Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006068.1 Hibiscus syriacus cultivar Beakdansim tig00014353_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: 69033
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Found at i:4894 original size:21 final size:21
Alignment explanation
Indices: 4870--4931 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
4860 GTTAATGACG
*
4870 TGATAGTTCACAATGCTAACC
1 TGATAGTTCACATTGCTAACC
*
4891 TGATAGTTCACATTGCTAACT
1 TGATAGTTCACATTGCTAACC
*
4912 TGATAATTCACATTGCTAAC
1 TGATAGTTCACATTGCTAAC
4932 GTGACAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (21 bp):
TGATAGTTCACATTGCTAACC
Found at i:10525 original size:2 final size:2
Alignment explanation
Indices: 10520--10544 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10510 CTCTCTTTCT
10520 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 T
10545 TTTGGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12243 original size:29 final size:33
Alignment explanation
Indices: 12179--12245 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
12169 AAGTTTAGTT
12179 TTTA-TTTTATTTTAGTATGCCATCGTTAAAATA
1 TTTAGTTTTATTTTAGTAT-CCATCGTTAAAATA
*
12212 TTTAGTTTT-TTTTAGTAT-C-TCGTTCAAA-A
1 TTTAGTTTTATTTTAGTATCCATCGTTAAAATA
12241 TTTAG
1 TTTAG
12246 CGTTAAGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 6 0.19
30 8 0.25
31 1 0.03
33 13 0.41
34 4 0.12
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.54
Consensus pattern (33 bp):
TTTAGTTTTATTTTAGTATCCATCGTTAAAATA
Found at i:22425 original size:68 final size:68
Alignment explanation
Indices: 22340--22816 Score: 738
Period size: 68 Copynumber: 7.1 Consensus size: 68
22330 CTGTTAGGGA
* * * *
22340 TATTTTTTAGGGTAAACTACATATTTGATCACTTATATATTATCTAATTTATGTTTTGGTCATTC
1 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
*
22405 GAT
66 AAT
*
22408 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAAGTTATGTTTTGGTCACTC
1 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
22473 AAT
66 AAT
22476 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
1 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
22541 AAT
66 AAT
22544 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
1 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
*
22609 GAT
66 AAT
* * *
22612 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATCATCTAA-TT-TGTTTTGATCCCTC
1 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
*
22675 GAT
66 AAT
* **
22678 TATTATTTAGGCTAAACTACCTATTTGGTCACTTATATATTATCTAA--TA--TAAT--TCACAT
1 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCAC-T
22737 -ATAT
65 CA-AT
*
22741 TTTTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
1 TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
22806 AAT
66 AAT
22809 TATTATTT
1 TATTATTT
22817 TTTTCAAAAT
Statistics
Matches: 377, Mismatches: 22, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
62 3 0.01
63 48 0.13
64 2 0.01
65 3 0.01
66 60 0.16
67 4 0.01
68 252 0.67
69 5 0.01
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.47
Consensus pattern (68 bp):
TATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
AAT
Found at i:22617 original size:31 final size:31
Alignment explanation
Indices: 22363--22607 Score: 114
Period size: 31 Copynumber: 7.3 Consensus size: 31
22353 AAACTACATA
*
22363 TTTGATCACTTATATATTATCTAATTTATGT
1 TTTGGTCACTTATATATTATCTAATTTATGT
** ** **
22394 TTTGGTCA-TTCGATTATTATTTAGGGTAAACTACCT
1 TTTGGTCACTT--A-TA-TA-TTA-TCTAATTTATGT
*
22430 ATTTGGTCACTTATATATTATCTAAGTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
* ** ** **
22462 TTTGGTCACTCAATTATTATTTAGGGTAAACTACCT
