Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008777.1 Hibiscus syriacus cultivar Beakdansim tig00111897_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: 60091
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Found at i:3252 original size:23 final size:22
Alignment explanation
Indices: 3239--3321 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 22
3229 TAAAGGAAAC
3239 AATAAAATTAAAATTAAAA-ATAA
1 AATAAAA-TAAAATTAAAATA-AA
*
3262 AATAAAATAAAAATAAAATAAA
1 AATAAAATAAAATTAAAATAAA
*
3284 AATAAATGAATAAAATAAAAATAAA
1 AAT-AA--AATAAAATTAAAATAAA
3309 AATAATAATAAAA
1 AATAA-AATAAAA
3322 ATAACATATG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
22 15 0.29
23 17 0.33
24 2 0.04
25 18 0.35
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (22 bp):
AATAAAATAAAATTAAAATAAA
Found at i:3265 original size:5 final size:5
Alignment explanation
Indices: 3239--3321 Score: 71
Period size: 5 Copynumber: 15.4 Consensus size: 5
3229 TAAAGGAAAC
3239 AATAA AATTAA AATTAAA AATAA AATAA AATAAA AATAA AATAA AA-ATA
1 AATAA AA-TAA AA-T-AA AATAA AATAA AAT-AA AATAA AATAA AATA-A
*
3288 AAT-G AATAA AATAAA AATAAA AATAA TAATAA AA
1 AATAA AATAA AAT-AA AAT-AA AATAA -AATAA AA
3322 ATAACATATG
Statistics
Matches: 68, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
4 4 0.06
5 31 0.46
6 29 0.43
7 4 0.06
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:3274 original size:11 final size:11
Alignment explanation
Indices: 3239--3325 Score: 88
Period size: 11 Copynumber: 7.5 Consensus size: 11
3229 TAAAGGAAAC
3239 AATAAAATTAAA
1 AATAAAA-TAAA
*
3251 ATTAAAA-ATAA
1 AATAAAATA-AA
3262 AATAAAATAAA
1 AATAAAATAAA
3273 AATAAAATAAA
1 AATAAAATAAA
3284 AAT-AAATGAATAA
1 AATAAAAT--A-AA
3297 AATAAAAATAAA
1 AAT-AAAATAAA
3309 AATAATAATAAA
1 AATAA-AATAAA
3321 AATAA
1 AATAA
3326 CATATGTATA
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
10 5 0.08
11 26 0.40
12 24 0.37
13 6 0.09
15 4 0.06
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:3287 original size:6 final size:6
Alignment explanation
Indices: 3239--3325 Score: 101
Period size: 6 Copynumber: 14.8 Consensus size: 6
3229 TAAAGGAAAC
* *
3239 AATAAA ATTAAA ATTAAA AAT-AA AAT-AA AATAAA AAT-AA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
3284 AATAAA TGAAT-AA AATAAA AATAAA AATAAT AATAAA AATAA
1 AATAAA --AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
3326 CATATGTATA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
5 18 0.25
6 49 0.68
7 2 0.03
8 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:3533 original size:2 final size:2
Alignment explanation
Indices: 3526--3564 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3516 AAGAAGGGAA
3526 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
3565 ATAACTTATA
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:5211 original size:24 final size:24
Alignment explanation
Indices: 5183--5232 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
5173 GATTAAGGTT
* *
5183 AAAATTAA-ATTTAAAATTTATAA
1 AAAAATAACATTTAAAAGTTATAA
5206 AAAAATAATCATTTAAAAGTTATAA
1 AAAAATAA-CATTTAAAAGTTATAA
5231 AA
1 AA
5233 TTTATTAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
25 16 0.70
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAAAATAACATTTAAAAGTTATAA
Found at i:5289 original size:22 final size:22
Alignment explanation
Indices: 5244--5299 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
5234 TTATTAACTT
*
5244 ATTAAAATATTATAAAATAGTC
1 ATTAAATTATTATAAAATAGTC
*
5266 ATTAAATTATTATAAACT-GATC
