Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004587.1 Hibiscus syriacus cultivar Beakdansim tig00010247_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: 83639
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:2444 original size:22 final size:23
Alignment explanation
Indices: 2419--2462 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2409 AATTAAGTTT
2419 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
2441 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
2463 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:3495 original size:49 final size:49
Alignment explanation
Indices: 3428--3709 Score: 357
Period size: 49 Copynumber: 5.8 Consensus size: 49
3418 TACAAATAAA
*
3428 TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCGTTAATAG
1 TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTAATAG
* * * * *
3477 TAGCACCACCATCACAAAGACATTAGATGTGCTAAATCATCGTTAATAG
1 TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTAATAG
* * * * * *
3526 TAGCACCACTGTCAAAAAGATGTTAGACGTGCTAGATCATCATTCATAG
1 TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTAATAG
* * * * * *
3575 TAGCACCACCATCACAAAGATGTCAGATGTGCTAAATCATAATTCATGG
1 TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTAATAG
* * *
3624 TAGCACTACCGTCACAAAGATGTCAGACGTGCTAAATCATCATTTATAG
1 TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTAATAG
* *
3673 TAGCACCACCGTCACAAAGACGTCAAACGTGTTAAAT
1 TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAAT
3710 GCTCCACCTC
Statistics
Matches: 202, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 202 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGCACCACCGTCACAAAGACGTCAGACGTGCTAAATCATCATTAATAG
Found at i:18705 original size:2 final size:2
Alignment explanation
Indices: 18698--18725 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18688 TGCTAATAGG
18698 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
18726 TAAATAAGAT
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):
AT
Found at i:19787 original size:16 final size:17
Alignment explanation
Indices: 19766--19817 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
19756 TTTTAAATTT
19766 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
19782 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
19797 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
19814 AATT
1 AATT
19818 TTTTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:22496 original size:59 final size:60
Alignment explanation
Indices: 22433--22591 Score: 173
Period size: 60 Copynumber: 2.7 Consensus size: 60
22423 AAGGTACTAC
* * *
22433 TTTGTTGAGTCATCTAATTATTAAAAGTTACAAAATGATCC-CT-AACTATAGGATATTAT
1 TTTGTTGAGTCATCTAACTACTAAAAGTTACAAAATGATCCTCTGAA-TATAGCATATTAT
* * * * *
22492 TTTGTTGAGTC-CCTCGACTACAAAAAGTTTCAAAATGATCCTTTGAATATAGCATATTAT
1 TTTGTTGAGTCATCT-AACTACTAAAAGTTACAAAATGATCCTCTGAATATAGCATATTAT
* *
22552 ATTGTTGAGCCCATC-AACTACTAAAAGTTACAAAATGATC
1 TTTGTTGAG-TCATCTAACTACTAAAAGTTACAAAATGATC
22592 ACCCGTCTAT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
58 2 0.02
59 32 0.40
60 43 0.53
61 3 0.04
62 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (60 bp):
TTTGTTGAGTCATCTAACTACTAAAAGTTACAAAATGATCCTCTGAATATAGCATATTAT
Found at i:22572 original size:60 final size:59
Alignment explanation
Indices: 22455--22591 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 59
22445 TCTAATTATT
* * *
22455 AAAAGTTACAAAATGATCCCTAACTATAGGATATTATTTTGTTGAGTCCCTCGACTACA
1 AAAAGTTACAAAATGATCCCTAACTATAGCATATTATATTGTTGAGTCCCTCAACTACA
* * *
22514 AAAAGTTTCAAAATGATCCTTTGAA-TATAGCATATTATATTGTTGAG-CCCATCAACTACT
1 AAAAGTTACAAAATGATCC-CT-AACTATAGCATATTATATTGTTGAGTCCC-TCAACTACA
22574 AAAAGTTACAAAATGATC
1 AAAAGTTACAAAATGATC
22592 ACCCGTCTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
59 21 0.31
60 45 0.66
61 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (59 bp):
AAAAGTTACAAAATGATCCCTAACTATAGCATATTATATTGTTGAGTCCCTCAACTACA
Found at i:22780 original size:28 final size:28
Alignment explanation
Indices: 22740--22796 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
22730 TTATTTTTTT
* *
22740 ACATTATGTCGTC-AAGCTAATACTTGAA
1 ACATTATGACGTCGAA-CCAATACTTGAA
22768 ACATTATGACGTCGAACCAATACTTGAA
1 ACATTATGACGTCGAACCAATACTTGAA
22796 A
1 A
22797 GTAACAATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (28 bp):
ACATTATGACGTCGAACCAATACTTGAA
Found at i:25783 original size:23 final size:23
Alignment explanation
Indices: 25726--25783 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
25716 AAAATTAGTG
25726 ATATGATA-TATATTACATCAATA
1 ATAT-ATATTATATTACATCAATA
* **
25749 AT-TAAATATATATTATGTCAATA
1 ATATATAT-TATATTACATCAATA
25772 ATATATATTATA
1 ATATATATTATA
25784 ATTCCTGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 2 0.07
22 1 0.04
23 21 0.75
24 4 0.14
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (23 bp):