1 TTTGGTCACT-TA-TA-TA-TTA-TCTAATTTATGT
22498 ATTTGGTCACTTATATATTATCTAATTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
* ** ** **
22530 TTTGGTCACTCAATTATTATTTAGGGTAAACTACCT
1 TTTGGTCACT-TA-TA-TA-TTA-TCTAATTTATGT
22566 ATTTGGTCACTTATATATTATCTAATTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
22598 TTTGGTCACT
1 TTTGGTCACT
22608 CGATTATTAT
Statistics
Matches: 153, Mismatches: 41, Indels: 40
0.65 0.18 0.17
Matches are distributed among these distances:
30 2 0.01
31 37 0.24
32 21 0.14
33 15 0.10
34 12 0.08
35 15 0.10
36 21 0.14
37 28 0.18
38 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (31 bp):
TTTGGTCACTTATATATTATCTAATTTATGT
Found at i:26012 original size:28 final size:29
Alignment explanation
Indices: 25972--26044 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
25962 TAATTCAAAA
25972 TTGAATGAATTAATAAG-TTTTTTTAGAT
1 TTGAATGAATTAATAAGTTTTTTTTAGAT
*
26000 TTGAATGAATTAATAAGTTTTTTTTATAT
1 TTGAATGAATTAATAAGTTTTTTTTAGAT
26029 TTGAATGAATTAATAA
1 TTGAATGAATTAATAA
26045 AAAAATGGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 17 0.40
29 26 0.60
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.49
Consensus pattern (29 bp):
TTGAATGAATTAATAAGTTTTTTTTAGAT
Found at i:26113 original size:30 final size:30
Alignment explanation
Indices: 26079--26145 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
26069 ACTAAATTTT
*
26079 TTATAAAATTATA-AAACTTAGAGG-TCCTAA
1 TTATAAAA-TATAGAAAATT-GAGGATCCTAA
*
26109 TTAT-AAATATAGAAAATTGAGGATCCTAC
1 TTATAAAATATAGAAAATTGAGGATCCTAA
26138 TTATAAAA
1 TTATAAAA
26146 ACAAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 8 0.25
29 17 0.53
30 7 0.22
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (30 bp):
TTATAAAATATAGAAAATTGAGGATCCTAA
Found at i:26153 original size:28 final size:28
Alignment explanation
Indices: 26099--26154 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
26089 ATAAAACTTA
* *
26099 GAGGTCCTAATTATAAATATAGAAAATT
1 GAGGTCCTAATTATAAAAACAGAAAATT
*
26127 GAGGATCCTACTTATAAAAACA-AAAATT
1 GAGG-TCCTAATTATAAAAACAGAAAATT
26155 TTAGGGGCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (28 bp):
GAGGTCCTAATTATAAAAACAGAAAATT
Found at i:27382 original size:124 final size:120
Alignment explanation
Indices: 27074--27381 Score: 341
Period size: 124 Copynumber: 2.5 Consensus size: 120
27064 AGGGTAAACT
* * ** * **
27074 ACGCAGTTAGTACCTAAACTATCAATTTTAGTTTGTTTTAATACCTAAACTTTCAAATTTTTTAA
1 ACGCATTTAGTACCTAAAATATCAATTTTAG-TCATTTTAATACCTAAATTTTCATTTTTTTTAA
* * *
27139 AATCATACCCAATGTTTTTTTTTGTTTCAATTTATTACCCTACTGTTAAAAACTTA
65 AATCATACCCAATATTTATTTTTGTTTCAATTTATTACCCCACTGTTAAAAACTTA
* * * * *
27195 ACGCGTTTAGTACATAAAACTAT-AAGTTTTTTGTCAGTTTTATTACCTAAACTTTTAATTTTTT
1 ACGCATTTAGTACCTAAAA-TATCAA--TTTTAGTCA-TTTTAATACCTAAA-TTTTCATTTTTT
* * **
27259 TTAAAATCATACCTAATATTTAATTTTTGTTTCATTTTATTACCCCGTTGTTAAAAA-TTA
61 TTAAAATCATACCCAATATTT-ATTTTTGTTTCAATTTATTACCCCACTGTTAAAAACTTA
* *
27319 ATGCATTTAGTACCTAAAATATCAATTTTGGTCCATTTTAATACCTAAATTTTCATTTTTTTT
1 ACGCATTTAGTACCTAAAATATCAATTTTAGT-CATTTTAATACCTAAATTTTCATTTTTTTT
27382 TCCAAAAAGG
Statistics
Matches: 154, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
121 30 0.19
122 23 0.15
123 23 0.15
124 48 0.31
125 30 0.19
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.47
Consensus pattern (120 bp):
ACGCATTTAGTACCTAAAATATCAATTTTAGTCATTTTAATACCTAAATTTTCATTTTTTTTAAA
ATCATACCCAATATTTATTTTTGTTTCAATTTATTACCCCACTGTTAAAAACTTA
Found at i:29566 original size:47 final size:46
Alignment explanation
Indices: 29503--29593 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 46
29493 GCTGAATTTT
* *
29503 ATTTTAAAGTTCAATTTAATCCTTTAAGTTTTTTTGATT-TAATTATA