1 ATTAAATTATTATAAAATAG-TC
5288 ATTAAACTTATT
1 ATTAAA-TTATT
5300 GAATTTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 1 0.03
22 24 0.80
23 5 0.17
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTAAATTATTATAAAATAGTC
Found at i:11850 original size:105 final size:104
Alignment explanation
Indices: 11567--11978 Score: 434
Period size: 105 Copynumber: 3.9 Consensus size: 104
11557 GTGGTGTGTG
* * * *
11567 TGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCGACAACATCTTCAGCTTCAAAAAAA
1 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTC---AAAA
* *
11632 ACCA-CTGCTTTCTTACAATGTGCATCAACCAATGTGTTATACA
63 ACCATC-CCTTTCTTGCAATGTGCATCAACCAATGTG-TATACA
* * * * * *
11675 TGACAACATCTGGCTCAATGCCTTGCTTTCTCATTGTGTCGACAATATCTTTAGTTTCAGAAACC
1 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAAAAACC
* *
11740 ATCCCTTTCTTGCAACGTGCATCAACCAATGTGCTGTACA
66 ATCCCTTTCTTGCAATGTGCATCAACCAATGTG-TATACA
* * * *
11780 TGACAACA-CAGGCTCAATACCTTGCCTTCTCATTGTATCAACAATAACTTCAGCTTCATAAACC
1 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAAAAACC
** *
11844 ATTCCC-TTCTTGCAATACGCATCAACCAATGTAGTATACG
66 A-TCCCTTTCTTGCAATGTGCATCAACCAATGT-GTATACA
* * * * * * **
11884 GGACAACATCAGGCTTAAGGCCTTGCTTTCTCATTGTATGAACAGTATCTACAGCTTCAAAAATA
1 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAAAAACC
* * **
11949 AGCCCTTCCTTGCAATAAGCATCAACCAAT
66 ATCCCTTTCTTGCAATGTGCATCAACCAAT
11979 ATTAAATGCC
Statistics
Matches: 259, Mismatches: 40, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
104 85 0.33
105 120 0.46
106 1 0.00
108 53 0.20
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (104 bp):
TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAAAAACC
ATCCCTTTCTTGCAATGTGCATCAACCAATGTGTATACA
Found at i:11963 original size:209 final size:211
Alignment explanation
Indices: 11567--11978 Score: 472
Period size: 209 Copynumber: 2.0 Consensus size: 211
11557 GTGGTGTGTG
* * * * * *
11567 TGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCGACAACATCTTCAGCTTCAAAAAAA
1 TGACAACATCAGGCTCAATACCTTGCCTTCTCATTGTATCAACAACAACTTCAGCTTC--AAAAA
* * ** * * *
11632 ACCACTGCTTTCTTACAATGTGCATCAACCAATGTGTTATACATGACAACATCTGGCTCAATGCC
64 ACCACTCCCTTCTTACAATACGCATCAACCAATGTGTTATACAGGACAACATCAGGCTCAAGGCC
* ** * * * * * **
11697 TTGCTTTCTCATTGTGTCGACAATATCTTTAGTTTCAGAAACCATCCCTTTCTTGCAACGTGCAT
129 TTGCTTTCTCATTGTATCGACAATATCTACAGCTTCAAAAACAAGCCCTTCCTTGCAACAAGCAT
11762 CAACCAATGTGCTGTACA
194 CAACCAATGTGCTGTACA
* *
11780 TGACAACA-CAGGCTCAATACCTTGCCTTCTCATTGTATCAACAATAACTTCAGCTTC-ATAAAC
1 TGACAACATCAGGCTCAATACCTTGCCTTCTCATTGTATCAACAACAACTTCAGCTTCAAAAAAC
* * * *
11843 CATTCCCTTCTTGCAATACGCATCAACCAATGTAG-TATACGGGACAACATCAGGCTTAAGGCCT
66 CACTCCCTTCTTACAATACGCATCAACCAATGT-GTTATACAGGACAACATCAGGCTCAAGGCCT
* * *
11907 TGCTTTCTCATTGTAT-GAACAGTATCTACAGCTTCAAAAATAAGCCCTTCCTTGCAATAAGCAT
130 TGCTTTCTCATTGTATCG-ACAATATCTACAGCTTCAAAAACAAGCCCTTCCTTGCAACAAGCAT
11971 CAACCAAT
194 CAACCAAT
11979 ATTAAATGCC
Statistics
Matches: 165, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
208 1 0.01
209 113 0.68
210 1 0.01
212 42 0.25
213 8 0.05
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (211 bp):
TGACAACATCAGGCTCAATACCTTGCCTTCTCATTGTATCAACAACAACTTCAGCTTCAAAAAAC
CACTCCCTTCTTACAATACGCATCAACCAATGTGTTATACAGGACAACATCAGGCTCAAGGCCTT
GCTTTCTCATTGTATCGACAATATCTACAGCTTCAAAAACAAGCCCTTCCTTGCAACAAGCATCA
ACCAATGTGCTGTACA
Found at i:15803 original size:105 final size:105
Alignment explanation
Indices: 15621--16050 Score: 468
