Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000486.1 Hibiscus syriacus cultivar Beakdansim tig00000928_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: 73556
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:5988 original size:23 final size:25
Alignment explanation
Indices: 5961--6019 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
5951 TTAGACTAAT
5961 TCAGTGGAAA-TT-AGATGGGTGTA
1 TCAGTGGAAAGTTCAGATGGGTGTA
* *
5984 TCAGTGAAAAGTTCAGATTGGTGTA
1 TCAGTGGAAAGTTCAGATGGGTGTA
*
6009 TCGGTGAGAAA
1 TCAGTG-GAAA
6020 ATAGCCATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 9 0.31
24 2 0.07
25 15 0.52
26 3 0.10
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.29
Consensus pattern (25 bp):
TCAGTGGAAAGTTCAGATGGGTGTA
Found at i:9855 original size:21 final size:21
Alignment explanation
Indices: 9829--9895 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
9819 AATTCGCGTT
9829 GCGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
*
9850 GTGATTTTCAACTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
*
9871 GCGATTTTCAATTATCGCAAC
1 GCGATTTTCAACTATCGCAAC
9892 GCGA
1 GCGA
9896 AATGCAACGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (21 bp):
GCGATTTTCAACTATCGCAAC
Found at i:27684 original size:18 final size:17
Alignment explanation
Indices: 27661--27703 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
27651 ATATATACAT
27661 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
27679 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
27696 ATAA-AATA
1 ATAATAATA
27704 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:29040 original size:105 final size:105
Alignment explanation
Indices: 28853--29407 Score: 897
Period size: 105 Copynumber: 5.3 Consensus size: 105
28843 GCATTGTTCA
* * ** *
28853 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
28913 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
28953 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
29018 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
29058 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
29123 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
29163 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
29228 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
29268 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
29333 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
29373 GAGTGCCACGATATCC-TCTGTCGTGGAGTTGAAAT
1 GAGT-CCA--ATATCCTTC-GTTGTGAAGTTGAAAT
29408 CGCGGATGGC
Statistics
Matches: 429, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
100 36 0.08
101 1 0.00
102 1 0.00
104 5 0.01
105 361 0.84
106 3 0.01
107 2 0.00
108 20 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:30181 original size:64 final size:66
Alignment explanation
Indices: 29975--30464 Score: 271
Period size: 73 Copynumber: 7.2 Consensus size: 66
29965 AAAGAGATAG
* * * *
29975 AATTCGTTTTAAGGGAAAT-GATCTCAAAGATATATGTTGTTTCATGAGAAACGGTCTCAAGGGA
1 AATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-T-T-TTGTTTCAAGAGAAACTGTCTCAAGGGA
*
30039 AACAA
62 GACAA
** * *
30044 AATTATGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGTAACTATCTCAAGGGAGA
1 AATT-TGTTTTAAGGGAAATAAATTCAAAGATTTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGA
30109 CAA
64 CAA
* ** *
30112 AATTTGTTTT-AGGGAAATAAATTCAAAGA-TTTTGTTTCAAGGGAAACTGTCTCAAGATAGACG
