Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006576.1 Hibiscus syriacus cultivar Beakdansim tig00016109_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: 104970
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:11553 original size:100 final size:99
Alignment explanation
Indices: 11384--11574 Score: 301
Period size: 100 Copynumber: 1.9 Consensus size: 99
11374 ACTCTACTTG
* **
11384 ACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGTGTAATGAGCT
1 ACTAGCTCGGGGGTGGAAGATATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGTGTAATGAGAG
*
11449 GACTCCCCTAAAAGTATGCTAAAAAAATCTACCTA
66 GACTCCCCTAAAAGTAT-ATAAAAAAATCTACCTA
* *
11484 ACTAGCTCGGGGGTGGAAGATATGCTCCCTTTCACTTAGAGTGTGGGATGGTTGTGTGATGAGAG
1 ACTAGCTCGGGGGTGGAAGATATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGTGTAATGAGAG
**
11549 GACTCCCCTTGAAGTATATAAAAAAA
66 GACTCCCCTAAAAGTATATAAAAAAA
11575 GGAGTGAAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 8 0.10
100 75 0.90
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (99 bp):
ACTAGCTCGGGGGTGGAAGATATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGTGTAATGAGAG
GACTCCCCTAAAAGTATATAAAAAAATCTACCTA
Found at i:12729 original size:15 final size:14
Alignment explanation
Indices: 12700--12739 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
12690 TAATTAATGA
*
12700 TTAAGTATTTTTTG
1 TTAAGTGTTTTTTG
12714 TTAAGTGTTGTTTTG
1 TTAAGTGTT-TTTTG
*
12729 TTAACTGTTTT
1 TTAAGTGTTTT
12740 AACCTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.17, C:0.03, G:0.17, T:0.62
Consensus pattern (14 bp):
TTAAGTGTTTTTTG
Found at i:16558 original size:189 final size:192
Alignment explanation
Indices: 16179--16587 Score: 574
Period size: 190 Copynumber: 2.1 Consensus size: 192
16169 CATATAACAA
* * * * ** *
16179 TATCTTTTAATTTGAAATATTCAAAAGATAAAACTCCTTTTACCATTCAAACTTAAGTAAATATT
1 TATCATTTAATTTGCAATAGTCAAAAGATAAAACTCCTCTTACCATTCAAACTTAAACAAATATC
* * * *
16244 ATTTTAATTTGAAATATACAAAAGTATATAATTATTTTTAATATTCAAAGTTAAATAGGTAACAA
66 ATTTTAATTTGAAATATACAAAAGTATATAATTATTTATAATATTCAAAATTAAAAAGATAACAA
* * *
16309 ATACATTTTTAAGTTGACATATTCAAAGAGTAATTATACTACTAATATTCAAATTTAAAAA-
131 ATACATATTTAAATTGACATATTAAAAGAGTAATTATACTACTAATATTCAAATTTAAAAAT
* * * *
16370 TAT-ATTTAATTTGCAATGGTCAAAAGGT-AAACTCCTCTTACTATTCAAACTTAAACAGATATC
1 TATCATTTAATTTGCAATAGTCAAAAGATAAAACTCCTCTTACCATTCAAACTTAAACAAATATC
*
16433 ATTTTAATTTGAAATATACAAAAGTATATAATTATCTTATAATATTCAAAATTAAAAAGATATCA
66 ATTTTAATTTGAAATATACAAAAGTATATAATTAT-TTATAATATTCAAAATTAAAAAGATAACA
* *
16498 AATACATATTTAAATTGACTTATTAAAAGAGTAATTATCCTACTAATATTCAAA-TTAAAAAT
130 AATACATATTTAAATTGACATATTAAAAGAGTAATTATACTACTAATATTCAAATTTAAAAAT
* *
16560 TATCTTTTAATTTGCAGTAGTCAAAAGA
1 TATCATTTAATTTGCAATAGTCAAAAGA
16588 ACTATGTATT
Statistics
Matches: 190, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
189 71 0.37
190 96 0.51
191 23 0.12
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (192 bp):
TATCATTTAATTTGCAATAGTCAAAAGATAAAACTCCTCTTACCATTCAAACTTAAACAAATATC
ATTTTAATTTGAAATATACAAAAGTATATAATTATTTATAATATTCAAAATTAAAAAGATAACAA
ATACATATTTAAATTGACATATTAAAAGAGTAATTATACTACTAATATTCAAATTTAAAAAT
Found at i:21835 original size:132 final size:127
Alignment explanation
Indices: 21586--21946 Score: 378
Period size: 124 Copynumber: 2.8 Consensus size: 127
21576 TAATTTTAAG
* * * * * * *