Period size: 105 Copynumber: 4.1 Consensus size: 105
15611 AAGAGTGTTG
* * * * * *
15621 TACGTGACAACATTGGGCTCAATGCCCTCCTTTCTCATTGTCTCGACAATATCTTCGGCTAT-AG
1 TACGTGACAACATTAGGCTCAATGCCTTCCTTTCTCATTGTGTCAACAATATCTTCAGCT-TCAA
* **
15685 AAACCATTCCTTTCTTGCAATTTGCATCAACCAATATACTA
65 AAACCATCCCTTTCTTGCAAAGTGCATCAACCAATATACTA
* * *
15726 TACGTTACAACATTAGGCTCAATGCCTTCCTTTCTCATCGTGTCAACAATATCTTCAGCTTCAGA
1 TACGTGACAACATTAGGCTCAATGCCTTCCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAA
* ** * *
15791 AACCATCCCTTTCTTGCAATGTGCATCAACCAACGTATTG
66 AACCATCCCTTTCTTGCAAAGTGCATCAACCAATATACTA
* * * * *
15831 TATGTGACAACATCAGGCTCAATGCCTTCCTTTCTCATTTTATCAACAATATCTTTAGCTTCAAA
1 TACGTGACAACATTAGGCTCAATGCCTTCCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAA
* *
15896 AACCATTCCC-TTCTTGCAAAGAGCATCAACCAATATAGTA
66 AACCA-TCCCTTTCTTGCAAAGTGCATCAACCAATATACTA
** * * * * * *
15936 TATATGACAACATTAGGCTTAAGGCCTTGCTTTCTCATTGTGTGAACAGTATCTACAGCTTCAAA
1 TACGTGACAACATTAGGCTCAATGCCTTCCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAA
** * * * **
16001 AATAAGCCCCTCCTTGCAAAACGCATCAACCAATATACTA
66 AACCATCCCTTTCTTGCAAAGTGCATCAACCAATATACTA
*
16041 TATGTGACAA
1 TACGTGACAA
16051 TATTTGGTGA
Statistics
Matches: 276, Mismatches: 46, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
104 4 0.01
105 268 0.97
106 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (105 bp):
TACGTGACAACATTAGGCTCAATGCCTTCCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAA
AACCATCCCTTTCTTGCAAAGTGCATCAACCAATATACTA
Found at i:15997 original size:210 final size:210
Alignment explanation
Indices: 15618--15998 Score: 521
Period size: 210 Copynumber: 1.8 Consensus size: 210
15608 CATAAGAGTG
** * * *
15618 TTGTACGTGACAACATTGGGCTCAATGCCCTCCTTTCTCATTGTCTCGACAATATCTTCGGCTAT
1 TTGTACGTGACAACATCAGGCTCAATGCCCTCCTTTCTCATTGTATCAACAATATCTTCAGCTAT
* * *** * *
15683 AGAAACCATTCCTTTCTTGCAATTTGCATCAACCAATATACTATACGTTACAACATTAGGCTCAA
66 AAAAACCATTCCCTTCTTGCAAAGAGCATCAACCAATATACTATACATGACAACATTAGGCTCAA
* *
15748 TGCCTTCCTTTCTCATCGTGTCAACAATATCTTCAGCTTCAGAAACCATCCCTTTCTTGCAATGT
131 GGCCTTCCTTTCTCATCGTGTCAACAATATCTACAGCTTCAGAAACCATCCCTTTCTTGCAATGT
15813 GCATCAACCAACGTA
196 GCATCAACCAACGTA
* * * *
15828 TTGTATGTGACAACATCAGGCTCAATGCCTTCCTTTCTCATTTTATCAACAATATCTTTAGCT-T
1 TTGTACGTGACAACATCAGGCTCAATGCCCTCCTTTCTCATTGTATCAACAATATCTTCAGCTAT
* * *
15892 CAAAAACCATTCCCTTCTTGCAAAGAGCATCAACCAATATAGTATATATGACAACATTAGGCTTA
66 -AAAAACCATTCCCTTCTTGCAAAGAGCATCAACCAATATACTATACATGACAACATTAGGCTCA
* * * *
15957 AGGCCTTGCTTTCTCATTGTGTGAACAGTATCTACAGCTTCA
130 AGGCCTTCCTTTCTCATCGTGTCAACAATATCTACAGCTTCA
15999 AAAATAAGCC
Statistics
Matches: 145, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
209 1 0.01
210 144 0.99
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (210 bp):
TTGTACGTGACAACATCAGGCTCAATGCCCTCCTTTCTCATTGTATCAACAATATCTTCAGCTAT
AAAAACCATTCCCTTCTTGCAAAGAGCATCAACCAATATACTATACATGACAACATTAGGCTCAA
GGCCTTCCTTTCTCATCGTGTCAACAATATCTACAGCTTCAGAAACCATCCCTTTCTTGCAATGT
GCATCAACCAACGTA
Found at i:18178 original size:21 final size:21
Alignment explanation
Indices: 18131--18178 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
18121 CTAAAAATAT
18131 TTTTATAAATTTTAATTTAAA
1 TTTTATAAATTTTAATTTAAA
18152 TATTTAT-AA-TTTAATATTAAAA
1 T-TTTATAAATTTTAAT-TT-AAA
18174 TTTTA
1 TTTTA
18179 CTTGTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.25
21 9 0.38
22 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTATAAATTTTAATTTAAA
Found at i:18195 original size:2 final size:2