1 ATTTTAAAATTCAATTTAATACTTTAA-TTTTTTTG-TTCTAATTATA
* * *
29550 ATTTTAAAATTGAATTTAGTACTTTCATTTTTTTGTTCTAATTA
1 ATTTTAAAATTCAATTTAATACTTTAATTTTTTTGTTCTAATTA
29594 GATTCGATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 2 0.05
46 14 0.37
47 22 0.58
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (46 bp):
ATTTTAAAATTCAATTTAATACTTTAATTTTTTTGTTCTAATTATA
Found at i:29959 original size:21 final size:21
Alignment explanation
Indices: 29933--29988 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
29923 ATGATTTTAA
*
29933 AAAATTAA-AAGTTTAAGTATT
1 AAAATTAATAA-TTTAAGTACT
29954 AAAATTAATAATTTAAGTACT
1 AAAATTAATAATTTAAGTACT
*
29975 AAAAGT-ATAATTTA
1 AAAATTAATAATTTA
29989 CCCTTAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 8 0.25
21 22 0.69
22 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (21 bp):
AAAATTAATAATTTAAGTACT
Found at i:30110 original size:47 final size:47
Alignment explanation
Indices: 30041--30134 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
30031 CAAAAGGTCC
**
30041 AAAACCTTTAAGACATGCATGATGATGTTGTTGAACATGGGCAGTTA
1 AAAACCTTTAAGACATGCATGATGATGAAGTTGAACATGGGCAGTTA
30088 AAAACCTTTAAGACATGCATGATGATGAAGTTGAACATGGGCAGTTA
1 AAAACCTTTAAGACATGCATGATGATGAAGTTGAACATGGGCAGTTA
30135 TTCTAGATAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (47 bp):
AAAACCTTTAAGACATGCATGATGATGAAGTTGAACATGGGCAGTTA
Found at i:32059 original size:44 final size:44
Alignment explanation
Indices: 31987--32082 Score: 165
Period size: 44 Copynumber: 2.2 Consensus size: 44
31977 GTGACAATCG
*
31987 AACCTGACCTGTATCCGACTTGATATGAATACGAACCCTAGAAT
1 AACCCGACCTGTATCCGACTTGATATGAATACGAACCCTAGAAT
* *
32031 AACCCGACTTGTATCCGACTTGATATGAATACGAATCCTAGAAT
1 AACCCGACCTGTATCCGACTTGATATGAATACGAACCCTAGAAT
32075 AACCCGAC
1 AACCCGAC
32083 AAATAACTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (44 bp):
AACCCGACCTGTATCCGACTTGATATGAATACGAACCCTAGAAT
Found at i:32125 original size:16 final size:17
Alignment explanation
Indices: 32104--32137 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32094 ATTACCCAAT
*
32104 ATGTTATTAACA-TGAC
1 ATGTTATAAACACTGAC
32120 ATGTTATAAACACTGAC
1 ATGTTATAAACACTGAC
32137 A
1 A
32138 CAACCTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (17 bp):
ATGTTATAAACACTGAC
Found at i:32680 original size:14 final size:15
Alignment explanation
Indices: 32652--32683 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
32642 GTCTTGTCTC
32652 TTAAATTTAAATTAT
1 TTAAATTTAAATTAT
32667 TTAAATTT-AATTAT
1 TTAAATTTAAATTAT
32681 TTA
1 TTA
32684 TCTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAATTTAAATTAT
Found at i:32768 original size:2 final size:2
Alignment explanation
Indices: 32763--33219 Score: 181
Period size: 2 Copynumber: 234.0 Consensus size: 2
32753 ACTTTAAACT
* *
32763 TA TA TA TA TA TA -A TA TA TA TA CTT TA TA CTT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * *
32806 TA TA TA CA TA CTA -A TA T- TA TA CTT TA -A TA T- TT TA TA TA T-
1 TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
32845 TA TA TA T- TA TA TA CT- TA TA -A GTA TA -A TG TA TA CT- TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA
32883 T- TA TA TA TA CT- TA TA TA TA T- TA TA TA TA TA TA CT- TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
32923 CT- TA TA TG TA TG TA TA TA CT- TA TA -A TG TA T- TG TT TA TA TA
1 -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
32963 CT- TT TA TA TA TA TA TA TA TA TA CA CT- TA TA T- TA TA TA TA -A
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
33003 TA TA TG TA TA TA -A GTA TA TA TA -A GTT TA CA TA TA TA TA CA -A
