTTACCAGGGGATTATTCAAGGCGTTTTACAAAAA
* * * * * *
3221 AAATA-TCTTCAATAATCCCGTCCAATTTTT-TAGAAAAGATTATTCAAGGCATTTT-CTATATA
191 AAAAAGCCTTCAATAATCCAGTCC-ATTTTTAT-CAAAAGATTATTAAAGGCATTTTAC-A-AAA
* *
3283 AAAAAAAAGCCTTCAATAA
1 AAAAAAAAACATTCAATAA
3302 ATTGTGATTT
Statistics
Matches: 225, Mismatches: 38, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
251 16 0.07
252 42 0.19
253 155 0.69
254 12 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (251 bp):
AAAAAAAAACATTCAATAATCCCTCTAAATTTTGACGATGAGATTATTAAAGGTATTTTTGACTA
AAAACACCTTCAATAATCCCTACCAATTTTTTACAAAAAATTAATAAAGGCATTTTTTGCAAAAA
AATGCCTTCAATAATCCTTTCCATTTTTACCAGGGGATTATTCAAGGCGTTTTACAAAAAAAAAA
GCCTTCAATAATCCAGTCCATTTTTATCAAAAGATTATTAAAGGCATTTTACAAAA
Found at i:6597 original size:161 final size:161
Alignment explanation
Indices: 6301--7171 Score: 894
Period size: 161 Copynumber: 5.4 Consensus size: 161
6291 TAGTAAGTTT
* * ** * *** * *
6301 ATGATATTAAACTTCTCCAAATGAATGAACTTGGTTTTCATTGTTGATATATGTGTCGTAATTTG
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCACAGTTGATATGTGTG-AAAAAGTTA
*** ** * * *
6366 CAATTTATGTCTATTTACAACTTTTTGTGCCATTAAAAGGTAAAAATGCAAATTTAC-AGTTATT
65 TTGTTTATGTCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGCAAATTTGCTA-TTATT
* ** * *
6430 GTTCTATTTTAAAAGTTTTAATAGTTTCAATAT
129 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * *
6463 ATAATATTAAACTTATCCAAATTATTGAACTTAGTTTTCACAGTTGATATATATGAAAAAGTTAT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCACAGTTGATATGTGTGAAAAAGTTAT
* * ** * * **
6528 TGATTATGTCTATTTAGGACTTTTTCTATCGTTAATAGGTAAAAATATAAATTTGCTATTATTGT
66 TGTTTATGTCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGCAAATTTGCTATTATTGT
6593 TCTATTTTAACAGTTTGGATAGC-TCTAATAC
131 TCTATTTTAACAGTTTGGATAGCTTC-AATAC
* *
6624 ATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTTCACAATTGATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCACAGTTGATATGTGTGAAAAAGTTAT
** * * ** * ** *
6689 TGTTTACATTTGTTT-GAGACTTTTTGTGTTGTTAAGAGGCAAAAATGCAAATTTATTGTTATTG
66 TGTTTATGTCTATTTAG-GACTTTTTGTGCCGTTAAAAGGCAAAAATGCAAATTTGCTATTATTG
* **
6753 TTCTATTTTAATAGTTTTCATAGCTTCAATAC
130 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * *
6785 ATGATATTAAACTTGT-CAGAATAATTGAACTTGGTTTCCACAATTGATATGTGTGAAAAAGCTA
1 ATGATATTAAACTTGTCCA-AATGATTGAACTTGGTTTTCACAGTTGATATGTGTGAAAAAGTTA
** * * *
6849 ACGTTTATATCTATTTAGGACTTTTTATGCCGTTAAAAGG-AAAAATGCAAATTTGATATTATTG
65 TTGTTTATGTCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGCAAATTTGCTATTATTG
6913 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
130 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * *
6945 ATGATATTAAATTTGTCCGAATGATTGAACTT-GATTTCTA-AGGTTGATATGTGTGAAAAAGTT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTC-ACA-GTTGATATGTGTGAAAAAGTT
