Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 129 of 129
Found at i:22956041 original size:17 final size:17
Alignment explanation
Indices: 22956019--22956072 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
22956009 TTGATATGAA
*
22956019 ATCTTTGCGAATCTTGC
1 ATCTTTGTGAATCTTGC
* *
22956036 ATCTTTGTGAATATTAC
1 ATCTTTGTGAATCTTGC
* *
22956053 ACCTTTGTAAATCTTGC
1 ATCTTTGTGAATCTTGC
22956070 ATC
1 ATC
22956073 CTTGAGAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (17 bp):
ATCTTTGTGAATCTTGC
Found at i:22956091 original size:34 final size:34
Alignment explanation
Indices: 22956028--22956093 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
22956018 AATCTTTGCG
* * *
22956028 AATCTTGCATCTTTGTGAATATTACACCTTTGTA
1 AATCTTGCATCCTTGAGAATATTAAACCTTTGTA
22956062 AATCTTGCATCCTTGAGAAT-TTAGAACCTTTG
1 AATCTTGCATCCTTGAGAATATTA-AACCTTTG
22956094 CAAAACTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (34 bp):
AATCTTGCATCCTTGAGAATATTAAACCTTTGTA
Found at i:22956854 original size:120 final size:120
Alignment explanation
Indices: 22956669--22957670 Score: 771
Period size: 120 Copynumber: 8.4 Consensus size: 120
22956659 CGTCCCGGTT
* * **
22956669 ACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGA-TTCGTGATTTTGTCTCGATCATTTATTT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTT-GTGGTTTCATCTCGATCATTTATTT
* * * * * * *
22956733 TTGATATTGACTCGATTTTAGTCACTTCATTTTTGACTCATGGTTTTATCTTGATT
65 TTGATCTCGACTCGGTCTTGGTCGCTTCATTTTTGACTCATGGTTTTATCTTGATC
* * *
22956789 ACTTGATCTTGGTTCAGTCCAGATCATTCCTTATGACTTGTGGTTCCATCTCGATCATTTATTTT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTTGTGGTTTCATCTCGATCATTTATTTT
* * *
22956854 TGA-CTTCGACTTGGTCTTGGTCACCTT-ATTTTTGACTCATGGTTTCGT-TC-TGGTC
66 TGATC-TCGACTCGGTCTTGGTC-GCTTCATTTTTGACTCATGGTTT--TATCTTGATC
* * * * * * *
22956909 ACTTGATCTTGGCTCAATCCAGATTATTCCTTATGATTTGTGATTTTATCTCGGTCATTTATTTT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTTGTGGTTTCATCTCGATCATTTATTTT
* * ** * * * *
22956974 TGACCTTC-ACTCGGTCTGGGTTACCTCATTTTTGACTCGTGGTTTTGTCTCGATC
66 TGATC-TCGACTCGGTCTTGGTCGCTTCATTTTTGACTCATGGTTTTATCTTGATC
* * * * * * * * *
22957029 ACCTAATCTTGGTTCAATCTAAATTATTTTTTATGA-TTCGTGGTTTCGTCTCGATCATTTATTT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTT-GTGGTTTCATCTCGATCATTTATTT
* * * * * * * * **
22957093 TTTATCTCAACTAGGTCTTGCTCGCTTTATTTTTTACTCATGATTTCATC-CCAGTC
65 TTGATCTCGACTCGGTCTTGGTCGCTTCATTTTTGACTCATGGTTTTATCTTGA-TC
* * * * * *
22957149 ATTTGATCTTGGCTCAATCCAGATAATTTTTTATGACTCGTGGTTTCGTC-CTGATCATTTA-TT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTTGTGGTTTCATCTC-GATCATTTATTT
* * * * ** * * *
22957212 TTAATCTCGATTCGATCTTGGTCGCTTTATTTTTGACTTGTGATTTTGTCCTGATC