21586 AGTGAAAACGATAATATATAATTATTTTCAATCGAGAATAAATGACCTTTCATGCATTAAAACAA
1 AGTGAAAATGATAATATCTAA-TATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAA
* * *
21651 TCATTTTTTTAC-CCTAACTGAAATAAAGAGATATTAATATTTCATCTTAAAATTC-ATTATCGA
65 TCA-TTTATTACTCC-AATTGAAATAAAGAGATATTACTATTTCATCTTAAAA-TCGATTA---A
21714 TTCA
124 TTCA
*
21718 AGTGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAT
1 AGTGAAAATGATAATATCTAAT-ATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAA
* * *
21783 TCATTTATTGCTCCAATTGAAATAAAGAGATAATACTATTTCATCTTAAAAATCGATTAATTCG
65 TCATTTATTACTCCAATTGAAATAAAGAGATATTACTATTTCATCTT-AAAATCGATTAATTCA
* * * *
21847 AGAG-AAATCGACAATATC-AA-A--TCCAATCGAAAATAAATGACCTCTCATACCTTAAAGCAG
1 AGTGAAAAT-GATAATATCTAATATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAA
* * *
21907 TCATTTATTACTACGATCGAAATGAAA-AGATATTACTATT
65 TCATTTATTACTCCAATTGAAAT-AAAGAGATATTACTATT
21947 CTCAACATCG
Statistics
Matches: 200, Mismatches: 23, Indels: 20
0.82 0.09 0.08
Matches are distributed among these distances:
124 68 0.34
125 3 0.01
126 1 0.00
128 6 0.03
129 15 0.08
131 39 0.19
132 68 0.34
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (127 bp):
AGTGAAAATGATAATATCTAATATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAAT
CATTTATTACTCCAATTGAAATAAAGAGATATTACTATTTCATCTTAAAATCGATTAATTCA
Found at i:22451 original size:6 final size:6
Alignment explanation
Indices: 22410--22449 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
22400 AACAACATGC
* *
22410 AAAAAT AAAAAT AAAAAT AAAAAT AAGACT AAAACAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAA
22450 CAATCAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:23961 original size:22 final size:22
Alignment explanation
Indices: 23934--23978 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23924 CACAGGTGGG
23934 TTGGGT-TATTGGGCTCTGGGTT
1 TTGGGTATATTGGGCT-TGGGTT
* *
23956 TTGGGTATGTTGGTCTTGGGTT
1 TTGGGTATATTGGGCTTGGGTT
23978 T
1 T
23979 ATAACTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.04, C:0.07, G:0.40, T:0.49
Consensus pattern (22 bp):
TTGGGTATATTGGGCTTGGGTT
Found at i:24046 original size:3 final size:3
Alignment explanation
Indices: 24038--24070 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
24028 CAAATTTAAT
24038 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24071 ATATAATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24455 original size:134 final size:132
Alignment explanation
Indices: 24278--24534 Score: 381
Period size: 134 Copynumber: 1.9 Consensus size: 132
24268 TTCTTTAGGG
*
24278 AAGATTAAATCGAGGTAGACTTGTTCCACTGATACTCAGGGAATATCAAATCTTGAAAGAGAGAG
1 AAGATTAAATCGAGGTAGACTTGTTCCACTGATACTCAGGGAATATCAAAT-ATGAAAGAGAGAG
* * *
24343 ATATGTTCCACTTTTT-CTAGAGGGAAAATCAGATCTGGGGTCATTGATTCATTTCACTGTCACT
65 ATATGTTCCACTTTTTCCT-GAGGGAAAATCAGAT-TGGGGACATTGATTCACTCCACTGTCACT
24407 CAATA
128 CAATA
* * * * *
24412 AAGATTGAATCGAGGTAGACTTGTTCCACTGTTACTCATGGAATATCAAATATGAAAGTGAGGGA
1 AAGATTAAATCGAGGTAGACTTGTTCCACTGATACTCAGGGAATATCAAATATGAAAGAGAGAGA
* *
24477 TATGTTCGACTTTTTCCTGAGGGAAAATCAGATTGGGGACGTTGATTCACTCCACTGT
66 TATGTTCCACTTTTTCCTGAGGGAAAATCAGATTGGGGACATTGATTCACTCCACTGT
24535 TGCTCAGGGA
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
132 21 0.19
133 40 0.36
134 50 0.45
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (132 bp):