* ** * * *
7008 ATTGTTTACGTCTATTTATAACTATTTT-TGCTGTTAAAAGGCAAAAATACAAATTTGCTGTTAT
64 ATTGTTTATGTCTATTTAGGACT-TTTTGTGCCGTTAAAAGGCAAAAATGCAAATTTGCTATTAT
* * * * *
7072 TATTATATTTTAGCAGTTTGGATGGCTTTAATAC
128 TGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * ** *
7106 ATGATATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATGGTTGATATATGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCACAGTTGATATGTGTGAAAAAGTTAT
7171 T
66 T
7172 TTAACAGTTT
Statistics
Matches: 590, Mismatches: 106, Indels: 27
0.82 0.15 0.04
Matches are distributed among these distances:
159 5 0.01
160 130 0.22
161 399 0.68
162 56 0.09
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (161 bp):
ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCACAGTTGATATGTGTGAAAAAGTTAT
TGTTTATGTCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGCAAATTTGCTATTATTGT
TCTATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:7012 original size:321 final size:321
Alignment explanation
Indices: 6375--7166 Score: 977
Period size: 321 Copynumber: 2.5 Consensus size: 321
6365 GCAATTTATG
* ** * *
6375 TCTATTTACAACT-TTTTGTGCCATTAAAAGGTAAAAATGCAAATTTACAGTTATTGTTCTATTT
1 TCTATTTATAACTATTTT-TGCTGTTAAAAGGCAAAAATGCAAATTTACTGTTATTGTTCTATTT
* * * * *
6439 TAAAAGTTTTAATAGTTTCAATATATAATATTAAACTTATCCAAATTATTGAACTTAGTTTTCAC
65 TAAAAGTTTTAATAGCTTCAATACATGATATTAAACTTAT-CAAATAATTGAACTTGGTTTTCAC
* * ** * * * *
6504 AGTTGATATATATGAAAAAGTTATTGATTATGTCTATTTAGGACTTTTTCTATCGTTAATAGGTA
129 AGTTGATATATGTGAAAAAGCTAACGATTATATCTATTTAGGACTTTTTATACCGTTAAAAGGTA
* *
6569 AAAATATAAATTTGCTATTATTGTTCTATTTTAACAGTTTGGATAGCTCTAATACATGATATTAA
194 AAAATACAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTCTAATACATGATATTAA
*
6634 ACTTGTCCGAATGATTGAACTTGGTTTTCACAATTGATATGTGTGAAAAAGTTATTGTTTACA
259 ACTTGTCCGAATGATTGAACTTGATTTTCACAATTGATATGTGTGAAAAAGTTATTGTTTACA
* * * * * *
6697 TTTGTTTGA-GACT-TTTTGTGTTGTTAAGAGGCAAAAATGCAAATTTATTGTTATTGTTCTATT
1 TCTATTT-ATAACTATTTT-TGCTGTTAAAAGGCAAAAATGCAAATTTACTGTTATTGTTCTATT
* * * *
6760 TTAATAGTTTTCATAGCTTCAATACATGATATTAAACTTGTCAGAATAATTGAACTTGGTTTCCA
64 TTAAAAGTTTTAATAGCTTCAATACATGATATTAAACTTATCA-AATAATTGAACTTGGTTTTCA
* * * *
6825 CAATTGATATGTGTGAAAAAGCTAACGTTTATATCTATTTAGGACTTTTTATGCCGTTAAAAGG-
128 CAGTTGATATATGTGAAAAAGCTAACGATTATATCTATTTAGGACTTTTTATACCGTTAAAAGGT
*
6889 AAAAATGCAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCT-TCAATACATGATATT
193 AAAAATACAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTCT-AATACATGATATT
* *
6953 AAATTTGTCCGAATGATTGAACTTGA-TTTCTA-AGGTTGATATGTGTGAAAAAGTTATTGTTTA
257 AAACTTGTCCGAATGATTGAACTTGATTTTC-ACA-ATTGATATGTGTGAAAAAGTTATTGTTTA
*
7016 CG
320 CA
* * * *
