Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003441.1 Hibiscus syriacus cultivar Beakdansim tig00007255_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: 84559
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:14428 original size:34 final size:34
Alignment explanation
Indices: 14369--14435 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
14359 TTCTTGAGAG
*
14369 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
14403 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
14436 AATTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:37163 original size:20 final size:21
Alignment explanation
Indices: 37138--37189 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
37128 TTTTCCCAAT
*
37138 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* *
37158 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAATTAAGAAAA
37179 TCGCAATGCGA
1 TCGCAATGCGA
37190 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:37203 original size:20 final size:20
Alignment explanation
Indices: 37178--37231 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
37168 AATTGAGAAA
37178 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
37198 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
37218 ATCGCAATGCGATA
1 ATCGCAATGCGATA
37232 ATACAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:37222 original size:61 final size:61
Alignment explanation
Indices: 37157--37291 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
37147 GAATAAGTAA
* * * * ** * *
37157 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAAT-ACAAAATCGCAACGAGATACACACTATCGCAACGCGATACTGACT
* * *
37218 ATCGCAATGCGATAATACAAAATCGCAACGAGATACACACTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATACAAAATCGCAACGAGATACACACTATCGCAACGCGATACTGACT
*
37279 TTCGCAACGCGAT
1 ATCGCAACGCGAT
37292 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (61 bp):
ATCGCAACGCGATAATACAAAATCGCAACGAGATACACACTATCGCAACGCGATACTGACT
Found at i:37265 original size:20 final size:20
Alignment explanation
Indices: 37240--37287 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37230 TAATACAAAA
37240 TCGCAACGAGATACACACTT
1 TCGCAACGAGATACACACTT
* * **
37260 TCGCAACGCGATTCTGACTT
1 TCGCAACGAGATACACACTT
37280 TCGCAACG
1 TCGCAACG
37288 CGATTTACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGAGATACACACTT
Found at i:37873 original size:19 final size:19
Alignment explanation
Indices: 37849--37885 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37839 ACGAGATAAT
*
37849 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
37868 CGCAACGCGAAACAAAAA
1 CGCAACGCGAAACAAAAA
37886 TCACATTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.24, G:0.16, T:0.03
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:37918 original size:19 final size:19
Alignment explanation
Indices: 37894--38031 Score: 98
Period size: 19 Copynumber: 7.7 Consensus size: 19
37884 AATCACATTA
*
37894 CGATTTTTATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
37913 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
* *
37932 CGATTGTC---T-G-GTCG
1 CGATTTTCATTTCGCGTTG
**
37946 CGATAGTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
*
37965 CGA--TTC---TCTCGTTG
1 CGATTTTCATTTCGCGTTG
**
37979 CGATAGTCATTTCCGCGTTG
1 CGATTTTCATTT-CGCGTTG
* *
37999 CGATTCTCATTATCTCGTTG
1 CGATTTTCATT-TCGCGTTG
38019 CGATTTTCATTTC
1 CGATTTTCATTTC
38032 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 20 0.21
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 34 0.36
20 31 0.33
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
CGATTTTCATTTCGCGTTG
Found at i:37956 original size:33 final size:33
Alignment explanation
Indices: 37919--38006 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
37909 GTTGCGATTT
* *
37919 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
37952 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
37985 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
38007 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:38008 original size:20 final size:20
Alignment explanation
Indices: 37974--38031 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
37964 GCGATTCTCT
**
37974 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
37994 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
38014 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
38032 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:40092 original size:42 final size:42
Alignment explanation
Indices: 40032--40154 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
40022 GCCCGACTCG
* * *
40032 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
40074 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
40116 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
40155 CCCAATTCAT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:40112 original size:21 final size:21
Alignment explanation
Indices: 40088--40154 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
40078 TCATTCCTCG
40088 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
40109 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
40130 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
40151 AGAG
1 AGAG
40155 CCCAATTCAT
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:41532 original size:14 final size:14