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
33044 TA TA TA T- TT TA TA TA TG TA TA TA CT- TA TA -A TG TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* * * *
33084 TA T- TA TA TA TG TA TG TA TA TA TA TA T- TA TA TA AA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
33124 CTA TA T- TA TA TA -A TA TA TA AA TA TA TA TA TC TA TA TA TA AA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
33165 TA TA AA CTA TA GTG TA TA GTT TA TA TA TA AA GTA TA GTT TA TA TA
1 TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA TA TA
33210 TA TA TA TA TA
1 TA TA TA TA TA
33220 GTTCACATGT
Statistics
Matches: 340, Mismatches: 58, Indels: 114
0.66 0.11 0.22
Matches are distributed among these distances:
1 34 0.10
2 284 0.84
3 22 0.06
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32783 original size:30 final size:28
Alignment explanation
Indices: 32747--32812 Score: 105
Period size: 30 Copynumber: 2.3 Consensus size: 28
32737 AGTCCAACGC
32747 ATATATACTTTAAACTTATATATATATAAT
1 ATATATACTTTAAACTT-TATATATAT-AT
*
32777 ATATATACTTTATACTTTATATATATAT
1 ATATATACTTTAAACTTTATATATATAT
32805 ATATATAC
1 ATATATAC
32813 ATACTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 10 0.29
29 9 0.26
30 16 0.46
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (28 bp):
ATATATACTTTAAACTTTATATATATAT
Found at i:32826 original size:19 final size:19
Alignment explanation
Indices: 32763--33160 Score: 83
Period size: 21 Copynumber: 19.5 Consensus size: 19
32753 ACTTTAAACT
32763 TATATATATA-TAATA-TA
1 TATATATATACTAATATTA
*
32780 TATACTTTATACTTTATATATATA
1 TATA-TATATAC--TA-ATAT-TA
32804 TATATATACATACTAATATTA
1 TATATAT--ATACTAATATTA
* **
32825 TACTTTAATATTTTATATATTA
1 TA-TAT-ATATACTA-ATATTA
* *
32847 TATATTATATACTTATAAGTA
1 TATA-TATATACTAAT-ATTA
* *
32868 TA-ATGTATACTTATATTA
1 TATATATATACTAATATTA
32886 TATATACT-TA-TATATATTA
1 TATATA-TATACTA-ATATTA
32905 TATATATATACTTATATACTTA
1 TATATATATAC-TA-ATA-TTA
*
32927 TATGTATGTATATACTTATAATGTA
1 TA--TA--TATATACTAAT-AT-TA
* * **
32952 TTGTTTATATACTTTTATATA
1 -TATATATATACTAATAT-TA
*
32973 TATATATATA-TACA-CTTA
1 TATATATATACTA-ATATTA
*
32991 TATTATATATAAT-ATATGTA
1 TA-TATATATACTAATAT-TA
33011 TATAAGTATATA-TAAGT-TTA
1 TAT-A-TATATACTAA-TATTA
*
33031 CATATATATAC-AATA-TA
1 TATATATATACTAATATTA
* *
33048 TATTTTATATATGTATATACTTA
1 TA-TATATATA-CTA-ATA-TTA
* *
33071 TA-ATGTATACTTATATTA
1 TATATATATACTAATATTA
33089 TATATGTATGTATA-TATATATTA
1 TATA--TA--TATACTA-ATATTA
*
33112 TATAAATATAAACT-ATATTA
1 TAT--ATATATACTAATATTA
33132 TATA-ATATA-TAAATATATA
1 TATATATATACT-AATAT-TA
*
33151 TATCTATATA
1 TATATATATA
33161 TAAATATAAA
Statistics
Matches: 285, Mismatches: 38, Indels: 113
0.65 0.09 0.26
Matches are distributed among these distances:
16 1 0.00
17 12 0.04
18 42 0.15
19 50 0.18
20 39 0.14
21 51 0.18
22 36 0.13
23 25 0.09
24 12 0.04
25 9 0.03
26 8 0.03
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (19 bp):
TATATATATACTAATATTA
Found at i:32848 original size:51 final size:48
Alignment explanation
Indices: 32780--32929 Score: 136
Period size: 51 Copynumber: 3.1 Consensus size: 48
32770 ATATAATATA
*
32780 TATACTTTATACT-TTATATATATATATATATACATACTAATATTATACTT
1 TATATTTTATA-TATTATATATATATATATATA-ATACTAATATTATAC-T
*
32830 TAATATTTTATATATTATATAT-TATATACTTATAAGTA-TAAT-GTATACT
1 T-ATATTTTATATATTATATATATATATA--TATAA-TACTAATATTATACT
*
32879 TATATTATATATACTTATATATAT-TATATATATATACT--TA-TATACT
1 TATATTTTATATA-TTATATATATATATATATA-ATACTAATATTATACT
32925 TATAT
1 TATAT
32930 GTATGTATAT
Statistics
Matches: 87, Mismatches: 3, Indels: 24
0.76 0.03 0.21
Matches are distributed among these distances:
46 12 0.14
47 6 0.07
48 13 0.15
49 14 0.16