65 TTGATCTCGACTCGGTCTTGGTCGCTTCATTTTTGACTCATGGTTTTATCTTGATC
* * * * * * *
22957268 ACTTGATCTTTGTTCAGTCCAGATCATTCCTTATGACTCGTGATTCCATC-CTAGTCATTTATTT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTTGTGGTTTCATCTCGA-TCATTTATTT
* * * * * * *
22957332 TCGATCTCAACTCGGTCCTGGTCGCTTCATTTTTGACTCGTTGTTTCATCTCGATC
65 TTGATCTCGACTCGGTCTTGGTCGCTTCATTTTTGACTCATGGTTTTATCTTGATC
* * * * *
22957388 ACCTGATCTTAGCTCAGTCCAGTTCATTTCTTATGACTTGTAG-TTCAATCTCGGTCATTTATTT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTTGTGGTTTC-ATCTCGATCATTTATTT
* * * *
22957452 TTGA-CTTCGACTCGGTCATAGTCGCTTCATTTTTGACTAATGGTTTAAT-TTCGATC
65 TTGATC-TCGACTCGGTCTTGGTCGCTTCATTTTTGACTCATGGTTTTATCTT-GATC
* * * * * *
22957508 ACCTGATCTTAGCTCAGTCCAGATCATTTCTTATGA-TTCATGATTTCACCTTGATCATTTA-TT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTT-GTGGTTTCATCTCGATCATTTATTT
* * * * * * **
22957571 TTGACCTCGACTCGGTCCTGATCGCCTCA-GTTTGACT-AGTGATTTTATCCCGATC
65 TTGATCTCGACTCGGTCTTGGTCGCTTCATTTTTGACTCA-TGGTTTTATCTTGATC
* * * * *
22957626 ACCTGATCTTGGCTCAATCTAGATAATTTCTTATGACTCGTGGTT
1 ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTTGTGGTT
22957671 CAATCCCAGT
Statistics
Matches: 708, Mismatches: 147, Indels: 56
0.78 0.16 0.06
Matches are distributed among these distances:
117 1 0.00
118 56 0.08
119 134 0.19
120 500 0.71
121 16 0.02
122 1 0.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (120 bp):
ACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGACTTGTGGTTTCATCTCGATCATTTATTTT
TGATCTCGACTCGGTCTTGGTCGCTTCATTTTTGACTCATGGTTTTATCTTGATC
Found at i:22956976 original size:240 final size:239
Alignment explanation
Indices: 22956639--22957735 Score: 865
Period size: 240 Copynumber: 4.6 Consensus size: 239
22956629 ATTTTGAACT
** * * * * *
22956639 TTATTTTTGACTTGTAGTTTCGTCCCGGTTACTTGATCTTGGCTCAGTCTAGATCATTTCTTATG
1 TTATTTTTGACTCATGGTTTCGTCCCGGTCACTTGATCTTGGCTCAATCCAGATTATTTCTTATG
* * * * *
22956704 ATTCGTGATTTTGTCTCGATCATTTATTTTTGATATTGACTCGATTTTAGTCACTTCATTTTTGA
66 ACTCGTGATTTTATCTCGATCATTTATTTTTGATCTCGACTCGATCTTAGTCACTTCATTTTTGA
* * *
22956769 CTCATGGTTTTATCTTGATTACTTGATCTTGGTTCAGTCCAGATCATTCCTTATGACTT-GTGGT
131 CTCATGGTTTTATCTTGATCACCTGATCTTGGTTCAGTCCAGATCATTCCTTATGA-TTCGTGAT
* *
22956833 TCCATCTCGATCATTTATTTTTGA-CTTCGACTTGGTCTTGGTCACC
195 TCCATCTCGATCATTTATTTTTGATC-TCAACTCGGTCTTGGTC-CC
* * *
22956879 TTATTTTTGACTCATGGTTTCGTTCTGGTCACTTGATCTTGGCTCAATCCAGATTATTCCTTATG
1 TTATTTTTGACTCATGGTTTCGTCCCGGTCACTTGATCTTGGCTCAATCCAGATTATTTCTTATG
* * * * * ** * *
22956944 ATTTGTGATTTTATCTCGGTCATTTATTTTTGACCTTC-ACTCGGTCTGGGTTACCTCATTTTTG
66 ACTCGTGATTTTATCTCGATCATTTATTTTTGATC-TCGACTCGATCTTAGTCACTTCATTTTTG
* * * * * * * * ** *
22957008 ACTCGTGGTTTTGTCTCGATCACCTAATCTTGGTTCAATCTAAATTATTTTTTATGATTCGTGGT
