Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003418.1 Hibiscus syriacus cultivar Beakdansim tig00007196_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: 107358
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:230 original size:13 final size:14
Alignment explanation
Indices: 201--231 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
191 AAACATGCAA
201 GTGATATGAACTAT
1 GTGATATGAACTAT
215 GTGATATGAA-TAT
1 GTGATATGAACTAT
228 GTGA
1 GTGA
232 AATATGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:2190 original size:16 final size:16
Alignment explanation
Indices: 2169--2199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2159 TGAGAAGCTA
2169 TTTAGAATTAAAATTG
1 TTTAGAATTAAAATTG
*
2185 TTTAGAATTAGAATT
1 TTTAGAATTAAAATT
2200 ACTTACATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (16 bp):
TTTAGAATTAAAATTG
Found at i:2434 original size:9 final size:9
Alignment explanation
Indices: 2420--2444 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2410 TTGACAGTGG
2420 TGGTGCTTA
1 TGGTGCTTA
2429 TGGTGCTTA
1 TGGTGCTTA
2438 TGGTGCT
1 TGGTGCT
2445 GAAGTAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.36, T:0.44
Consensus pattern (9 bp):
TGGTGCTTA
Found at i:4981 original size:3 final size:3
Alignment explanation
Indices: 4973--5005 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4963 GGAAGTTATC
4973 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
5006 GATAAGGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:6265 original size:25 final size:25
Alignment explanation
Indices: 6232--6282 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6222 GTTACAGTAT
*
6232 AAAACATTAAACACCAAACTAAAAA
1 AAAAAATTAAACACCAAACTAAAAA
* * *
6257 AAAAAATTAGATACTAAACTAAAAA
1 AAAAAATTAAACACCAAACTAAAAA
6282 A
1 A
6283 TATATACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.69, C:0.14, G:0.02, T:0.16
Consensus pattern (25 bp):
AAAAAATTAAACACCAAACTAAAAA
Found at i:9806 original size:2 final size:2
Alignment explanation
Indices: 9799--9831 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9789 TTTTGATGTT
9799 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
9832 TACAGTAAAG
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:10065 original size:2 final size:2
Alignment explanation
Indices: 10058--10112 Score: 62
Period size: 2 Copynumber: 28.5 Consensus size: 2
10048 TTATTTAGTG
* *
10058 AT AT AT AT AT AT AT AT AT AT AT A- ACT TT AT -T GT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
10098 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
10113 ACTTTATTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
1 3 0.06
2 44 0.94
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10096 original size:32 final size:32
Alignment explanation
Indices: 10059--10122 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10049 TATTTAGTGA
10059 TATATATATATATATATATATAACTTTATTGT
1 TATATATATATATATATATATAACTTTATTGT
10091 TATATATATATATATATATATAACTTTATTGT
1 TATATATATATATATATATATAACTTTATTGT
10123 GTTGTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (32 bp):
TATATATATATATATATATATAACTTTATTGT
Found at i:13895 original size:56 final size:56
Alignment explanation
Indices: 13718--14254 Score: 705
Period size: 56 Copynumber: 9.7 Consensus size: 56
13708 CCTGCTACCA
* * * * * *
13718 ATACGGAAATTTATACACTTAGTATAAATTTC-T-AGTTTTGCACATATACTGCAC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