ATATATATTATATTACATCAATA
Found at i:26415 original size:3 final size:3
Alignment explanation
Indices: 26409--26466 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
26399 CTACTACTAC
26409 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26457 TAT TAT TAT T
1 TAT TAT TAT T
26467 TATTGGGGTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:29408 original size:3 final size:3
Alignment explanation
Indices: 29400--29454 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
29390 TTTTACTTAA
*
29400 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT A-T ATAT ACT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
29443 ATT ATT ATT ATT
1 ATT ATT ATT ATT
29455 TAATAAATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:29464 original size:20 final size:20
Alignment explanation
Indices: 29397--29466 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 20
29387 TCATTTTACT
29397 TAAATTATTATTATTA-TT-A
1 TAAA-TATTATTATTATTTAA
* *
29416 TTATTATTA-TATTATTATATA
1 TAAATATTATTATTATT-TA-A
*
29437 TACTATATTATTATTATTTAA
1 TA-AATATTATTATTATTTAA
29458 TAAATATTA
1 TAAATATTA
29467 CAAACCCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
17 5 0.13
18 6 0.15
19 3 0.08
20 6 0.15
21 5 0.13
22 7 0.18
23 7 0.18
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAATATTATTATTATTTAA
Found at i:30860 original size:15 final size:15
Alignment explanation
Indices: 30840--30880 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
30830 AAATAAATGT
30840 TTATTTTTCAATAAA
1 TTATTTTTCAATAAA
* *
30855 TTATTTTT-AA-CAT
1 TTATTTTTCAATAAA
30868 TTATTTTTCAATA
1 TTATTTTTCAATA
30881 TCGAAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 9 0.43
14 4 0.19
15 8 0.38
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTTTTCAATAAA
Found at i:35851 original size:2 final size:2
Alignment explanation
Indices: 35844--35871 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35834 TGTTTCATTA
35844 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
35872 CCTTGGTTGT
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):
AT
Found at i:38275 original size:83 final size:83
Alignment explanation
Indices: 38136--38393 Score: 462
Period size: 83 Copynumber: 3.1 Consensus size: 83
38126 AAATGCCATA
* *
38136 TGCTCATAGCATATTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
38201 GAATTTGAGAGATGAATG
66 GAATTTGAGAGATGAATG
38219 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
38284 GAATTTGAGAGATGAATG
66 GAATTTGAGAGATGAATG
*
38302 TGCTCATAGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
* * *
38367 GAATTTAAAAGATGAATT
66 GAATTTGAGAGATGAATG
38385 TGCTCATAG
1 TGCTCATAG
38394 TAAAAATAAG
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 169 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATCATT
GAATTTGAGAGATGAATG
Found at i:41135 original size:22 final size:22
Alignment explanation
Indices: 41106--41160 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
41096 ATCTACACTC
41106 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
41128 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
41150 TTCAAAGATGA
1 TTCAAAGATGA
41161 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:42065 original size:76 final size:76
Alignment explanation
Indices: 41834--42473 Score: 1156
Period size: 76 Copynumber: 8.4 Consensus size: 76
41824 CTATTTCCCA
41834 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
41899 AACCTTCGGGT
66 AACCTTCGGGT
41910 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* **
41975 AAGCCTTAAGGT
65 AAACCTTCGGGT
41987 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42052 AACCTTCGGGT
66 AACCTTCGGGT
42063 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42128 AACCTTCGGGT
66 AACCTTCGGGT
42139 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
42204 AAGCCTTAGGGT
65 AAACCTTCGGGT
42216 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42281 AACCTTCGGGT
66 AACCTTCGGGT
42292 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
42356 AAGCCTTAGGGT
65 AAACCTTCGGGT
42368 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
42433 AGCCTTCGGGT
66 AACCTTCGGGT
* *
42444 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTT
42474 TTTAAGACCT
Statistics
Matches: 545, Mismatches: 15, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
75 11 0.02
76 376 0.69
77 158 0.29
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGT
Found at i:42176 original size:153 final size:152
Alignment explanation
Indices: 41834--42473 Score: 1156
Period size: 153 Copynumber: 4.2 Consensus size: 152
41824 CTATTTCCCA
41834 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
41899 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
66 AACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
* **
41964 TGATGTTTTCAAAGCCTTAAGGT
130 TGATGTTTTCAAAACCTTCGGGT