50 14 0.16
51 22 0.25
52 6 0.07
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (48 bp):
TATATTTTATATATTATATATATATATATATAATACTAATATTATACT
Found at i:32929 original size:73 final size:73
Alignment explanation
Indices: 32747--32929 Score: 192
Period size: 65 Copynumber: 2.6 Consensus size: 73
32737 AGTCCAACGC
32747 ATATATACTTTAA-ACTTATATATATATAATATATATACTT-TATACTTTATATATATATATATA
1 ATATATACTTTAATA-TTATATATATAT-AT-TATATACTTATATACTTTATATATATATATATA
32810 TACATACTAAT
63 TACATACTAAT
*
32821 AT-TATACTTTAATA-T-T-T-TATATATTATATA-TTATATAC-TTATA-AGTATA-ATGTATA
1 ATATATACTTTAATATTATATATATATATTATATACTTATATACTTTATATA-TATATATATATA
* *
32877 CTTA-TATT
65 CATACTAAT
32885 ATATATACTTATATATATTATATATATATACTTATATACTTATAT
1 ATATATACTT-TA-ATATTATATATATATA-TTATATACTTATAT
32930 GTATGTATAT
Statistics
Matches: 94, Mismatches: 3, Indels: 25
0.77 0.02 0.20
Matches are distributed among these distances:
64 5 0.05
65 17 0.18
66 13 0.14
67 14 0.15
68 3 0.03
69 6 0.06
70 2 0.02
71 7 0.07
72 8 0.09
73 16 0.17
74 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (73 bp):
ATATATACTTTAATATTATATATATATATTATATACTTATATACTTTATATATATATATATATAC
ATACTAAT
Found at i:33140 original size:126 final size:125
Alignment explanation
Indices: 32906--33152 Score: 268
Period size: 126 Copynumber: 1.9 Consensus size: 125
32896 TATATATTAT
* * ** *
32906 ATATATATACTTATATACTTATATGTATGTATATACTTATAATGTATTGTTTATATACTTTTATA
1 ATATATATACATATATACTTATATATATGTATATACTTATAATGTATACTTTATATACTTGTATA
* * *
32971 TATATATATATATACACTTATATTATATATAATATATGTATATAAGTATATATAAGTTTAC
66 TATATATATATATACAC-AATATTAAATATAATATATGAATATAAGTATATATAAGTTTAC
*
33032 ATATATATACAATATATA-TTTTATATATGTATATACTTATAATGTATACTTATATTATA-TATG
1 ATATATATAC-ATATATACTTATATATATGTATATACTTATAATGTATACTT-TA-TATACT-TG
* * * * *
33095 TATGTATATATATATTATATA-AATA-TAAACTATATTATATAATATATAAATATATATA
62 TATATATATATATA-TATACACAATATTAAA-TATAATATATGA-ATATAAGTATATATA
33153 TCTATATATA
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
126 42 0.42
127 21 0.21
128 32 0.32
129 5 0.05
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (125 bp):
ATATATATACATATATACTTATATATATGTATATACTTATAATGTATACTTTATATACTTGTATA
TATATATATATATACACAATATTAAATATAATATATGAATATAAGTATATATAAGTTTAC
Found at i:33143 original size:27 final size:26
Alignment explanation
Indices: 33099--33175 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
33089 TATATGTATG
*
33099 TATA-TATATATTATATAAATATAAA
1 TATATTATATAATATATAAATATAAA
*
33124 CTATATTATATAATATATAAATATATA
1 -TATATTATATAATATATAAATATAAA
*
33151 TATCTATATATAA-ATATAAACTATA
1 TATAT-TATATAATATATAAA-TATA
33176 GTGTATAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.33
27 30 0.67
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TATATTATATAATATATAAATATAAA
Found at i:33168 original size:20 final size:19
Alignment explanation
Indices: 32765--33168 Score: 89
Period size: 19 Copynumber: 20.7 Consensus size: 19
32755 TTTAAACTTA
32765 TATATATATAATATATATACT
1 TATATATA-AATATATATA-T
**
32786 T-TATACTTTATATATATA-
1 TATATA-TAAATATATATAT
*
32804 TATATATACATACTA-ATAT
1 TATATATAAATA-TATATAT
* *
32823 TATACTTTAATATTTTATATAT
1 TATA-TATAA-A-TATATATAT
*
32845 TATATAT---TATATA-CT
1 TATATATAAATATATATAT
*
32860 TATAAGTATAATGTATACTTATAT
1 TAT-A-TATAA-ATATA--TATAT
**
32884 TATATATACTTATATATAT
1 TATATATAAATATATATAT
*
32903 TATATATATATACTTATATACT
1 TATATATAAATA--TATATA-T
* *
32925 TATATGT--ATGTATATACT
1 TATATATAAATATATATA-T
* *
32943 TATA-AT--GTAT-TGT-T
1 TATATATAAATATATATAT
**
32957 TATATACT-TTTATATATAT
1 TATATA-TAAATATATATAT
* *
32976 ATATATATACA-CT-TATAT
1 -TATATATAAATATATATAT
*
32994 TATATATAATATATGTATATAAG
