Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 91 of 91
Found at i:20657949 original size:73 final size:72
Alignment explanation
Indices: 20657830--20657972 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 72
20657820 ATATAATAGT
*
20657830 ATAACAGGCTAGCTGAATATTATCCATAAAGCCAGGACGATTAACCAATTGTTTTAGGGGGGACA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCCAGGACGATTAACCAATTGCTTTA-GGGGGACA
20657895 ACTCAATC
65 ACTCAATC
* * * * * *
20657903 ATAACAGGTTAGCTGAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGATAA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCCAGGACGATTAACCAATTGCTTTAGGGGGACAA
20657968 CTCAA
66 CTCAA
20657973 GCTTTATTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 13 0.21
73 50 0.79
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (72 bp):
ATAACAGGCTAGCTGAATATTATCCATAAAGCCAGGACGATTAACCAATTGCTTTAGGGGGACAA
CTCAATC
Found at i:20660159 original size:41 final size:41
Alignment explanation
Indices: 20660102--20660183 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
20660092 TTAGTTTTGT
* * * * *
20660102 CATTTGCTCTTTTGAATCATCTTGGAATTTTTTTCTTGATC
1 CATTTGCTCATTTGAATCACCCTGGAACTTTTTACTTGATC
*
20660143 CATTTGTTCATTTGAATCACCCTGGAACTTTTTACTTGATC
1 CATTTGCTCATTTGAATCACCCTGGAACTTTTTACTTGATC
20660184 AATCATCTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (41 bp):
CATTTGCTCATTTGAATCACCCTGGAACTTTTTACTTGATC
Found at i:20660501 original size:8 final size:8
Alignment explanation
Indices: 20660488--20660531 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
20660478 TATAATGAAA
20660488 ATGCAAAG
1 ATGCAAAG
20660496 ATGCAAAG
1 ATGCAAAG
20660504 ATGCAAA-
1 ATGCAAAG
*
20660511 ATAC-AA-
1 ATGCAAAG
20660517 ATGCAAAG
1 ATGCAAAG
20660525 ATGCAAA
1 ATGCAAA
20660532 ATAAAAATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.16
7 5 0.16
8 22 0.69
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.14
Consensus pattern (8 bp):
ATGCAAAG
Found at i:20660522 original size:21 final size:21
Alignment explanation
Indices: 20660496--20660542 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
20660486 AAATGCAAAG
*
20660496 ATGCAAAGATGCAAAATACAA
1 ATGCAAAGATGCAAAATAAAA
20660517 ATGCAAAGATGCAAAATAAAA
1 ATGCAAAGATGCAAAATAAAA
20660538 ATGCA
1 ATGCA
20660543 TGTATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.15, T:0.15
Consensus pattern (21 bp):
ATGCAAAGATGCAAAATAAAA
Found at i:20660668 original size:42 final size:43
Alignment explanation
Indices: 20660621--20660702 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
20660611 TACATCAAAT
* *
20660621 AAAACTTTATATATA-GGGATAGA-TTTCACTCCTAACTTCAAC
1 AAAACTTTACATATATGGGATA-ACCTTCACTCCTAACTTCAAC
20660663 AAAACTTTACATATATGGGATAACCTTCACTCCTAACTTC
1 AAAACTTTACATATATGGGATAACCTTCACTCCTAACTTC
20660703 TCTAAAGCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 15 0.42
43 21 0.58
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (43 bp):
AAAACTTTACATATATGGGATAACCTTCACTCCTAACTTCAAC
Found at i:20669619 original size:16 final size:16
Alignment explanation
Indices: 20669598--20669641 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 16
20669588 AAATTTATAT
20669598 ATATTAATATATAAAA
1 ATATTAATATATAAAA
20669614 ATATT-ATA-AT-AAA
1 ATATTAATATATAAAA
*
20669627 ATAATAA-ATATAAAA
1 ATATTAATATATAAAA
20669642 TCATTACCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 6 0.25
16 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATTAATATATAAAA
Found at i:20672085 original size:15 final size:17
Alignment explanation
Indices: 20672057--20672103 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 17
20672047 AAATTTATAC
20672057 ATATTAATATATAAAAT
1 ATATTAATATATAAAAT
20672074 ATATT-ATA-ATAAAAT
1 ATATTAATATATAAAAT
*
20672089 A-AATAA-ATATAAAAT
1 ATATTAATATATAAAAT
20672104 CATTACTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.11
15 16 0.59
16 3 0.11
17 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATTAATATATAAAAT
Found at i:20675213 original size:3 final size:3
Alignment explanation
Indices: 20675194--20675246 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
20675184 TTGGGTTTTG
* *