** * ** * *
13772 ATATAGAAATTCATCTACTTAGTATGAAAATCTTAA-ATTTACACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * * *
13827 ATACAGAAATTCATCCACTTAGTATGAATTTCTTCAGTTTTACACATATAATGCAC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * *
13883 ATACGGAAATTCATCCAGTTAATACGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
13939 ATACGGAAATTCATCAACTTAGTATGAATTTCTTAAGTTTTACATATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * * *
13995 ATAAGAAAATTCATCCACTTAG--T--A-TTCTTAAGTTTTACACATATAGAGGCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
14046 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACAAATATAGTTCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
14102 ATACGGAAATTCATCCACTTAGTATTAATTTCTTAAGTTTTACACATATAGTACCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
14158 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
14214 ATACGAAAATTCATCCA-TCTAGTATGAATTTATTAAGTTTT
1 ATACGGAAATTCATCCACT-TAGTATGAATTTCTTAAGTTTT
14255 TGCACACTTA
Statistics
Matches: 419, Mismatches: 55, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
51 44 0.11
52 1 0.00
53 1 0.00
54 25 0.06
55 48 0.11
56 300 0.72
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (56 bp):
ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
Found at i:14107 original size:219 final size:219
Alignment explanation
Indices: 13713--14238 Score: 704
Period size: 219 Copynumber: 2.4 Consensus size: 219
13703 GTACACCTGC
* * * * * *
13713 TACCAATACGGAAATTTAT-ACACTTAGTATAAATTTC-T-AGTTTTGCACATATACTGCACATA
1 TACCCATACGGAAATTCATCA-ACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATA
* *
13775 TAG-AAATTCATCTACTTAGTATGAAAATCTTAAATTTACACATAAAGTGCCCATACAGAAATTC
65 -AGAAAATTCATCCACTTAGTAT----ATCTTAAATTTACACATAAAGAGCCCATACAGAAATTC
* * *
13839 ATCCACTTAGTATGAATTTCTTCAGTTTTACACATATAATGCACATACGGAAATTCATCCAGTTA
125 ATCCACTTAGTATGAATTTCTTAAGTTTTACAAATATAATGCACATACGGAAATTCATCCACTTA
13904 ATACGAATTTCTTAAGTTTTACACATATAG
190 ATACGAATTTCTTAAGTTTTACACATATAG
* *
13934 TGCCCATACGGAAATTCATCAACTTAGTATGAATTTCTTAAGTTTTACATATATAGTGCCCATAA
1 TACCCATACGGAAATTCATCAACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAA
* * * *
13999 GAAAATTCATCCACTTAGTAT-TCTTAAGTTTTACACATATAGAGGCCATACGGAAATTCATCCA
66 GAAAATTCATCCACTTAGTATATCTTAA-ATTTACACATAAAGAGCCCATACAGAAATTCATCCA
* * * * **
14063 CTTAGTATGAATTTCTTAAGTTTTACAAATATAGTTCCCATACGGAAATTCATCCACTTAGTATT
130 CTTAGTATGAATTTCTTAAGTTTTACAAATATAATGCACATACGGAAATTCATCCACTTAATACG
14128 AATTTCTTAAGTTTTACACATATAG
195 AATTTCTTAAGTTTTACACATATAG
* * *
14153 TACCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
1 TACCCATACGGAAATTCATCAACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAA
14218 GAAAATTCATCCA-TCTAGTAT
66 GAAAATTCATCCACT-TAGTAT
14239 GAATTTATTA
Statistics
Matches: 271, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
218 7 0.03
219 191 0.70
221 31 0.11
222 4 0.01
223 38 0.14
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (219 bp):
TACCCATACGGAAATTCATCAACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAA
GAAAATTCATCCACTTAGTATATCTTAAATTTACACATAAAGAGCCCATACAGAAATTCATCCAC
TTAGTATGAATTTCTTAAGTTTTACAAATATAATGCACATACGGAAATTCATCCACTTAATACGA
ATTTCTTAAGTTTTACACATATAG
Found at i:14706 original size:19 final size:19
Alignment explanation
Indices: 14682--14718 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14672 TCGATACTTT
* *
14682 CCCCTTCGGTATTGATACC
1 CCCCTTCGATATCGATACC
14701 CCCCTTCGATATCGATAC
1 CCCCTTCGATATCGATAC
14719 TGATTGAATC