Alignment explanation
Indices: 41513--41548 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
41503 ATTGTTTAAT
41513 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
41527 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
41541 TGATTTGT
1 TGATTTGT
41549 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:41749 original size:19 final size:19
Alignment explanation
Indices: 41727--41843 Score: 119
Period size: 19 Copynumber: 6.7 Consensus size: 19
41717 CGAAATTAAA
*
41727 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
41746 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
41762 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
41779 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
41798 TTCGCATTGTGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
41814 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
41831 TTCGCATTGCGAT
1 TTCGCATTGCGAT
41844 AGTAATTTCC
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
14 11 0.14
16 13 0.16
17 13 0.16
19 42 0.53
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:41805 original size:52 final size:52
Alignment explanation
Indices: 41727--41843 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
41717 CGAAATTAAA
*
41727 TTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
* *
41779 TTCGCATTGCGATTTTCATTTCGCATTGTGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
41831 TTCGCATTGCGAT
1 TTCGCATTGCGAT
41844 AGTAATTTCC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (52 bp):
TTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
Found at i:41852 original size:52 final size:52
Alignment explanation
Indices: 41744--41863 Score: 177
Period size: 52 Copynumber: 2.3 Consensus size: 52
41734 TGCGATTTTC
** *
41744 ATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAGTA
* *
41796 ATTTCGCATTGTGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTA
1 ATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAGTA
*
41848 ATTTCCGCGTTGCGAT
1 ATTT-CGCATTGCGAT
41864 AGACATTAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
52 51 0.85
53 9 0.15
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAGTA
Found at i:43718 original size:3 final size:3
Alignment explanation
Indices: 43703--43812 Score: 184
Period size: 3 Copynumber: 36.7 Consensus size: 3
43693 TTTTTACCCA
*
43703 TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
43751 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43799 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
43813 AATATATATT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:43853 original size:12 final size:11
Alignment explanation
Indices: 43808--43849 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
43798 TTATTATTAT
*
43808 TATTAAATATA
1 TATTAAATACA
43819 TATTAAATACA
1 TATTAAATACA
43830 TATATAAATACA
1 TAT-TAAATACA
43842 TATTAAAT
1 TATTAAAT
43850 TACAAAGCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (11 bp):
TATTAAATACA
Found at i:50867 original size:10 final size:9
Alignment explanation
Indices: 50848--50881 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
50838 AGAAAGAAGG
50848 AAAAAAAAC
1 AAAAAAAAC
50857 AAAACAAAAC
1 AAAA-AAAAC
*
50867 AAAAAAAAG
1 AAAAAAAAC
50876 AAAAAA
1 AAAAAA
50882 GAAAAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:53171 original size:83 final size:83
Alignment explanation
Indices: 53032--53574 Score: 941
Period size: 83 Copynumber: 6.6 Consensus size: 83
53022 GAATAAATGC
* *
53032 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTTATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
53097 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
53115 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
53180 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
*
53198 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
53263 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
53281 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
53346 CATTGAATTTGGAAGAAT
66 CATTGAATTTGGAAGAAT
53364 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
53429 CATTGAATTT-G-AGAGG
66 CATTGAATTTGGAAGAAT
* *
53445 AATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
53510 CATTGAATTT-G-AGAGG
66 CATTGAATTTGGAAGAAT
* * *
53526 AATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTG
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
53575 ATTCGGTATG
Statistics
Matches: 451, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
81 130 0.29
82 1 0.00
83 320 0.71
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGGAAGAAT
Found at i:56261 original size:22 final size:21
Alignment explanation
Indices: 56238--56314 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 21
56228 ATCTACATTC
56238 TTCAAAGATGATAGATTCTTT
1 TTCAAAGATGATAGATTCTTT
*
56259 CTTTAAAGATGATAGATTCCCTTT
1 -TTCAAAGATGATAGATT--CTTT
*
56283 TT-AAAGATGACAGATTCTCTT
1 TTCAAAGATGATAGATTCT-TT
56304 TTCAAAGATGA
1 TTCAAAGATGA
56315 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.04
21 4 0.08
22 37 0.76
23 2 0.04
24 4 0.08
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (21 bp):
TTCAAAGATGATAGATTCTTT
Found at i:57028 original size:113 final size:113
Alignment explanation
Indices: 56723--57274 Score: 660