20675194 TAA TAT TAA TAAA TAA TAA T-A TAT TAAA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA T-AA TAA TAA T-AA TAA TAA TAA
20675241 TAA TAA
1 TAA TAA
20675247 ATTTAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 2 0.05
3 32 0.76
4 8 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:20675213 original size:10 final size:9
Alignment explanation
Indices: 20675194--20675246 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
20675184 TTGGGTTTTG
*
20675194 TAATATTAA
1 TAATAATAA
20675203 TAAATAATAA
1 T-AATAATAA
*
20675213 T-ATATTAAA
1 TAATAAT-AA
20675222 TAATAATAAA
1 TAATAAT-AA
20675232 TAATAATAA
1 TAATAATAA
20675241 TAATAA
1 TAATAA
20675247 ATTTAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 4 0.11
9 12 0.32
10 22 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAATAATAA
Found at i:20675229 original size:25 final size:26
Alignment explanation
Indices: 20675195--20675248 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
20675185 TGGGTTTTGT
* *
20675195 AATATTAATAAATAATAAT-ATATTA
1 AATAATAATAAATAATAATAATAATA
20675220 AATAATAATAAATAATAATAATAATA
1 AATAATAATAAATAATAATAATAATA
20675246 AAT
1 AAT
20675249 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AATAATAATAAATAATAATAATAATA
Found at i:20675664 original size:119 final size:118
Alignment explanation
Indices: 20675479--20675787 Score: 390
Period size: 119 Copynumber: 2.5 Consensus size: 118
20675469 TGAATACGTT
* *
20675479 CTTCTCATTATGAACTTTTTTCTTTCCCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 CTTCTCATTGTGAAC---TTTC-TTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
20675544 AAAGTTTGATGCTAATCTATCT-CTTTCTGTAATAGAATTATGCAAAAGGTTGAACAAG-
62 AAAG-CTGATGCTAATCTATCTGC-TTCTGTAATAGAATTATG-AAAAGGTTGAACAAGC
*
20675602 CTTCTCATTGTGAAC-TTCTTCTTCTTCAGATGAGTTTCTTCTCATTATGAACTTTCTCTGGAAA
1 CTTCTCATTGTGAACTTTCTTCTCCTTCAGATGAG-TTCTTCTCATTATGAACTTTCTCTGG-AA
* ** *
20675666 AGCTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGTGAAGGTTGAATAAGC
64 AGCTGATGCTAATCTATCTGCTTCTGTAATAGAATTATGAAAAGGTTGAACAAGC
* * *
20675721 TCTTCTCATTGTGAACTTTTTCTTCTCCTTCAAATGAGTTCTTCTCATTTTGAACTTTTTCTGGA
1 -CTTCTCATTGTGAAC--TTTCTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
20675786 AA
63 AA
20675788 AGTTGATCCA
Statistics
Matches: 166, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
118 26 0.16
119 62 0.37
120 20 0.12
121 3 0.02
122 24 0.14
123 31 0.19
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (118 bp):
CTTCTCATTGTGAACTTTCTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAG
CTGATGCTAATCTATCTGCTTCTGTAATAGAATTATGAAAAGGTTGAACAAGC
Found at i:20676663 original size:113 final size:113
Alignment explanation
Indices: 20675707--20677492 Score: 3197
Period size: 113 Copynumber: 16.0 Consensus size: 113
20675697 GAATTATGTG
* ** * * *
20675707 AAGGTTGAATAAGCTCTTCTCATTGTGAACTTT-TTCTT-CTCCTTCAAATGAGTTCTTCTCATT
1 AAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
20675770 TTGAACTTTTTCTGGAAAAGTTGATCCATC--ATGATGGATTTGAGCAA
65 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20675817 AAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCTTCA-ATGAGTTTCTTCTC
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-C--CTTCTTCAGATGAG-TTCTTCTC
*
20675880 A-T-T--ACTTTTTCTGGAAAAGCTGATCCATAAGATGATGGATTTGAGCAA
62 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20675928 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20675993 TGAACTTTTTCTGGAAAAGCTGATCCATC--A-GATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676038 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA-T-
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20676101 T-AACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676148 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-CTTCTTTCAGATGAGTTCTTCTCATT
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTCATT
*
20676212 ATAAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG-AA
65 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676260 AAGGTTGAACAAATTCTTCT-ATTATGAATTTCTTCTTCCTTCTTCA-ATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20676323 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGC-A