AAGATTAAATCGAGGTAGACTTGTTCCACTGATACTCAGGGAATATCAAATATGAAAGAGAGAGA
TATGTTCCACTTTTTCCTGAGGGAAAATCAGATTGGGGACATTGATTCACTCCACTGTCACTCAA
TA
Found at i:25194 original size:4 final size:4
Alignment explanation
Indices: 25185--25249 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
25175 ATGTTAGAAG
* * * *
25185 AAAT AAAT AAAT AAAT AAAT AAA- ATACT AAAT AAGT CAAAT GAAAG GAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT -AAAT -AAAT AAAT
*
25235 AAAT AAAT TAAT AAA
1 AAAT AAAT AAAT AAA
25250 AAAAAATGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
3 1 0.02
4 39 0.83
5 7 0.15
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:26959 original size:15 final size:15
Alignment explanation
Indices: 26939--26971 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
26929 TGAAAACATG
26939 AAATAA-AAAATAAAT
1 AAATAATAAAAT-AAT
26954 AAATAATAAAATAAT
1 AAATAATAAAATAAT
26969 AAA
1 AAA
26972 ATATGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAATAAAATAAT
Found at i:27798 original size:105 final size:105
Alignment explanation
Indices: 27477--28358 Score: 1449
Period size: 105 Copynumber: 8.4 Consensus size: 105
27467 GTATTGTTCT
* * * * * * * *
27477 GAGTCCAATATCCTCCGCTGTGAAGTTGAAACTGGTTTTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
* * * *
27542 CTAACGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCCG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
27583 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCGGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
* ** *
27648 TCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTATTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
27689 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
27754 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
27794 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTAAAATTAAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
27859 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
27899 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
27964 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
28004 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
28069 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
28109 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
28174 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
28214 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTAATAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
28279 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
28319 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
28359 GGTAAAACCT
Statistics
Matches: 726, Mismatches: 49, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
105 591 0.81
106 135 0.19
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:29193 original size:11 final size:11
Alignment explanation
Indices: 29173--29210 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
29163 CGTTCTTCTC
29173 TTTTTGTTTTTG
1 TTTTT-TTTTTG
29185 TTTTTTTTTTG
1 TTTTTTTTTTG
29196 TTTTTTTTTT-
1 TTTTTTTTTTG
29206 TTTTT
1 TTTTT
29211 CAACTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 5 0.19
11 16 0.62
12 5 0.19
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:29195 original size:17 final size:16
Alignment explanation
Indices: 29173--29210 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
