Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006756.1 Hibiscus syriacus cultivar Beakdansim tig00017042_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: 88202
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:265 original size:12 final size:12
Alignment explanation
Indices: 248--275 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
238 CTCGGGCTGC
248 TCAGGTTCATCT
1 TCAGGTTCATCT
260 TCAGGTTCATCT
1 TCAGGTTCATCT
272 TCAG
1 TCAG
276 CTTAATCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (12 bp):
TCAGGTTCATCT
Found at i:8421 original size:60 final size:58
Alignment explanation
Indices: 8328--8498 Score: 184
Period size: 60 Copynumber: 2.9 Consensus size: 58
8318 AATATAACTC
* *
8328 TCATTTTAAATTAGTCCTTAAACTTTTGAATATTTATATTTCATCCCTAAATTATGACTT
1 TCATTTCAAATTAATCCTTAAACTTTTGAATATTTA-ATTTCATCCCTAAATTATGA-TT
* * *
8388 TCATTTCAAATTAATCTTTAAACTTTTGAATATTATAAATTT-ATCTCTAAACTATGATT
1 TCATTTCAAATTAATCCTTAAACTTTTGAATATT-T-AATTTCATCCCTAAATTATGATT
* ** * * *
8447 T-TTTTCTAAATTAATCCCCAAATTTTTGAATATTCAATTCCATCCCTAAATT
1 TCATTTC-AAATTAATCCTTAAACTTTTGAATATTTAATTTCATCCCTAAATT
8499 CATTCAAACA
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
57 4 0.04
58 13 0.14
59 26 0.28
60 44 0.47
61 5 0.05
62 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.04, T:0.47
Consensus pattern (58 bp):
TCATTTCAAATTAATCCTTAAACTTTTGAATATTTAATTTCATCCCTAAATTATGATT
Found at i:8909 original size:29 final size:29
Alignment explanation
Indices: 8865--8920 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
8855 GTTTGGTGTA
*
8865 AACTTAAACTTTTAAAATTTTAGAGGGCG
1 AACTTAAACTTATAAAATTTTAGAGGGCG
*
8894 AACTTGAACTTATAAAATTTTAGAGGG
1 AACTTAAACTTATAAAATTTTAGAGGG
8921 GTGAAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (29 bp):
AACTTAAACTTATAAAATTTTAGAGGGCG
Found at i:17285 original size:2 final size:2
Alignment explanation
Indices: 17280--17311 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17270 TACAAAAAAT
17280 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17312 AATTATAAAT
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):
TA
Found at i:21829 original size:23 final size:24
Alignment explanation
Indices: 21803--21879 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 24
21793 AATTTAGTAA
* *
21803 ATTTTTTTAAT-AAATTAAAATAT
1 ATTTTTTAAATAAAAATAAAATAT
21826 A-TTTTTAAATAAAAATAAAATAT
1 ATTTTTTAAATAAAAATAAAATAT
* *
21849 -TTTTAAATTAAGTTAATAATAAAATAT
1 ATTTT---TTAA-ATAAAAATAAAATAT
21876 ATTT
1 ATTT
21880 AATAAGTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
22 8 0.19
23 15 0.35
26 4 0.09
27 13 0.30
28 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
ATTTTTTAAATAAAAATAAAATAT
Found at i:21830 original size:21 final size:22
Alignment explanation
Indices: 21803--21856 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
21793 AATTTAGTAA
* *
21803 ATTTTTTTAAT-AAATTAAAAT
1 ATTTTTTAAATAAAAATAAAAT
21824 ATATTTTTAAATAAAAATAAAAT
1 AT-TTTTTAAATAAAAATAAAAT
21847 A-TTTTTAAAT
1 ATTTTTTAAAT
21857 TAAGTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.38
22 8 0.28
23 10 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTTTAAATAAAAATAAAAT
Found at i:21871 original size:27 final size:25
Alignment explanation
Indices: 21839--21903 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
21829 TTTAAATAAA
21839 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATTTTT-AA-TAAGTTAAT
* *
21866 AATAAAATATATTTAATAAGTTGAT
1 AATAAAATATTTTTAATAAGTTAAT
21891 -ATAAAAATATTTT
1 AAT-AAAATATTTT
21904 AAGTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.06
25 17 0.50
26 2 0.06
27 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (25 bp):
AATAAAATATTTTTAATAAGTTAAT
Found at i:21908 original size:21 final size:22
Alignment explanation
Indices: 21856--21914 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
21846 TATTTTTAAA
21856 TTAAGTTAATAATAAAATATATT
1 TTAAGTTAAT-ATAAAATATATT
*
21879 TAATAAGTTGATATAAAA-ATATT
1 T--TAAGTTAATATAAAATATATT
21902 TTAAGTTAATATA
1 TTAAGTTAATATA
21915 TATAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 11 0.34
23 7 0.22
24 6 0.19
25 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
TTAAGTTAATATAAAATATATT
