Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002304.1 Hibiscus syriacus cultivar Beakdansim tig00004693_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: 95087
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4197 original size:3 final size:3
Alignment explanation
Indices: 4189--4228 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4179 ATTTAACACG
4189 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4229 CCGTACTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8599 original size:25 final size:24
Alignment explanation
Indices: 8571--8640 Score: 104
Period size: 24 Copynumber: 2.8 Consensus size: 24
8561 TTAAATTCAT
*
8571 ATATATTTATATATTAACTTTTAAA
1 ATATATTT-TATATTAACTTATAAA
*
8596 ATATTTTTTATATTAACTTATAAA
1 ATATATTTTATATTAACTTATAAA
8620 ATATATTTTATTATTAACTTA
1 ATATATTTTA-TATTAACTTA
8641 ATTTAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 24 0.59
25 17 0.41
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATATTTTATATTAACTTATAAA
Found at i:11511 original size:48 final size:49
Alignment explanation
Indices: 11428--11535 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 49
11418 TATCAAAAGA
* * * *
11428 TTCATCTTCATCATCGTCGAGATTGTTGTCGTTAACGACGGCATCTGACCG
1 TTCATCTTCATCATCGTCGAG--TGTCGTCGTTAACAACGCCATCCGACCG
* *
11479 TTCATCTTCATCATCGTCGAG-GTCGTCGTTAACAACTCCATCCGGCCG
1 TTCATCTTCATCATCGTCGAGTGTCGTCGTTAACAACGCCATCCGACCG
11527 TTCATCTTC
1 TTCATCTTC
11536 GTCGTCACTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
48 30 0.59
51 21 0.41
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.33
Consensus pattern (49 bp):
TTCATCTTCATCATCGTCGAGTGTCGTCGTTAACAACGCCATCCGACCG
Found at i:26920 original size:23 final size:22
Alignment explanation
Indices: 26876--26920 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
26866 TCAGGAGTTA
26876 CAGGAGTTATCTGATTTAATTT
1 CAGGAGTTATCTGATTTAATTT
26898 CAGGAGTTATAACTG-TTTAATTT
1 CAGGAGTTAT--CTGATTTAATTT
26921 TTATGCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 8 0.38
24 3 0.14
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (22 bp):
CAGGAGTTATCTGATTTAATTT
Found at i:29124 original size:154 final size:154
Alignment explanation
Indices: 28844--29152 Score: 618
Period size: 154 Copynumber: 2.0 Consensus size: 154
28834 CTGAGATTAT
28844 AGCTCGAATCATGCTTACATATGTATATAATATAAATGGGATGGAAAGAATGGGCTCAAAACCCT
1 AGCTCGAATCATGCTTACATATGTATATAATATAAATGGGATGGAAAGAATGGGCTCAAAACCCT
28909 AGCAACTGTTACTGTCTCTCATTTAGAATTGTACTTTTATTCTTTTTTCAATGGGGTGAGACACA
66 AGCAACTGTTACTGTCTCTCATTTAGAATTGTACTTTTATTCTTTTTTCAATGGGGTGAGACACA
28974 AGGAGGGTATCTCTAGCTTTGTCG
131 AGGAGGGTATCTCTAGCTTTGTCG
28998 AGCTCGAATCATGCTTACATATGTATATAATATAAATGGGATGGAAAGAATGGGCTCAAAACCCT
1 AGCTCGAATCATGCTTACATATGTATATAATATAAATGGGATGGAAAGAATGGGCTCAAAACCCT
29063 AGCAACTGTTACTGTCTCTCATTTAGAATTGTACTTTTATTCTTTTTTCAATGGGGTGAGACACA
66 AGCAACTGTTACTGTCTCTCATTTAGAATTGTACTTTTATTCTTTTTTCAATGGGGTGAGACACA
29128 AGGAGGGTATCTCTAGCTTTGTCG
131 AGGAGGGTATCTCTAGCTTTGTCG
29152 A
1 A
29153 TGGGAGTGAT
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 155 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (154 bp):
AGCTCGAATCATGCTTACATATGTATATAATATAAATGGGATGGAAAGAATGGGCTCAAAACCCT
AGCAACTGTTACTGTCTCTCATTTAGAATTGTACTTTTATTCTTTTTTCAATGGGGTGAGACACA
AGGAGGGTATCTCTAGCTTTGTCG
Found at i:33549 original size:13 final size:13
Alignment explanation
Indices: 33531--33556 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33521 AATGAGTTAG
33531 GAGTGCATAATTC
1 GAGTGCATAATTC
33544 GAGTGCATAATTC
1 GAGTGCATAATTC
33557 ATAAATGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GAGTGCATAATTC
Found at i:45917 original size:2 final size:2
Alignment explanation
Indices: 45910--45942 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45900 TTAGGAATGC
45910 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 A
45943 ATAATAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45948 original size:3 final size:3
Alignment explanation
Indices: 45940--45966 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45930 ATATATATAT
45940 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
45967 GACATAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46265 original size:2 final size:2
Alignment explanation
Indices: 46258--46297 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
46248 TCAAAAGCCA
46258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46298 GTTTAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47998 original size:15 final size:15
Alignment explanation
Indices: 47978--48020 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
47968 AATATCGTTT
47978 AAAACAATTTTAAGA
1 AAAACAATTTTAAGA
47993 AAAACAATTTTAAGA
1 AAAACAATTTTAAGA
48008 AAAACAATTTTAA
1 AAAACAATTTTAA
48021 AGTCAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAACAATTTTAAGA
Found at i:48213 original size:18 final size:19
Alignment explanation
Indices: 48176--48214 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
48166 TAGAATCAAA
*