29163 CGTTCTTCTC
29173 TTTTTGTTTTTGTTTTT
1 TTTTTGTTTTT-TTTTT
29190 TTTTTGTTTTTTTTTT
1 TTTTTGTTTTTTTTTT
29206 TTTTT
1 TTTTT
29211 CAACTTAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (16 bp):
TTTTTGTTTTTTTTTT
Found at i:36357 original size:22 final size:21
Alignment explanation
Indices: 36335--36377 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
36325 ACGAATGTAA
36335 AAACATGGAAAATATAAAATAAAC
1 AAACAT-G-AAATATAAAAT-AAC
36359 AAACATGAAATATAAAATA
1 AAACATGAAATATAAAATA
36378 CAAGAAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.05
22 11 0.58
23 1 0.05
24 6 0.32
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (21 bp):
AAACATGAAATATAAAATAAC
Found at i:39509 original size:4 final size:4
Alignment explanation
Indices: 39500--39526 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
39490 ATGTTAGAAG
39500 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
39527 ATACTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:41435 original size:15 final size:15
Alignment explanation
Indices: 41415--41447 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
41405 TGAAAACAAG
41415 AAATAA-AAAATAAAT
1 AAATAATAAAAT-AAT
41430 AAATAATAAAATAAT
1 AAATAATAAAATAAT
41445 AAA
1 AAA
41448 ATATGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAATAAAATAAT
Found at i:42274 original size:105 final size:105
Alignment explanation
Indices: 41953--42834 Score: 1440
Period size: 105 Copynumber: 8.4 Consensus size: 105
41943 GTATTGTTCC
* * * * * * * *
41953 GAGTCCAATATCCTCCGCTGTGAAGTTGAAACTGGTTCTGGAACTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
* * * *
42018 CTAACGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCCG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** * *
42059 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCGGTTGATAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
* *** *
42124 TCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
42165 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
42230 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
42270 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
42335 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
42375 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
42440 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
42480 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
42545 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
42585 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
42650 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
42690 GAGTCCAATATCCTTCGTTTTGAAGTTGAAATTGGCTCTGAAATAAAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
42755 CAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
42795 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
42835 GGTAAAACAT
Statistics
Matches: 725, Mismatches: 50, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
105 593 0.82
106 132 0.18
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:43453 original size:4 final size:4
Alignment explanation
Indices: 43444--43520 Score: 68
Period size: 4 Copynumber: 19.0 Consensus size: 4
43434 ATGTTAGAAG
* * *
43444 AAAT AAAT AAAT AAAT AAAT AAA- ATAAT AAAT AAGT CAAAT GAAAG GAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT -AAAT -AAAT AAAT
* *