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
30175 A
66 A
* * * ** * * *
30176 AATTTGTTTCAAGAGAAACT--GTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCA
1 AATTTGTTTTAAGGGAAA-TAAAT-TC-A-A-AG----ATTTTTGTTTCAAGAGAAACTGTCTCA
*
30239 AGGGAGACGA
57 AGGGAGACAA
* * * * * * * *
30249 AATTTGTTTCAAAGAAAACATATTCAAATA-TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
30313 A
66 A
* * * * * * *
30314 AATTTATTTCAAGAGAAACT--GTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCA
1 AATTTGTTTTAAGGGAAA-TAAAT-TC-A-A-AG----ATTTTTGTTTCAAGAGAAACTGTCTCA
*
30377 AGAGAGACAA
57 AGGGAGACAA
* * *** * * *
30387 AATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAC-
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
30450 A
66 A
30451 AATCTTGTTTTAAG
1 AAT-TTGTTTTAAG
30465 AAAAACAATC
Statistics
Matches: 335, Mismatches: 57, Indels: 62
0.74 0.13 0.14
Matches are distributed among these distances:
64 41 0.12
65 93 0.28
66 21 0.06
67 9 0.03
68 35 0.10
69 5 0.01
70 22 0.07
71 4 0.01
72 5 0.01
73 98 0.29
74 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (66 bp):
AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
A
Found at i:30194 original size:36 final size:36
Alignment explanation
Indices: 30142--30404 Score: 274
Period size: 36 Copynumber: 7.4 Consensus size: 36
30132 ATTCAAAGAT
* * *
30142 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
30178 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * *
30214 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
30251 TTTGTTTCAA-AGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
30280 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
30316 TTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
30352 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
30389 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGAGAAA
30405 TGTTTTCAAT
Statistics
Matches: 190, Mismatches: 24, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 2 0.01
31 1 0.01
34 1 0.01
35 3 0.02
36 98 0.52
37 66 0.35
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:30293 original size:138 final size:136
Alignment explanation
Indices: 30092--30470 Score: 483
Period size: 138 Copynumber: 2.8 Consensus size: 136
30082 TTTCAAGAGT
* * *
30092 AACTATCTCAAGGGAGACAAAATTTGTTTTAGGGAAATAA-ATTCAAAGATTTTGTTTCAAGGGA
1 AACTATCTCAAGGGAGACAAAATTTGTTTCAAGGAAA-AATATTCAAATATTTTGTTTCAAGGGA
*
30156 AACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
65 AACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
30221 CCAAAAGA
129 CCAAAAGA
* * *
30229 AACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGA
1 AACTATCTCAAGGGAGACAAAATTTGTTTCAAGGAAAA-ATATTCAAATATTTTGTTTCAAGGGA
* * *
30294 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTT
65 AACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
* **
30359 TCAAGGGA
129 CCAAAAGA
* * ** * * *
30367 AACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATGTTTTC-AATGTTTATGTTTCAAGAG
1 AACTATCTCAAGGGAGACAAAATTTGTTTCAA-GGAAAAATATTCAAATATTT-TGTTTCAAGGG
* *
30431 AAACTGTCTCAAGAGAGACAAATCTTGTTTTAAGAAAAAC
64 AAACTGTCTCAAGAGAGACAAAT-TTGTTTCAAGAGAAAC
30471 AATCATGAGT
Statistics
Matches: 210, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
136 1 0.00
137 43 0.20
138 162 0.77
139 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (136 bp):
AACTATCTCAAGGGAGACAAAATTTGTTTCAAGGAAAAATATTCAAATATTTTGTTTCAAGGGAA
ACTGTCTCAAGAGAGACAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCC
AAAAGA
Found at i:30308 original size:102 final size:102
Alignment explanation
Indices: 30178--30362 Score: 300
Period size: 102 Copynumber: 1.8 Consensus size: 102
30168 ATAGACGAAA
*
30178 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAG
*
30243 AGACGAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
65 AGACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * *
30280 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
30345 GACAAAATTTTGTTTCAA
66 GACAAAATTTTGTTTCAA
30363 GGGAAACTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
101 28 0.37
102 48 0.63
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:30923 original size:17 final size:17
Alignment explanation
Indices: 30898--30931 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30888 GTTGAATCCC
*
30898 CAAATATGCCCCAATAT
1 CAAAAATGCCCCAATAT
30915 CAAAAATGCCCCAATAT
1 CAAAAATGCCCCAATAT
30932 TGATGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (17 bp):
CAAAAATGCCCCAATAT
Found at i:31369 original size:22 final size:22
Alignment explanation
Indices: 31343--31391 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
31333 TTGTGTTTGG
* *
31343 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTGGATGC
31365 TCAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTGGATGC
31387 TCAAA
1 TCAAA
31392 AGATTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
TCAAAGGTTTGACATTGGATGC
Found at i:31398 original size:22 final size:22
Alignment explanation
Indices: 31355--31398 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31345 AAAGGTTTGG
* * *
31355 CATTTGATGCTCAAAGGTTTGA
1 CATTGGATGCTCAAAAGATTGA
31377 CATTGGATGCTCAAAAGATTGA
1 CATTGGATGCTCAAAAGATTGA
31399 TGGGGTAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
CATTGGATGCTCAAAAGATTGA
Found at i:32052 original size:22 final size:22
Alignment explanation
Indices: 32027--32115 Score: 72
Period size: 24 Copynumber: 3.8 Consensus size: 22
32017 TTTTTGTCCC
*
32027 TTTTTCTTTTTGATTTTTGCTT
1 TTTTTCTTTTTTATTTTTGCTT
*
32049 TTTTTCCTTTTGTTATTGTTT-CTC
1 TTTTT-CTTTT-TTATT-TTTGCTT
*
32073 TTTTTCTTTGTTTTTTTTTTGCTT
1 TTTTTC-TT-TTTTATTTTTGCTT
* *
32097 TTTTGCTTCTTTTCTTTTT
1 TTTTTCTT-TTTTATTTTT
32116 TGTTCTTGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 5 0.09
23 20 0.37
24 24 0.44
25 5 0.09
ACGTcount: A:0.02, C:0.12, G:0.08, T:0.78
Consensus pattern (22 bp):
TTTTTCTTTTTTATTTTTGCTT
Found at i:32113 original size:16 final size:16
Alignment explanation
Indices: 32041--32122 Score: 57
Period size: 16 Copynumber: 5.1 Consensus size: 16
32031 TCTTTTTGAT
*
32041 TTTTGCTTTTTT-TCC
1 TTTTGCTTTTTTGTTC
32056 TTTTG-TTATTGTT-TCTC
1 TTTTGCTT-TT-TTGT-TC
* *
32073 TTTTTCTTTGTTT-TTT
1 TTTTGCTTT-TTTGTTC
32089 TTTTGCTTTTTTGCTTC
1 TTTTGCTTTTTTG-TTC
32106 TTTT-CTTTTTTGTTC
1 TTTTGCTTTTTTGTTC
32121 TT
1 TT
32123 GATTGGATCT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.04
15 15 0.27
16 20 0.36
17 15 0.27
18 3 0.05
ACGTcount: A:0.01, C:0.13, G:0.09, T:0.77
Consensus pattern (16 bp):
TTTTGCTTTTTTGTTC
Found at i:33860 original size:18 final size:18
Alignment explanation
Indices: 33837--33876 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
33827 ATTAGTCTTT
33837 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
33855 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
33873 CAGA
1 CAGA