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676370 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20676435 TGAAC-TTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676482 AAGGTTGAACAAA-TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20676546 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676594 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20676659 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676707 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20676772 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20676820 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20676885 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
*
20676933 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
20676998 TGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
* *
20677046 AAGTTTGAACAAATTCTTCTCATAATGAATTTCTTCTTCCTTCTTTCAGATGAGTTCTTCTCATT
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTCATT
20677111 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
65 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20677160 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20677225 TGAACTTTTTCTGGAAAA-CTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
20677272 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
20677337 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
*
20677385 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
20677450 TGAAATTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
66 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
20677493 TATCTTTGCT
Statistics
Matches: 1627, Mismatches: 19, Indels: 57
0.96 0.01 0.03
Matches are distributed among these distances:
107 27 0.02
108 3 0.00
109 52 0.03
110 262 0.16
111 194 0.12
112 244 0.15
113 735 0.45
114 110 0.07
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (113 bp):
AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAA
Found at i:20678401 original size:53 final size:52
Alignment explanation
Indices: 20678280--20678485 Score: 161
Period size: 53 Copynumber: 3.9 Consensus size: 52
20678270 ATATCACTAG
* ** * *
20678280 TTCATAAAACATTTGACAATACATTCATTTTTTTCCTGTGGTTTCTG-TC-GAGA
1 TTCAT-AAACATTTGACAACACATTCATCCTTTT--TGTGGCTTCTGCTCAGACA
* * **
20678333 TGT-A-AAACACTTGACAACACATTCATCCTTTTATGCGGCTTCTGCTCAGATG
1 T-TCATAAACATTTGACAACACATTCATCCTTTT-TGTGGCTTCTGCTCAGACA
** * *
20678385 TTTGTAAACATTTGACAACACACATTCATCCTTTCTTGTGGTTTTTGCTCAGACA
1 TTCATAAACATTTGAC-A-ACACATTCATCCTTT-TTGTGGCTTCTGCTCAGACA
*
20678440 TTCATAAAGCGTTTGAC-ACACATTCATCCTTTTCTGTGGCTTCTGC
1 TTCATAAA-CATTTGACAACACATTCATCCTTTT-TGTGGCTTCTGC
20678486 CAAGATTTCT
Statistics
Matches: 122, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
50 9 0.07
51 27 0.22
52 4 0.03
53 37 0.30
54 2 0.02
55 35 0.29
56 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (52 bp):
TTCATAAACATTTGACAACACATTCATCCTTTTTGTGGCTTCTGCTCAGACA
Found at i:20680722 original size:113 final size:114
Alignment explanation
Indices: 20680559--20680894 Score: 568
Period size: 113 Copynumber: 3.0 Consensus size: 114
20680549 GATCATGCAG
* * * * * *
20680559 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
20680624 ACACTTCCAGAAGATGCTATTG-GTCTCCTTATTTCTACTATGAGAAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGAAAA
20680672 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
20680737 ACACTTCCA-AAGATGCTATTGAGTCTTCTTATTTATACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGAAAA
*
20680785 TTCATCTTTCAAATCCAATGATTAGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
20680850 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
20680895 CACATGGCAC
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
112 12 0.06
113 164 0.78
114 34 0.16
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGAAAA
Found at i:20686393 original size:14 final size:14
Alignment explanation
Indices: 20686359--20686412 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
20686349 TTGTGCAATA
* *
20686359 CAAATGCAAAGATG
1 CAAATGTAAATATG
20686373 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
20686388 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
20686402 TAAATGTAAAT
1 CAAATGTAAAT
20686413 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Done.