41987 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
42052 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
42117 GATGTTTTCAAAACCTTCGGGT
131 GATGTTTTCAAAACCTTCGGGT
42139 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
42204 AAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
42269 TGATGTTTTCAAAACCTTCGGGT
130 TGATGTTTTCAAAACCTTCGGGT
42292 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
42356 AAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
42421 TGATGTTTTCAAAGCCTTCGGGT
130 TGATGTTTTCAAAACCTTCGGGT
* *
42444 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTT
42474 TTTAAGACCT
Statistics
Matches: 478, Mismatches: 8, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
152 208 0.44
153 270 0.56
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (152 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAACCTTCGGGT
Found at i:42235 original size:229 final size:229
Alignment explanation
Indices: 41834--42473 Score: 1203
Period size: 229 Copynumber: 2.8 Consensus size: 229
41824 CTATTTCCCA
41834 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
41899 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
66 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
*
41964 TGATGTTTTCAAAGCCTTAAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
131 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
42029 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
196 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
42063 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42128 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
66 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
42193 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
131 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
42258 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
196 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
42292 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
42356 AAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTT
65 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTT
* * *
42420 TTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTT
130 TTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
42474 TTTAAGACCT
Statistics
Matches: 404, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
228 71 0.18
229 322 0.80
230 11 0.03
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (229 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
Found at i:42636 original size:3 final size:3
Alignment explanation
Indices: 42628--42688 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
42618 TTTTACTTAA
* *
42628 ATT ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT A-T ATT A-T ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
42675 ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT
42689 TAATAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44075 original size:15 final size:15
Alignment explanation
Indices: 44055--44095 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
44045 AAATAAATGT
44055 TTATTTTTCAATAAA
1 TTATTTTTCAATAAA
* *
44070 TTATTTTT-AA-CAT
1 TTATTTTTCAATAAA
44083 TTATTTTTCAATA
1 TTATTTTTCAATA
44096 TCGAAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 9 0.43
14 4 0.19
15 8 0.38
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTTTTCAATAAA
Found at i:45621 original size:17 final size:18
Alignment explanation
Indices: 45586--45621 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45576 ACTGTAGATT
*
45586 AAATATTATTTAGAATAA
1 AAATAATATTTAGAATAA
45604 AAATAATATTTA-AATAA
1 AAATAATATTTAGAATAA
45621 A
1 A
45622 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATAATATTTAGAATAA
Found at i:54828 original size:22 final size:21
Alignment explanation
Indices: 54792--54832 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
54782 TTTCATAATA
54792 ATAATTATAATTATTATTAAG
1 ATAATTATAATTATTATTAAG
*
54813 ATAATATATCATTATTATTA
1 ATAAT-TATAATTATTATTA
54833 TTTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAATTATAATTATTATTAAG
Found at i:54851 original size:2 final size:2
Alignment explanation
Indices: 54844--54939 Score: 192
Period size: 2 Copynumber: 48.0 Consensus size: 2
54834 TTATTATTAA
54844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54928 AT AT AT AT AT AT
1 AT AT AT AT AT AT
54940 TACAAATTAC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 94 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59037 original size:14 final size:14
Alignment explanation
Indices: 58999--59037 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
58989 ATTTTAAATA
*
58999 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
59013 TTTTACATTTGCAT
1 ATTTACATTTGCAT
59027 ATTTACATTTG
1 ATTTACATTTG
59038 GAATCTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:59127 original size:12 final size:13