Alignment explanation
Indices: 18188--18225 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18178 ACTTGTTAAA
18188 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
18226 TACAAGGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20842 original size:32 final size:32
Alignment explanation
Indices: 20801--20867 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
20791 TCGGGTTAGA
* * *
20801 TTTTTAAAAAAATTTGGGATCGGGTTGGATTT
1 TTTTTAAAAAAAGTCGGGATCGGGTCGGATTT
*
20833 TTTTTAAAAAAAGTCGGGTTCGGGTCGGATTT
1 TTTTTAAAAAAAGTCGGGATCGGGTCGGATTT
20865 TTT
1 TTT
20868 AAAGTTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.43
Consensus pattern (32 bp):
TTTTTAAAAAAAGTCGGGATCGGGTCGGATTT
Found at i:20866 original size:29 final size:29
Alignment explanation
Indices: 20790--20866 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 29
20780 TCTTTTGGTA
* * *
20790 TTCGGGTTAGATTTTTAAAAAAATTTGGG
1 TTCGGGTTGGATTTTTAAAAAAAGTCGGG
*
20819 ATCGGGTTGGATTTTTTTTAAAAAAAGTCGGG
1 TTCGGGTTGGA---TTTTTAAAAAAAGTCGGG
*
20851 TTCGGGTCGGATTTTT
1 TTCGGGTTGGATTTTT
20867 TAAAGTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 14 0.36
32 25 0.64
ACGTcount: A:0.25, C:0.06, G:0.27, T:0.42
Consensus pattern (29 bp):
TTCGGGTTGGATTTTTAAAAAAAGTCGGG
Found at i:20916 original size:38 final size:38
Alignment explanation
Indices: 20845--20945 Score: 132
Period size: 38 Copynumber: 2.6 Consensus size: 38
20835 TTTAAAAAAA
* *
20845 GTCGGGTTCGGGTCGGATTTTTTAAAGTTTGATATTCAG
1 GTCGGGTTCGGGTCGGATTTTTTTAAGTGTGATATTC-G
* *
20884 GTCGGG-TCGGTTCGGGTTTTTTTAAGTGTGATATTCG
1 GTCGGGTTCGGGTCGGATTTTTTTAAGTGTGATATTCG
*
20921 GTTCGGGTTCGGGTCGGTTTTTTTT
1 G-TCGGGTTCGGGTCGGATTTTTTT
20946 TAAAAATCGG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
37 2 0.04
38 31 0.57
39 21 0.39
ACGTcount: A:0.11, C:0.11, G:0.34, T:0.45
Consensus pattern (38 bp):
GTCGGGTTCGGGTCGGATTTTTTTAAGTGTGATATTCG
Found at i:20979 original size:29 final size:30
Alignment explanation
Indices: 20922--21005 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
20912 TGATATTCGG
* * **
20922 TTCGGGTTCGGGTCGGTTTTTTTTTAAAAA
1 TTCGGGTTCAGGTCGGATTTTTTAAAAAAA
*
20952 -TCGGGATCAGGTCGGATTTTTTAAAAAAAA
1 TTCGGGTTCAGGTCGGATTTTTT-AAAAAAA
* *
20982 TTCTGGTTCAGGTCGGGTTTTTTA
1 TTCGGGTTCAGGTCGGATTTTTTA
21006 TGTGTGATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 19 0.43
30 6 0.14
31 19 0.43
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (30 bp):
TTCGGGTTCAGGTCGGATTTTTTAAAAAAA
Found at i:21510 original size:17 final size:17
Alignment explanation
Indices: 21488--21536 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
21478 ATTTCAGATT
*
21488 CAGATTCCAATTCCTGA
1 CAGATTCCAATTCCTCA
* *
21505 CAGATTCTAATTTCTTCA
1 CAGATTCCAA-TTCCTCA
*
21523 CAGAGTCCAATTCC
1 CAGATTCCAATTCC
21537 CTCAAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (17 bp):
CAGATTCCAATTCCTCA
Found at i:23269 original size:55 final size:55
Alignment explanation
Indices: 23203--23307 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
23193 GGATGCCCCC
* * *
23203 GTGAATACTGCAGCCTTTGATAGTAATGATCCTGTAAAAAGCATTAACTCGTGCT
1 GTGAATACTGCAACCTTTGATAGTAATGATCCTGAAAAAAACATTAACTCGTGCT
* *
23258 GTGAATGCTGCAACCTTTGATAGTAATGATGCTGAAAAAAACATTAACTC
1 GTGAATACTGCAACCTTTGATAGTAATGATCCTGAAAAAAACATTAACTC
23308 ATTGCATGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (55 bp):
GTGAATACTGCAACCTTTGATAGTAATGATCCTGAAAAAAACATTAACTCGTGCT
Found at i:23656 original size:16 final size:16
Alignment explanation