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:0.19, C:0.38, G:0.14, T:0.30
Consensus pattern (19 bp):
CCCCTTCGATATCGATACC
Found at i:16554 original size:2 final size:2
Alignment explanation
Indices: 16549--16574 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16539 TTTAATTTAT
16549 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
16575 AGGACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30146 original size:57 final size:57
Alignment explanation
Indices: 30078--30193 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
30068 AACCAGCAGC
*
30078 ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCATATGGATGGATGGATGG
1 ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCAGATGGATGGATGGATGG
* *
30135 ATACACTACTGTATATCGAAGAAAGTTTCTTTCTTTCTCAGATGGATGGATGGATGG
1 ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCAGATGGATGGATGGATGG
30192 AT
1 AT
30194 GGATGGATCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (57 bp):
ATACACTACTGTATATCGAAGAAAGTTGCTTCCTTTCTCAGATGGATGGATGGATGG
Found at i:30182 original size:4 final size:4
Alignment explanation
Indices: 30175--30201 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
30165 TTCTTTCTCA
30175 GATG GATG GATG GATG GATG GATG GAT
1 GATG GATG GATG GATG GATG GATG GAT
30202 CAGGTTCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.48, T:0.26
Consensus pattern (4 bp):
GATG
Found at i:38798 original size:15 final size:16
Alignment explanation
Indices: 38770--38801 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
38760 AAAATCTTTC
38770 TTTCCCGTTCTGGATT
1 TTTCCCGTTCTGGATT
38786 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTGGATT
38801 T
1 T
38802 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCCCGTTCTGGATT
Found at i:39575 original size:16 final size:16
Alignment explanation
Indices: 39551--39584 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
39541 TATCGCCGAC
*
39551 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
39567 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
39583 CG
1 CG
39585 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:42296 original size:69 final size:69
Alignment explanation
Indices: 42218--42346 Score: 188
Period size: 69 Copynumber: 1.9 Consensus size: 69
42208 GGTAATTATT
* ** *
42218 TTTTGAATATGTCAAATTAAAATATATTTATTATTTATTTAATTTTAAATATT-AAAGATAATTA
1 TTTTAAATATGTCAAATTAAAATATA-TTATTAACTATTTAAATTTAAATATTAAAAGATAATTA
42282 TATAA
65 TATAA
* *
42287 TTTTAAATATTTTAAATTAAAATATATTATTAACTATTTAAATTTAAATATTAAAAGATA
1 TTTTAAATATGTCAAATTAAAATATATTATTAACTATTTAAATTTAAATATTAAAAGATA
42347 TCTTATTGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 23 0.43
69 30 0.57
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (69 bp):
TTTTAAATATGTCAAATTAAAATATATTATTAACTATTTAAATTTAAATATTAAAAGATAATTAT
ATAA
Found at i:42311 original size:27 final size:26
Alignment explanation
Indices: 42281--42337 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
42271 AAAGATAATT
42281 ATATAATT-TTAAATATTTTAAATTAAA
1 ATAT-ATTATTAAATATTT-AAATTAAA
* *
42308 ATATATTATTAACTATTTAAATTTAA
1 ATATATTATTAAATATTTAAATTAAA
42334 ATAT
1 ATAT
42338 TAAAAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
ATATATTATTAAATATTTAAATTAAA
Found at i:42340 original size:34 final size:33
Alignment explanation
Indices: 42233--42347 Score: 110
Period size: 34 Copynumber: 3.4 Consensus size: 33
42223 AATATGTCAA
* *
42233 ATTAAAATATATTTATTATTTATTTAATTTTAAAT