48176 ATTAAAATATGATCATTTT
1 ATTAAAATATGATCAATTT
*
48195 ATTAAAAT-TGATTAATTT
1 ATTAAAATATGATCAATTT
48213 AT
1 AT
48215 CTCAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTAAAATATGATCAATTT
Found at i:48601 original size:20 final size:20
Alignment explanation
Indices: 48576--48710 Score: 130
Period size: 20 Copynumber: 6.7 Consensus size: 20
48566 ATTGGAAAAA
48576 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
48596 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
48616 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* * *
48637 ATCGTAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
48657 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
48677 TTCGCAATGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
48697 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
48711 TTTCAAAGCG
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 65 0.68
21 24 0.25
22 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:48662 original size:61 final size:61
Alignment explanation
Indices: 48586--48701 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 61
48576 ATCGCAATGC
*
48586 GATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATAATACAAAATCGTAACGA
1 GATACTGACTATCGCAACGCGATACTGACTATCGCAATGCGATAATACAAAATCGTAACGA
* * * *
48647 GATACTGACTTTCGCAACGCGATTCTGACTTTCGCAATGCGATAATACATAATCG
1 GATACTGACTATCGCAACGCGATACTGACTATCGCAATGCGATAATACAAAATCG
48702 CAATGCGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (61 bp):
GATACTGACTATCGCAACGCGATACTGACTATCGCAATGCGATAATACAAAATCGTAACGA
Found at i:48908 original size:22 final size:22
Alignment explanation
Indices: 48880--48923 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
48870 CACTCTCTCA
48880 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
48902 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
48924 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:49413 original size:25 final size:24
Alignment explanation
Indices: 49359--49413 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
49349 TGTTTATTAT
* *
49359 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
49383 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
49409 TGTTT
1 TGTTT
49414 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:50568 original size:18 final size:18
Alignment explanation
Indices: 50542--50586 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
50532 TCCACTTCGG
50542 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
50560 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
50578 GAGCCATCA
1 GAGCCATCA
50587 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.44, G:0.13, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:51116 original size:19 final size:20
Alignment explanation
Indices: 51062--51128 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
51052 TAGTTTACTT
* *
51062 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
51082 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
51102 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
51121 TCGCAACG
1 TCGCAACG
51129 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:51136 original size:14 final size:14
Alignment explanation
Indices: 51117--51174 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
51107 ATGCGAAATG
51117 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
51131 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
51147 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
51163 AAAATCGCAACG
1 AAAATCGCAACG
51175 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:51159 original size:32 final size:33
Alignment explanation
Indices: 51101--51191 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
51091 GGAAATGGCT
51101 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
51134 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
51166 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
51192 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:51208 original size:19 final size:18
Alignment explanation
Indices: 51203--51342 Score: 98
Period size: 20 Copynumber: 7.9 Consensus size: 18
51193 GCGATTTGTG
*
51203 TTTCGCGTTGCGATTTCA
1 TTTCGCATTGCGATTTCA
51221 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
*
51237 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGA-TTTCA
51254 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
*
51270 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGA-TTTCA
**
51287 TTTCGCATTGCGATAGCCA
1 TTTCGCATTGCGAT-TTCA
* *
51306 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCATTGCGAT-TTCA
*
51326 TTTTCGCGTTGCGATTT
1 -TTTCGCATTGCGATTT
51343 TAAGTTTCGT
Statistics
Matches: 99, Mismatches: 10, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
14 12 0.12
15 6 0.06
16 8 0.08
17 8 0.08
18 19 0.19
19 18 0.18
20 25 0.25
21 3 0.03
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (18 bp):
TTTCGCATTGCGATTTCA
Found at i:51247 original size:14 final size:14
Alignment explanation