Alignment explanation
Indices: 59110--59138 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59100 ACATTCACAT
59110 ATTTACATTT-GC
1 ATTTACATTTAGC
59122 ATTTACATTTAGC
1 ATTTACATTTAGC
59135 ATTT
1 ATTT
59139 TTTTCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTACATTTAGC
Found at i:59195 original size:28 final size:28
Alignment explanation
Indices: 59117--59197 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
59107 CATATTTACA
*
59117 TTTGCATTTACATTTAGCATTTTTTTCATT
1 TTTGCATTTACATTT-GCA-TATTTTCATT
* * * **
59147 TTTACGTTTATATTTATATATTTTCATT
1 TTTGCATTTACATTTGCATATTTTCATT
*
59175 TTTGCATTTGCATTTGCATATTT
1 TTTGCATTTACATTTGCATATTT
59198 GCATAATTAC
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
28 26 0.67
29 1 0.03
30 12 0.31
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTGCATTTACATTTGCATATTTTCATT
Found at i:61273 original size:90 final size:84
Alignment explanation
Indices: 61161--61319 Score: 201
Period size: 84 Copynumber: 1.8 Consensus size: 84
61151 GATACCCATG
*
61161 TTATATTAATATATACAATAAAGCTTGAGTTGTCCCACTAGAGCAAATGGTTAATCGCCCCGGCT
1 TTATATTAATATATACAATAAAGC-T-A----TCCCACTAGAGCAAATGGTTAATAGCCCCGGCT
61226 TTATGGATAATATTCAGCCAACCCA
60 TTATGGATAATATTCAGCCAACCCA
* ** * * *
61251 TTATATTATTATATGTAATAAAGCTATCCCTCTAGAGCAATTGGTTAATAGCCCTGGCTTTATGG
1 TTATATTAATATATACAATAAAGCTATCCCACTAGAGCAAATGGTTAATAGCCCCGGCTTTATGG
61316 ATAA
66 ATAA
61320 GTTTCAGTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
84 39 0.63
88 1 0.02
89 1 0.02
90 21 0.34
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (84 bp):
TTATATTAATATATACAATAAAGCTATCCCACTAGAGCAAATGGTTAATAGCCCCGGCTTTATGG
ATAATATTCAGCCAACCCA
Found at i:65843 original size:22 final size:22
Alignment explanation
Indices: 65817--65893 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
65807 ATCTACACTC
65817 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
65839 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
65861 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
65883 TTCAAAGATGA
1 TTCAAAGATGA
65894 AAGCTTTATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:66675 original size:165 final size:166
Alignment explanation
Indices: 66398--66728 Score: 558
Period size: 165 Copynumber: 2.0 Consensus size: 166
66388 AATCCACAAA
*
66398 AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAATGAG
1 AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAACGAG
**
66463 AAAACAATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAAC
66 AAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAAC
*
66528 GATTTCCTTAG-TTTTTTACTTAGTAAACTATTTCC
131 GATTTCCTTAGTTTTTTTACTTAATAAACTATTTCC
* * **
66563 AACAGCCTTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAAATAACGAG
1 AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAACGAG
*
66627 AAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAGAAATGAAATTGTTGAAAAGTAAGAAAA
66 AAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTA-AAATGAAATTGTTGAAAAGTAAGAAAA
66692 CGATTTCCTTAGTTTTTTTACTTAATAAACTATTTCC
130 CGATTTCCTTAGTTTTTTTACTTAATAAACTATTTCC
66729 CACATCTGTA
Statistics
Matches: 155, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
164 45 0.29
165 87 0.56
166 23 0.15
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (166 bp):
AACAACCTTATCTTAAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAACGAG
AAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAAC
GATTTCCTTAGTTTTTTTACTTAATAAACTATTTCC
Found at i:66830 original size:76 final size:76
Alignment explanation
Indices: 66731--67763 Score: 1834
Period size: 76 Copynumber: 13.6 Consensus size: 76
66721 CTATTTCCCA
* *
66731 CATCTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66796 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
66807 CATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
66872 AGCCTTAAGGT
66 AGCCTTAGGGT
* * *
66883 CATTTGTAATTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66948 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
66959 CATCTGTAAGTCCTACAGTGCAAGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67024 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
67035 CATCTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67100 AGCCTTAGGGT
66 AGCCTTAGGGT
67111 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67176 AGCCTTAGGGT
66 AGCCTTAGGGT
*
67187 CATCTGTAAGTCCTACAGTGCTTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67252 AGCCTTAGGGT
66 AGCCTTAGGGT
*
67263 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67328 AGCCTTAGGGT
66 AGCCTTAGGGT
*
67339 CATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67404 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
67415 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCTGGAGTTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67480 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