1 ATTAAAATATA-TTATTA-ATATTTAAATTTAAAT
*
42268 ATTAAAGATA-ATTATATAAT-TTTAAATATTTTAA-
1 ATTAAA-ATATATTAT-TAATATTT-AA-ATTTAAAT
42302 ATTAAAATATATTATTAACTATTTAAATTTAAAT
1 ATTAAAATATATTATTAA-TATTTAAATTTAAAT
*
42336 ATTAAAAGATAT
1 ATTAAAATATAT
42348 CTTATTGGAG
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
33 15 0.22
34 32 0.48
35 17 0.25
36 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (33 bp):
ATTAAAATATATTATTAATATTTAAATTTAAAT
Found at i:44712 original size:32 final size:32
Alignment explanation
Indices: 44676--44756 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 32
44666 ATGTATTATG
* * *
44676 TGTCAAATCATCACTTTTGAACACACGACATA
1 TGTCACATCATCACTTTTAAACACACGAAATA
* *
44708 TGTCACATCATC-CTTTTAAACACATGAAATG
1 TGTCACATCATCACTTTTAAACACACGAAATA
44739 TGTCACATCATCA-TTTTA
1 TGTCACATCATCACTTTTA
44757 GAGATGTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 32 0.74
32 11 0.26
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (32 bp):
TGTCACATCATCACTTTTAAACACACGAAATA
Found at i:45747 original size:12 final size:12
Alignment explanation
Indices: 45730--45760 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
45720 TTAGCATAAA
*
45730 CGGGTATTGGGC
1 CGGGTATCGGGC
45742 CGGGTATCGGGC
1 CGGGTATCGGGC
45754 CGGGTAT
1 CGGGTAT
45761 ATATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.19, G:0.48, T:0.23
Consensus pattern (12 bp):
CGGGTATCGGGC
Found at i:49447 original size:2 final size:2
Alignment explanation
Indices: 49442--49480 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
49432 CAAGCAACCA
49442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49481 GCCCTAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50938 original size:2 final size:2
Alignment explanation
Indices: 50931--50965 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
50921 TAATAGGATC
50931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50966 GATAACTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:56828 original size:7 final size:7
Alignment explanation
Indices: 56818--56842 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56808 ATTTAGGGAA
56818 AAAGAAG
1 AAAGAAG
56825 AAAGAAG
1 AAAGAAG
56832 AAAGAAG
1 AAAGAAG
56839 AAAG
1 AAAG
56843 GAAAGGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:57911 original size:202 final size:196
Alignment explanation
Indices: 57570--57946 Score: 601
Period size: 202 Copynumber: 1.9 Consensus size: 196
57560 GCGGTCATAT
* *
57570 TTTCGGTCACATCACGTTTATCGCGGTTGTGGACATTACGACCATCGCGGTCACTGCAGGTGTCG
1 TTTCGGTCACATCACGATTATCGCGGTTATGGACATTACGACCATCGCGGTCACTGCAGGTGTCG
**
57635 CGGGTGTTTTTTTTTTAAATTTCGCACAACGTATCCTAAAATATAATAATTATAATTATAATGAG
66 CGGGTGAATTTTTTTTAAATTTCGCACAACGTATCCTAAAATATAATAATTATAATTATAATGAG
*
57700 TTATTTTTAATGATTTTTAGAATATTTTCTAAGCAAAAATGACACATATATATATAGTTTAACCA
131 TAATTTTTAATGATTTTTAGAATATTTT-TAAGCAAAAATGACACATATATATATAGTTTAACCA
57765 AA
195 AA
* *
57767 TTTCGGTCACGTCACGATTATCGCGGTTATGGACATTACGGATGCCATCGCGGTCACTGTAGGTG
1 TTTCGGTCACATCACGATTATCGCGGTTATGGACATTAC-GA--CCATCGCGGTCACTGCAGGTG
* *
57832 TCGCGGTCGTGAATTTTTTTTAAATTTCGCACAACTTATCTTAAAATATAATAATTATAATTATA
63 TCGCGG--GTGAATTTTTTTTAAATTTCGCACAACGTATCCTAAAATATAATAATTATAATTATA
* *
57897 ATGAGTAATTTTTAATGATTTTTAGAATGTTTTTAAGCGAAAATGACACA
126 ATGAGTAATTTTTAATGATTTTTAGAATATTTTTAAGCAAAAATGACACA
57947 CACACACACA
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
197 36 0.22
198 2 0.01
200 26 0.16
201 16 0.10