43494 AAAT AAAT TAAT AAAA AAAT AAA- AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
43521 GATGATAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
3 4 0.07
4 47 0.81
5 7 0.12
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:46272 original size:11 final size:10
Alignment explanation
Indices: 46245--46401 Score: 58
Period size: 11 Copynumber: 14.6 Consensus size: 10
46235 TTTCCATTCA
46245 TTCATTTTTT
1 TTCATTTTTT
46255 TTCATTTTTCT
1 TTCATTTTT-T
*
46266 TT--TATTTT
1 TTCATTTTTT
46274 TTCATTATTTCT
1 TTCATT-TTT-T
46286 TTC-TTTTTT
1 TTCATTTTTT
*
46295 CATT-ATTTATT
1 --TTCATTTTTT
*
46306 TTCTTTTCTTT
1 TTCATTT-TTT
46317 TTC-TTTTTCCGT
1 TTCATTTTT---T
*
46329 TTCTTTCCCTTTT
1 TTCATT---TTTT
46342 TTCATTTCTTT
1 TTCATTT-TTT
46353 TTCATTTTATT
1 TTCATTTT-TT
46364 TTC-TTCTTCTT
1 TTCATT-TT-TT
46375 TTCATTCATTTT
1 TTCATT--TTTT
*
46387 TTC-TTCTTT
1 TTCATTTTTT
46396 TTCATT
1 TTCATT
46402 CTTCAGGCAA
Statistics
Matches: 115, Mismatches: 9, Indels: 46
0.68 0.05 0.27
Matches are distributed among these distances:
8 3 0.03
9 15 0.13
10 25 0.22
11 44 0.38
12 15 0.13
13 10 0.09
16 3 0.03
ACGTcount: A:0.09, C:0.17, G:0.01, T:0.73
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:46273 original size:19 final size:19
Alignment explanation
Indices: 46249--46324 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
46239 CATTCATTCA
46249 TTTTTTTTCATT-TTTCTT
1 TTTTTTTTCATTATTTCTT
46267 TTATTTTTTCATTATTTCTT
1 TT-TTTTTTCATTATTTCTT
* *
46287 TCTTTTTTCATTATTT-AT
1 TTTTTTTTCATTATTTCTT
*
46305 TTTCTTTTC-TT-TTTCTT
1 TTTTTTTTCATTATTTCTT
46322 TTT
1 TTT
46325 CCGTTTCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.06
17 6 0.12
18 10 0.20
19 24 0.48
20 7 0.14
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTTCATTATTTCTT
Found at i:46331 original size:18 final size:18
Alignment explanation
Indices: 46310--46398 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 18
46300 TTTATTTTCT
*
46310 TTTCTTTTTCTTTTTCCG
1 TTTCTTTTTCTTTTTCCA
** *
46328 TTTCTTTCCCTTTTTTCA
1 TTTCTTTTTCTTTTTCCA
*
46346 TTTCTTTTTCATTTT--A
1 TTTCTTTTTCTTTTTCCA
* *
46362 TTTTCTTCTTCTTTTCATTCA
1 -TTTCTTTTTCTTTT--TCCA
46383 TTT-TTTCTTCTTTTTC
1 TTTCTTT-TTCTTTTTC
46399 ATTCTTCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
16 1 0.02
17 12 0.22
18 27 0.50
19 3 0.06
20 10 0.19
21 1 0.02
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCCA
Found at i:46360 original size:19 final size:18
Alignment explanation
Indices: 46223--46401 Score: 71
Period size: 19 Copynumber: 9.1 Consensus size: 18
46213 GTTTATTCTC
46223 TTTTTCTTTCTTTTTCCAT
1 TTTTTCTTTCTTTTT-CAT
**
46242 TCATTCATTT-TTTTTCA-
1 TTTTTC-TTTCTTTTTCAT
*
46259 TTTTTCTTTTATTTTTTCAT
1 TTTTTC-TTT-CTTTTTCAT
*
46279 TATTTCTTTCTTTTTTCATTATT
1 TTTTTCTTTC-TTTTTC---A-T
46302 TATTTTCTTTTCTTTTTC-T
1 T-TTTTC-TTTCTTTTTCAT
* * *
46321 TTTTCCGTTTC-TTTCCCT
1 TTTTTC-TTTCTTTTTCAT
46339 TTTTTCATTTCTTTTTCATTT
1 TTTTTC-TTTCTTTTTCA--T
46360 TATTTTCTTCTTCTTTTCATTCAT
1 T-TTTTC-T-TTC-TTT--TTCAT
46384 TTTTTC-TTCTTTTTCAT
1 TTTTTCTTTCTTTTTCAT
46401 T
1 T
46402 CTTCAGGCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 42
0.68 0.09 0.23
Matches are distributed among these distances:
17 17 0.14
18 20 0.16
19 34 0.27
20 11 0.09
21 2 0.02
22 7 0.06
23 10 0.08
24 15 0.12
25 4 0.03
26 4 0.03
ACGTcount: A:0.09, C:0.18, G:0.01, T:0.73
Consensus pattern (18 bp):