7018 TCTATTTATAACTATTTTTGCTGTTAAAAGGCAAAAATACAAATTTGCTGTTATTATTATATTTT
1 TCTATTTATAACTATTTTTGCTGTTAAAAGGCAAAAATGCAAATTTACTGTTATTGTTCTATTTT
** ** * * * * **
7083 AGCAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATG
66 AAAAGTTTTAATAGCTTCAATACATGATATTAAAC-TTATCAAATAATTGAACTTGGTTTTCACA
7148 GTTGATATATGTGAAAAAG
130 GTTGATATATGTGAAAAAG
7167 TTATTTTAAC
Statistics
Matches: 401, Mismatches: 61, Indels: 17
0.84 0.13 0.04
Matches are distributed among these distances:
320 7 0.02
321 228 0.57
322 165 0.41
323 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (321 bp):
TCTATTTATAACTATTTTTGCTGTTAAAAGGCAAAAATGCAAATTTACTGTTATTGTTCTATTTT
AAAAGTTTTAATAGCTTCAATACATGATATTAAACTTATCAAATAATTGAACTTGGTTTTCACAG
TTGATATATGTGAAAAAGCTAACGATTATATCTATTTAGGACTTTTTATACCGTTAAAAGGTAAA
AATACAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTCTAATACATGATATTAAAC
TTGTCCGAATGATTGAACTTGATTTTCACAATTGATATGTGTGAAAAAGTTATTGTTTACA
Found at i:7232 original size:91 final size:91
Alignment explanation
Indices: 7077--7257 Score: 308
Period size: 91 Copynumber: 2.0 Consensus size: 91
7067 GTTATTATTA
*
7077 TATTTTAGCAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
1 TATTTTAACAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
* * *
7142 TTCATGGTTGATATATGTGAAAAAGT
66 TCCACGGTTAATATATGTGAAAAAGT
*
7168 TATTTTAACAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
1 TATTTTAACAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
*
7233 TCCGCGGTTAATATATGTGAAAAAG
66 TCCACGGTTAATATATGTGAAAAAG
7258 CTGTTGTTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 84 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (91 bp):
TATTTTAACAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGTT
TCCACGGTTAATATATGTGAAAAAGT
Found at i:7361 original size:252 final size:252
Alignment explanation
Indices: 6916--7420 Score: 667
Period size: 252 Copynumber: 2.0 Consensus size: 252
6906 ATTATTGTTC
*
6916 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAATTTGTCCGAATGATTGAACTTGATT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAATTTGTCCAAATGATTGAACTTGATT
* * * * * *
6981 TCTAAGGTTGATATGTGTGAAAAAGTTATTGTTTACGTCTATTTATAACTATTTTTGCTGTTAAA
66 TCCAAGGTTAATATATGTGAAAAAGCTATTGTTTACCTCTATTTATAACTATTTTTGCCGTTAAA
* * * * * *
7046 AGGCAAAAATACAAATTTGCTGTTATTATTATATTTTAGCAGTTTGGATGGCTTTAATACATGAT
131 AGGAAAAAATACAAATTTACTATTATTATTATATTTTAACAGTTTGGATAGCTTCAATACATGAT
*
7111 ATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATGGTTGATATATGTGAAAAAGT
196 ATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAGT
* * ** *
7168 TATTTTAACAGTTTGGATGGCTTTAATACATGATATTAAACTTT-TTTAAATGATTGAACTTGGT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAA-TTTGTCCAAATGATTGAACTTGAT