67491 CATCTGTAAGTCCTACAGTGCCTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67556 AGCCTTAGGGT
66 AGCCTTAGGGT
*
67567 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67632 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
67643 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
67708 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
67719 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
67764 TCATCTGTAA
Statistics
Matches: 920, Mismatches: 37, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
75 8 0.01
76 912 0.99
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:67769 original size:46 final size:46
Alignment explanation
Indices: 67696--67799 Score: 165
Period size: 46 Copynumber: 2.3 Consensus size: 46
67686 GGGAGCTTTT
* * *
67696 TGATGTTTT-TAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
*
67741 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
67787 TGATGTTTTCAAA
1 TGATGTTTTCAAA
67800 CATTTCCATC
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 9 0.17
46 45 0.83
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (46 bp):
TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:67939 original size:3 final size:3
Alignment explanation
Indices: 67927--67974 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
67917 CATAATAATA
* * *
67927 ATT ATA ATT ATT ATT AAT ATA ATAT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT ATT
67974 A
1 A
67975 AATATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 32 0.86
4 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:67945 original size:22 final size:22
Alignment explanation
Indices: 67919--67964 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
67909 AATTTTTTCA
67919 TAATAATAAT-TATAATTATTAT
1 TAAT-ATAATATATAATTATTAT
*
67941 TAATATAATATATTATTATTAT
1 TAATATAATATATAATTATTAT
67963 TA
1 TA
67965 TTTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATAATATATAATTATTAT
Found at i:67954 original size:16 final size:16
Alignment explanation
Indices: 67929--68009 Score: 74
Period size: 16 Copynumber: 4.8 Consensus size: 16
67919 TAATAATAAT
67929 TATAAT-TATTATTAA
1 TATAATATATTATTAA
*
67944 TATAATATATTATTAT
1 TATAATATATTATTAA
* *
67960 TATTATTTATTATTAAA
1 TATAATATATTATT-AA
67977 TATATATATATATATATATA
1 TATA-ATATAT-TAT-TA-A
67997 TATATATATATTA
1 TATA-ATATATTA
68010 CAAATTACAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.11
16 20 0.37
17 4 0.07
18 5 0.09
19 6 0.11
20 13 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATAATATATTATTAA
Found at i:67978 original size:28 final size:28
Alignment explanation
Indices: 67918--67990 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
67908 TAATTTTTTC
*
67918 ATAATA-ATAATTATAATTATTATTAAT
1 ATAATATATTATTATAATTATTATTAAT
* *
67945 ATAATATATTATTATTATTATTTATTATT
1 ATAATATATTATTATAATTA-TTATTAAT
67974 A-AATATATATATATATA
1 ATAATATAT-TAT-TATA
67991 TATATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 6 0.16
28 18 0.47
29 11 0.29
30 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAATATATTATTATAATTATTATTAAT
Found at i:67983 original size:2 final size:2
Alignment explanation
Indices: 67976--68007 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
67966 TTATTATTAA
67976 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
68008 TACAAATTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68912 original size:4 final size:4
Alignment explanation
Indices: 68905--68941 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
68895 ATATATATAA
*
68905 TATT TATT TATT TATT TATT TATT CTATT TGTT TATT
1 TATT TATT TATT TATT TATT TATT -TATT TATT TATT
68942 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:70786 original size:15 final size:16
Alignment explanation
Indices: 70753--70790 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
70743 CTCAATTATC
*
70753 AAAATAAAATAAATTA
1 AAAATAAAATAAATAA
*
70769 AAAATATAAT-AATAA
1 AAAATAAAATAAATAA
70784 AAAATAA
1 AAAATAA
70791 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAAAATAAATAA
Found at i:71168 original size:17 final size:17
Alignment explanation
Indices: 71146--71191 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
71136 AATATGTGTC
* *
71146 ATCCCCTTAAGCAGCGT
1 ATCCCCTTAAACAACGT
71163 ATCCCCTTAAACAACGT
1 ATCCCCTTAAACAACGT
*
71180 ATCTCCTTAAAC
1 ATCCCCTTAAAC
71192 CAACAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (17 bp):
ATCCCCTTAAACAACGT
Found at i:74256 original size:13 final size:13
Alignment explanation
Indices: 74228--74266 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
74218 TTGGAAAGGT
*
74228 TTTGAAAA-ACTA
1 TTTGAAAATAATA
74240 TTTGAAAATAATA
1 TTTGAAAATAATA
*
74253 TTTGTAAATAATA
1 TTTGAAAATAATA
74266 T
1 T
74267 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Done.