TTTTTCTTTCTTTTTCAT
Found at i:46366 original size:47 final size:46
Alignment explanation
Indices: 46281--46406 Score: 118
Period size: 47 Copynumber: 2.7 Consensus size: 46
46271 TTTTTCATTA
* * *
46281 TTTCTTT-CTTTTTTCATTATTTATTTTC-TTTTCTTTTTCTTTTTCCG
1 TTTCTTTCCTTTTTTCATT-TCT-TTTTCATTTTCATTTTCTTCTT-CG
*
46328 TTTCTTTCCCTTTTTTCATTTCTTTTTCATTTT-ATTTTCTTCTTCT
1 TTTCTTT-CCTTTTTTCATTTCTTTTTCATTTTCATTTTCTTCTTCG
* *
46374 TTTCATTCATTTTTTC--TTCTTTTTCATTCTTCA
1 TTTCTTTCCTTTTTTCATTTCTTTTTCATT-TTCA
46407 GGCAAAGTAC
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
43 12 0.18
44 2 0.03
45 9 0.13
46 7 0.10
47 21 0.31
48 6 0.09
49 11 0.16
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.71
Consensus pattern (46 bp):
TTTCTTTCCTTTTTTCATTTCTTTTTCATTTTCATTTTCTTCTTCG
Found at i:46370 original size:20 final size:20
Alignment explanation
Indices: 46347--46401 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
46337 CTTTTTTCAT
46347 TTCTTTTTCATT-TTATTTTC
1 TTCTTTTTCATTATT-TTTTC
46367 TTCTTCTTTTCATTCATTTTTTC
1 TTC-T-TTTTCATT-ATTTTTTC
46390 TTCTTTTTCATT
1 TTCTTTTTCATT
46402 CTTCAGGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.10
21 9 0.29
22 9 0.29
23 8 0.26
24 2 0.06
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (20 bp):
TTCTTTTTCATTATTTTTTC
Found at i:49951 original size:18 final size:18
Alignment explanation
Indices: 49928--49963 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
49918 CATATCAAAA
49928 ATATAATGAAAT-AATAAT
1 ATATAAT-AAATAAATAAT
49946 ATATAATAAATAAATAAT
1 ATATAATAAATAAATAAT
49964 GAAACAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATAATAAATAAATAAT
Found at i:52316 original size:22 final size:22
Alignment explanation
Indices: 52288--52332 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
52278 AAATTTATCC
* *
52288 CGAAGGACCATATAGATTGTCT
1 CGAAGGACCACATAAATTGTCT
52310 CGAAGGACCACATAAATTGTCT
1 CGAAGGACCACATAAATTGTCT
52332 C
1 C
52333 AAATGACCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (22 bp):
CGAAGGACCACATAAATTGTCT
Found at i:52340 original size:22 final size:22
Alignment explanation
Indices: 52290--52340 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
52280 ATTTATCCCG
* * *
52290 AAGGACCATATAGATTGTCTCG
1 AAGGACCACATAAATTGTCTCA
52312 AAGGACCACATAAATTGTCTCA
1 AAGGACCACATAAATTGTCTCA
*
52334 AATGACC
1 AAGGACC
52341 GCGTAGAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (22 bp):
AAGGACCACATAAATTGTCTCA
Found at i:53282 original size:3 final size:3
Alignment explanation
Indices: 53268--53318 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
53258 GTCACGAACC
*
53268 AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
53316 AAG
1 AAG
53319 TTAAAATGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:55531 original size:11 final size:11
Alignment explanation
Indices: 55511--55544 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
55501 ATGCGAAAAA
55511 GTAAATGCAAT
1 GTAAATGCAAT
**
55522 GTGGATGCAAT
1 GTAAATGCAAT
55533 GTAAATGCAAT
1 GTAAATGCAAT
55544 G
1 G
55545 CAAGGTGTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (11 bp):
GTAAATGCAAT
Found at i:60563 original size:14 final size:14
Alignment explanation
Indices: 60544--60574 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60534 TTTATACATA
60544 AATTTTAATTTTAT
1 AATTTTAATTTTAT
*
60558 AATTTTATTTTTAT