33877 CTTGAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (18 bp):
CAGAAGTGGATGTGAATC
Found at i:35937 original size:2 final size:2
Alignment explanation
Indices: 35926--35955 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
35916 AAAGGAAAAA
*
35926 AT AT AA 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
35956 CAAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:36153 original size:3 final size:3
Alignment explanation
Indices: 36145--36202 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
36135 GTTTTTTAAA
* * *
36145 AAT AAT AAT AAT -AT AAT AAT AAT GAAT AAT AAA AAA AAG AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
36189 AAT AA- AA- AAT AAT A
1 AAT AAT AAT AAT AAT A
36203 TAAATATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 8 0.16
3 38 0.78
4 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:36479 original size:18 final size:17
Alignment explanation
Indices: 36456--36498 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
36446 ATATATACAT
36456 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
36474 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
36491 ATAA-AATA
1 ATAATAATA
36499 TTCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:37490 original size:15 final size:15
Alignment explanation
Indices: 37470--37498 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37460 ATTACCAATC
37470 TTTAAATTTAAAATA
1 TTTAAATTTAAAATA
37485 TTTAAATTTAAAAT
1 TTTAAATTTAAAAT
37499 GCAACGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAATTTAAAATA
Found at i:39298 original size:30 final size:30
Alignment explanation
Indices: 39259--39324 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
39249 GTATGACTAT
*
39259 AATGAGAGAATGTATAAATAACAATGACCA
1 AATGTGAGAATGTATAAATAACAATGACCA
39289 AATGTGAGAATGTATAAATAACAATGACCA
1 AATGTGAGAATGTATAAATAACAATGACCA
39319 AATGTG
1 AATGTG
39325 TAATTATACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (30 bp):
AATGTGAGAATGTATAAATAACAATGACCA
Found at i:40312 original size:17 final size:19
Alignment explanation
Indices: 40290--40325 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
40280 ACTTTTGTAA
40290 TAAAAT-ATTTA-ATTTTT
1 TAAAATAATTTATATTTTT
40307 TAAAATAATTTATATTTTT
1 TAAAATAATTTATATTTTT
40326 AATAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TAAAATAATTTATATTTTT
Found at i:40332 original size:20 final size:19
Alignment explanation
Indices: 40282--40334 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
40272 TGATTAATAC
40282 TTTTGTAATAAA-ATATTTAA
1 TTTT-TAATAAATA-ATTTAA
*
40302 TTTTTTA-AAATAATTTATA
1 TTTTTAATAAATAATTTA-A
40321 TTTTTAATAAATAA
1 TTTTTAATAAATAA
40335 AGTTTTGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTTAATAAATAATTTAA
Found at i:40771 original size:38 final size:38
Alignment explanation
Indices: 40706--40831 Score: 189
Period size: 38 Copynumber: 3.3 Consensus size: 38
40696 TACTTTGATG
* * * * *
40706 CTGAATCATTCAGCACTGTTCTGCTGAATCAGTCATCA
1 CTGAATCATTCATCACCGTTTTACTGAATCAGTCAACA
*
40744 CTAAATCATTCATCACCGTTTTACTGAATCAGTCAACA
1 CTGAATCATTCATCACCGTTTTACTGAATCAGTCAACA
*
40782 CTGAATCATTCATCACCGTTTTACTGAATCAGTCAGCA
1 CTGAATCATTCATCACCGTTTTACTGAATCAGTCAACA
40820 CTGAATCATTCA
1 CTGAATCATTCA
40832 GATGTGAGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (38 bp):
CTGAATCATTCATCACCGTTTTACTGAATCAGTCAACA
Found at i:41912 original size:29 final size:29
Alignment explanation