Indices: 51228--51284 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
51218 TCATTTCGCA
51228 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
51242 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
51259 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
51275 TTGCGATTTT
1 TTGCGATTTT
51285 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:51258 original size:33 final size:33
Alignment explanation
Indices: 51208--51300 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
51198 TTGTGTTTCG
51208 CGTTGCGA-TTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
51240 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
51273 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
51301 AGCCATTTCC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 8 0.13
33 52 0.87
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:53229 original size:14 final size:14
Alignment explanation
Indices: 53210--53245 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
53200 ATTGTTTAAT
53210 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
53224 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
53238 TGATTTGT
1 TGATTTGT
53246 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:53392 original size:14 final size:16
Alignment explanation
Indices: 53373--53446 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 16
53363 AAACTGACAG
53373 TCGCAATG-A-GAAAA
1 TCGCAATGAATGAAAA
53387 TCGCAATGCGAAATGAAAA
1 TCGCAAT--G-AATGAAAA
53406 TCGCAATGCGAAATGAAAA
1 TCGCAAT--G-AATGAAAA
*
53425 TCGCAACG-A-GAAAA
1 TCGCAATGAATGAAAA
53439 TCGCAATG
1 TCGCAATG
53447 CGATTTTCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
14 19 0.36
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 30 0.57
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (16 bp):
TCGCAATGAATGAAAA
Found at i:53406 original size:19 final size:19
Alignment explanation
Indices: 53382--53449 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
53372 GTCGCAATGA
53382 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
53401 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
53420 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
53434 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
53450 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:53493 original size:20 final size:20
Alignment explanation
Indices: 53470--53564 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
53460 GCATTGCGAT
* *
53470 TTTTCTAGTTGCGATAGTCA
1 TTTTCGAGTTGCGATAGCCA
* ***
53490 TTTTCGCGTTGCGATTTTTCA
1 TTTTCGAGTTGCGA-TAGCCA
*
53511 -TTTCGAATTGCGATAGCCA
1 TTTTCGAGTTGCGATAGCCA
53530 TTTTC-ACGTTGCGATAGCCA
1 TTTTCGA-GTTGCGATAGCCA
*
53550 TTTTCGCGTTGCGAT
1 TTTTCGAGTTGCGAT
53565 TTCCCCGTTG
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.07
20 52 0.87
21 4 0.07
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTTCGAGTTGCGATAGCCA
Found at i:53562 original size:40 final size:40
Alignment explanation
Indices: 53471--53564 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
53461 CATTGCGATT
* * * ***
53471 TTTCTAGTTGCGATAGTCATTTTCGCGTTGCGATTTTTCA
1 TTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCCA
*
53511 TTTCGAATTGCGATAGCCATTTTCACGTTGCGA-TAGCCA
1 TTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCCA
*
53550 TTTTCGCGTTGCGAT
1 -TTTCGAGTTGCGAT
53565 TTCCCCGTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.07
40 41 0.93
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (40 bp):
TTTCGAGTTGCGATAGCCATTTTCACGTTGCGATTAGCCA
Found at i:53803 original size:20 final size:20
Alignment explanation
Indices: 53778--53869 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
53768 TTGAAGATGA
53778 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
**
53798 TTGCGAAAGTT-AGAATCTCG
1 TTGCG-ATTTTCAGAATCTCG
* **
53818 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
53839 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
53859 TTGCGATTTTC
1 TTGCGATTTTC
53870 CAAATTCACA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.05
20 34 0.62
21 18 0.33
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:53901 original size:20 final size:21
Alignment explanation
Indices: 53854--53905 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
53844 ATAGTCAGTA
*
53854 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
53875 TCACATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
53895 TCGCATTGCGA
1 TCGCATTGCGA
53906 CTTAGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:54121 original size:12 final size:12
Alignment explanation
Indices: 54102--54135 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
54092 CTCTCCGGCG
54102 ACATCCGTTCCT
1 ACATCCGTTCCT
*
54114 ATATCCGTTCCT
1 ACATCCGTTCCT
54126 ACATCC-TTCC
1 ACATCCGTTCC
54136 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:54717 original size:24 final size:24
Alignment explanation
Indices: 54690--54743 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
54680 GTATTCGAAA
* *
54690 TTTGATCTTGGTCAATGCTCGGAC
1 TTTGATATTGGTCAATACTCGGAC