Found at i:22281 original size:39 final size:39
Alignment explanation
Indices: 22178--22294 Score: 91
Period size: 39 Copynumber: 3.0 Consensus size: 39
22168 TTTATAAAAA
* * *
22178 TTTATAATGTTA-ATGTGAAATAATTTAAGAAATTAAT-AA
1 TTTAGAATGTTAGA-GTGCAATAATTTAAGAAATT-ATGAT
* **
22217 TATAGAACATTATG-GTGTCAA-AATTTAAGAAATTATGAT
1 TTTAGAATGTTA-GAGTG-CAATAATTTAAGAAATTATGAT
* *
22256 TTTAGAATGTTAGAGTGCAATAATTTCAG-GATTATGAT
1 TTTAGAATGTTAGAGTGCAATAATTTAAGAAATTATGAT
22294 T
1 T
22295 AAAAGTTTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
38 15 0.25
39 44 0.72
40 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (39 bp):
TTTAGAATGTTAGAGTGCAATAATTTAAGAAATTATGAT
Found at i:22741 original size:27 final size:29
Alignment explanation
Indices: 22674--22745 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
22664 TTAACTCGGG
* **
22674 GTGACCACATCTTAATTAAAAAAATGAAA
1 GTGACCATATCTTAATTAAAAAAACAAAA
* *
22703 TTGACCATATCTTAGTTAAAAAAACAAAA
1 GTGACCATATCTTAATTAAAAAAACAAAA
* *
22732 GTGACAATCTCTTA
1 GTGACCATATCTTA
22746 TGTTTTTTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (29 bp):
GTGACCATATCTTAATTAAAAAAACAAAA
Found at i:23463 original size:3 final size:3
Alignment explanation
Indices: 23457--23500 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
23447 TATTTAATAT
** *
23457 TTA TTA TTA TCG TTA -TA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23501 ATTTACATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:23797 original size:13 final size:13
Alignment explanation
Indices: 23779--23809 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23769 AATCCTGCAC
23779 CAACAGTGACAAT
1 CAACAGTGACAAT
*
23792 CAACAGTGACAGT
1 CAACAGTGACAAT
23805 CAACA
1 CAACA
23810 ATGATTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (13 bp):
CAACAGTGACAAT
Found at i:27531 original size:21 final size:20
Alignment explanation
Indices: 27486--27531 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
27476 TTGGGATCAT
*
27486 CATTTTTGCGTTTGCATTTG
1 CATTTTTGCGTTTGCATATG
*
27506 CATTTTTGCATTTTGCATATG
1 CATTTTTGC-GTTTGCATATG
*
27527 TATTT
1 CATTT
27532 CAATTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (20 bp):
CATTTTTGCGTTTGCATATG
Found at i:30623 original size:104 final size:102
Alignment explanation
Indices: 30447--30787 Score: 370
Period size: 107 Copynumber: 3.3 Consensus size: 102
30437 AATTTCTTTC
** *
30447 AAAACAAATTTCGTCTTTCTTGAGACATTTTTCCTTTGAGATACAAAATTT-GAATTTGTTTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAAATAC-AAATTTCGAATTTGTTTCAC
*
30511 ATTAAACAAAGTTGATCTCATTTGAGATCGTATTTTCTT
65 -TTAAACAAAGTTGATCTCACTTGAGATCGTATTTTCTT
* * * * *
30550 AAAACAAACTTCGTCTTGCTTGAGACATTTTTTTCTTTGATATACAAATTTCGAATTTGATTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCTTTGAAATACAAATTTCGAATTTGTTTCAC
* *
30615 TTGAAACAAAAATTAATCTCACTTGAGA-CTGTTATTCTT-TT
65 TT-AAAC-AAAGTTGATCTCACTTGAGATC-G-TATT-TTCTT
* * *
30656 CAAAACAATTTTCGTCTCGTTTGAGACATTTTTCCTTTGAGAATACAAATTTCAAATTTGTTTTC
1 -AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGA-AATACAAATTTCGAATTTG-TTTC
* *
30721 ATATTAAACAAAGTTGATCTCACTTGAGATCG--TTTTCTCA
63 A-CTTAAACAAAGTTGATCTCACTTGAGATCGTATTTTCT-T
30761 AAAACAAATGTT-GTCTCGCTTGAGACA
1 AAAACAAAT-TTCGTCTCGCTTGAGACA
30788 ATTTCTCTAA
Statistics
Matches: 201, Mismatches: 22, Indels: 29
0.80 0.09 0.12
Matches are distributed among these distances:
103 35 0.17
104 57 0.28
105 20 0.10
106 17 0.08
107 61 0.30
108 9 0.04
109 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAAATACAAATTTCGAATTTGTTTCACT
TAAACAAAGTTGATCTCACTTGAGATCGTATTTTCTT
Found at i:30702 original size:107 final size:101
Alignment explanation
Indices: 30438--30787 Score: 361
Period size: 104 Copynumber: 3.3 Consensus size: 101
30428 GCTTGAGACA
*
30438 ATTTCTTTCAAAACAAATTTCGTCTTTCTTGAGACATTTTTCCTTTGAGATACAAAATTT-GAAT
1 ATTT-TTTCAAAACAAATTTCGTCTGT-TTGAGACATTTTTCCTTTGAGATAC-AAATTTCGAAT
*
30502 TTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGT
63 TTGTTTCAC-TTAAACAAAGTTGATCTCACTTGAGATCGT
* * * *
30542 ATTTTCTT-AAAACAAACTTCGTCTTGCTTGAGACATTTTTTTCTTTGATATACAAATTTCGAAT
1 ATTTT-TTCAAAACAAATTTCGTC-TGTTTGAGACA-TTTTTCCTTTGAGATACAAATTTCGAAT
* * *