202 84 0.51
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (196 bp):
TTTCGGTCACATCACGATTATCGCGGTTATGGACATTACGACCATCGCGGTCACTGCAGGTGTCG
CGGGTGAATTTTTTTTAAATTTCGCACAACGTATCCTAAAATATAATAATTATAATTATAATGAG
TAATTTTTAATGATTTTTAGAATATTTTTAAGCAAAAATGACACATATATATATAGTTTAACCAA
A
Found at i:58091 original size:13 final size:13
Alignment explanation
Indices: 58073--58112 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
58063 AATAAGATGT
58073 ATAATATAATTAA
1 ATAATATAATTAA
*
58086 ATAATATAAAGTAA
1 ATAATAT-AATTAA
*
58100 ATAATTTAATTAA
1 ATAATATAATTAA
58113 TGATTTACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:58251 original size:14 final size:14
Alignment explanation
Indices: 58232--58264 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
58222 AAAGTAAGGA
58232 TTAAATTATAAATT
1 TTAAATTATAAATT
58246 TTAAATTATAAATT
1 TTAAATTATAAATT
58260 TTAAA
1 TTAAA
58265 AGATAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATTATAAATT
Found at i:58650 original size:25 final size:25
Alignment explanation
Indices: 58620--58670 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
58610 TTCTTTCCCT
*
58620 AGTTGTTTTTTGGGGTGAGAATTCC
1 AGTTGTTTTTTGGGGTGAAAATTCC
58645 AGTTGTTTTTTGGGGTGAAAATTCC
1 AGTTGTTTTTTGGGGTGAAAATTCC
58670 A
1 A
58671 ACTCTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.43
Consensus pattern (25 bp):
AGTTGTTTTTTGGGGTGAAAATTCC
Found at i:58678 original size:25 final size:25
Alignment explanation
Indices: 58625--58678 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
58615 TCCCTAGTTG
* ** *
58625 TTTTTTGGGGTGAGAATTCCAGTTG
1 TTTTTTGGGGTGAAAATTCCAACTC
58650 TTTTTTGGGGTGAAAATTCCAACTC
1 TTTTTTGGGGTGAAAATTCCAACTC
58675 TTTT
1 TTTT
58679 AAGGTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.11, G:0.24, T:0.46
Consensus pattern (25 bp):
TTTTTTGGGGTGAAAATTCCAACTC
Found at i:60463 original size:78 final size:80
Alignment explanation
Indices: 60301--60452 Score: 184
Period size: 78 Copynumber: 1.9 Consensus size: 80
60291 TTTTTCAACC
* ***
60301 ATATTAATATTTTCGGTTGAAAAAAATAATATTTTAGGTAAAATTTTATCAAAAAATTGTTAAAT
1 ATATTAATATTTTCGGTT--AAAAAATAATATTTTAGATAAAATTTTATCAAAAAATTAAAAAAT
** *
60366 ATTTTAGGTATCACCTA
64 ATTTTACATATCACATA
*
60383 ATATTAATATTTTC-GTT-AAAAATAATATTTTAGATAATATTTTATCAAAAATATTAAAAAATA
1 ATATTAATATTTTCGGTTAAAAAATAATATTTTAGATAAAATTTTATCAAAAA-ATTAAAAAATA
60446 -TTTACAT
65 TTTTACAT
60453 TTCTAATAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 37 0.60
79 8 0.13
81 3 0.05
82 14 0.23
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (80 bp):
ATATTAATATTTTCGGTTAAAAAATAATATTTTAGATAAAATTTTATCAAAAAATTAAAAAATAT
TTTACATATCACATA
Found at i:61041 original size:10 final size:10
Alignment explanation
Indices: 61026--61083 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
61016 ATTTTTTTAA
61026 AAAAATAAAT
1 AAAAATAAAT
61036 AAAAATATAAT
1 AAAAATA-AAT
*
61047 AAAAATGAAT
1 AAAAATAAAT
* *
61057 TAAAATGAAT
1 AAAAATAAAT
* *
61067 AAAATTTAAT
1 AAAAATAAAT
61077 AAAAATA
1 AAAAATA
61084 TAATGTAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 31 0.77
11 9 0.22
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:65769 original size:18 final size:18
Alignment explanation
Indices: 65716--65785 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
65706 ATTAATCTAC
* * *
65716 GTCTGATAATTATAAAAC
1 GTCTGATAACTGTAAAAT
* *
65734 ATCTGATAACTGAAAAAT
1 GTCTGATAACTGTAAAAT
65752 GTCTGATAACTGTAAAAT
1 GTCTGATAACTGTAAAAT
*