*
54714 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCGGAC
54738 TTTGAT
1 TTTGAT
54744 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:54935 original size:12 final size:12
Alignment explanation
Indices: 54918--54942 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54908 ATATAATCCT
54918 GAAGAAGAAAAA
1 GAAGAAGAAAAA
54930 GAAGAAGAAAAA
1 GAAGAAGAAAAA
54942 G
1 G
54943 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:57256 original size:19 final size:19
Alignment explanation
Indices: 57234--57364 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
57224 GGAAATTACT
57234 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
57253 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
57267 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
57286 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
* *
57300 TTTGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
57319 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
57333 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
57352 ATCGCAACGCGAA
1 ATCGCAATGCGAA
57365 TTTAATTTCG
Statistics
Matches: 80, Mismatches: 17, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
14 26 0.32
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 38 0.47
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:57276 original size:33 final size:33
Alignment explanation
Indices: 57234--57360 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
57224 GGAAATTACT
57234 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
57267 ATCGCAATGCAAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
57299 TTTTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
57333 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
57361 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:57348 original size:66 final size:66
Alignment explanation
Indices: 57237--57367 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
57227 AATTACTATC
*
57237 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAATTT
57302 T
66 T
* *
57303 GCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAATTT
57368 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAATTT
T
Found at i:58959 original size:42 final size:40
Alignment explanation
Indices: 58900--59050 Score: 133
Period size: 42 Copynumber: 3.6 Consensus size: 40
58890 GTGAATCGGG
* *
58900 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAATGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGA-AATGGC
* **
58942 CTCTTGAACGGTGGGAGGAGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGG-GACTCTTCAAGG-ATGA-AATGGC
* * * * *
58984 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGAAAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGAAA-TGGC
59026 CTCTTGAACGGTGGGAGGGGACTCT
1 CTCTTGAACGGTGGGA-GGGACTCT
59051 CGAGGAATGA
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 5 0.06
42 74 0.86
43 7 0.08
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (40 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGAAATGGC
Found at i:59041 original size:84 final size:84
Alignment explanation
Indices: 58930--59104 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
58920 CCTCTTCAAC
58930 GATGACAATGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAATGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
58995 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
*
59014 GATGA-AAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACG
1 GATGACAA-TGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACG
59078 ATAGGAGTGGACTCTTGAGG
65 ATAGGAGTGGACTCTTGAGG
59098 GATGACA
1 GATGACA
59105 GGCGAGTCGG
Statistics
Matches: 88, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
83 2 0.02
84 85 0.97
85 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.21
Consensus pattern (84 bp):
GATGACAATGGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:59069 original size:42 final size:42
Alignment explanation
Indices: 58939--59102 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
58929 CGATGACAAT
* * * *
58939 GGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * * *
58981 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGAAAGT
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
59023 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
59065 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
59103 CAGGCGAGTC
Statistics
Matches: 99, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 99 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:59434 original size:93 final size:91
Alignment explanation
Indices: 59324--59508 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 91
59314 ATTTCAAACT
*
59324 TTCAACCAAAAGAC-AAA-AAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTA
*
59387 GCAGAATTAGCAGCAACCGAATAAATTTAC
62 GCAGAATTAGCAGCAACCAAATAAATTTAC
59417 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
* *
59482 TATTGGCAGCAACCAAATAAATTTAC
66 AATTAGCAGCAACCAAATAAATTTAC
59508 T
1 T