30606 TTGATTCACTTGAAACAAAAATTAATCTCACTTGAGA-CTGTT
63 TTGTTTCACTT-AAAC-AAAGTTGATCTCACTTGAGATC-G-T
* *
30648 ATTCTTTTCAAAACAATTTTCGTCTCGTTTGAGACATTTTTCCTTTGAGAATACAAATTTCAAAT
1 ATT-TTTTCAAAACAAATTTCGTCT-GTTTGAGACATTTTTCCTTTGAG-ATACAAATTTCGAAT
*
30713 TTGTTTTCATATTAAACAAAGTTGATCTCACTTGAGATCG-
63 TTG-TTTCA-CTTAAACAAAGTTGATCTCACTTGAGATCGT
* *
30753 -TTTTCTCAAAAACAAATGTT-GTCTCGCTTGAGACA
1 ATTTTTTC-AAAACAAAT-TTCGTCT-GTTTGAGACA
30788 ATTTCTCTAA
Statistics
Matches: 207, Mismatches: 22, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
103 35 0.17
104 63 0.30
105 20 0.10
106 18 0.09
107 60 0.29
108 9 0.04
109 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (101 bp):
ATTTTTTCAAAACAAATTTCGTCTGTTTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTG
TTTCACTTAAACAAAGTTGATCTCACTTGAGATCGT
Found at i:30824 original size:37 final size:36
Alignment explanation
Indices: 30726--30864 Score: 165
Period size: 36 Copynumber: 3.8 Consensus size: 36
30716 TTTTCATATT
* **
30726 AAACAAA-GTTGATCTCACTTGAGATCGTTTTCTC-AA
1 AAACAAATGTTG-TCTCGCTTGAGA-CAATTTCTCTAA
30762 AAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAA
1 AAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAA
* * * *
30798 AAACAATTTTTTGTGTCGTTTGAGACAATTTCTCTAA
1 AAACAA-ATGTTGTCTCGCTTGAGACAATTTCTCTAA
*
30835 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAATGTTGTCTCGCTTGAGACAATTT
30865 TCCAAATTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
35 7 0.08
36 45 0.51
37 36 0.41
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (36 bp):
AAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAA
Found at i:30938 original size:30 final size:31
Alignment explanation
Indices: 30902--30960 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
30892 AACAAACATC
*
30902 ATCTTTGAGTC-ATTTCTTTTGAAACAAATG
1 ATCTTTGAGTCTATTTCTTTTAAAACAAATG
30932 ATCTTTGAGTCTATTTCTTTTAAAACAAA
1 ATCTTTGAGTCTATTTCTTTTAAAACAAA
30961 ACTTTGTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTAAAACAAATG
Found at i:31626 original size:31 final size:31
Alignment explanation
Indices: 31590--31650 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
31580 CCTTAAGGCA
31590 GTTTCTCTAAAAATACAAA-ATCTTTGAGTTT
1 GTTTCTCTAAAAATA-AAACATCTTTGAGTTT
**
31621 GTTTCTCTTGAAATAAAACTATCTTTGAGT
1 GTTTCTCTAAAAATAAAAC-ATCTTTGAGT
31651 CGTTTCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.12
31 13 0.50
32 10 0.38
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (31 bp):
GTTTCTCTAAAAATAAAACATCTTTGAGTTT
Found at i:32623 original size:3 final size:3
Alignment explanation
Indices: 32617--32666 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
32607 TATTTAATAT
** * *
32617 TTA TTA TTA TCG TTA -TA TTA TAA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32664 TTA
1 TTA
32667 ATTTACATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:35725 original size:25 final size:25
Alignment explanation
Indices: 35693--35750 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
35683 ATGTTTTGTT
35693 AAATTTGGACTAAAGTGTACTACTA
1 AAATTTGGACTAAAGTGTACTACTA
35718 AAATTTGGACTAAAGTGTACTACTA
1 AAATTTGGACTAAAGTGTACTACTA
*
35743 GAATTTGG
1 AAATTTGG
35751 GGGATGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (25 bp):
AAATTTGGACTAAAGTGTACTACTA
Found at i:35957 original size:3 final size:3
Alignment explanation
Indices: 35949--35989 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
35939 TCAGTTCATT
*
35949 TTA TTA TTA TTAA TTA TTA AT- TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35990 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:38303 original size:18 final size:17
Alignment explanation
Indices: 38280--38330 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
38270 TTTCTTTCAA
38280 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
38297 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
38315 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
38331 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:39595 original size:14 final size:14
Alignment explanation
Indices: 39575--39610 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
39565 ATTTTAAATA
39575 ATTTACATTTACAT
1 ATTTACATTTACAT
* *
39589 TTTTACATTTGCAT