Indices: 41870--41943 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
41860 CTACAGTGAG
*
41870 CTTGGAGGTCGCCATGGCATCCGAGCGAC
1 CTTGGAGGTCGCCATGACATCCGAGCGAC
* *
41899 CTTGGAGGTTGCCATGACATCCGGGCGAC
1 CTTGGAGGTCGCCATGACATCCGAGCGAC
41928 CTTGGAGGTCGCCATG
1 CTTGGAGGTCGCCATG
41944 CGAGCGACCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.20
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGACATCCGAGCGAC
Found at i:42280 original size:14 final size:14
Alignment explanation
Indices: 42261--42288 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42251 GCTGGGCATC
42261 CGAGGCCATCCGAA
1 CGAGGCCATCCGAA
42275 CGAGGCCATCCGAA
1 CGAGGCCATCCGAA
42289 AGCATCCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (14 bp):
CGAGGCCATCCGAA
Found at i:42304 original size:20 final size:20
Alignment explanation
Indices: 42275--42328 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
42265 GCCATCCGAA
*
42275 CGAGGCCATCCGAAAGCATC
1 CGAGGCCATCCGAAAGAATC
* *
42295 CGATGCCATCCGAGAGAATC
1 CGAGGCCATCCGAAAGAATC
42315 CGAGGCCATCCGAA
1 CGAGGCCATCCGAA
42329 CGAGCTATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (20 bp):
CGAGGCCATCCGAAAGAATC
Found at i:42347 original size:23 final size:23
Alignment explanation
Indices: 42315--42373 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
42305 CGAGAGAATC
*
42315 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCATCCGAACGAGCTATG
*
42338 TGAGGGCATCCGAACGAGCTATG
1 CGAGGGCATCCGAACGAGCTATG
*
42361 CGATGGCATCCGA
1 CGAGGGCATCCGA
42374 GGGCAACCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.32, T:0.15
Consensus pattern (23 bp):
CGAGGGCATCCGAACGAGCTATG
Found at i:42376 original size:33 final size:33
Alignment explanation
Indices: 42339--42421 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
42329 CGAGCTATGT
* * * *
42339 GAGGGCATCCGAACGAGCTATGCGATGGCATCC
1 GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
42372 GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
1 GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
42405 GAGGGCAACCGAGCGAG
1 GAGGGCAACCGAGCGAG
42422 GGTAGGTCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.27, C:0.25, G:0.39, T:0.10
Consensus pattern (33 bp):
GAGGGCAACCGAGCGAGCTATGCGAGGGAATCC
Found at i:42653 original size:7 final size:7
Alignment explanation
Indices: 42637--42699 Score: 74
Period size: 7 Copynumber: 8.7 Consensus size: 7
42627 ATTAGATTAA
42637 AAAAAAT
1 AAAAAAT
*
42644 AAAGAAT
1 AAAAAAT
*
42651 AAAAAAGA
1 AAAAAA-T
42659 AAAAAAT
1 AAAAAAT
42666 AAAAAAATT
1 -AAAAAA-T
42675 AAAAAAT
1 AAAAAAT
42682 -AAAAAT
1 AAAAAAT
42688 AAAAAAT
1 AAAAAAT
42695 AAAAA
1 AAAAA
42700 TAATTTTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
6 6 0.12
7 23 0.48
8 18 0.38
9 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:42662 original size:22 final size:21
Alignment explanation
Indices: 42635--42699 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
42625 TTATTAGATT
*
42635 AAAAAAAATAAAGAATAAAAA
1 AAAAAAAATAAAAAATAAAAA
*
42656 AGAAAAAAATAAAAAAATTAAAA
1 A-AAAAAAAT-AAAAAATAAAAA
*
42679 AATAAAAATAAAAAATAAAAA
1 AAAAAAAATAAAAAATAAAAA
42700 TAATTTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.32
22 15 0.39
23 11 0.29
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (21 bp):
AAAAAAAATAAAAAATAAAAA
Found at i:42664 original size:8 final size:8
Alignment explanation
Indices: 42636--42699 Score: 66