59509 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 40 0.47
93 14 0.16
94 3 0.03
95 29 0.34
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
AATTAGCAGCAACCAAATAAATTTAC
Found at i:61237 original size:20 final size:19
Alignment explanation
Indices: 61200--61264 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
61190 TTGAATCTAA
* *
61200 AATCGCAACGAGATAATGAG
1 AATCGCAACGCGA-AATGAC
61220 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATGAC
* *
61240 TATCGCAACACGAAATGAC
1 AATCGCAACGCGAAATGAC
*
61259 TATCGC
1 AATCGC
61265 GACGAGAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 14 0.35
20 24 0.60
21 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAC
Found at i:61256 original size:19 final size:20
Alignment explanation
Indices: 61221--61264 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
61211 GATAATGAGA
*
61221 ATCGCAACGCGGAAATGACT
1 ATCGCAACACGGAAATGACT
61241 ATCGCAACAC-GAAATGACT
1 ATCGCAACACGGAAATGACT
61260 ATCGC
1 ATCGC
61265 GACGAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGGAAATGACT
Found at i:61925 original size:40 final size:40
Alignment explanation
Indices: 61881--61956 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
61871 GAAAGTCAGA
* * *
61881 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
*
61921 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
61957 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (40 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:61943 original size:20 final size:20
Alignment explanation
Indices: 61861--61953 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
61851 CGCTATGTAA
* *
61861 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGATAGTCAGT
*
61881 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
61901 ATCTCGTTGCGATTTTGT-A-T
1 ATCGCGTTGCGA--TAGTCAGT
*
61921 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
61941 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
61954 TTTCCCAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
18 3 0.05
19 1 0.02
20 55 0.89
21 1 0.02
22 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:62064 original size:21 final size:21
Alignment explanation
Indices: 62024--62064 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
62014 ACTGTAGACC
**
62024 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
62045 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
62065 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:65349 original size:16 final size:16
Alignment explanation
Indices: 65328--65372 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
65318 ATGACATGAT
65328 TTGATATTTACCAGAC
1 TTGATATTTACCAGAC
*
65344 TTGATATTTACCTGAC
1 TTGATATTTACCAGAC
65360 TT-ATATATTACCA
1 TTGATAT-TTACCA
65373 TGGACGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (16 bp):
TTGATATTTACCAGAC
Found at i:66396 original size:21 final size:21
Alignment explanation
Indices: 66346--66396 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
66336 TCTATTTACA
* **
66346 TTAGGGTTTATGGTTTAGGGT
1 TTAGGGTTTATGATTTAAAGT
**
66367 TTAATGTTTATGATTTAAAGT
1 TTAGGGTTTATGATTTAAAGT
66388 TTAGGGTTT
1 TTAGGGTTT
66397 TTTATAAACT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (21 bp):
TTAGGGTTTATGATTTAAAGT
Found at i:66486 original size:2 final size:2
Alignment explanation
Indices: 66481--66550 Score: 113
Period size: 2 Copynumber: 34.0 Consensus size: 2
66471 TTATATAGTT
66481 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
*
66523 TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA
66551 CATGGTTTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 61 0.95
3 3 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:66712 original size:2 final size:2
Alignment explanation
Indices: 66705--66822 Score: 145
Period size: 2 Copynumber: 59.5 Consensus size: 2
66695 TTCTATAAAC
66705 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
* *
66747 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TC TA TA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
66788 CT- TA TA T- TA GT- TA TA CA TA CA TA TA TA TA CTA TA T
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA T
66823 TAATATAAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
1 4 0.04
2 93 0.92
3 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:66892 original size:4 final size:4
Alignment explanation
Indices: 66883--66935 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
66873 TATAGTTTAG
* * * * * *
66883 ATAC ATAC ATAC ATGC ATAC ATAC ATAT ATAC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
66931 ATAC A
1 ATAC A
66936 CACACATGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:66903 original size:12 final size:12
Alignment explanation
Indices: 66886--66957 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 12
66876 AGTTTAGATA
66886 CATACATACATG
1 CATACATACATG
66898 CATACATACAT-
1 CATACATACATG
66909 -AT--ATACATG
1 CATACATACATG
* *
66918 CATGCATGCATG
1 CATACATACATG
*
66930 CATACACACA--
1 CATACATACATG
* *
66940 CATGCATGCATG