130 ACTCATGGTTTTATCTTGATCACCTGATCTTGGTTCAGTCCAGATCATTCCTTATGATTCGTGAT
* * * * * *
22957073 TTCGTCTCGATCATTTATTTTTTATCTCAACTAGGTCTTGCTCGCT
195 TCCATCTCGATCATTTATTTTTGATCTCAACTCGGTCTTGGTC-CC
* * * * * * *
22957119 TTATTTTTTACTCATGATTTCATCCCAGTCATTTGATCTTGGCTCAATCCAGATAATTTTTTATG
1 TTATTTTTGACTCATGGTTTCGTCCCGGTCACTTGATCTTGGCTCAATCCAGATTATTTCTTATG
* ** * * * * *
22957184 ACTCGTGGTTTCGTC-CTGATCATTTA-TTTTAATCTCGATTCGATCTTGGTCGCTTTATTTTTG
66 ACTCGTGATTTTATCTC-GATCATTTATTTTTGATCTCGACTCGATCTTAGTCACTTCATTTTTG
** * * * * * *
22957247 ACTTGTGATTTTGTCCTGATCACTTGATCTTTGTTCAGTCCAGATCATTCCTTATGACTCGTGAT
130 ACTCATGGTTTTATCTTGATCACCTGATCTTGGTTCAGTCCAGATCATTCCTTATGATTCGTGAT
* * * *
22957312 TCCATC-CTAGTCATTTATTTTCGATCTCAACTCGGTCCTGGTCGC
195 TCCATCTCGA-TCATTTATTTTTGATCTCAACTCGGTCTTGGTCCC
* * * * * * * *
22957357 TTCATTTTTGACTCGTTGTTTCATCTCGATCACCTGATCTTAGCTCAGTCCAG-TTCATTTCTTA
1 TT-ATTTTTGACTCATGGTTTCGTCCCGGTCACTTGATCTTGGCTCAATCCAGATT-ATTTCTTA
* ** * * * *
22957421 TGACTTGT-AGTTCAATCTCGGTCATTTATTTTTGA-CTTCGACTCGGTCATAGTCGCTTCATTT
64 TGACTCGTGA-TTTTATCTCGATCATTTATTTTTGATC-TCGACTCGATCTTAGTCACTTCATTT
* * * * * *
22957484 TTGACTAATGGTTTAAT-TTCGATCACCTGATCTTAGCTCAGTCCAGATCATTTCTTATGATTCA
127 TTGACTCATGGTTTTATCTT-GATCACCTGATCTTGGTTCAGTCCAGATCATTCCTTATGATTCG
* * * * * * *
22957548 TGATTTCACCTTGATCATTTA-TTTTGACCTCGACTCGGTCCTGATCGCC
191 TGATTCCATCTCGATCATTTATTTTTGATCTCAACTCGGTCTTGGTC-CC
* * * ** * * * *
22957597 TCA-GTTTGACT-AGTGATTTTATCCCGATCACCTGATCTTGGCTCAATCTAGATAATTTCTTAT
1 TTATTTTTGACTCA-TGGTTTCGTCCCGGTCACTTGATCTTGGCTCAATCCAGATTATTTCTTAT
* ** * * * * * * *
22957660 GACTCGTGGTTCAATC-CCAGTTATTTATTTTT-AACATCGACTTGATCTTAGTTACTTTATTCT
65 GACTCGTGATTTTATCTCGA-TCATTTATTTTTGATC-TCGACTCGATCTTAGTCACTTCATTTT
22957723 TGACTCATGGTTT
128 TGACTCATGGTTT
22957736 CGTCCTGATC
Statistics
Matches: 674, Mismatches: 163, Indels: 42
0.77 0.19 0.05
Matches are distributed among these distances:
237 2 0.00
238 111 0.16
239 200 0.30
240 358 0.53
241 3 0.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (239 bp):
TTATTTTTGACTCATGGTTTCGTCCCGGTCACTTGATCTTGGCTCAATCCAGATTATTTCTTATG
ACTCGTGATTTTATCTCGATCATTTATTTTTGATCTCGACTCGATCTTAGTCACTTCATTTTTGA
CTCATGGTTTTATCTTGATCACCTGATCTTGGTTCAGTCCAGATCATTCCTTATGATTCGTGATT
CCATCTCGATCATTTATTTTTGATCTCAACTCGGTCTTGGTCCC
Found at i:22957448 original size:359 final size:357
Alignment explanation
Indices: 22956674--22957690 Score: 885
Period size: 359 Copynumber: 2.8 Consensus size: 357
22956664 CGGTTACTTG
* * * * **
22956674 ATCTTGGCTCAGTCTAGATCATTTCTTATGATTCGT-GATTTTGTCTCGATCATTTATTTTTGA-
1 ATCTTAGCTCAATCTAAATTATTTCTTATGATTCGTAG-TTTCATCTCGATCATTTATTTTTGAC
** * * ** * * * * ** * *
22956737 TATTGACTCGATTTTAGTCACTTCATTTTTGACTCATGGTTTTATCTTGATTACTTGATCTTGGT