1 ATTTACATTTACAT
39603 ATTTACAT
1 ATTTACAT
39611 GTGGCATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTACATTTACAT
Found at i:45163 original size:83 final size:83
Alignment explanation
Indices: 45062--45326 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
45052 AATGGAACAA
45062 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
45127 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
45145 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
45210 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* * * *
45228 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
45292 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
45311 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
45327 TAGAAATAAG
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.02
83 170 0.98
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:48024 original size:22 final size:22
Alignment explanation
Indices: 47995--48049 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
47985 ATCTACACTC
*
47995 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
48017 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
48039 TTCAAAGATGA
1 TTCAAAGATGA
48050 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:48649 original size:113 final size:113
Alignment explanation
Indices: 48452--49792 Score: 2081
Period size: 113 Copynumber: 11.9 Consensus size: 113
48442 GCAAAGTTCA
** * ** *
48452 AATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAA
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
*
48515 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
48564 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
48629 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
48677 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
48742 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* *
48790 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
48855 AGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
** * ** *
48903 AATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAA
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
*
48966 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* *
49015 AATCCATCATTTGATGGATCATCATTTCTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
49080 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * *
49128 AATCTATTATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
49193 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GTCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TG
* * * * * * *
49241 AATTCATCACTTGATGGATTAT-TTTTGTCAGAGAAGGTTCATAATGAGAAGAACTTATCTGAAG
1 AATCCATCATTTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
49305 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * *
49354 AATCTATTATTTGATGGATCATCATTTCCAGAG-AAGTTCATAATGAGAAGAACTTATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
49418 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * *
49466 AATCTATTATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
49531 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GTCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TG
* * * * *
49579 AATTCATCACTTGATGGATTAT-TTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
49643 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * *
49692 AATCCATCACTTGATGGAACAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
49756 AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAA
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
49793 TTTTTTGCAT
Statistics
Matches: 1145, Mismatches: 70, Indels: 28
0.92 0.06 0.02
Matches are distributed among these distances:
111 1 0.00
112 307 0.27
113 826 0.72
114 11 0.01
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
Found at i:49068 original size:338 final size:338
Alignment explanation
Indices: 48452--49792 Score: 2120
Period size: 338 Copynumber: 4.0 Consensus size: 338
48442 GCAAAGTTCA
** * ** *
48452 AATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAG
* *
48515 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TGAATCCATCATTTGAT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-CTCTGAATCCATCACTTGAT
* *