1 TATATATAA-ATA--TATAT-AT
* *
33017 TATATATAAGT-T-TACA-
1 TATATATAAATATATATAT
*
33033 TATATATACAATATATATTT
1 TATATATA-AATATATATAT
**
33053 TATATATGTATATACTTATAAT
1 TATATATAAATATA--TAT-AT
*
33075 GTATACT-TATAT-TATATAT
1 -TATA-TATAAATATATATAT
* *
33094 GTATGTATATATATAT-TAT
1 -TATATATAAATATATATAT
*
33113 ATAAATATAAACTATATTATAT
1 -TATATATAAA-TATA-TATAT
*
33135 AATATATAAATATATATAT
1 TATATATAAATATATATAT
33154 CTATATATAAATATA
1 -TATATATAAATATA
33169 AACTATAGTG
Statistics
Matches: 289, Mismatches: 46, Indels: 97
0.67 0.11 0.22
Matches are distributed among these distances:
14 5 0.02
15 5 0.02
16 17 0.06
17 20 0.07
18 32 0.11
19 62 0.21
20 58 0.20
21 34 0.12
22 30 0.10
23 21 0.07
24 5 0.02
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (19 bp):
TATATATAAATATATATAT
Found at i:33208 original size:47 final size:46
Alignment explanation
Indices: 33102--33215 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 46
33092 ATGTATGTAT
* * *
33102 ATATATATTATATAAATATAAACTATATTATATAATATATAAATAT
1 ATATATCTTATATAAATATAAACTATAGTATATAATATATAAATAA
* * * *
33148 ATATATCTATATATAAATATAAACTATAGTGTATAGTTTATATATAA
1 ATATATCT-TATATAAATATAAACTATAGTATATAATATATAAATAA
*
33195 AGTATAGT-TTATATATATATA
1 A-TATA-TCTTATATAAATATA
33216 TATAGTTCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
46 7 0.12
47 44 0.77
48 5 0.09
49 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (46 bp):
ATATATCTTATATAAATATAAACTATAGTATATAATATATAAATAA
Found at i:33277 original size:20 final size:20
Alignment explanation
Indices: 33197--33301 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
33187 ATATATAAAG
*
33197 TATAGTTTATATATA-TATA
1 TATAGTTTACATATAGTATA
* * *
33216 TATAGTTCACATGTA-AACTA
1 TATAGTTTACATATAGTA-TA
* *
33236 TATAGTATATATAATTTA-TATA
1 TATAGT-T-TA-CATATAGTATA
*
33258 TATAGTTTGCATATAGTATA
1 TATAGTTTACATATAGTATA
* * *
33278 TATGGTTTATATATAGTTTA
1 TATAGTTTACATATAGTATA
33298 TATA
1 TATA
33302 CTACTATGTA
Statistics
Matches: 65, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.26
20 32 0.49
21 2 0.03
22 9 0.14
23 5 0.08
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (20 bp):
TATAGTTTACATATAGTATA
Found at i:33288 original size:11 final size:11
Alignment explanation
Indices: 33234--33301 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
33224 ACATGTAAAC
*
33234 TATATAGTATA
1 TATATAGTTTA
*
33245 TATA-ATTTATA
1 TATATAGTT-TA
*
33256 TATATAGTTTG
1 TATATAGTTTA
*
33267 CATATAG--TA
1 TATATAGTTTA
*
33276 TATATGGTTTA
1 TATATAGTTTA
33287 TATATAGTTTA
1 TATATAGTTTA
33298 TATA
1 TATA
33302 CTACTATGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 33 0.75
12 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.50
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:33335 original size:22 final size:21
Alignment explanation
Indices: 33304--33345 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33294 TTTATATACT
*
33304 ACTATGTATAAACTATATAAAA
1 ACTATATAT-AACTATATAAAA
*
33326 ACTATATATAATTATATAAA
1 ACTATATATAACTATATAAA
33346 TTAACCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
ACTATATATAACTATATAAAA
Found at i:33414 original size:36 final size:36
Alignment explanation
Indices: 33361--33457 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
33351 CATAAACCTA
*
33361 TATATATATATATACTATATAGTTTATACATAGTAG
1 TATATATATATAAACTATATAGTTTATACATAGTAG
* *
33397 TATATA-AGTATAAACTATATAGTTTATATATAGT-T
1 TATATATA-TATAAACTATATAGTTTATACATAGTAG
* *
33432 TATAT-TA-ATAAACTAAATAATTTATA
1 TATATATATATAAACTATATAGTTTATA
33458 TAATTATTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
33 17 0.31
35 7 0.13
36 30 0.56
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