Indices: 23637--23690 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
23627 GTTAGTTTAG
23637 ATTATTTTTAGATTAA
1 ATTATTTTTAGATTAA
*
23653 ATTATTCTT-GATTAA
1 ATTATTTTTAGATTAA
*
23668 ATTAATATTTAGATTAA
1 ATT-ATTTTTAGATTAA
*
23685 TTTATT
1 ATTATT
23691 GTTCTTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 9 0.29
16 14 0.45
17 8 0.26
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTATTTTTAGATTAA
Found at i:24580 original size:19 final size:19
Alignment explanation
Indices: 24544--24581 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24534 AGTATATGTT
* *
24544 TACAACATCGGATTAGATG
1 TACAACATCGAATCAGATG
24563 TACAACATCGAATCAGATG
1 TACAACATCGAATCAGATG
24582 CCCTCAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (19 bp):
TACAACATCGAATCAGATG
Found at i:24999 original size:2 final size:2
Alignment explanation
Indices: 24986--25047 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
24976 TTTCGTTTAA
*
24986 AT AT AA 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 AT
25028 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
25048 GATTACTGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25464 original size:128 final size:125
Alignment explanation
Indices: 25284--25584 Score: 530
Period size: 125 Copynumber: 2.4 Consensus size: 125
25274 TCATAATAAC
25284 AAAAAAAAGACACAAATGAACACTTAAATCTTTGACACTTCACCAATTTAAACAAATAATTTCAT
1 AAAAAAAAG-CACAAATGAACACTTAAATCTTTGACACTTCACCAATTTAAACAAATAATTTCAT
25349 ACTTACTAAAATCACAATAACAAAAAAAAAAAAAACACACACACACACACCAAATGAGCATGCA
65 ACTTACTAAAATCACAATAAC---AAAAAAAAAAACACACACACACACACCAAATGAGCATGCA
25413 AAAAAAAAGCACAAATGAACACTTAAATCTTTGACACTTCACCAATTTAAACAAATAATTTCATA
1 AAAAAAAAGCACAAATGAACACTTAAATCTTTGACACTTCACCAATTTAAACAAATAATTTCATA
* *
25478 CTTACTAAGATCACAATAACAAAAAAAAAAACACACACACACACACCAAATGAGCATGCC
66 CTTACTAAAATCACAATAACAAAAAAAAAAACACACACACACACACCAAATGAGCATGCA
* *
25538 AAAAAAAAGCACAAATGAACACTTAAATCTTTTACACTTCACTAATT
1 AAAAAAAAGCACAAATGAACACTTAAATCTTTGACACTTCACCAATT
25585 ATTGCTCTCT
Statistics
Matches: 168, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
125 84 0.50
128 75 0.45
129 9 0.05
ACGTcount: A:0.53, C:0.22, G:0.05, T:0.20
Consensus pattern (125 bp):
AAAAAAAAGCACAAATGAACACTTAAATCTTTGACACTTCACCAATTTAAACAAATAATTTCATA
CTTACTAAAATCACAATAACAAAAAAAAAAACACACACACACACACCAAATGAGCATGCA
Found at i:25632 original size:2 final size:2
Alignment explanation
Indices: 25625--25652 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25615 TTCATTCTTT
25625 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
25653 GCTGGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28148 original size:25 final size:25
Alignment explanation
Indices: 28111--28161 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
28101 TGACTACTCT
28111 AGGAGATGATGGGTGTACCCTATTA
1 AGGAGATGATGGGTGTACCCTATTA
*
28136 AGGAGATGTTGGGTGTACCCTATTA
1 AGGAGATGATGGGTGTACCCTATTA
28161 A
1 A
28162 AAAGAAGTCA
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:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
AGGAGATGATGGGTGTACCCTATTA
Found at i:31566 original size:17 final size:17
Alignment explanation
Indices: 31515--31557 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
31505 CTCCCTGAAG
31515 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
31532 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
31549 CCCGTGACC
1 CCCGTGACC
31558 TGCAAGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.49, G:0.23, T:0.12
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:44601 original size:8 final size:8