Period size: 8 Copynumber: 8.6 Consensus size: 8
42626 TATTAGATTA
42636 AAAAAAAT
1 AAAAAAAT
*
42644 -AAAGAAT
1 AAAAAAAT
*
42651 -AAAAAAG
1 AAAAAAAT
42658 AAAAAAAT
1 AAAAAAAT
42666 AAAAAAAT
1 AAAAAAAT
*
42674 TAAAAAAT
1 AAAAAAAT
42682 --AAAAAT
1 AAAAAAAT
42688 -AAAAAAT
1 AAAAAAAT
42695 AAAAA
1 AAAAA
42700 TAATTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
6 6 0.12
7 17 0.35
8 25 0.52
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:42669 original size:13 final size:13
Alignment explanation
Indices: 42637--42702 Score: 82
Period size: 13 Copynumber: 5.2 Consensus size: 13
42627 ATTAGATTAA
42637 AAAAAATAAAGAAT
1 AAAAAATAAA-AAT
*
42651 AAAAAAGAAAAA-
1 AAAAAATAAAAAT
* *
42663 AATAAA-AAAATT
1 AAAAAATAAAAAT
42675 AAAAAATAAAAAT
1 AAAAAATAAAAAT
42688 AAAAAATAAAAAT
1 AAAAAATAAAAAT
42701 AA
1 AA
42703 TTTTTTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
11 4 0.09
12 10 0.22
13 22 0.49
14 9 0.20
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:42672 original size:31 final size:29
Alignment explanation
Indices: 42634--42699 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
42624 ATTATTAGAT
*
42634 TAAAAAAAATAAAGAATAAAAAAGAAAAAAA
1 TAAAAAAAATAAAAAAT-AAAAA-AAAAAAA
* *
42665 TAAAAAAATTAAAAAATAAAAATAAAAAA
1 TAAAAAAAATAAAAAATAAAAAAAAAAAA
42694 TAAAAA
1 TAAAAA
42700 TAATTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 12 0.38
30 5 0.16
31 15 0.47
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (29 bp):
TAAAAAAAATAAAAAATAAAAAAAAAAAA
Found at i:48886 original size:30 final size:30
Alignment explanation
Indices: 48850--48913 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
48840 TTCATGTCTC
48850 GAGTTTGAGCATGATATATATTAAGAGAAT
1 GAGTTTGAGCATGATATATATTAAGAGAAT
48880 GAGTTTGAGCATGATATATATTAAGAGAAT
1 GAGTTTGAGCATGATATATATTAAGAGAAT
48910 GAGT
1 GAGT
48914 ATTTATTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (30 bp):
GAGTTTGAGCATGATATATATTAAGAGAAT
Found at i:67212 original size:23 final size:23
Alignment explanation
Indices: 67182--67229 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
67172 TGTTGAAAAA
*
67182 TCAAAATTTTCAGCTTACAATGG
1 TCAAAATTTTCAGCTTACAAAGG
67205 TCAAAATTTTCAGCTTACAAAGG
1 TCAAAATTTTCAGCTTACAAAGG
67228 TC
1 TC
67230 TTATTTTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (23 bp):
TCAAAATTTTCAGCTTACAAAGG
Found at i:67974 original size:22 final size:24
Alignment explanation
Indices: 67961--68008 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
67951 AAAATAATAT
67961 AATAA-AAAA-AAGAAAAAAAGAA
1 AATAACAAAAGAAGAAAAAAAGAA
*
67983 AATAACAAAAGAAGAAAAAAAAAA
1 AATAACAAAAGAAGAAAAAAAGAA
68007 AA
1 AA
68009 CTAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 4 0.17
24 14 0.61
ACGTcount: A:0.85, C:0.02, G:0.08, T:0.04
Consensus pattern (24 bp):
AATAACAAAAGAAGAAAAAAAGAA
Found at i:67976 original size:8 final size:8
Alignment explanation
Indices: 67965--68008 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
67955 TAATATAATA
67965 AAAAAAAG
1 AAAAAAAG
67973 AAAAAAAG
1 AAAAAAAG
* *
67981 AAAATAAC
1 AAAAAAAG
*
67989 AAAAGAAG
1 AAAAAAAG
67997 AAAAAAA-
1 AAAAAAAG
68004 AAAAA
1 AAAAA
68009 CTAAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:67987 original size:25 final size:24
Alignment explanation
Indices: 67959--68014 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
67949 AGAAAATAAT
*
67959 ATAATAAAAAAAAGAAAAAAAGAAA