1 AATTTTAATTTTAT
60572 AAT
1 AAT
60575 ATTTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
AATTTTAATTTTAT
Found at i:60602 original size:24 final size:23
Alignment explanation
Indices: 60550--60607 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
60540 CATAAATTTT
*
60550 AATTTTATAATTTTATTTTTATA
1 AATTTTATAATTTTATTTATATA
*
60573 ATATTTTATAATATTTATTTA-ATTC
1 A-ATTTTATAAT-TTTATTTATA-TA
60598 AATTTTATAA
1 AATTTTATAA
60608 AAAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 20 0.67
25 9 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTTTATAATTTTATTTATATA
Found at i:60747 original size:17 final size:16
Alignment explanation
Indices: 60725--60768 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
60715 ATATTTTTTA
60725 AATTTTTTTAAAATTT
1 AATTTTTTTAAAATTT
*
60741 AATTTTTTTAATATTT
1 AATTTTTTTAAAATTT
*
60757 AATCTTTTTAAA
1 AATTTTTTTAAA
60769 TGTTCTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTTTTTTAAAATTT
Found at i:60778 original size:42 final size:41
Alignment explanation
Indices: 60719--60797 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
60709 TAATATATAT
* * * *
60719 TTTTTAAATTTTTTTAAAATTTAATTTTTTTAATATTTAATC
1 TTTTTAAATGTTCTTAAAATTTAA-ATTTTAAATATTTAATC
*
60761 TTTTTAAATGTTCTTAAATTTTAAATTTTAAATATTT
1 TTTTTAAATGTTCTTAAAATTTAAATTTTAAATATTT
60798 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 11 0.34
42 21 0.66
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (41 bp):
TTTTTAAATGTTCTTAAAATTTAAATTTTAAATATTTAATC
Found at i:60799 original size:17 final size:16
Alignment explanation
Indices: 60729--60805 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
60719 TTTTTAAATT
*
60729 TTTTTAAAATTTAAT-
1 TTTTTAAATTTTAATA
* *
60744 TTTTTTAATATTTAATC
1 TTTTTAAAT-TTTAATA
60761 TTTTTAAATGTTCTTAA-A
1 TTTTTAAA--TT-TTAATA
60779 -TTTTAAATTTTAAATA
1 TTTTTAAATTTT-AATA
60795 TTTTT-AATTTT
1 TTTTTAAATTTT
60806 TTCTAAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
14 2 0.04
15 11 0.22
16 13 0.26
17 18 0.36
18 1 0.02
19 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (16 bp):
TTTTTAAATTTTAATA
Found at i:60806 original size:17 final size:16
Alignment explanation
Indices: 60719--60806 Score: 61
Period size: 16 Copynumber: 5.3 Consensus size: 16
60709 TAATATATAT
*
60719 TTTTTAAATTTTTTTAA
1 TTTTT-AATATTTTTAA
** *
60736 AATTTAATTTTTTTAA
1 TTTTTAATATTTTTAA
* *
60752 TATTTAATCTTTTTAAA
1 TTTTTAATATTTTT-AA
*
60769 TGTTCTTAA-ATTTTAAA
1 T-TT-TTAATATTTTTAA
*
60786 TTTTAAATATTTTTAA
1 TTTTTAATATTTTTAA
60802 TTTTT
1 TTTTT
60807 TCTAAAAAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
15 3 0.05
16 36 0.63
17 9 0.16
18 5 0.09
19 4 0.07
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (16 bp):
TTTTTAATATTTTTAA
Found at i:68379 original size:10 final size:10
Alignment explanation
Indices: 68337--68399 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
68327 TATTATTCTT
68337 AGAAGAAAAATA
1 AGAAG-AAAA-A
68349 AGAAGAAAGAA
1 AGAAGAAA-AA
68360 A-AAGGAAAAA
1 AGAA-GAAAAA
68370 AGAAGAAAAA
1 AGAAGAAAAA
**
68380 AGAACTAAAA
1 AGAAGAAAAA
68390 AG-AGAAAAA
1 AGAAGAAAAA
68399 A
1 A
68400 AAATTGAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
9 6 0.14
10 21 0.48
11 11 0.25
12 6 0.14
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (10 bp):
AGAAGAAAAA
Found at i:68389 original size:21 final size:20