65 T-TCAACTAGGTCATAGTCGCTTCATTTTTGACTAATGATTTAATCCCGATCACTTGATCTTGGC
* * *
22956802 TCAGTCCAGATCATTCCTTATGACTTGTGGTTCCAT-CTCGATCATTTATTTTTGACTTCGACTT
129 TCAGTCCAGATCATTTCTTATGACTCGTGGTTTC-TCCT-GATCATTTA-TTTTGAC-TCGA-TT
* * * * *
22956866 -GGTCTTGGTCACCTTATTTTTGACTCA-TGGTTTCGTTCTGGTCACTTGATCTTGGCTCAATCC
189 CGGTCTTGGTCGCCTTATTTTTGACT-AGTGATTTTGTCCTGATCACTTGATCTTGGCTCAATCC
* * * ** * *
22956929 AGATTATTCCTTATGATTTGTGATTTTAT-CTCGGTCATTTATTTTTGACCTTCACTCGGTCTGG
253 AGATAATTCCTTATGACTCGTGATTCAATCCT-AGTCATTTATTTTCGACCTTCACTCGGTCTGG
* **
22956993 GTTACCTCATTTTTGACTCGTGGTTTTGTCTCGATCACCTA
317 GTCACCTCATTTTTGACTCGTGGTTTCATCTCGATCACCTA
* * * * * *
22957034 ATCTTGGTTCAATCTAAATTATTTTTTATGATTCGTGGTTTCGTCTCGATCATTTATTTTTTA-T
1 ATCTTAGCTCAATCTAAATTATTTCTTATGATTCGTAGTTTCATCTCGATCATTTATTTTTGACT
* * * * * *
22957098 CTCAACTAGGTC-TTGCTCGCTTTATTTTTTACTCATGATTTCATCCC-AGTCATTTGATCTTGG
66 -TCAACTAGGTCATAG-TCGCTTCATTTTTGACTAATGATTTAATCCCGA-TCACTTGATCTTGG
* * * *
22957161 CTCAATCCAGATAATTTTTTATGACTCGTGGTTTCGTCCTGATCATTTATTTTAATCTCGATTCG
128 CTCAGTCCAGATCATTTCTTATGACTCGTGGTTTC-TCCTGATCATTTATTTTGA-CTCGATTCG
* * * * * *
22957226 ATCTTGGTCGCTTTATTTTTGACTTGTGATTTTGTCCTGATCACTTGATCTTTGTTCAGTCCAGA
191 GTCTTGGTCGCCTTATTTTTGACTAGTGATTTTGTCCTGATCACTTGATCTTGGCTCAATCCAGA
* * *
22957291 TCATTCCTTATGACTCGTGATTCCATCCTAGTCATTTATTTTCGATC-TCAACTCGGTCCT-GGT
256 TAATTCCTTATGACTCGTGATTCAATCCTAGTCATTTATTTTCGACCTTC-ACTCGGT-CTGGGT
* * * *
22957354 CGCTTCATTTTTGACTCGTTGTTTCATCTCGATCACCTG
319 CACCTCATTTTTGACTCGTGGTTTCATCTCGATCACCTA
* * * *
22957393 ATCTTAGCTCAGTC-CAGTTCATTTCTTATGACTT-GTAG-TTCAATCTCGGTCATTTATTTTTG
1 ATCTTAGCTCAATCTAAATT-ATTTCTTATGA-TTCGTAGTTTC-ATCTCGATCATTTATTTTTG
* * * ** * *
22957455 ACTTCGACTCGGTCATAGTCGCTTCATTTTTGACTAATGGTTTAATTTCGATCACCTGATCTTAG
63 ACTTCAACTAGGTCATAGTCGCTTCATTTTTGACTAATGATTTAATCCCGATCACTTGATCTTGG
* * * * *
22957520 CTCAGTCCAGATCATTTCTTATGATTCATGATTTCACCTTGATCATTTATTTTGACCTCGACTCG
128 CTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCTCC-TGATCATTTATTTTGA-CTCGATTCG
* * * * * * * *
22957585 GTCCTGATCGCCTCA-GTTTGACTAGTGATTTTATCCCGATCACCTGATCTTGGCTCAATCTAGA
191 GTCTTGGTCGCCTTATTTTTGACTAGTGATTTTGTCCTGATCACTTGATCTTGGCTCAATCCAGA
* * * *
22957649 TAATTTCTTATGACTCGTGGTTCAATCCCAGTTATTTATTTT
256 TAATTCCTTATGACTCGTGATTCAATCCTAGTCATTTATTTT
22957691 TAACATCGAC
Statistics
Matches: 529, Mismatches: 111, Indels: 36
0.78 0.16 0.05
Matches are distributed among these distances:
358 88 0.17
359 292 0.55
360 146 0.28
361 3 0.01
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (357 bp):
ATCTTAGCTCAATCTAAATTATTTCTTATGATTCGTAGTTTCATCTCGATCATTTATTTTTGACT
TCAACTAGGTCATAGTCGCTTCATTTTTGACTAATGATTTAATCCCGATCACTTGATCTTGGCTC