48579 GGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTC
129 GGATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTC
48644 ATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGA
194 ATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGA
*
48709 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
259 G-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
48774 TTCAACCTTTTACTTG
323 TTCAACCTTTTACTTG
*
48790 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
* *
48855 AGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTACT-TGAATCCATCA-TTCAAT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-CTCTGAATCCATCACTT-GAT
* ** *
48918 GGATCAACATT-CCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAATT
129 GGATCATCATTGCCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATT
*
48981 CATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCTAG
193 CATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAG
*
49046 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
258 AG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
49111 GTTCAACCTTTTACTTG
322 GTTCAACCTTTTACTTG
* *
49128 AATCTATTATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
* *
49193 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTCTCTGAATCCATCACTTGATGG
* ** * * *
49258 ATTATTTTTGTCAGAGAAGGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
131 ATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
* *
49323 AATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATTATTTGATGGATCATCATTTCCAGAGA
196 AATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGA
*
49388 AGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
261 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
49453 AACCTTTTACTTG
326 AACCTTTTACTTG
* *
49466 AATCTATTATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
* *
49531 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTCTCTGAATCCATCACTTGATGG
* ** *
49596 ATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
131 ATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
* * ** * * * *
49661 AATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAACAGCTTTTCCAGAGA
196 AATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGA
*
49726 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
261 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
49791 AA
326 AA
49793 TTTTTTGCAT
Statistics
Matches: 943, Mismatches: 52, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
337 2 0.00
338 728 0.77
339 209 0.22
340 4 0.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (338 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTCTCTGAATCCATCACTTGATGG
ATCATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCAT
AATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGA
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTACTTG
Found at i:49294 original size:451 final size:449
Alignment explanation
Indices: 48452--49792 Score: 2208
Period size: 451 Copynumber: 3.0 Consensus size: 449
48442 GCAAAGTTCA
48452 AATCCATCATTCAATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAAAA
1 AATCCATCATTCAATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAAAA
48517 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGA
66 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGA
*
48582 TCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATA
131 TCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
48647 ATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAA
196 ATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATCATTTGATGGATCATCATTTCCAGAGAA
* *
48712 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
261 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
48777 AACCTTTTACTTGAATCCATCATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGA
326 AACCTTTTGC-TGAATCCATCACTTGATGGATCAT-TTTTCCAGAGAAGGTTCATAATGAGAAGA
* *
48842 ACTCGTCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAATTTGTTCAACCTTTTACTTG
389 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
48903 AATCCATCATTCAATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAAAA
1 AATCCATCATTCAATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAAAA
48968 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGA
66 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGA
* *
49033 TCATCATTTCTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATA
131 TCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
49098 ATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATTATTTGATGGATCATCATTTCCAGAGAA
196 ATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATCATTTGATGGATCATCATTTCCAGAGAA
49163 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
261 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
49228 AACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGTCAGAGAAGGTTCATAATGAGAAGA
326 AACCTTTTG-CTGAATCCATCACTTGATGGATCATTTTT-CCAGAGAAGGTTCATAATGAGAAGA
*
49293 ACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
389 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * ** * * * *
49354 AATCTATTATTTGATGGATCATCATTTCCAGAG--AAGTTCATAATGAGAAGAACTTATCTGAAG
1 AATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAA
* * *
49417 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATTATTTGATG
64 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATG
*
49482 GATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
129 GATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * * *
49547 TAATGAGAAGAATTTGTTCAACCTTTT-GTCTGAAT-TCATCACTTGATGGATTAT-TTTTGCCA
194 TAATGAGAAGAATTTGTTCAACCTTTTACT-TGAATCT-ATCATTTGATGGATCATCATTT-CCA
*
49609 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATT
256 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
* * *
49674 TGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAACAGCTTTTCCAGAGAA-GTTCATAATGA
321 TGTTCAACCTTTTGCT-GAATCCATCACTTGATGGATCA-TTTTTCCAGAGAAGGTTCATAATGA
*
49738 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAA
384 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
49793 TTTTTTGCAT
Statistics
Matches: 837, Mismatches: 44, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
450 74 0.09
451 751 0.90
452 11 0.01
453 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (449 bp):
AATCCATCATTCAATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAAAA
GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGA
TCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATCATTTGATGGATCATCATTTCCAGAGAA
GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTGAATCCATCACTTGATGGATCATTTTTCCAGAGAAGGTTCATAATGAGAAGAAC
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
Found at i:50439 original size:77 final size:76
Alignment explanation
Indices: 50205--50542 Score: 579
Period size: 76 Copynumber: 4.4 Consensus size: 76
50195 ACTATTTCCC
* * *
50205 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTT-
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT-TTC
50269 AAAGCCTTCGGG
65 AAAGCCTTCGGG
*
50281 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
50346 AAGCCTTCGGG
66 AAGCCTTCGGG
50357 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
50422 AAAGCCTTCGGG
65 AAAGCCTTCGGG
* *
50434 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAACCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
50499 AAGCCTTAGGG
66 AAGCCTTCGGG
50510 TCATCTGTAAGCCCTTCAGTGCATGATGCTTTC
1 TCATCTGTAAGCCCTTCAGTGCATGATG-TTTC
50543 AACATTTCCA
Statistics
Matches: 253, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
75 2 0.01
76 171 0.68
77 80 0.32
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGG
Found at i:50456 original size:153 final size:152
Alignment explanation
Indices: 50205--50542 Score: 579
Period size: 153 Copynumber: 2.2 Consensus size: 152
50195 ACTATTTCCC
* *
50205 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTTA
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTTA
* * *
50270 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAACCTTCAGGAGCTTTT
*
50335 TGATGTTTTCAAAGCCTTCGGG
131 TGATGTTTTCAAAGCCTTAGGG
*
50357 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTT-TT
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGAGAGCTTTTTGATGTTCTT
50421 CAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAACCTTCAGGAGCTT
65 -AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAACCTTCAGGAGCTT
50486 TTTGATGTTTTCAAAGCCTTAGGG