Period size: 113 Copynumber: 4.8 Consensus size: 113
56713 ATTTCGAATC
*
56723 CACTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
*
56788 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCAT
66 ATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCAT
* *
56836 CACTTGATGGATCAGTTTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAG
1 CACTTGATGGATCAG-CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
56901 AATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCAT
65 AATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCAT
*
56950 CACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATA
1 CACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* ** *
57015 ATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCAT
66 ATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCAT
* * * * * * * **
57063 CATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCATCAT-CTGAA-GAAG
1 CACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAG
* * * * *
57126 AAAAAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCAT-AATTCTAT
65 AATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTC-AT
* * * * * *
57175 CACAGAAGGAGATAGATTAGCATCAGCCTTTTCTAGAGAAAGTTCATGATGAGAATAACTCATCA
1 CAC---------TTGA-T-GGATCAG-CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
* * *
57240 AAAGAAGGATGAAGAAGTTCATAATGAGAAGAACT
54 GAAGAAGGAAGAATAAGTTCATAATGAGAAGAACT
57275 CATCAAAAGC
Statistics
Matches: 377, Mismatches: 45, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
111 5 0.01
112 41 0.11
113 154 0.41
114 112 0.30
121 3 0.01
122 1 0.00
123 4 0.01
124 33 0.09
125 24 0.06
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
CACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
ATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCCTGAATTCAT
Found at i:57258 original size:40 final size:41
Alignment explanation
Indices: 57214--57322 Score: 175
Period size: 42 Copynumber: 2.7 Consensus size: 41
57204 TTTCTAGAGA
* *
57214 AAGTTCATGATGAGAATAACTCATCAAAA-GAAGGATGAAG
1 AAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAAG
57254 AAGTTCATAATGAGAAGAACTCATCAAAAGCGAAGGATGAAG
1 AAGTTCATAATGAGAAGAACTCATCAAAA-CGAAGGATGAAG
*
57296 AAGTTCATAATGAGAAGAACTCGTCAA
1 AAGTTCATAATGAGAAGAACTCATCAA
57323 GAGCTTATTC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 27 0.42
42 37 0.58
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (41 bp):
AAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAAG
Found at i:57495 original size:119 final size:115
Alignment explanation
Indices: 57321--57536 Score: 267
Period size: 119 Copynumber: 1.8 Consensus size: 115
57311 AGAACTCGTC
* * * *
57321 AAGAGCTTATTCAACCTTTTGCATGATTCTATCACAGAAAGAGATATATCATCATCAGCATTTCT
1 AAGAGCTTATGCAACCTTTTGCATGATTCTATCACAGAAAGAGATAAATCATCATCACCA--GC-
57386 AGAAGGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGCTCACAATGAG
63 AGAA--AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGCTCACAATGAG
* * ** *
57441 AAGAGCTTGTGCAACC-TTTGC-TAGATTAC-ATCACAGAAGGAGATAAATTGTCATCCCCAGCA
1 AAGAGCTTATGCAACCTTTTGCAT-GATT-CTATCACAGAAAGAGATAAATCATCATCACCAGCA
57503 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
64 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
57537 AGAGAAGAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
114 31 0.36
116 4 0.05
117 1 0.01
118 1 0.01
119 33 0.39
120 15 0.18
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (115 bp):
AAGAGCTTATGCAACCTTTTGCATGATTCTATCACAGAAAGAGATAAATCATCATCACCAGCAGA
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGCTCACAATGAG
Found at i:57704 original size:3 final size:3
Alignment explanation
Indices: 57698--57797 Score: 164
Period size: 3 Copynumber: 33.3 Consensus size: 3
57688 AATAATAATA
* *
57698 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
57746 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57794 ATT A
1 ATT A
57798 AATATATATT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:57714 original size:27 final size:27
Alignment explanation
Indices: 57698--57797 Score: 191
Period size: 27 Copynumber: 3.7 Consensus size: 27
57688 AATAATAATA
57698 ATTATTATTATTATTATTATCATTATT
1 ATTATTATTATTATTATTATCATTATT
57725 ATTATTATTATTATTATTATCATTATT
1 ATTATTATTATTATTATTATCATTATT
*
57752 ATTATTATTATTATTATTATCATTATC
1 ATTATTATTATTATTATTATCATTATT
57779 ATTATTATTATTATTATTA
1 ATTATTATTATTATTATTA
57798 AATATATATT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTATTATTATTATTATTATCATTATT
Found at i:57838 original size:12 final size:11
Alignment explanation
Indices: 57793--57834 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
57783 TTATTATTAT
*
57793 TATTAAATATA
1 TATTAAATACA
57804 TATTAAATACA
1 TATTAAATACA
57815 TATATAAATACA
1 TAT-TAAATACA
57827 TATTAAAT
1 TATTAAAT
57835 TACAAAGCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (11 bp):
TATTAAATACA
Found at i:58253 original size:11 final size:10
Alignment explanation
Indices: 58233--58258 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
58223 CCCGAACCTG
58233 AAAAAGAAAA
1 AAAAAGAAAA
58243 AAAAAGAAAA
1 AAAAAGAAAA
58253 AAAAAG
1 AAAAAG
58259 GACAGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:60310 original size:12 final size:12
Alignment explanation