65770 GTTTGATAACTGTAAA
1 GTCTGATAACTGTAAA
65786 CATTTAGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (18 bp):
GTCTGATAACTGTAAAAT
Found at i:70241 original size:20 final size:21
Alignment explanation
Indices: 70211--70249 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
70201 TTATAAAGCT
70211 TTCCTTTTTCTTTTTCTTTCC
1 TTCCTTTTTCTTTTTCTTTCC
70232 TTCC-TTTTCTTTTTCTTT
1 TTCCTTTTTCTTTTTCTTT
70250 AAAAGTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCCTTTTTCTTTTTCTTTCC
Found at i:71568 original size:17 final size:17
Alignment explanation
Indices: 71539--71571 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71529 CATATTATTT
71539 ATATAAAATATAATATA
1 ATATAAAATATAATATA
71556 ATATGAAAA-ATAATAT
1 ATAT-AAAATATAATAT
71572 TGTGATCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:72234 original size:3 final size:3
Alignment explanation
Indices: 72222--72256 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
72212 TTATATTTAA
72222 ATT A-T ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
72257 ATGTTACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:72239 original size:14 final size:14
Alignment explanation
Indices: 72222--72254 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
72212 TTATATTTAA
72222 ATTATATTATTATT
1 ATTATATTATTATT
72236 ATTATATTATTATT
1 ATTATATTATTATT
72250 ATTAT
1 ATTAT
72255 TAATGTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:73032 original size:146 final size:146
Alignment explanation
Indices: 72606--72997 Score: 597
Period size: 146 Copynumber: 2.7 Consensus size: 146
72596 CCAGATTCTC
* * *
72606 GCCGGAGATCGGGATCTCCGATCAACATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
1 GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
* * *
72671 AACATATTGAAATATCAGGACGATCAGACGGTGGACGGTGACGGATCGGAGGAAATAAATCCGGG
66 AACATATTGAAAAATCAGGACGATCAGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
72736 CGGTTTTTAGCCTCTT
131 CGGTTTTTAGCCTCTT
* * ** *
72752 GCCGGTGATCGGATTATTTGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCATGAAC
1 GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
*
72817 AACATATTGAAAAATCAGGACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
66 AACATATTGAAAAATCAGGACGATCAGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
72882 CGGTTTTTAGCCTCTT
131 CGGTTTTTAGCCTCTT
* * * * *
72898 GCCGGTGATCGGAATCTGCGATCAATATTCCGAACGGTGAAAAGTTGCGCG-ATGCCAACACAAA
1 GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCG-GAAGGCCATCACGAA
* *
72962 CAACCTATTGAAAAATCAGGACAATCAGACGGTGGA
65 CAACATATTGAAAAATCAGGACGATCAGACGGTGGA
72998 TGACGGCAGA
Statistics
Matches: 221, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
146 220 1.00
147 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (146 bp):
GCCGGTGATCGGAATCTCCGATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAAC
AACATATTGAAAAATCAGGACGATCAGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGA
CGGTTTTTAGCCTCTT
Found at i:75408 original size:46 final size:47
Alignment explanation
Indices: 75301--75417 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
75291 TAAATGTATA
75301 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* *
75348 CGAACTAGAAATCATGCGGTTAGGTTTATTTTCTCGAAC-AAGCATG
1 CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
* **
75394 CGAATTAGTTATCATGCGGTTAGG
1 CGAACTAGAAATCATGCGGTTAGG
75418 ACTTTTTGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 28 0.43
47 37 0.57