** * * *
7232 TTCCGCGGTTAATATATGTGAAAAAGCTGTTGTTTACCTTTGTTTA-AGA-T-TTTTCGTGCCGT
65 TTCCAAGGTTAATATATGTGAAAAAGCTATTGTTTACCTCTATTTATA-ACTATTTT--TGCCGT
*
7294 TAAAAGGAAAAAATACAAATTTACTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATACA
127 TAAAAGGAAAAAATACAAATTTACTATTATTATTATATTTTAACAGTTTGGATAGCTTCAATACA
* ** * * *
7359 TGATGTTAAACTTTTTTGAATGATTGCATTTGGTTTTCGTAGTTGATATATGTGAAAAAGT
192 TGATATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAGT
7420 T
1 T
7421 GTTGTTTACC
Statistics
Matches: 218, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
250 4 0.02
251 2 0.01
252 209 0.96
253 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (252 bp):
TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAATTTGTCCAAATGATTGAACTTGATT
TCCAAGGTTAATATATGTGAAAAAGCTATTGTTTACCTCTATTTATAACTATTTTTGCCGTTAAA
AGGAAAAAATACAAATTTACTATTATTATTATATTTTAACAGTTTGGATAGCTTCAATACATGAT
ATTAAACTTTTTCAAATGATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAGT
Found at i:7460 original size:161 final size:161
Alignment explanation
Indices: 7168--7557 Score: 539
Period size: 161 Copynumber: 2.4 Consensus size: 161
7158 GTGAAAAAGT
* * *
7168 TATTTTAACAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTTAAATGATTGAACTTGGTT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAATTTGGTT
* * *
7233 TCCGCGGTTAATATATGTGAAAAAGCTGTTGTTTACCTTTGTTTAAGATTTTTCGTGCCGTTAAA
66 TCCGCAGTTAATATATGTGAAAAAGCTGTTGTTTACCTCTGTTTAAGATTTTTCGTGCCATTAAA
* *
7298 AGGAAAAAATACAAATTTACTATTATTATTC
131 AGGAAAAAATACAAAGTTAATATTATTATTC
* * *
7329 TATTTTAACAGTTTGGATAGCTTCAATACATGATGTTAAACTTTTTTGAATGATTGCATTTGGTT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAATTTGGTT
* * * * * *
7394 TTCGTAGTTGATATATGTGAAAAAGTTGTTGTTTACCTCTGTTTAGGACTTTTTTG-GCCATTAA
66 TCCGCAGTTAATATATGTGAAAAAGCTGTTGTTTACCTCTGTTTAAGA-TTTTTCGTGCCATTAA
* *
7458 AAGGCAAAAATACAAAGTTAATGTTATTATTC
130 AAGGAAAAAATACAAAGTTAATATTATTATTC
* * * * * *
7490 TGTTTTAACAGTTTGAATAGCTTCAATGCATGATATTAAACTTGTCTAAATGATTGAATTTTGTT
1 TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAATTTGGTT
7555 TCC
66 TCC
7558 ATGAAAGATA
Statistics
Matches: 199, Mismatches: 29, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
161 193 0.97
162 6 0.03
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.43
Consensus pattern (161 bp):
TATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTTAAATGATTGAATTTGGTT
TCCGCAGTTAATATATGTGAAAAAGCTGTTGTTTACCTCTGTTTAAGATTTTTCGTGCCATTAAA
AGGAAAAAATACAAAGTTAATATTATTATTC
Found at i:7524 original size:413 final size:412
Alignment explanation
Indices: 6756--7576 Score: 1010
Period size: 413 Copynumber: 2.0 Consensus size: 412
6746 GTTATTGTTC
* *
6756 TATTTTAATAGTTTTCATAGCTTCAATACATGATATTAAACTTGTCAGAATAATTGAACTTGGTT
1 TATTTTAACAGTTTGCATAGCTTCAATACATGATATTAAACTTGTCAGAATAATTGAACTTGGTT