TATATATATATAAACTATATAGTTTATACATAGTAG
Found at i:33428 original size:11 final size:11
Alignment explanation
Indices: 33363--33436 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
33353 TAAACCTATA
*
33363 TATATATA-TA
1 TATATATAGTT
33373 TACTATATAGTT
1 TA-TATATAGTT
* *
33385 TATACATAGTAG
1 TATATATAGT-T
33397 TATATA-AGTAT
1 TATATATAGT-T
*
33408 AAACTATATAGTT
1 -TA-TATATAGTT
33421 TATATATAGTT
1 TATATATAGTT
33432 TATAT
1 TATAT
33437 TAATAAACTA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 2 0.04
11 31 0.61
12 10 0.20
13 5 0.10
14 3 0.06
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (11 bp):
TATATATAGTT
Found at i:33932 original size:126 final size:126
Alignment explanation
Indices: 33707--33952 Score: 368
Period size: 126 Copynumber: 2.0 Consensus size: 126
33697 TTTTTAATTA
* *
33707 TTCTTTATAAATACAGAAACATACTTACACCAATATAATTATGTGTTTATTATTAGGTGCCAAGA
1 TTCTTTATAAATACAAAAACATACTTACACCAATATAATTATGTGTTTATTATTAAGTGCCAAGA
* * * * *
33772 TATTGAGAGATACACATAGTTACACCGGTATAAGTATGTGTTAAGTGCTACACTTTTTTAT
66 TATTAAAAGATACACATACTTACACAGGTATAAGTATGAGTTAAGTGCTACACTTTTTTAT
* *
33833 TTCTTTGTAAATACAAAAACATACTTACACCAATATAATTATGTGTTTATTGTTAAGTAG-CAAG
1 TTCTTTATAAATACAAAAACATACTTACACCAATATAATTATGTGTTTATTATTAAGT-GCCAAG
** *
33897 ATATTAAAAGATGGACATACTTACACAGGTGTAAGTATGAGTTAAGTGCTACACTT
65 ATATTAAAAGATACACATACTTACACAGGTATAAGTATGAGTTAAGTGCTACACTT
33953 GTTTGTTATA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
126 106 0.99
127 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (126 bp):
TTCTTTATAAATACAAAAACATACTTACACCAATATAATTATGTGTTTATTATTAAGTGCCAAGA
TATTAAAAGATACACATACTTACACAGGTATAAGTATGAGTTAAGTGCTACACTTTTTTAT
Found at i:38206 original size:60 final size:60
Alignment explanation
Indices: 38113--38289 Score: 293
Period size: 60 Copynumber: 3.0 Consensus size: 60
38103 GTATAATCAT
* *
38113 CTCGGAGTCGATT-GGGAGGGAGTTCCGAGCTCTTGGGTGTATTGCAGTGGGCTCATATGC
1 CTCGGGGTCGATTGGGGA-GGAGTTCCAAGCTCTTGGGTGTATTGCAGTGGGCTCATATGC
38173 CTCGGGGTCGATTGGGGAGGAGTTCCAAGCTCTTGGGTGTATTGCAGTGGGCTCATATGC
1 CTCGGGGTCGATTGGGGAGGAGTTCCAAGCTCTTGGGTGTATTGCAGTGGGCTCATATGC
* * *
38233 CTCGGGGTCGATTGGGAAGGAGTTCCAAGCTCTTGGGAGTATAGCAGTGGGCTCATA
1 CTCGGGGTCGATTGGGGAGGAGTTCCAAGCTCTTGGGTGTATTGCAGTGGGCTCATA
38290 GTTACGATAT
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
60 107 0.96
61 4 0.04
ACGTcount: A:0.17, C:0.18, G:0.38, T:0.27
Consensus pattern (60 bp):
CTCGGGGTCGATTGGGGAGGAGTTCCAAGCTCTTGGGTGTATTGCAGTGGGCTCATATGC
Found at i:50690 original size:237 final size:239
Alignment explanation
Indices: 50231--50699 Score: 705
Period size: 237 Copynumber: 2.0 Consensus size: 239
50221 ATACTTAATG
* *
50231 TTTAGCTTTTATTTCATTTTAGTACTTCACTGTTAGAAGCTTAACACATTTAGTACCTAAACTGA
1 TTTAGCTTTTATTTCATTTTAGTACCTCACCGTTAGAAGCTTAACACATTTAGTACCTAAACTGA
* *
50296 CAGTTTTGGTCCATTTTAGTACCTAAACTTTAAAAAAAATCAATAACTTAACGTTAACTTTTGAA
66 CAATTTTGGTCCATTTTAGTACCTAAACTTTAAAAAAAATCAATAAC-TAACGTTAAATTTTGAA
* * *
50361 CGGGATACTAAAATGAAACAAAAACTAAACTTTAAGTATGATTTTAAAAATTCTGAAAGTTTAGG
130 CGAGATACTAAAATGAAACAAAAACTAAACTTTAAGTATGATATTAAAAATTCTAAAAGTTTAGG
* *
50426 TATTAAAATAGGCCAAAGCTAATAGTTTAGATACTAAATGTGTAA
195 TAATAAAATAGGCCAAAGCTAATAGTTTAAATACTAAATGTGTAA
* * *
50471 TTTAGTTTTTATTTCATTTTAGTACCTCACCGTTATAAGCTTAACACGTTTAGTACCTAAACT-A
1 TTTAGCTTTTATTTCATTTTAGTACCTCACCGTTAGAAGCTTAACACATTTAGTACCTAAACTGA
*
50535 TCAATTTTGGTCCGTTTTAGTACCTAAAC-TTAAAAAAAATCCAA-AA-TAACGTTAAATTTTGA
66 -CAATTTTGGTCCATTTTAGTACCTAAACTTTAAAAAAAAT-CAATAACTAACGTTAAATTTTGA
* * * *
50597 ACGAGATACTAAAATGAAACAAAAACTAAAGTTTAAGTATGATATTGAAAATTTTAAAAGTTTAT