Alignment explanation
Indices: 44558--44608 Score: 61
Period size: 7 Copynumber: 6.4 Consensus size: 8
44548 AAAATGAGTG
44558 AAATGAAA
1 AAATGAAA
44566 AAAT-AAA
1 AAATGAAA
*
44573 AAATAAAAA
1 AAAT-GAAA
44582 AAAT-AAA
1 AAATGAAA
44589 AAATGAAA
1 AAATGAAA
44597 AAATGGAAA
1 AAAT-GAAA
44606 AAA
1 AAA
44609 AGAAGGGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.36
8 11 0.28
9 14 0.36
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:44607 original size:16 final size:15
Alignment explanation
Indices: 44558--44600 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
44548 AAAATGAGTG
44558 AAATGAAAAAATAAA
1 AAATGAAAAAATAAA
*
44573 AAATAAAAAAAATAAA
1 AAAT-GAAAAAATAAA
44589 AAATGAAAAAAT
1 AAATGAAAAAAT
44601 GGAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (15 bp):
AAATGAAAAAATAAA
Found at i:46105 original size:156 final size:154
Alignment explanation
Indices: 45928--46210 Score: 390
Period size: 156 Copynumber: 1.8 Consensus size: 154
45918 TCCGAGTCCC
* **
45928 ATACTCCTTAAAGAAAGAAGGGAGCGAACCC-GTTTGAAGATGTTCGAGTTCTATACTCTTTAAA
1 ATACTCCGTAAAGAAAGAAGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCTATACTCCCTAAA
* * **
45992 GAGAGAAAGAGCGAACCCGTAAGAAGAAGATTTTTGAGTTCTATACTCCCTGAAGAAAAAGGGAG
65 GAAAGAAAGAGAGAACCCGTAAGAAGAAGA-TTTCAAGTTCTAT-CT-CCTGAAGAAAAAGGGAG
46057 CGAACCCTGTCGAAGATGTTCGAGCTCT
127 CGAACCCTGTCGAAGATGTTCGAGCTCT
*
46085 ATACTCCGTAAAGAAA-AAGGGAGCGAACCCAGTTGAAGATGTTCGAGTTCTATACTCCCTGAAG
1 ATACTCCGTAAAGAAAGAAGGGAGCGAACCCAGTTGAAGATGTTCGAGTTCTATACTCCCTAAAG
** ** * *
46149 AAAGAGGGAGAGAACCCGTTTGCAGAAGATTTCAAGTTCTATCTCCTGAAGAAATAGGGAGC
66 AAAGAAAGAGAGAACCCGTAAGAAGAAGATTTCAAGTTCTATCTCCTGAAGAAAAAGGGAGC
46211 AGACGCGATT
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
153 17 0.15
154 2 0.02
155 11 0.10
156 65 0.59
157 16 0.14
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (154 bp):
ATACTCCGTAAAGAAAGAAGGGAGCGAACCCAGTTGAAGATGTTCGAGTTCTATACTCCCTAAAG
AAAGAAAGAGAGAACCCGTAAGAAGAAGATTTCAAGTTCTATCTCCTGAAGAAAAAGGGAGCGAA
CCCTGTCGAAGATGTTCGAGCTCT
Found at i:46177 original size:105 final size:103
Alignment explanation
Indices: 45762--46210 Score: 334
Period size: 105 Copynumber: 4.4 Consensus size: 103
45752 CACGATCGTT
* * *
45762 GAAGATGTTCGAGTTC-ATACTCTCTGAAGAAATAGGGAGC-AGA--CATG-TGAAGATA-TCGA
1 GAAGATGTTCGAGTTCTATACTC-CTAAAGAAAAAGGGAGCGA-ACCCAAGATGAAGATATTCGA
*
45821 GTTC--TACT-CCTTAAGAAAGAAGGGAGCGAACCCGTTT-
64 GTTCTATACTCCCTGAAGAAAG-AGGGAGCGAACCCGTTTC
*
45858 GAAGATGTTC--GTTC-ATACTCCT-AAGAAAGAGGGA--GAACCCGTGTTGAATCCG-TGAAGA
1 GAAGATGTTCGAGTTCTATACTCCTAAAGAAAAAGGGAGCGAACCC------AA---GATGAAGA
* * * * *
45916 TATCCGAGTCCCATACTCCTTAAAGAAAGAAGGGAGCGAACCCGTTT-
57 TATTCGAGTTCTATACTCCCTGAAGAAAG-AGGGAGCGAACCCGTTTC
* * *
45963 GAAGATGTTCGAGTTCTATACTCTTTAAAGAGAGAAA--GAGCGAACCCGTAAGAAGAAGATTTT
1 GAAGATGTTCGAGTTCTATACTC-CTAAAGA-A-AAAGGGAGCGAACCC--AAGATGAAGATATT
* * *
46026 TGAGTTCTATACTCCCTGAAGAAAAAGGGAGCGAACCC-TGTC
61 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTC
* * *
46068 GAAGATGTTCGAGCTCTATACTCCGTAAAGAAAAAGGGAGCGAACCC-AGTTGAAGATGTTCGAG
1 GAAGATGTTCGAGTTCTATACTCC-TAAAGAAAAAGGGAGCGAACCCAAGATGAAGATATTCGAG
*
46132 TTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGTTTGC
65 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT-C
* * *
46172 AGAAGAT-TTCAAGTTCTAT-CTCCTGAAGAAATAGGGAGC
1 -GAAGATGTTCGAGTTCTATACTCCTAAAGAAAAAGGGAGC
46211 AGACGCGATT
Statistics
Matches: 287, Mismatches: 33, Indels: 60
0.76 0.09 0.16