129 TTTGATGTTTTCAAAGCCTTAGGG
50510 TCATCTGTAAGCCCTTCAGTGCATGATGCTTTC
1 TCATCTGTAAGCCCTTCAGTGCATGATG-TTTC
50543 AACATTTCCA
Statistics
Matches: 176, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
152 33 0.19
153 139 0.79
154 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (152 bp):
TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTTA
AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAACCTTCAGGAGCTTTT
TGATGTTTTCAAAGCCTTAGGG
Found at i:50677 original size:3 final size:3
Alignment explanation
Indices: 50669--50709 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
50659 TCAGTTCATT
*
50669 TTA TTA TTA TTAA TTA TTA AT- TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50710 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:53444 original size:50 final size:50
Alignment explanation
Indices: 53347--53443 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
53337 GATCTTTCTA
*
53347 GTTCTGTCTCCCCCTTCCTCCTTCCCCCATCATTGTATGAAACAAAAATG
1 GTTCTGCCTCCCCCTTCCTCCTTCCCCCATCATTGTATGAAACAAAAATG
* *
53397 GTTCTGCCTTCCCCTTCCTCCTTCCCCCATCATTGTCTG-AACAAAAA
1 GTTCTGCCTCCCCCTTCCTCCTTCCCCCATCATTGTATGAAACAAAAA
53444 AAATAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 8 0.18
50 36 0.82
ACGTcount: A:0.21, C:0.38, G:0.09, T:0.32
Consensus pattern (50 bp):
GTTCTGCCTCCCCCTTCCTCCTTCCCCCATCATTGTATGAAACAAAAATG
Found at i:54892 original size:11 final size:10
Alignment explanation
Indices: 54877--54907 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
54867 CAAAATAATT
54877 GAAAAAGAAA
1 GAAAAAGAAA
54887 GTAAAAAGAAA
1 G-AAAAAGAAA
54898 GAAAAAGAAA
1 GAAAAAGAAA
54908 TTTCAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:55871 original size:125 final size:121
Alignment explanation
Indices: 55632--55874 Score: 294
Period size: 125 Copynumber: 2.0 Consensus size: 121
55622 ATTTATTACC
* * *
55632 TAAACTATCAATTTTGATCCGTTTTAATACCTATACTATTATTTTATTTAAAATTATACCTAAAG
1 TAAACTATCAATTTTGATCCGTTTTAATACCTAAACTATTATTTTATTTAAAATCATACATAAAG
* * * *
55697 TTTAGTTTTTATTCTATTTTAGTACTTGTCGTTAAAAGTTTAACTTGTTTAGTTTA
66 TTTAGTTTTTATTCTATTTTAGTACTCGTCGGTAAAAATGTAACTTGTTTAGTTTA
* * * * *
55753 TAAACTATCATTTTTGGTCCGTTTTAGTACCTAAACTTTTATTTTTTTTTTTCAAAATCATACAT
1 TAAACTATCAATTTTGATCCGTTTTAATACCTAAAC---TATTATTTTATTT-AAAATCATACAT
55818 AAAGTTTAGTTTGTGT-TTC-ATTTTAGTACTCGTCGGTAAAAATGTAA-TGTGTTTAGT
62 AAAGTTTAGTTT-T-TATTCTATTTTAGTACTCGTCGGTAAAAATGTAACT-TGTTTAGT
55875 ACTTAAACTA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
121 32 0.31
124 12 0.12
125 54 0.52
126 4 0.04
127 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (121 bp):
TAAACTATCAATTTTGATCCGTTTTAATACCTAAACTATTATTTTATTTAAAATCATACATAAAG
TTTAGTTTTTATTCTATTTTAGTACTCGTCGGTAAAAATGTAACTTGTTTAGTTTA
Found at i:55903 original size:125 final size:124
Alignment explanation
Indices: 55668--55916 Score: 283
Period size: 125 Copynumber: 2.0 Consensus size: 124
55658 ATACCTATAC
* * * *
55668 TATTATTTTATTTAAAATTATACCTAAAGTTTAGTTTTTATTCTATTTTAGTACTTGTCGTTAAA
1 TATTATTTTATTTAAAATCATACATAAAGTTTAGTTTTTATTCTATTTTAGTACTCGTCGGTAAA
* * * * * *
55733 AGTTTAACTTGTTTAGTTTATAAACTATCATTTTTGGTCCGTTTTAGT-ACCTAAACTTT
66 AATGTAACTTGTTTAGTCTATAAACTATCAGTTTTAGTCCGTTTTA-TAACATAAACTTT
* *
55792 TATTTTTTTTTTTCAAAATCATACATAAAGTTTAGTTTGTGT-TTC-ATTTTAGTACTCGTCGGT
1 TATTATTTTATTT-AAAATCATACATAAAGTTTAGTTT-T-TATTCTATTTTAGTACTCGTCGGT
* *
55855 AAAAATGTAA-TGTGTTTAGTACT-TAAACTATCGGTTTTAGTCTGTTTTATAACATAAACTTT
63 AAAAATGTAACT-TGTTTAGT-CTATAAACTATCAGTTTTAGTCCGTTTTATAACATAAACTTT
55917 AAAAAAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
124 13 0.12
125 86 0.82
126 5 0.05
127 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (124 bp):
TATTATTTTATTTAAAATCATACATAAAGTTTAGTTTTTATTCTATTTTAGTACTCGTCGGTAAA
AATGTAACTTGTTTAGTCTATAAACTATCAGTTTTAGTCCGTTTTATAACATAAACTTT
Found at i:56253 original size:22 final size:21
Alignment explanation
Indices: 56219--56259 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
56209 ATAATTATTT
56219 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAATACC
*
56240 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
56260 ATTTTTATAT