1 CATACATACATG
66952 CATACA
1 CATACA
66958 CACACACACA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
8 6 0.13
10 11 0.24
12 29 0.63
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (12 bp):
CATACATACATG
Found at i:66946 original size:22 final size:22
Alignment explanation
Indices: 66918--66963 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
66908 TATATACATG
66918 CATGCATGCATGCATACACACA
1 CATGCATGCATGCATACACACA
66940 CATGCATGCATGCATACACACA
1 CATGCATGCATGCATACACACA
66962 CA
1 CA
66964 CACACATGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (22 bp):
CATGCATGCATGCATACACACA
Found at i:66949 original size:26 final size:26
Alignment explanation
Indices: 66913--66967 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
66903 ATACATATAT
* *
66913 ACATGCATGCATGCATGCATACACAC
1 ACATGCATGCATGCATACACACACAC
66939 ACATGCATGCATGCATACACACACAC
1 ACATGCATGCATGCATACACACACAC
66965 ACA
1 ACA
66968 CATGCGCGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.33, G:0.13, T:0.16
Consensus pattern (26 bp):
ACATGCATGCATGCATACACACACAC
Found at i:67020 original size:4 final size:4
Alignment explanation
Indices: 66990--67076 Score: 147
Period size: 4 Copynumber: 21.8 Consensus size: 4
66980 CGCTCACACA
* * *
66990 CACG CACA CACG CACA CACG TACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
67038 CACG CACG CACG CACG CACG CACG CACG CACG CACG CAC
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CAC
67077 ACGCGCGCGT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.28, C:0.49, G:0.22, T:0.01
Consensus pattern (4 bp):
CACG
Found at i:67353 original size:26 final size:27
Alignment explanation
Indices: 67324--67381 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
67314 CCCTCTAAAT
* * *
67324 TTTCCATTTTTTCTCTAAA-TTCCTAA
1 TTTCCATATATTCTCAAAATTTCCTAA
*
67350 TTTCCCTATATTCTCAAAATTTCCTAA
1 TTTCCATATATTCTCAAAATTTCCTAA
67377 TTTCC
1 TTTCC
67382 CTCTACTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTCCATATATTCTCAAAATTTCCTAA
Found at i:68579 original size:26 final size:25
Alignment explanation
Indices: 68548--68597 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
68538 AAGCATCAAA
* * *
68548 TTTACCTGACTTGACATGTATCCGAT
1 TTTACCCGACCTGACA-GGATCCGAT
68574 TTTACCCGACCTGACAGGATCCGA
1 TTTACCCGACCTGACAGGATCCGA
68598 CTGAAACCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (25 bp):
TTTACCCGACCTGACAGGATCCGAT
Found at i:72145 original size:21 final size:21
Alignment explanation
Indices: 72121--72187 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
72111 GATTCGCAAC
72121 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
* * *
72142 GCGATTCATTCCAA-AT--CGTT
1 GCGA-T-AGTCGAAGTTCGCGTT
*
72162 GCGATAGGCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
72183 GCGAT
1 GCGAT
72188 TCATTCCGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 8 0.24
21 13 0.38
22 2 0.06
23 5 0.15
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (21 bp):
GCGATAGTCGAAGTTCGCGTT
Found at i:72166 original size:41 final size:41
Alignment explanation
Indices: 72121--72243 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
72111 GATTCGCAAC
72121 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
72162 GCGATAGGCGAAGTTCGCGTTGCGATTCATT-C----CG--
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
72196 AC-A-AG-CGAAGTTCGCATTGCGATTCATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
72235 GCGATAGTC
1 GCGATAGTC
72244 CAAATATTGC
Statistics
Matches: 67, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
31 22 0.33
32 3 0.04
33 1 0.01
34 1 0.01
36 2 0.03
37 2 0.03
39 1 0.01
40 2 0.03
41 32 0.48
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (41 bp):
GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
Found at i:73028 original size:6 final size:6
Alignment explanation
Indices: 73017--73043 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
73007 TCTCGTCTCG
73017 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
73044 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:73215 original size:41 final size:41
Alignment explanation
Indices: 73116--73399 Score: 433
Period size: 41 Copynumber: 6.9 Consensus size: 41
73106 AATGCAATAT
*
73116 TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAATGAA
1 TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
73157 TTTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
1 -TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
73199 TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
1 TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
* * *
73240 TTGGAATGAATCGCAACGCGAACTTCACCTATCGCAATGAT
1 TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
* * *
73281 TTGGAATGAATCGCAACACGAACTTCGACTATCGCAACGAT
1 TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
*
73322 TTGGAATGAATCGCAACGCGAACTTCGCCTATTGCAACGAA
1 TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
* * * **
73363 TTTAGAATAAATCGCAATGCGAACTTCAACTATCGCA
1 -TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCA
73400 TTGCGAATCT
Statistics
Matches: 223, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 153 0.69
42 70 0.31
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
TTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGAA
Found at i:73336 original size:123 final size:125
Alignment explanation
Indices: 73114--73399 Score: 477
Period size: 123 Copynumber: 2.3 Consensus size: 125
73104 CAAATGCAAT
* *
73114 ATTTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAATGAATTTGGAATGAATCGCAACGCGA
1 ATTTGGAATGAATCGCAACGCGAACTTCACCTATCGCAATGAATTTGGAATGAATCGCAACACGA
*
73179 ACTTCGCCTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGA
66 ACTTCGACTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGA
73239 A-TTGGAATGAATCGCAACGCGAACTTCACCTATCGCAATG-ATTTGGAATGAATCGCAACACGA
1 ATTTGGAATGAATCGCAACGCGAACTTCACCTATCGCAATGAATTTGGAATGAATCGCAACACGA
* *
73302 ACTTCGACTATCGCAACGATTTGGAATGAATCGCAACGCGAACTTCGCCTATTGCAACGA
66 ACTTCGACTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGA
* * * *
73362 ATTTAGAATAAATCGCAATGCGAACTTCAACTATCGCA
1 ATTTGGAATGAATCGCAACGCGAACTTCACCTATCGCA
73400 TTGCGAATCT
Statistics
Matches: 151, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
123 80 0.53
124 70 0.46
125 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (125 bp):
ATTTGGAATGAATCGCAACGCGAACTTCACCTATCGCAATGAATTTGGAATGAATCGCAACACGA
ACTTCGACTATCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTATCGCAACGA
Found at i:76860 original size:3 final size:3
Alignment explanation
Indices: 76847--76947 Score: 193
Period size: 3 Copynumber: 33.3 Consensus size: 3
76837 ATATTTTTAA
76847 AGG AGGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG A-GG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
76893 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
76941 AGG AGG A
1 AGG AGG A
76948 TTAACGGGCG
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 94 0.97
4 3 0.03
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:78133 original size:21 final size:20
Alignment explanation
Indices: 78085--78133 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
78075 AATAATAAAA
*
78085 TACGATATTGATATGATGAT
1 TACGATATTGATATGACGAT
* *
78105 TCATGATATTTATATGACGAT
1 T-ACGATATTGATATGACGAT
78126 CTACGATA
1 -TACGATA
78134 CTAACATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (20 bp):
TACGATATTGATATGACGAT
Found at i:82939 original size:31 final size:31
Alignment explanation
Indices: 82914--83022 Score: 209
Period size: 31 Copynumber: 3.5 Consensus size: 31
82904 ATATAAATAA
82914 GGTTGGAAATTAAGGGTATACATATATATTT
1 GGTTGGAAATTAAGGGTATACATATATATTT
82945 GGTTGGAAATTAAGGGTATACATATATATTT
1 GGTTGGAAATTAAGGGTATACATATATATTT
82976 GGTTGGAAATTAAGGGTATACATATATATTT
1 GGTTGGAAATTAAGGGTATACATATATATTT
*
83007 GGTTGGAAACTAAGGG
1 GGTTGGAAATTAAGGG
83023 AATTGTTTGT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (31 bp):
GGTTGGAAATTAAGGGTATACATATATATTT
Found at i:92669 original size:2 final size:2
Alignment explanation
Indices: 92662--92696 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
92652 AAATTAAATA
92662 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
92697 AGCATGATAT
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:92963 original size:24 final size:24
Alignment explanation
Indices: 92903--92963 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
92893 TTAAAAGATT
* * *
92903 AAAATTAAAGT-ATTGAAAAATAT
1 AAAACTAAAGTAATTAAAAAATAG
* * *
92926 AAAGCAAAAATAATTAAAAAATAG
1 AAAACTAAAGTAATTAAAAAATAG
92950 AAAACTAAAGTAAT
1 AAAACTAAAGTAAT
92964 GAAATTAAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.23
Consensus pattern (24 bp):
AAAACTAAAGTAATTAAAAAATAG
Found at i:92980 original size:14 final size:14
Alignment explanation
Indices: 92963--92989 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92953 ACTAAAGTAA
92963 TGAAATTAAATAAC
1 TGAAATTAAATAAC
92977 TGAAATTAAATAA
1 TGAAATTAAATAA
92990 ATAAAAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
TGAAATTAAATAAC
Found at i:93024 original size:26 final size:25
Alignment explanation
Indices: 92984--93047 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
92974 AACTGAAATT
* *
92984 AAAT-AAATAAAAAGTAAATGACATA
1 AAATAAAATATAAAGTAAAGGAC-TA
*
93009 AATTAAAATATAAAGTAAAGGACTA
1 AAATAAAATATAAAGTAAAGGACTA
*
93034 AAATAAAAGATAAA
1 AAATAAAATATAAA
93048 AATATAAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 17 0.52
26 16 0.48
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.20
Consensus pattern (25 bp):
AAATAAAATATAAAGTAAAGGACTA
Found at i:93054 original size:33 final size:33
Alignment explanation
Indices: 93013--93078 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
93003 GACATAAATT
*
93013 AAAATATAAAGTAAAGGACTAAAATAAAAGATA
1 AAAATATAAAGTAAAGAACTAAAATAAAAGATA
*
93046 AAAATATAAAGTAACGAACTAAAATAAAAGATA
1 AAAATATAAAGTAAAGAACTAAAATAAAAGATA
93079 TCAGAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.67, C:0.05, G:0.11, T:0.18
Consensus pattern (33 bp):
AAAATATAAAGTAAAGAACTAAAATAAAAGATA