129 ACGAGATACTAAAATGAAACAAAAACTAAACTTTAAGTATGATATTAAAAATTCTAAAAGTTTAG
*
50662 GTAATAAAATAGGCCAATA-CTGATAGTTTAAATACTAA
194 GTAATAAAATAGGCCAA-AGCTAATAGTTTAAATACTAA
50700 TCATGTAGTT
Statistics
Matches: 208, Mismatches: 18, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
237 106 0.51
238 1 0.00
239 14 0.07
240 87 0.42
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (239 bp):
TTTAGCTTTTATTTCATTTTAGTACCTCACCGTTAGAAGCTTAACACATTTAGTACCTAAACTGA
CAATTTTGGTCCATTTTAGTACCTAAACTTTAAAAAAAATCAATAACTAACGTTAAATTTTGAAC
GAGATACTAAAATGAAACAAAAACTAAACTTTAAGTATGATATTAAAAATTCTAAAAGTTTAGGT
AATAAAATAGGCCAAAGCTAATAGTTTAAATACTAAATGTGTAA
Found at i:50960 original size:22 final size:21
Alignment explanation
Indices: 50935--50975 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
50925 ACTTAAAACC
*
50935 CTAAACCATAACCCCATAACAT
1 CTAAACCATAAACCC-TAACAT
*
50957 CTAAACTATAAACCCTAAC
1 CTAAACCATAAACCCTAAC
50976 TCAATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
CTAAACCATAAACCCTAACAT
Found at i:56403 original size:18 final size:18
Alignment explanation
Indices: 56328--56396 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
56318 ACTAGATATA
* **
56328 TGAGCTGAACTAGACGAG
1 TGAGCTGGACTAGGTGAG
*
56346 TGAGCTAGACTAGGTGAG
1 TGAGCTGGACTAGGTGAG
*
56364 TGAGATGGACTAGGTGAG
1 TGAGCTGGACTAGGTGAG
56382 TGAGCTGGACTAGGT
1 TGAGCTGGACTAGGT
56397 TGGTGAGGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.28, C:0.12, G:0.39, T:0.22
Consensus pattern (18 bp):
TGAGCTGGACTAGGTGAG
Found at i:59121 original size:19 final size:18
Alignment explanation
Indices: 59097--59132 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
59087 CTATCTAAAC
59097 CACAAGAGAAGCAACAAAA
1 CACAAGAGAAG-AACAAAA
*
59116 CACAAGCGAAGAACAAA
1 CACAAGAGAAGAACAAA
59133 GACAAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.22, G:0.17, T:0.00
Consensus pattern (18 bp):
CACAAGAGAAGAACAAAA
Found at i:67442 original size:60 final size:60
Alignment explanation
Indices: 67328--67442 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
67318 TAAATTATTC
* * *
67328 CTTAAACTTTTAAAAATTCTTATTTCATCCCAGAACCATGACTCTCACTTTAAATCAGTT
1 CTTAAACTTTTAAAAATTCTAATTTCATCCCAGAACCATGAATATCACTTTAAATCAGTT
* *
67388 CTTAAACTTTTAAACATTCTAATTTCATCCCCA-AATCATGAATATCA-TTCTAAAT
1 CTTAAACTTTTAAAAATTCTAATTTCAT-CCCAGAACCATGAATATCACTT-TAAAT
67443 TTGGTCCCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 2 0.04
60 42 0.88
61 4 0.08
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (60 bp):
CTTAAACTTTTAAAAATTCTAATTTCATCCCAGAACCATGAATATCACTTTAAATCAGTT
Found at i:67706 original size:59 final size:59
Alignment explanation
Indices: 67604--67750 Score: 147
Period size: 59 Copynumber: 2.5 Consensus size: 59
67594 ATATGTATAA
* * * * *
67604 TTTAGGATTAAACTAAAGTGTTCAAAAATTTTGAGGAACAATTTAGAA-TAAAGATCATAG
1 TTTAGGATGAAAATAAAATGTT-AAAAATTTTGAAGAACAATTTAGAAGGAAAG-TCATAG
*
67664 TTTGAGGATGAAAATAAAATGTTAAAAA-TTTGAAG-ACTAATTTAGAAGGATAGTCATAG
1 TTT-AGGATGAAAATAAAATGTTAAAAATTTTGAAGAAC-AATTTAGAAGGAAAGTCATAG
* * *
67723 TTTAGGGATGAAATTGAAATGTTTAAAA
1 TTTA-GGATGAAAATAAAATGTTAAAAA
67751 GTTTAGGGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
58 3 0.04
59 44 0.59
60 11 0.15
61 16 0.22
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (59 bp):
TTTAGGATGAAAATAAAATGTTAAAAATTTTGAAGAACAATTTAGAAGGAAAGTCATAG
Found at i:68893 original size:18 final size:18
Alignment explanation
Indices: 68870--68904 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68860 GAAAGATATG
68870 AAATAAAAAATAATAAAC
1 AAATAAAAAATAATAAAC
* *
68888 AAATAAATAATATTAAA
1 AAATAAAAAATAATAAA
68905 AACTTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAAAAATAATAAAC
Done.