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:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:56306 original size:23 final size:23
Alignment explanation
Indices: 56277--56327 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
56267 TATCACAAGT
56277 TATATTCAAAGCAAGTCATAACA
1 TATATTCAAAGCAAGTCATAACA
56300 TATATTCAAAGCAAGTCATAACA
1 TATATTCAAAGCAAGTCATAACA
56323 TATAT
1 TATAT
56328 AAGTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (23 bp):
TATATTCAAAGCAAGTCATAACA
Found at i:56761 original size:16 final size:16
Alignment explanation
Indices: 56740--56770 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
56730 TTCTAATTTT
56740 TTTTTGAGTTCAAGTC
1 TTTTTGAGTTCAAGTC
56756 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
56771 TTCAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTC
Found at i:70396 original size:15 final size:15
Alignment explanation
Indices: 70357--70396 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
70347 AATGGGTAAA
*
70357 CTACACTTTAAGTCC
1 CTACACTTTCAGTCC
70372 CTACACTTTCAGTCC
1 CTACACTTTCAGTCC
70387 CTACACTTTC
1 CTACACTTTC
70397 CAAATCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.05, T:0.35
Consensus pattern (15 bp):
CTACACTTTCAGTCC
Found at i:71618 original size:7 final size:7
Alignment explanation
Indices: 71600--71664 Score: 103
Period size: 7 Copynumber: 8.9 Consensus size: 7
71590 TTATCATTCG
71600 AAAATAT
1 AAAATAT
71607 AAAAATAT
1 -AAAATAT
71615 AAAATAT
1 AAAATAT
71622 AAAATAT
1 AAAATAT
71629 AAAATAT
1 AAAATAT
71636 AAAAATAT
1 -AAAATAT
71644 AAAAATAT
1 -AAAATAT
71652 AAAATAT
1 AAAATAT
71659 AAAATA
1 AAAATA
71665 ATTTTAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
7 34 0.61
8 22 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:71620 original size:15 final size:15
Alignment explanation
Indices: 71600--71664 Score: 107
Period size: 15 Copynumber: 4.4 Consensus size: 15
71590 TTATCATTCG
71600 AAAATATAAAAATAT
1 AAAATATAAAAATAT
71615 AAAATAT-AAAATAT
1 AAAATATAAAAATAT
71629 AAAATATAAAAATAT
1 AAAATATAAAAATAT
71644 AAAA-ATATAAAATAT
1 AAAATATA-AAAATAT
71659 AAAATA
1 AAAATA
71665 ATTTTAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.36
15 29 0.62
16 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATATAAAAATAT
Found at i:72435 original size:60 final size:60
Alignment explanation
Indices: 72353--72466 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
72343 TAGTTGGGTG
* *
72353 ATCATTTTATAACTTTTAATAGTCGATGGACTCAACAAAACAACGCTCTATAGTTGGAAA
1 ATCATTTTATAACTTTTAATAGTCAATGGACTCAACAAAACAACACTCTATAGTTGGAAA
* * * *
72413 ATCATTTTGTAACTTTTAATAGTTAATGTACTCAACAAAATAACACTCTATAGT
1 ATCATTTTATAACTTTTAATAGTCAATGGACTCAACAAAACAACACTCTATAGT
72467 CGGTGACCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (60 bp):
ATCATTTTATAACTTTTAATAGTCAATGGACTCAACAAAACAACACTCTATAGTTGGAAA
Found at i:72729 original size:11 final size:11
Alignment explanation
Indices: 72694--72733 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
72684 TAAAAAAACA
*
72694 TTTTATAAT-T
1 TTTTATGATAT
72704 TTTTAT-ATAT
1 TTTTATGATAT
72714 TTTTATGATAT
1 TTTTATGATAT
72725 TTTTATGAT
1 TTTTATGAT
72734 GCGACCACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.07
10 13 0.46
11 13 0.46
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (11 bp):
TTTTATGATAT
Found at i:73290 original size:29 final size:29
Alignment explanation
Indices: 73257--73340 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
73247 TATCCTATTG
*
73257 TCCCTTGACTATTAAAAGTTACAAAATTA
1 TCCCTTGACTATTAAAAGTTACAAAATGA
* * *
73286 TCCCTTAACTATTAAAAATTACAATATGA
1 TCCCTTGACTATTAAAAGTTACAAAATGA
*
73315 TCCTTTGACTATTAAAAGTTACAAAA
1 TCCCTTGACTATTAAAAGTTACAAAA
73341 CGGTATCCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (29 bp):
TCCCTTGACTATTAAAAGTTACAAAATGA
Found at i:80199 original size:35 final size:35
Alignment explanation
Indices: 80154--80222 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
80144 TGTTTTAGTC
*
80154 CTTTTTAGTACCTAAACTTTCAATTTTTTAAAATT
1 CTTTTGAGTACCTAAACTTTCAATTTTTTAAAATT
* *
80189 CTTTTGAGTACTTAAACTTTTAATTTTTTAAAAT
1 CTTTTGAGTACCTAAACTTTCAATTTTTTAAAAT
80223 CATATCTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (35 bp):
CTTTTGAGTACCTAAACTTTCAATTTTTTAAAATT
Done.