AGTCCAGATCATTTCTTATGACTCGTGGTTTCTCCTGATCATTTATTTTGACTCGATTCGGTCTT
GGTCGCCTTATTTTTGACTAGTGATTTTGTCCTGATCACTTGATCTTGGCTCAATCCAGATAATT
CCTTATGACTCGTGATTCAATCCTAGTCATTTATTTTCGACCTTCACTCGGTCTGGGTCACCTCA
TTTTTGACTCGTGGTTTCATCTCGATCACCTA
Found at i:22957890 original size:3 final size:3
Alignment explanation
Indices: 22957869--22958037 Score: 106
Period size: 3 Copynumber: 58.7 Consensus size: 3
22957859 GTCGATAGGG
* *
22957869 TTA TTT TTA TTA GTA TTA TTA -TA TTA -TA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * **
22957914 -TA TTA TTA -TA TT- GTA TTA -GA GTA TAA TATA TTA ATA TAA CAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * *
22957956 TATA TTA TTA TTA TTA TTA -TA ATA TT- GTA CATA GT- TTA TTA GTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
22958000 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22958038 TAAAAAAGAA
Statistics
Matches: 129, Mismatches: 24, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
2 16 0.12
3 107 0.83
4 6 0.05
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:22958165 original size:37 final size:37
Alignment explanation
Indices: 22958104--22958185 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
22958094 GGGAAAAAAC
* * *
22958104 TGGTGATTTAATATCGGATTCGTTGGAGCATGATTTT
1 TGGTGATTTAATATCGAATACGTTGGAGCATGATTCT
*
22958141 TGGTGATTTAATCA-CGAATACGTTGGAGCGTGATTCT
1 TGGTGATTTAAT-ATCGAATACGTTGGAGCATGATTCT
22958178 TGGTGATT
1 TGGTGATT
22958186 CAGTTACAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 39 0.98
38 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (37 bp):
TGGTGATTTAATATCGAATACGTTGGAGCATGATTCT
Found at i:22958698 original size:95 final size:95
Alignment explanation
Indices: 22958535--22958732 Score: 396
Period size: 95 Copynumber: 2.1 Consensus size: 95
22958525 ATCTACAAGC
22958535 TTGAAGGCATTGACAAGCGTATGATCGAGAGGTTTGAAAAGGAAGCTGCTGAGATGAACAAAAGA
1 TTGAAGGCATTGACAAGCGTATGATCGAGAGGTTTGAAAAGGAAGCTGCTGAGATGAACAAAAGA
22958600 TCTTTCAAGTACGCCTGGGTGCTTGATAAG
66 TCTTTCAAGTACGCCTGGGTGCTTGATAAG
22958630 TTGAAGGCATTGACAAGCGTATGATCGAGAGGTTTGAAAAGGAAGCTGCTGAGATGAACAAAAGA
1 TTGAAGGCATTGACAAGCGTATGATCGAGAGGTTTGAAAAGGAAGCTGCTGAGATGAACAAAAGA
22958695 TCTTTCAAGTACGCCTGGGTGCTTGATAAG
66 TCTTTCAAGTACGCCTGGGTGCTTGATAAG
22958725 TTGAAGGC
1 TTGAAGGC
22958733 TGAGCGTGAG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 103 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (95 bp):
TTGAAGGCATTGACAAGCGTATGATCGAGAGGTTTGAAAAGGAAGCTGCTGAGATGAACAAAAGA
TCTTTCAAGTACGCCTGGGTGCTTGATAAG
Found at i:22961427 original size:26 final size:27
Alignment explanation
Indices: 22961393--22961443 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
22961383 AAAAATATAT
*