1 ATAA-AAAAAAAAGAAAAAAAAAAA
* *
67984 ATAACAAAAGAAGAAAAAAAAAAA
1 ATAAAAAAAAAAGAAAAAAAAAAA
68008 ACTAAAA
1 A-TAAAA
68015 TATAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.82, C:0.04, G:0.07, T:0.07
Consensus pattern (24 bp):
ATAAAAAAAAAAGAAAAAAAAAAA
Found at i:67994 original size:21 final size:22
Alignment explanation
Indices: 67968--68014 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
67958 TATAATAAAA
*
67968 AAAAGAA-AAAAAGAAAATAAC-
1 AAAAGAAGAAAAA-AAAAAAACT
67989 AAAAGAAGAAAAAAAAAAAACT
1 AAAAGAAGAAAAAAAAAAAACT
68011 AAAA
1 AAAA
68015 TATAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (22 bp):
AAAAGAAGAAAAAAAAAAAACT
Found at i:68001 original size:30 final size:29
Alignment explanation
Indices: 67949--68008 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
67939 ATAGAATAAG
* * *
67949 AGAAAATAATATAATAAAAAAAAGAAAAAA
1 AGAAAATAACAAAAGAAAAAAAA-AAAAAA
*
67979 AGAAAATAACAAAAGAAGAAAAAAAAAAA
1 AGAAAATAACAAAAGAAAAAAAAAAAAAA
68008 A
1 A
68009 CTAAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.08
Consensus pattern (29 bp):
AGAAAATAACAAAAGAAAAAAAAAAAAAA
Found at i:68031 original size:30 final size:30
Alignment explanation
Indices: 67966--68031 Score: 64
Period size: 30 Copynumber: 2.2 Consensus size: 30
67956 AATATAATAA
*
67966 AAAAAAGAAAAAAAGAAAATAACAAAAGAA
1 AAAAAAGAAAAAAAGAAAATAACAAAATAA
**
67996 GAAAAAA-AAAAAACTAAAATATA-AAAATAA
1 -AAAAAAGAAAAAAAGAAAATA-ACAAAATAA
*
68026 CAAAAA
1 AAAAAA
68032 CTAATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 5 0.17
30 18 0.60
31 7 0.23
ACGTcount: A:0.82, C:0.05, G:0.06, T:0.08
Consensus pattern (30 bp):
AAAAAAGAAAAAAAGAAAATAACAAAATAA
Found at i:68034 original size:23 final size:22
Alignment explanation
Indices: 67997--68041 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
67987 ACAAAAGAAG
67997 AAAAAAAAAAAACTAA-AATAT
1 AAAAAAAAAAAACTAATAATAT
68018 AAAAATAACAAAAACTAATAATAT
1 AAAAA-AA-AAAAACTAATAATAT
68042 GTAGCGCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 2 0.10
23 9 0.43
24 5 0.24
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAAAAAAAAAACTAATAATAT
Found at i:68495 original size:17 final size:17
Alignment explanation
Indices: 68473--68505 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
68463 CGTGTAGGTG
68473 AATATGTGATTTACGTT
1 AATATGTGATTTACGTT
68490 AATATGTGATTTACGT
1 AATATGTGATTTACGT
68506 CACGACGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45
Consensus pattern (17 bp):
AATATGTGATTTACGTT
Found at i:71039 original size:549 final size:543
Alignment explanation
Indices: 70007--71073 Score: 1754
Period size: 549 Copynumber: 1.9 Consensus size: 543
69997 GTTTGGTGTA
*
70007 GTTAACCTTGAAGTTCAGATGGTGAGCTAGGATATCGTGGGCTTCATTGAGTGACATGCTCCTAA
1 GTTAACCTTGAAGTTCAGATGGTGAGCTAGGATATCGTGGACTTCATTGAGTGACATGCTCCTAA
70072 TCATTTTCAATAGCCACTCGGAGGCCATGAACAAAAACCATTGCTACTGTTGATTCCGGAGTGTG
66 TCATTTTCAATAGCCAC-CGGAGGCCATGAACAAAAACCATTGCTACTGTTGATTCCGGAGTGTG
* *
70137 AGAGGACTCAAGCTTTCATGAAATTCCCCCTACCACATTCCATGGTGATTGCAGGCACAGACATC
130 AGAGGACTCAAGCTTTCATGAAATTCCCCCTACCACATTCCATGGTGATTGCAGGCAAAAACATC
70202 AATAGTTGCAGCCCCCAAACTATAGATAAATGCGCCATCGATGATATTTTTAAAGCTACCGGTGG
195 AATAGTTGCAGCCCCCAAACTATAGATAAATGCGCCATCGATGATATTTTTAAAGCTACCGGTGG
70267 AGGTTGTAACGGGGTTAGTGACTAAAATGAGAATTTTTGGAATTTGGTGATCAACGTACAAAAAA
260 AGGTTGTAACGGGGTTAGTGACTAAAATGAGAATTTTTGGAATTTGGTGATCAACGTACAAAAAA
*