Matches are distributed among these distances:
90 1 0.00
91 1 0.00
92 12 0.04
93 2 0.01
94 10 0.03
96 10 0.03
98 1 0.00
101 9 0.03
102 65 0.23
103 9 0.03
104 18 0.06
105 95 0.33
106 26 0.09
107 4 0.01
108 8 0.03
109 1 0.00
110 6 0.02
111 1 0.00
112 8 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (103 bp):
GAAGATGTTCGAGTTCTATACTCCTAAAGAAAAAGGGAGCGAACCCAAGATGAAGATATTCGAGT
TCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTC
Found at i:46334 original size:55 final size:55
Alignment explanation
Indices: 45665--46525 Score: 484
Period size: 51 Copynumber: 16.4 Consensus size: 55
45655 ACATGTGAAG
45665 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGC-ATTGTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
* *
45719 G-T-GAGTC-TATACTCTCTGAAGAAATA-GG-GCAGACACGATCGTTGAAGA-T
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
*
45768 GTTCGAGT-TCATACTCTCTGAAGAAATAGGGAGCAGA--C-A-TG-TGAAGA-T
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
* * * * *
45816 -ATCGAG--TTCTACTC-CTTAAGAAAGAAGGGAGC-GAACCCG--T-TTGAAGA-T
1 GTTCGAGTCTTATACTCTCTGAAGAAA-TAGGGAGCAG-ACGCGATTGTTGAAGATT
* * * *
45864 GTTC--GT-TCATACTC-CT-AAGAAAGAGGGAG-A-ACCCGTGTTGAATCCGTGAAGA-T
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCG-ATTG--T---TGAAGATT
* * ** * * *
45917 ATCCGAGTCCCATACTC-CTTAAAGAAAGAAGGGAGC-GAACCCG--T-TTGAAGA-T
1 GTTCGAGTCTTATACTCTC-TGAAGAAA-TAGGGAGCAG-ACGCGATTGTTGAAGATT
* * * * ** * * **
45969 GTTCGAGT-TCTATACTCTTTAAAGAGAGAAAGAGC-GAACCCG-TAAGAAGAAGATT
1 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACGCGAT-TGTTGAAGATT
* * * * *
46024 -TTTGAGT-TCTATACTCCCTGAAGAAAAAGGGAGC-GAAC-C--CTGTCGAAGA-T
1 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACGCGATTGTTGAAGATT
* * *
46074 GTTCGAG-CTCTATACTC-CGTAAAGAAAAAGGGAGC-GAAC-CCA--GTTGAAGA-T
1 GTTCGAGTCT-TATACTCTC-TGAAGAAATAGGGAGCAG-ACGCGATTGTTGAAGATT
* * * * **
46125 GTTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAG-AGAACCCGTTTGCAGAAGA-T
1 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACGCGATTGTTGAAGATT
* *
46179 -TTCAAGT-TCTAT-CTC-CTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATT
1 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
* * * * * *
46231 GTTTGAGTCTTATACTCTCCGAGGGAAT-GGGAGCAGACACGATTGTTGAAAATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
* * * *
46285 GTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCCGACACGATTGTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
* * * * *
46340 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACGTGATTGATGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
* * *
46395 G-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
* *
46448 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTAAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
46503 GTTCG-GTCTTATACTCTCTGAAG
1 GTTCGAGTCTTATACTCTCTGAAG
46526 GACTATGGAG
Statistics
Matches: 660, Mismatches: 88, Indels: 118
0.76 0.10 0.14
Matches are distributed among these distances:
44 5 0.01
45 9 0.01
46 20 0.03
47 13 0.02
48 24 0.04
49 12 0.02
50 17 0.03
51 162 0.25
52 41 0.06
53 83 0.13
54 112 0.17
55 135 0.20
56 8 0.01
57 1 0.00
58 7 0.01
59 6 0.01
61 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (55 bp):
GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATT
Found at i:46442 original size:108 final size:109
Alignment explanation
Indices: 46194--46525 Score: 452
Period size: 108 Copynumber: 3.1 Consensus size: 109
46184 GTTCTATCTC
* * * * *