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (47 bp):
CGAACTAGAAATCATGCGGTTAGGTTTATTTTATCAAACAAAGCATG
Found at i:76177 original size:6 final size:6
Alignment explanation
Indices: 76166--76208 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
76156 ATTAACACCT
76166 TTTGCA TTTGCA TTTGGCA TTTGCA TTTGCA TTTGCA -TTGCA T
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA T
76209 GTATTTGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.14
6 24 0.69
7 6 0.17
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (6 bp):
TTTGCA
Found at i:76190 original size:19 final size:18
Alignment explanation
Indices: 76166--76208 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
76156 ATTAACACCT
76166 TTTGCATTTGCATTTGGCA
1 TTTGCATTTGCATTT-GCA
76185 TTTGCATTTGCATTTGCA
1 TTTGCATTTGCATTTGCA
76203 -TTGCAT
1 TTTGCAT
76209 GTATTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 15 0.62
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (18 bp):
TTTGCATTTGCATTTGCA
Found at i:79091 original size:125 final size:125
Alignment explanation
Indices: 78869--79376 Score: 799
Period size: 125 Copynumber: 4.1 Consensus size: 125
78859 AAGTTGTGAT
*
78869 ATGTTGGGGCATGATTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
*
78934 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCATACCAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
78994 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
* *
79059 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTGTAAGATG
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* *
79119 AGGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
* *
79184 GAATGAGCCTTATAATTTGAGGTGATGGGGTATTTTGAAGGCCCGTACCAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
* * * *
79244 ATGTTGGGGCATGACTGAACCCACATCATGTCGAGATGACAAGA---AGACCAAGAAGGAATTG-
1 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCA-TGA
* * *** * *
79305 AGAATGAGCCTTACAAGTTGAGGTGTTGGAATATTTTGAAGGCCCGTATCAATATAAGATA
65 AGAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
*
79366 ATGTTGTGGCA
1 ATGTTGGGGCA
79377 CAAGTGACGA
Statistics
Matches: 359, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
122 76 0.21
123 2 0.01
125 281 0.78
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (125 bp):
ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATGAAAAGACTCAGACCAAGGAGGCATGAA
GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGATA
Found at i:80592 original size:36 final size:36
Alignment explanation
Indices: 80551--80620 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
80541 GCAAAGTCAA
* * * * *
80551 TCTTAAGCCTTCACTAAAGAGTAGTGAAGCAAACTG
1 TCTTAAGCATGCACCAAAGAATAATGAAGCAAACTG
80587 TCTTAAGCATGCACCAAAGAATAATGAAGCAAAC
1 TCTTAAGCATGCACCAAAGAATAATGAAGCAAAC
80621 CATCTTGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (36 bp):
TCTTAAGCATGCACCAAAGAATAATGAAGCAAACTG
Found at i:81180 original size:54 final size:54
Alignment explanation
Indices: 81040--81250 Score: 246
Period size: 54 Copynumber: 3.9 Consensus size: 54
81030 AGTGAAGCAA
* * ** * * *
81040 AAGAAGATTTTCGAGTTCCATACTCCCTAGAGAAAAAAGGAGCGAACCCGTTTG
1 AAGAAGATGTACGAGTTTTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG
* * * *
81094 AAG-A-TTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTACGAGTTTTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG
* * *
81146 AAGAAGAGGTACGAGTTTTATACTCCTTAAAGAAAGAGGGAGCGAACCAGTTTG
1 AAGAAGATGTACGAGTTTTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG
* * *
81200 AAGAAGATGTCCGAGTTCTATACTGCCTGAAAGAAAGAGGGAGCGAACCCG
1 AAGAAGATGTACGAGTTTTATACTCCCT-AAAGAAAGAGGGAGCGAACCCG
81251 ATTGTTGAAG
Statistics
Matches: 134, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
52 44 0.33
53 2 0.01
54 67 0.50
55 21 0.16
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (54 bp):
AAGAAGATGTACGAGTTTTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG
Found at i:87307 original size:23 final size:21
Alignment explanation
Indices: 87255--87312 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
87245 TTATAAAAAA
*
87255 TAATGTAATTAATATTTTATTT
1 TAAT-TAATTTATATTTTATTT
*
87277 TAAATAATTTATATTTATATTTT
1 TAATTAATTTATATTT-TA-TTT
87300 TAATTAATTTATA
1 TAATTAATTTATA
87313 ATTACACGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.35
22 5 0.16
23 15 0.48
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TAATTAATTTATATTTTATTT
Found at i:89078 original size:50 final size:51
Alignment explanation
Indices: 88923--89165 Score: 341
Period size: 51 Copynumber: 4.8 Consensus size: 51
88913 TTCATAATAC
***
88923 AAAAAA-TGTAGCACTTAACACATACTTACATATGTGTAAGTGAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* *
88973 AAATAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAC
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
*
89024 AAAAAAGTGTAGCACTTAACACATTC-TACACCGGTGTAAGTGAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* * * * *
89074 AAAAAAGTATAGCACTTAACACATATTTACAACGGTGCAAGTAAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
*
89125 -AAAAAGTGTAGCAGC-TAACACATACTTACACCGATGTAAGT
1 AAAAAAGTGTAGCA-CTTAACACATACTTACACCGGTGTAAGT
89166 TACATCTCCC
Statistics
Matches: 171, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 85 0.50
51 86 0.50
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (51 bp):
AAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
Found at i:89096 original size:101 final size:102
Alignment explanation
Indices: 88916--89165 Score: 346
Period size: 101 Copynumber: 2.5 Consensus size: 102
88906 TTCATAATTC
* *** *
88916 ATAATACAAAAAA-TGTAGCACTTAACACATACTTACATATGTGTAAGTGAATAAAATAAATAAG
1 ATAAAACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAAG
* * * *
88980 TGTAGCACTTAACACATACTTACACCGGTGTAAGTGA
66 TATAGCACTTAACACATACTTACAACGGTGCAAGTAA
*
89017 ATAAAACAAAAAAGTGTAGCACTTAACACATTC-TACACCGGTGTAAGTGAATAAAATAAAAAAG
1 ATAAAACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAAG
*
89081 TATAGCACTTAACACATATTTACAACGGTGCAAGTAA
66 TATAGCACTTAACACATACTTACAACGGTGCAAGTAA
* *
89118 ATAAAA-TAAAAAGTGTAGCAGC-TAACACATACTTACACCGATGTAAGT
1 ATAAAACAAAAAAGTGTAGCA-CTTAACACATACTTACACCGGTGTAAGT
89166 TACATCTCCC
Statistics
Matches: 132, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
100 22 0.17
101 92 0.70
102 18 0.14
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (102 bp):
ATAAAACAAAAAAGTGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAATAAAAAAG
TATAGCACTTAACACATACTTACAACGGTGCAAGTAA
Found at i:92274 original size:42 final size:42
Alignment explanation
Indices: 92210--92290 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
92200 GGATTAAGAT
* *
92210 ACTAGATCCCTTCAACAAGGTCAGTAGTTCGAATCTCGAGAC
1 ACTAAATCCCTTCAACAAGGTCAGTAATTCGAATCTCGAGAC
*
92252 ACTAAATCCCTTCAATAAGGTCAGTAATTCGAATCTCGA
1 ACTAAATCCCTTCAACAAGGTCAGTAATTCGAATCTCGA
92291 CTTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ACTAAATCCCTTCAACAAGGTCAGTAATTCGAATCTCGAGAC
Done.