70332 TGAAAAGTTAAAGGACTTAAATAGGAATATTTCAGTATTGGATTAAATTGTAATTAGGGAAATTT
325 TGAAAAGTTAAAGGACTTAAATAGGAATATTTCAGTATTGGATTAAATGGTAATTAGGGAAATTT
70397 TGAAGGGGTATTATGGTCTTTTTATTTAAAAGATATTTATCTCTGATTTAAAGAGATAAGCTTGT
390 TGAAGGGGTATTATGGTCTTTTTATTTAAAAGATATTTATCTCTGATTTAAAGAGATAAGCTTGT
*
70462 GGGTGAGGAAGTATTTGAAAAGCTTTCTTCTTCTTC-TCTTCTTCCCTTTGGTTTACTTCAAAAT
455 GGGTGAGGAAGTATTTGAAAAGCTTTCTTCTTCTTCTTCTTCTTCCCATTGGTTTACTTCAAAAT
70526 ATTAGCTGGCCCTATTCCATTGGT
520 ATTAGCTGGCCCTATTCCATTGGT
*
70550 GTTAACCTTGATGTTCAGATGGTGCA-CTAGGATATCGTGGACTTCATTGAGTGACATGCTCCTA
1 GTTAACCTTGAAGTTCAGATGGTG-AGCTAGGATATCGTGGACTTCATTGAGTGACATGCTCCTA
* * ** *
70614 ATTATTTTCAATAGCCA-CGGAGGCCATGAACAAAATCTGTTGCTATTGTTGATTCCGGAGTGTG
65 ATCATTTTCAATAGCCACCGGAGGCCATGAACAAAAACCATTGCTACTGTTGATTCCGGAGTGTG
70678 AGAGGACTCAAGCTTTCATGAAATT-CCCCTACCACCATTCCATGGTGATTGCAGGCAAAAACAT
130 AGAGGACTCAAGCTTTCATGAAATTCCCCCTACCA-CATTCCATGGTGATTGCAGGCAAAAACAT
* * *
70742 CAATAGTTGCATCCCCCGAACTATAGAT-AATGCGCCATCGATGATA-TTTTAAAGCTACCTGTG
194 CAATAGTTGCAGCCCCCAAACTATAGATAAATGCGCCATCGATGATATTTTTAAAGCTACCGGTG
*
70805 GAGGTTGTAACATCCAAAGATCGGGGTTATTGACTAAAATGAGAA-TTTTGGAATTTGGTGATCA
259 GAGGTTG-----T----A-A-CGGGGTTAGTGACTAAAATGAGAATTTTTGGAATTTGGTGATCA
* *
70869 ATGTA-AAAAAATTGAAAAGTTAAAGGACTTAAATAGGAATATTTCATTATTGGATTAAATGGTA
313 ACGTACAAAAAA-TGAAAAGTTAAAGGACTTAAATAGGAATATTTCAGTATTGGATTAAATGGTA
*
70933 ATTAGGGAAATTTTGAAGGGGTATTATGGTCTTTTTATTTAAAAGATATTTATCTCTTATTTAAA
377 ATTAGGGAAATTTTGAAGGGGTATTATGGTCTTTTTATTTAAAAGATATTTATCTCTGATTTAAA
*
70998 GAGATAAGCTTGTGGGTGAGGAAGTATTTGGAAAGCTTTCTTCTTCTTCTTTTCTTCTTCCCATT
442 GAGATAAGCTTGTGGGTGAGGAAGTATTTGAAAAGCTTTCTTCTTCTTC--TTCTTCTTCCCATT
71063 GGTTTACTTCA
505 GGTTTACTTCA
71074 CAAAGGTAAG
Statistics
Matches: 488, Mismatches: 19, Indels: 25
0.92 0.04 0.05
Matches are distributed among these distances:
539 23 0.05
540 27 0.06
541 121 0.25
543 76 0.16
544 2 0.00
548 7 0.01
549 186 0.38
550 23 0.05
552 23 0.05
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (543 bp):
GTTAACCTTGAAGTTCAGATGGTGAGCTAGGATATCGTGGACTTCATTGAGTGACATGCTCCTAA
TCATTTTCAATAGCCACCGGAGGCCATGAACAAAAACCATTGCTACTGTTGATTCCGGAGTGTGA
GAGGACTCAAGCTTTCATGAAATTCCCCCTACCACATTCCATGGTGATTGCAGGCAAAAACATCA
ATAGTTGCAGCCCCCAAACTATAGATAAATGCGCCATCGATGATATTTTTAAAGCTACCGGTGGA
GGTTGTAACGGGGTTAGTGACTAAAATGAGAATTTTTGGAATTTGGTGATCAACGTACAAAAAAT
GAAAAGTTAAAGGACTTAAATAGGAATATTTCAGTATTGGATTAAATGGTAATTAGGGAAATTTT
GAAGGGGTATTATGGTCTTTTTATTTAAAAGATATTTATCTCTGATTTAAAGAGATAAGCTTGTG
GGTGAGGAAGTATTTGAAAAGCTTTCTTCTTCTTCTTCTTCTTCCCATTGGTTTACTTCAAAATA
TTAGCTGGCCCTATTCCATTGGT
Found at i:71584 original size:21 final size:21
Alignment explanation
Indices: 71554--71605 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
71544 ATGCAAGGGG
* *
71554 TATCGGTACCTGTATGAACA-A
1 TATCGATACCTCTATGAA-AGA
*
71575 TATCGATACC-CTATGAAAGG
1 TATCGATACCTCTATGAAAGA
71595 TATCGATACCT
1 TATCGATACCT
71606 ATGTGGAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (21 bp):
TATCGATACCTCTATGAAAGA
Found at i:72454 original size:17 final size:18
Alignment explanation
Indices: 72425--72458 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
72415 GTTCTTAAGG
72425 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
72443 AGTGGT-CTTCGGGACA
1 AGTGGTCCTTCGGGACA
72459 AATTTACAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.21, G:0.35, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Done.