* * * *
6821 TCCACAATTGATATGTGTGAAAAAGCTAACGTTTATATCTATTTAGGACTTTTTATGCCGTTAAA
66 TCCACAATTAATATATGTGAAAAAGCTAACGTTTACATCTATTTAAGACTTTTTATGCCGTTAAA
* *
6886 AGGAAAAATGCAAATTTGATATTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATA
131 AGGAAAAATACAAATTTGATATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATACATGATA
*
6951 TTAAATTTGTCCGAATGATTGAACTTGATTTCTAAGGTTGATATGTGTGAAAAAGTTATTGTTTA
196 TTAAATTTGTCCGAATGATTGAACTTGATTTCTAAGGTTGATATATGTGAAAAAGTTATTGTTTA
* * ** * **
7016 CGTCTATTTATAACTATTTTTGCTGTTAAAAGGCAAAAATACAAATTTGCTGTTATTATTATATT
261 CCTCTATTTAGAACTATTTTTGCCATTAAAAGGCAAAAATACAAAGTTAATGTTATTATTATATT
* * * * * *
7081 TTAGCAGTTTGGATGGCTTTAATACATGATATTAAACTT-TTTCAAATGATTGAACTTGGTTTTC
326 TTAACAGTTTGAATAGCTTCAATACATGATATTAAACTTGTCT-AAATGATTGAACTTGGTTTCC
***
7145 ATGGTTGATATATGTGAAAAAGT
390 ATGAAAGATATATGTGAAAAAGT
* * * * * *
7168 TATTTTAACAGTTTGGATGGCTTTAATACATGATATTAAACTTTTTTA-AATGATTGAACTTGGT
1 TATTTTAACAGTTTGCATAGCTTCAATACATGATATTAAAC-TTGTCAGAATAATTGAACTTGGT
* ** *** * * * *
7232 TTCCGCGGTTAATATATGTGAAAAAGCTGTTGTTTACCTTTGTTTAAGA-TTTTTCGTGCCGTTA
65 TTCCACAATTAATATATGTGAAAAAGCTAACGTTTACATCTATTTAAGACTTTTT-ATGCCGTTA
7296 AAAGGAAAAAATACAAATTT-ACTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATACAT
129 AAAGG-AAAAATACAAATTTGA-TATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATACAT
* ** * * * *
7360 GATGTTAAACTTT-TTTGAATGATTGCATTTGGTTTTCGT-A-GTTGATATATGTGAAAAAGTTG
192 GATATTAAA-TTTGTCCGAATGATTGAACTT-GATTTC-TAAGGTTGATATATGTGAAAAAGTTA
* *
7422 TTGTTTACCTCTGTTTAGGACT-TTTTTGGCCATTAAAAGGCAAAAATACAAAGTTAATGTTATT
254 TTGTTTACCTCTATTTAGAACTATTTTT-GCCATTAAAAGGCAAAAATACAAAGTTAATGTTATT
* * * *
7486 ATTCTGTTTTAACAGTTTGAATAGCTTCAATGCATGATATTAAACTTGTCTAAATGATTGAATTT
318 ATTATATTTTAACAGTTTGAATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTGAACTT
*
7551 TGTTTCCATGAAAGATATATGTGAAA
383 GGTTTCCATGAAAGATATATGTGAAA
7577 GGCTAAAATG
Statistics
Matches: 345, Mismatches: 55, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
411 5 0.01
412 106 0.31
413 222 0.64
414 11 0.03
415 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (412 bp):
TATTTTAACAGTTTGCATAGCTTCAATACATGATATTAAACTTGTCAGAATAATTGAACTTGGTT
TCCACAATTAATATATGTGAAAAAGCTAACGTTTACATCTATTTAAGACTTTTTATGCCGTTAAA
AGGAAAAATACAAATTTGATATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATACATGATA
TTAAATTTGTCCGAATGATTGAACTTGATTTCTAAGGTTGATATATGTGAAAAAGTTATTGTTTA
CCTCTATTTAGAACTATTTTTGCCATTAAAAGGCAAAAATACAAAGTTAATGTTATTATTATATT
TTAACAGTTTGAATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTGAACTTGGTTTCCA
TGAAAGATATATGTGAAAAAGT
Found at i:8792 original size:13 final size:13
Alignment explanation