Indices: 60295--60319 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60285 TTTTCGGGGA
60295 CTTTTTCTTCTT
1 CTTTTTCTTCTT
60307 CTTTTTCTTCTT
1 CTTTTTCTTCTT
60319 C
1 C
60320 GGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:60533 original size:24 final size:24
Alignment explanation
Indices: 60506--60552 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
60496 CAAAATCCGT
*
60506 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
60530 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
60553 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:60561 original size:24 final size:24
Alignment explanation
Indices: 60510--60561 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
60500 ATCCGTGTAT
* ** *
60510 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
60534 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
60558 TGAC
1 TGAC
60562 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:63137 original size:20 final size:19
Alignment explanation
Indices: 63102--63168 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
63092 GAAACTTAAA
63102 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
63121 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
63141 ATCACAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
63160 ATCGCAACG
1 ATCGCAACG
63169 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:63176 original size:14 final size:14
Alignment explanation
Indices: 63157--63214 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
63147 ATGCGAAATG
63157 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
63171 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
63187 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
63203 AAAATCGCAACG
1 AAAATCGCAACG
63215 CGAAACACAA
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:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:63199 original size:32 final size:33
Alignment explanation
Indices: 63149--63219 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 33
63139 CTATCACAAT
63149 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
63182 GCGAAATG-AAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
63214 GCGAAA
1 GCGAAA
63220 CACAAATCGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 30 0.79
33 8 0.21
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.08
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGACAAAATCGCAAC
Found at i:63248 original size:19 final size:19
Alignment explanation
Indices: 63226--63341 Score: 74
Period size: 19 Copynumber: 6.6 Consensus size: 19
63216 GAAACACAAA
63226 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
63245 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
63261 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
* * *
63277 TCGCGTTGC-AATTT--TG
1 TCGCATTGCGATTTTCATT
63293 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
63310 TCGCATTGCGATAGCCATTT
1 TCGCATTGCGATTTTCA-TT
63330 TCGCATTGCGAT
1 TCGCATTGCGAT
63342 AGTCATTTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
14 13 0.17
15 4 0.05
16 12 0.16
17 5 0.06
18 10 0.13
19 19 0.25
20 14 0.18
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:63267 original size:14 final size:14
Alignment explanation
Indices: 63248--63305 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
63238 TTTCATTTCG
63248 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
63262 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
63278 CGCGTTGCAATTTTGT
1 --CGTTGCGATTTTGT
63294 CGTTGCGATTTT
1 CGTTGCGATTTT
63306 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:63278 original size:32 final size:33
Alignment explanation
Indices: 63231--63321 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
63221 ACAAATCGCA
63231 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
63264 TTGCGA-TTTCATTTCGCGTTGCAATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
63296 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
63322 AGCCATTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 31 0.57
33 23 0.43
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:63360 original size:20 final size:20
Alignment explanation
Indices: 63308--63352 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
63298 GCGATTTTCA
63308 TTTCGCATTGCGATAGCCAT
1 TTTCGCATTGCGATAGCCAT
*
63328 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGCCAT
63348 TTTCG
1 TTTCG
63353 TGTTGCGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (20 bp):
TTTCGCATTGCGATAGCCAT
Found at i:63868 original size:18 final size:18
Alignment explanation
Indices: 63842--63886 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
63832 GTCGATCAGA
*
63842 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
63860 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
63878 TGATGGCTC
1 TGATGGCTC
63887 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:65231 original size:20 final size:20
Alignment explanation
Indices: 65206--65248 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
65196 AATAGTTTCT
65206 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
65226 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
65246 GAA
1 GAA
65249 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:65540 original size:22 final size:22
Alignment explanation