Alignment explanation
Indices: 68343--68401 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
68333 TCTTAGAAGA
*
68343 AAAATAAGAAGAAAGAAAAAGG
1 AAAA-AAGAAGAAA-AAAAACG
68365 AAAAAAGAAGAAAAAAGAAC-
1 AAAAAAGAAGAAAAAA-AACG
*
68385 TAAAAAG-AGAAAAAAAA
1 AAAAAAGAAGAAAAAAAA
68402 ATTGAATGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 9 0.26
21 11 0.32
22 4 0.12
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAGAAAAAAAACG
Found at i:69524 original size:77 final size:77
Alignment explanation
Indices: 69426--69664 Score: 204
Period size: 77 Copynumber: 3.1 Consensus size: 77
69416 TTCGATAAAA
* *
69426 AACTT-TTTCAACTTTGACTCATCTACCACAGAAGGAGGTGGAGCAACAATTATAGCAAAGAAGT
1 AACTTGTTT-AACTTTGGCTCATCTATCACAGAAGGAGGTGGAGCAACAATTATAGCAAAGAAGT
*
69490 TCATAATAAGAAG
65 TCATAATGAGAAG
* * * * * *
69503 AACTTGTTCT-GCTTTGGCTCATCCATCACAGAAGAAAGTGGAGCACCATTTCCA-ATG-AAAG-
1 AACTTGTT-TAACTTTGGCTCATCTATCACAGAAGGAGGTGGAGCAACAATT--ATA-GCAAAGA
*
69564 AGTTTATAATGAGAAG
62 AGTTCATAATGAGAAG
* * * * * *
69580 AACTTGTTTAACCTTAGCTCATCTATCACAAAAAGAGGTAGATCAA-AATT-TCCCAGCAAAGAA
1 AACTTGTTTAACTTTGGCTCATCTATCACAGAAGGAGGTGGAGCAACAATTAT---AGCAAAGAA
*
69643 ATTCATAATGAGAAG
63 GTTCATAATGAGAAG
69658 AACTTGT
1 AACTTGT
69665 GACTCAAGAA
Statistics
Matches: 126, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
76 5 0.04
77 90 0.71
78 28 0.22
79 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (77 bp):
AACTTGTTTAACTTTGGCTCATCTATCACAGAAGGAGGTGGAGCAACAATTATAGCAAAGAAGTT
CATAATGAGAAG
Found at i:74516 original size:27 final size:26
Alignment explanation
Indices: 74478--74533 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
74468 ATCAAAATAC
74478 TTTTGGTCATTTTACACTTTAGAGGCA
1 TTTTGGTCATTTTACACTTTAG-GGCA
*
74505 TTTTGGTTATTTTACACTTTAGGGCA
1 TTTTGGTCATTTTACACTTTAGGGCA
74531 TTT
1 TTT
74534 CTATAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (26 bp):
TTTTGGTCATTTTACACTTTAGGGCA
Found at i:83712 original size:19 final size:19
Alignment explanation
Indices: 83676--83715 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
83666 ATTGAATATA
83676 ATAAATAAAATTATTTATT
1 ATAAATAAAATTATTTATT
*
83695 ATAAA-AAACTTATATTATT
1 ATAAATAAAATTAT-TTATT
83714 AT
1 AT
83716 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAAATAAAATTATTTATT
Found at i:87937 original size:35 final size:35
Alignment explanation
Indices: 87897--87966 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
87887 TAAATAGATG
*
87897 AAAACACTACTTTTTCATGTCATAAATAAAATTAT
1 AAAACACTACTTTTTCATATCATAAATAAAATTAT
* **
87932 AAAACATTGTTTTTTCATATCATAAATAAAATTAT
1 AAAACACTACTTTTTCATATCATAAATAAAATTAT
87967 CTAAAAACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (35 bp):
AAAACACTACTTTTTCATATCATAAATAAAATTAT
Found at i:88587 original size:61 final size:61
Alignment explanation
Indices: 88490--88604 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 61
88480 TTCATTAAGC
* ** * * * *
88490 TTACACTCTATTGTTGATCTGAATGTGACACGTAAGGTTGTGCCCATCACTTACACTAGGT
1 TTACACTCTAGTACTGATCAGAATATGACACATAAGGTTGTGCCCACCACTTACACTAGGT
88551 TTACACTCTAGTACTGATCAGAATATGACACATAAGGTTGTGCCCACCACTTAC
1 TTACACTCTAGTACTGATCAGAATATGACACATAAGGTTGTGCCCACCACTTAC
88605 GCTAAGTGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (61 bp):
TTACACTCTAGTACTGATCAGAATATGACACATAAGGTTGTGCCCACCACTTACACTAGGT
Done.