22961393 TAAAATAAAA-ATTTTAATTAAATTCG
1 TAAAATAAAATATTTAAATTAAATTCG
* *
22961419 TAAATTAAAATATTTAAATTTAATT
1 TAAAATAAAATATTTAAATTAAATT
22961444 TATTTGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
TAAAATAAAATATTTAAATTAAATTCG
Found at i:22961455 original size:32 final size:34
Alignment explanation
Indices: 22961401--22961487 Score: 117
Period size: 32 Copynumber: 2.6 Consensus size: 34
22961391 ATTAAAATAA
* * *
22961401 AAATTTTAATTAAATTCG-TAAATTAAAATATTT
1 AAATTTAAATTTAATTTGATAAATTAAAATATTT
*
22961434 AAATTT-AATTT-ATTTGATAAATTAAATTATTT
1 AAATTTAAATTTAATTTGATAAATTAAAATATTT
22961466 AAATTTAAATTTAATTTGATAA
1 AAATTTAAATTTAATTTGATAA
22961488 TAATTGAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
31 4 0.08
32 24 0.50
33 11 0.23
34 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (34 bp):
AAATTTAAATTTAATTTGATAAATTAAAATATTT
Found at i:22961741 original size:12 final size:12
Alignment explanation
Indices: 22961737--22961770 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22961727 TTATTTTATT
22961737 TTTTATTATTTA
1 TTTTATTATTTA
*
22961749 TTTTAGTATTTA
1 TTTTATTATTTA
22961761 TTTTAATTAT
1 TTTT-ATTAT
22961771 ATTTAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:22961746 original size:31 final size:32
Alignment explanation
Indices: 22961704--22961765 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
22961694 GCTTTTCCCA
*
22961704 TTTTTATTTATTTAGTTTTAG-CTTTATTTTAT
1 TTTTTATTTATTTA-TTTTAGTATTTATTTTAT
22961736 TTTTTA-TTATTTATTTTAGTATTTATTTTA
1 TTTTTATTTATTTATTTTAGTATTTATTTTA
22961766 ATTATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 6 0.21
31 16 0.57
32 6 0.21
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.73
Consensus pattern (32 bp):
TTTTTATTTATTTATTTTAGTATTTATTTTAT
Found at i:22961760 original size:19 final size:19
Alignment explanation
Indices: 22961726--22961762 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22961716 TAGTTTTAGC
* *
22961726 TTTATTTTATTTTTTATTA
1 TTTATTTTAGTATTTATTA
22961745 TTTATTTTAGTATTTATT
1 TTTATTTTAGTATTTATT
22961763 TTAATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTATTTTAGTATTTATTA
Found at i:22961764 original size:25 final size:28
Alignment explanation
Indices: 22961703--22961770 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 28
22961693 TGCTTTTCCC
22961703 ATTTTTATTTATTTAGTTTTAGCTTTATTTT
1 ATTTTTA-TTATTTAGTTTTAG--TTATTTT
22961734 ATTTTTTATTATTTA-TTTTAG-TA-TTT
1 A-TTTTTATTATTTAGTTTTAGTTATTTT
*
22961760 ATTTTAATTAT
1 ATTTTTATTAT
22961771 ATTTAGAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 9 0.26
26 4 0.11
27 2 0.06
30 6 0.17
31 8 0.23
32 6 0.17
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (28 bp):
ATTTTTATTATTTAGTTTTAGTTATTTT
Done.