Indices: 65513--65556 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
65503 GATGGAGATA
65513 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
65535 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
65557 TGAGAGAGTG
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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:65770 original size:20 final size:20
Alignment explanation
Indices: 65744--65816 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
65734 GGTTATGTAT
65744 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
65764 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
65784 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
65804 TATCTCGTTGCGA
1 TATCGCGTTGCGA
65817 TTTTTTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:65847 original size:41 final size:41
Alignment explanation
Indices: 65724--65861 Score: 107
Period size: 41 Copynumber: 3.4 Consensus size: 41
65714 CGCTTTGAAA
* * * * * *
65724 ATCGCATTGCGGTTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
* *** * * *
65765 ATCGCGTTGCGA-AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
* * * * *
65805 ATCTCGTTGCGATTTTTTATTATCGCATTGTGATAGTCAGT
1 ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
65846 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
65862 CCCAATTCGC
Statistics
Matches: 75, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
40 32 0.43
41 43 0.57
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCGATTTTTTATTATCGCATTGCGAAAGTAAGT
Found at i:65876 original size:21 final size:21
Alignment explanation
Indices: 65847--65939 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
65837 ATAGTCAGTA
65847 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
65868 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
65888 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
65909 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
65929 TCGCATTGCGA
1 TCGCATTGCGA
65940 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:65892 original size:41 final size:41
Alignment explanation
Indices: 65847--65939 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
65837 ATAGTCAGTA
65847 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
65888 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
65929 TCGCATTGCGA
1 TCGCATTGCGA
65940 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:68840 original size:124 final size:123
Alignment explanation
Indices: 68438--68849 Score: 420
Period size: 124 Copynumber: 3.3 Consensus size: 123
68428 TCAATCTTTC
* * * * *
68438 CTCTGAAAGACGCTAAGTCATAACTTGGGGTGATCCACTCATTTTGCTGAAGGATGCTGAATCTG
1 CTCTGAAGGACGCTAAGTCGTAATTTGGGGTGATCCACTCCTTTTGCTGAAGGATGTTGAATCTG
* *** * *
68503 GTGAAGATCTCAC-CATTT-TCTCTGAAAGATACTGAGTGGTGGAGCGATCTTACTCATT
66 GTGAAAATCTCACTC-TTTCT-TCTGAAAGACGTTGAGTCGTGGAACGATCTTACTCATT
* ** * * ** * * *
68561 CATCTAAAGGATTCTATGTCGTTATTCAGGATGATCCAATCCTTTTGCTGAAGGATGTTGAATTT
1 C-TCTGAAGGACGCTAAGTCGTAATTTGGGGTGATCCACTCCTTTTGCTGAAGGATGTTGAATCT
* *
68626 GGTGACAATCTCACTCTTTACTT-T-AAAGGACGTTGAGTTGTGGAACGATCTTACTTC-TT
65 GGTGAAAATCTCACTCTTT-CTTCTGAAA-GACGTTGAGTCGTGGAACGATCTTAC-TCATT
* * * *
68685 CCTCTGAAGGATGCTAAGTTGTAATTTGGGGTGATCCACTCCTTTTGCTAAAGGATGTTGGATCT
1 -CTCTGAAGGACGCTAAGTCGTAATTTGGGGTGATCCACTCCTTTTGCTGAAGGATGTTGAATCT
* * * *
68750 GGTTAAAATATCACTCTTTCTTCTGAAAGACGTTGAGTCATGGAACAATCTTACTCATT
65 GGTGAAAATCTCACTCTTTCTTCTGAAAGACGTTGAGTCGTGGAACGATCTTACTCATT
* *
68809 CTCTGAAGGACCCTAAGTCGTAATTTGGGGGTAATCCACTC
1 CTCTGAAGGACGCTAAGTCGTAATTT-GGGGTGATCCACTC
68850 TTGAGATGGG
Statistics
Matches: 234, Mismatches: 44, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
123 32 0.14
124 193 0.82
125 8 0.03
126 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (123 bp):
CTCTGAAGGACGCTAAGTCGTAATTTGGGGTGATCCACTCCTTTTGCTGAAGGATGTTGAATCTG
GTGAAAATCTCACTCTTTCTTCTGAAAGACGTTGAGTCGTGGAACGATCTTACTCATT
Found at i:68980 original size:26 final size:27
Alignment explanation
Indices: 68930--68980 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
68920 TGTCCTAAAC
*
68930 ATGATCTAATGCAATTTGATATGATGA
1 ATGATCTAATGCAATTTAATATGATGA
* *
68957 ATGATC-AATGCATTTTAATGTGAT
1 ATGATCTAATGCAATTTAATATGAT
68981 TTAATCTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (27 bp):
ATGATCTAATGCAATTTAATATGATGA
Found at i:78567 original size:14 final size:15
Alignment explanation
Indices: 78545--78595 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 15
78535 AAAAATAAAG
78545 AAATAAAACAAACAA
1 AAATAAAACAAACAA
78560 AAAT-AAACAAACAA
1 AAATAAAACAAACAA
*
78574 AAACTCACAACAAAACAA
1 AAA-T-AAAAC-AAACAA
78592 AAAT
1 AAAT
78596 TCTAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 13 0.42
15 5 0.16
17 4 0.13
18 9 0.29
ACGTcount: A:0.75, C:0.18, G:0.00, T:0.08
Consensus pattern (15 bp):
AAATAAAACAAACAA
Found at i:81805 original size:22 final size:23
Alignment explanation
Indices: 81759--81806 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
81749 ATAAAGAACC
81759 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAATATACCATT
*
81782 AAAATAAAGTCTAAA-AT-CCATT
1 AAAATAAACT-TAAATATACCATT
81804 AAA
1 AAA
81807 CAAACCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 11 0.48
24 4 0.17
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAATATACCATT
Done.