Found at i:94215 original size:45 final size:45
Alignment explanation
Indices: 94093--94492 Score: 624
Period size: 45 Copynumber: 8.8 Consensus size: 45
94083 TAAAATCTCC
* *
94093 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
* * * *
94140 TTTGAAAACATCCTACACTGAAGGGCTTACATATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
94185 TTTGAAAACATCATGCACTTAGGGGTTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
94230 TTTGAAAACATCATGCACTGAGGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
94275 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
94320 TTTGAAAACATCATGCACT-AAGGGGTTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAA-GGGCTTACAGATGACCCGAAGGT
* * *
94365 TTTGAAAACATCATGTACTGAAGGGCTTGCAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
94410 TTTGAAAACATCATGCACT-AAGGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGG-CTTACAGATGACCCGAAGGT
94455 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
94493 TTGAGGCTTT
Statistics
Matches: 327, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
44 7 0.02
45 272 0.83
46 7 0.02
47 41 0.13
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:94563 original size:73 final size:72
Alignment explanation
Indices: 94446--94648 Score: 336
Period size: 73 Copynumber: 2.8 Consensus size: 72
94436 TTACAGATGA
* * *
94446 CCCGAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCTTGAGGCTTTAAGATCA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCA
94510 AAAAGCT
66 AAAAGCT
94517 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
1 CCCGAAGG-TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
94582 AAAAAGCT
65 AAAAAGCT
* *
94590 CCCGAAGGGTTTTTGAAAACATCATGCATTGTAGGTCTTACAGACGACCCTGAGGCTTT
1 CCCGAA-GGTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT
94649 TTGAAAACAT
Statistics
Matches: 124, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
71 8 0.06
73 114 0.92
74 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (72 bp):
CCCGAAGGTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCA
AAAAGCT
Found at i:94667 original size:120 final size:120
Alignment explanation
Indices: 94522--94753 Score: 403
Period size: 120 Copynumber: 1.9 Consensus size: 120
94512 AAGCTCCCGA
*
94522 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAA
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGCTTTAAGATCAAAAA
*
94587 GCTCCCGAAGGGTTTTTGAAAACATCATGCA-TTGTAGGTCTTACAGACGACCCTG
66 GCTCCCGAAGGCTTTTTGAAAACATCATGCACTT-TAGGTCTTACAGACGACCCTG
*
94642 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGCTTTAAGATCAAAAC
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGCTTTAAGATCAAAAA
* *
94707 GCTCTCGAAGGCTTTTTGAAAACATTATGCACTTTAGGTCTTACAGA
66 GCTCCCGAAGGCTTTTTGAAAACATCATGCACTTTAGGTCTTACAGA
94754 TGTTGGAAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 104 0.98
121 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (120 bp):
AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGCTTTAAGATCAAAAA
GCTCCCGAAGGCTTTTTGAAAACATCATGCACTTTAGGTCTTACAGACGACCCTG
Found at i:94670 original size:47 final size:47
Alignment explanation
Indices: 94599--94695 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
94589 TCCCGAAGGG
*
94599 TTTTTGAAAACATCATGCATTGTAGGTCTTACAGACGACCCTGAGGC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGC
94646 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGC
1 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGC
94693 TTT
1 TTT
94696 AAGATCAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (47 bp):
TTTTTGAAAACATCATGCACTGTAGGTCTTACAGACGACCCTGAGGC
Found at i:94739 original size:193 final size:191
Alignment explanation
Indices: 94409--94755 Score: 545
Period size: 193 Copynumber: 1.8 Consensus size: 191
94399 GACCCAAAGG
*
94409 TTTTGAAAACATCATGCACTAAGGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATGCACTAAGGGTCTTACAGACGACCCGAAGGTTTTGAAAACATCATGCACT
* *
94474 GAAGGGCTTACAGATGACCTTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACAT
66 GAAGGGCTTACAGACGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACAT
94539 CATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGGT
131 CATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGGT
* *
94600 TTTTGAAAACATCATGCATTGTA-GGTCTTACAGACGACCCTG-AGGCTTTTTGAAAACATCATG
1 TTTTGAAAACATCATGCACT-AAGGGTCTTACAGACGACCC-GAAGG--TTTTGAAAACATCATG
* * * *
94663 CACTGTAGGTCTTACAGACGACCCTGAGGCTTTAAGATCAAAACGCTCTCGAAGGCTTTTTGAAA
62 CACTGAAGGGCTTACAGACGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAA
* *
94728 ACATTATGCACTTTAGGTCTTACAGATG
127 ACATCATGCACTGTAGGTCTTACAGATG
94756 TTGGAAATAG
Statistics
Matches: 141, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
191 38 0.27
192 2 0.01
193 101 0.72
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (191 bp):
TTTTGAAAACATCATGCACTAAGGGTCTTACAGACGACCCGAAGGTTTTGAAAACATCATGCACT
GAAGGGCTTACAGACGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACAT
CATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGGT
Done.