Indices: 8761--8794 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8751 TAATGATAAT
*
8761 AATAAATATTAAA
1 AATAAATTTTAAA
8774 AA-AAATTTTAAA
1 AATAAATTTTAAA
8786 AATAAATTT
1 AATAAATTT
8795 CTTAATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAAATTTTAAA
Found at i:10945 original size:18 final size:18
Alignment explanation
Indices: 10889--10979 Score: 85
Period size: 18 Copynumber: 4.9 Consensus size: 18
10879 ATTTGAGGAT
*
10889 GATACATTTATGGTGG-G
1 GATACATTTAAGGTGGAG
** ** *
10906 GATACATTTGTGGTAAAT
1 GATACATTTAAGGTGGAG
10924 GATACATTTAAGGTGGAG
1 GATACATTTAAGGTGGAG
10942 GATACATTTAAAGAGGTGGAG
1 GATACATTT--A-AGGTGGAG
*
10963 GATACATTTGAGGTGGA
1 GATACATTTAAGGTGGA
10980 TAATAACCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
17 13 0.22
18 29 0.48
20 1 0.02
21 17 0.28
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (18 bp):
GATACATTTAAGGTGGAG
Found at i:14762 original size:23 final size:25
Alignment explanation
Indices: 14736--14785 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
14726 ATTTCAAAAA
*
14736 TTAA-AAAA-GTTCAAACTTATATT
1 TTAATAAAATGTTCAAACCTATATT
*
14759 TTAATAAAATTTTCAAACCTATATT
1 TTAATAAAATGTTCAAACCTATATT
14784 TT
1 TT
14786 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 15 0.65
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (25 bp):
TTAATAAAATGTTCAAACCTATATT
Found at i:21778 original size:2 final size:2
Alignment explanation
Indices: 21771--21803 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21761 TTCTATTATT
21771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21804 CTTTTGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21907 original size:3 final size:3
Alignment explanation
Indices: 21899--21928 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21889 GGGAGAAAAC
21899 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21929 AAGTTTGTTT
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:22414 original size:9 final size:9
Alignment explanation
Indices: 22400--22439 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
22390 CTTTTAATTT
22400 ATTTTTTTA
1 ATTTTTTTA
22409 ATTTTTTTA
1 ATTTTTTTA
22418 ATTTTTATTTA
1 A-TTTT-TTTA
*
22429 ATTATTTTA
1 ATTTTTTTA
22438 AT
1 AT
22440 ACAAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 16 0.57
10 7 0.25
11 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:22428 original size:20 final size:21
Alignment explanation
Indices: 22391--22439 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
22381 TATGATCTAC
* *
22391 TTTTAATTTATTTTTTTAATTT
1 TTTTAA-TTATTTATTTAATTA
22413 TTTTAATT-TTTATTTAATTA
1 TTTTAATTATTTATTTAATTA
22433 TTTTAAT
1 TTTTAAT
22440 ACAAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.68
21 2 0.08
22 6 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTAATTATTTATTTAATTA
Found at i:23106 original size:28 final size:28
Alignment explanation
Indices: 23066--23123 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
23056 TTCATGTTAT
23066 TAAAGCAACGTAGTAGAGTTTTTTGTAC
1 TAAAGCAACGTAGTAGAGTTTTTTGTAC
23094 TAAAGCAACGTAGTAGAGTTTTTTGTAC
1 TAAAGCAACGTAGTAGAGTTTTTTGTAC
23122 TA
1 TA
23124 TCTCCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (28 bp):
TAAAGCAACGTAGTAGAGTTTTTTGTAC
Found at i:27841 original size:2 final size:2
Alignment explanation
Indices: 27834--27861 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27824 GAATCAACTA
27834 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
27862 GAGTAAGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34220 original size:11 final size:11
Alignment explanation
Indices: 34206--34237 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
34196 ATTATTATTG
34206 TAAAATTAATA
1 TAAAATTAATA
34217 TAAAATT-ATA
1 TAAAATTAATA
34227 TAAAATTAATA
1 TAAAATTAATA
34238 AATATTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:34444 original size:32 final size:31
Alignment explanation
Indices: 34400--34512 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 31
34390 TAATAAATCT
*
34400 ATTTTTGAAAATGATATGAAAATTTTTACATA
1 ATTTTT-AAAATGATATGAAAATTTTTACTTA
* * *
34432 ATATTTTAAAATGATAT-ATAGTTTTTATTTA
1 AT-TTTTAAAATGATATGAAAATTTTTACTTA
** * *
34463 ATTTCTTAAACCGATGTAAAAATTTTTACTTA
1 ATTT-TTAAAATGATATGAAAATTTTTACTTA
34495 ATTTTTTAAAATGATATG
1 A-TTTTTAAAATGATATG
34513 TAATTTTAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
30 2 0.03
31 21 0.33
32 33 0.52
33 7 0.11
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (31 bp):
ATTTTTAAAATGATATGAAAATTTTTACTTA
Found at i:34732 original size:22 final size:22
Alignment explanation
Indices: 34682--34733 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
34672 GTTTACCTTG
* *
34682 GTTTGGATAGTTTATGGGGATG
1 GTTTGGGTAGTTTATGGGGATA
*
34704 GTTTGGGTAGTTTATGGGGGTA
1 GTTTGGGTAGTTTATGGGGATA
34726 GTTTGGGT
1 GTTTGGGT
34734 GGTTCTTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.42
Consensus pattern (22 bp):
GTTTGGGTAGTTTATGGGGATA
Found at i:37551 original size:187 final size:187
Alignment explanation
Indices: 37236--37612 Score: 727
Period size: 187 Copynumber: 2.0 Consensus size: 187
37226 TATTTGTGTA
37236 CTTTGTAAGCAAGTAGTCGAAGTTTGAGGTGATTGCCATAAATTCCCTCATGTATTTCCTTGAGT
1 CTTTGTAAGCAAGTAGTCGAAGTTTGAGGTGATTGCCATAAATTCCCTCATGTATTTCCTTGAGT
37301 ACATAGTTTACCTTTTCACCATCTATGCATCTCAGGTAGAGTAAACTAAAAGATCTATTGTATAA
66 ACATAGTTTACCTTTTCACCATCTATGCATCTCAGGTAGAGTAAACTAAAAGATCTATTGTATAA
*
37366 TTTTTTGTTGAGTATGGTGTGCCGATAAGCTTTCCTCATTAGAGTTTTAGTTCGGAC
131 TTTTTTGTTGAGTATGGTGTGCCGATAAGCTTTCCTCATTAAAGTTTTAGTTCGGAC