46194 CTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTTTGAGTCTTATACTCTCCGAGGGAAT
1 CTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAT
* * * *
46259 -GGGAGCAGACACGATTGTTGAAAATTGTTCGAGTCTTATACTCT
66 AGGGGGCAGACGCGATTGTTGAAGATTGTT-GGGTCTTATACTCT
* * * * *
46303 ATGCAGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAAT
1 CTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAT
* * *
46368 AGGGGGAAGACGTGATTGATGAAGATTG-TGGGTCTTATACTCT
66 AGGGGGCAGACGCGATTGTTGAAGATTGTTGGGTCTTATACTCT
* *
46411 CTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAT
1 CTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAT
* *
46476 AGGGGGCAGACGCGATTGTTAAAGATTGTTCGGTCTTATACTCT
66 AGGGGGCAGACGCGATTGTTGAAGATTGTTGGGTCTTATACTCT
46520 CTGAAG
1 CTGAAG
46526 GACTATGGAG
Statistics
Matches: 192, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
108 95 0.49
109 76 0.40
110 21 0.11
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (109 bp):
CTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAT
AGGGGGCAGACGCGATTGTTGAAGATTGTTGGGTCTTATACTCT
Found at i:47251 original size:17 final size:17
Alignment explanation
Indices: 47200--47242 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
47190 CCTCCTGAAG
47200 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
47217 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
47234 CCCGTGACC
1 CCCGTGACC
47243 TGCAAGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.49, G:0.23, T:0.12
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:49584 original size:30 final size:29
Alignment explanation
Indices: 49532--49592 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
49522 GAGTTAGACA
* *
49532 CAAATAATTTCAGTCCAGTATTATTCGAGT
1 CAAATAATTTCAATCCAATATTATT-GAGT
**
49562 CAAATAATTTCAATTTAATATTATTGAGT
1 CAAATAATTTCAATCCAATATTATTGAGT
49591 CA
1 CA
49593 TTTTTTTTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (29 bp):
CAAATAATTTCAATCCAATATTATTGAGT
Found at i:49904 original size:37 final size:37
Alignment explanation
Indices: 49863--49946 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
49853 TTAAATAAAC
*
49863 TATCTCAAATTTCACTAAGCCAATAATTATTTCATTT
1 TATCTCAAATTTCACTAAACCAATAATTATTTCATTT
* * *
49900 TATCTCAAATTTCACTAAATCAATATTTATTTGATTT
1 TATCTCAAATTTCACTAAACCAATAATTATTTCATTT
49937 TATCTCAAAT
1 TATCTCAAAT
49947 CTAAACCATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (37 bp):
TATCTCAAATTTCACTAAACCAATAATTATTTCATTT
Found at i:59677 original size:17 final size:16
Alignment explanation
Indices: 59655--59694 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
59645 TATAATAAAC
59655 TTATGATAATTAACTTA
1 TTATGATAATTAA-TTA
59672 TTATGATAATTAATTA
1 TTATGATAATTAATTA
*
59688 ATATGAT
1 TTATGAT
59695 TTTTTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (16 bp):
TTATGATAATTAATTA
Found at i:59689 original size:65 final size:64
Alignment explanation
Indices: 59618--59743 Score: 155
Period size: 65 Copynumber: 1.9 Consensus size: 64
59608 GTGAAGTTAC
* * * *
59618 AATTAATATAATTATGTTTTTTAAATTTATAATAAA-CTTATGATAATTAACTTATTATGATAAT
1 AATTAATATAATT-T-TTTTTGAAATTTATAATAAATATTATGATAATTAAATTAATATGATAAT
59682 T
64 T
* * *
59683 AATTAATATGATTTTTTTTGAATTTTATCATAAATTATTATGATAATTAAATTAATATGAT
1 AATTAATATAATTTTTTTTGAAATTTATAATAAA-TATTATGATAATTAAATTAATATGAT
59744 TACTTTTTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 17 0.33
64 1 0.02
65 34 0.65
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (64 bp):
AATTAATATAATTTTTTTTGAAATTTATAATAAATATTATGATAATTAAATTAATATGATAATT
Done.