37423 CTTTGTAAGCAAGTAGTCGAAGTTTGAGGTGATTGCCATAAATTCCCTCATGTATTTCCTTGAGT
1 CTTTGTAAGCAAGTAGTCGAAGTTTGAGGTGATTGCCATAAATTCCCTCATGTATTTCCTTGAGT
* *
37488 ACATAGTTTACCTTTTCACCATCTATGCATTTCAGTTAGAGTAAACTAAAAGATCTATTGTATAA
66 ACATAGTTTACCTTTTCACCATCTATGCATCTCAGGTAGAGTAAACTAAAAGATCTATTGTATAA
37553 TTTTTTGTTGAGTATGGTGTGCCGATAAGCTTTCCTCATTAAAGTTTTAGTTCGGAC
131 TTTTTTGTTGAGTATGGTGTGCCGATAAGCTTTCCTCATTAAAGTTTTAGTTCGGAC
37610 CTT
1 CTT
37613 ATCTTTGAAT
Statistics
Matches: 187, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
187 187 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (187 bp):
CTTTGTAAGCAAGTAGTCGAAGTTTGAGGTGATTGCCATAAATTCCCTCATGTATTTCCTTGAGT
ACATAGTTTACCTTTTCACCATCTATGCATCTCAGGTAGAGTAAACTAAAAGATCTATTGTATAA
TTTTTTGTTGAGTATGGTGTGCCGATAAGCTTTCCTCATTAAAGTTTTAGTTCGGAC
Found at i:39551 original size:206 final size:207
Alignment explanation
Indices: 39141--39551 Score: 700
Period size: 206 Copynumber: 2.0 Consensus size: 207
39131 TCAATGCTAG
*
39141 AGAGGAAAAAGCTATCTTTTGGGTAGGCTCTATTAAGGTTAGTGAAATCAATGTGCATTCTCCAT
1 AGAGGAAAAAGCTATCTTTTGGGTAGGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCCAT
*
39206 TTTTCACGTTTTTTTACCATGACCAAACTGATTACCCAATCAAGGTAACATACTTCCAGTAAAGC
66 TTTTCACGTTTTTTTACCATGACCAAACTGATTACCCAATCAAGGTAACATACTTCCAATAAAGC
* * *
39271 TTACTTATAGTAGTTTATCGACCTTTTCTTCAATAGCTTTTTACCTTTTTAGGGAAAATATCTTT
131 CTACTTATAGTAGTTTATCGACCTCTTCTTCAATAGCCTTTTACCTTTTTAGGGAAAATATCTTT
39336 TTCTTTTTTTTA
196 TTCTTTTTTTTA
*
39348 AGAGGAAAAA-CTATCTTTTGGGTAGGCTTTATTAAGGTTAGTAAAATCAATGTGCATTCTCCAT
1 AGAGGAAAAAGCTATCTTTTGGGTAGGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCCAT
* * *
39412 TTTTCATGTTTTTTTACCATGACCAAATTGGTTACCCAATCAAGGTAACATACTTCCCAATAAAG
66 TTTTCACGTTTTTTTACCATGACCAAACTGATTACCCAATCAAGGTAACATACTT-CCAATAAAG
* *
39477 CCTACTTATAGTAGTTTATCGACCTCTTCTTCAATAGCCTTTTACCTTTTTAGGGTAAATGTCTT
130 CCTACTTATAGTAGTTTATCGACCTCTTCTTCAATAGCCTTTTACCTTTTTAGGGAAAATATCTT
39542 TTT-TTTTTTT
195 TTTCTTTTTTT
39552 AAATTGGCTT
Statistics
Matches: 192, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
206 111 0.58
207 81 0.42
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (207 bp):
AGAGGAAAAAGCTATCTTTTGGGTAGGCTCTATTAAGGTTAGTAAAATCAATGTGCATTCTCCAT
TTTTCACGTTTTTTTACCATGACCAAACTGATTACCCAATCAAGGTAACATACTTCCAATAAAGC
CTACTTATAGTAGTTTATCGACCTCTTCTTCAATAGCCTTTTACCTTTTTAGGGAAAATATCTTT
TTCTTTTTTTTA
Found at i:40606 original size:17 final size:17
Alignment explanation
Indices: 40587--40618 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
40577 TATTATTATT
40587 TTTTTTTC-TTTCTTTC
1 TTTTTTTCTTTTCTTTC
40603 TTTTTTTCTTTTCTTT
1 TTTTTTTCTTTTCTTT
40619 TTTGGTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTCTTTTCTTTC
Done.