Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 43
Found at i:458569 original size:12 final size:12
Alignment explanation
Indices: 458552--458576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
458542 ATTTACCATG
458552 TCACATTGATTA
1 TCACATTGATTA
458564 TCACATTGATTA
1 TCACATTGATTA
458576 T
1 T
458577 GAATATTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TCACATTGATTA
Found at i:458586 original size:13 final size:13
Alignment explanation
Indices: 458568--458592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
458558 TGATTATCAC
458568 ATTGATTATGAAT
1 ATTGATTATGAAT
458581 ATTGATTATGAA
1 ATTGATTATGAA
458593 ACTAATGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGATTATGAAT
Found at i:461332 original size:20 final size:20
Alignment explanation
Indices: 461309--461348 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
461299 TAACTTGTGA
*
461309 AAATAGTTAAATTCAATTTT
1 AAATACTTAAATTCAATTTT
461329 AAATACTTAAATTCAATTTT
1 AAATACTTAAATTCAATTTT
461349 TATAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATACTTAAATTCAATTTT
Found at i:462764 original size:18 final size:18
Alignment explanation
Indices: 462743--462800 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 18
462733 AAAATAAAAT
462743 ATTATAATATTTAATCAA
1 ATTATAATATTTAATCAA
* **
462761 A-T-TAATATAATAAAAAA
1 ATTATAATAT-TTAATCAA
462778 TATTATAATATTTAATCAA
1 -ATTATAATATTTAATCAA
462797 ATTA
1 ATTA
462801 ATGTAATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 6 0.20
17 6 0.20
18 6 0.20
19 6 0.20
20 6 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATAATATTTAATCAA
Found at i:462771 original size:21 final size:21
Alignment explanation
Indices: 462745--462808 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
462735 AATAAAATAT
462745 TATAATATTTAATCAAATTAA
1 TATAATATTTAATCAAATTAA
*
462766 TATAATA---AA--AAA-TAT
1 TATAATATTTAATCAAATTAA
462781 TATAATATTTAATCAAATTAA
1 TATAATATTTAATCAAATTAA
*
462802 TGTAATA
1 TATAATA
462809 AAACTATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
18 4 0.12
20 3 0.09
21 15 0.44
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATATTTAATCAAATTAA
Found at i:462780 original size:36 final size:36
Alignment explanation
Indices: 462738--462811 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
462728 ATTTAAAAAT
462738 AAAATATTATAATATTTAATCAAATTAATATAATAA
1 AAAATATTATAATATTTAATCAAATTAATATAATAA
*
462774 AAAATATTATAATATTTAATCAAATTAATGTAATAA
1 AAAATATTATAATATTTAATCAAATTAATATAATAA
462810 AA
1 AA
462812 CTATGTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (36 bp):
AAAATATTATAATATTTAATCAAATTAATATAATAA
Found at i:463655 original size:19 final size:19
Alignment explanation
Indices: 463620--463657 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
463610 GGTAAGGTGT
*
463620 CTACATCAGTAATTGTCAG
1 CTACATCAGTAACTGTCAG
*
463639 CTACATCAGTAGCTGTCAG
1 CTACATCAGTAACTGTCAG
463658 GCATATCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (19 bp):
CTACATCAGTAACTGTCAG
Found at i:470038 original size:23 final size:23
Alignment explanation
Indices: 470012--470080 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
470002 CACCACAGCT
*
470012 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
470035 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
470058 CGTAGAATTACACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
470081 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:475406 original size:23 final size:23
Alignment explanation
Indices: 475352--475420 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
475342 CACCACAGCT
*
475352 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
475375 CGT-GAAATTGCACTGGAGTGCCG
1 CGTAG-AATTGCACCGAAGTGCCA
*
475398 CGTAGAATTGTACCGTAA-TGCCA
1 CGTAGAATTGCACCG-AAGTGCCA
475421 TATAATAATG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
23 33 0.94
24 2 0.06
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:479753 original size:17 final size:17
Alignment explanation
Indices: 479731--479764 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
479721 TTGGACTTGA
479731 CATCAAGTTTACTTCTT
1 CATCAAGTTTACTTCTT
479748 CATCAAGTTTACTTCTT
1 CATCAAGTTTACTTCTT
479765 TCAGCAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.47
Consensus pattern (17 bp):
CATCAAGTTTACTTCTT
Found at i:481833 original size:16 final size:17
Alignment explanation
Indices: 481807--481839 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
481797 TATCGTCGAT
481807 AAAATTTTACTATTCAC
1 AAAATTTTACTATTCAC
481824 AAAA-TTTACTATTCAC
1 AAAATTTTACTATTCAC
481840 GTGAATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTTACTATTCAC
Found at i:482225 original size:37 final size:35
Alignment explanation
Indices: 482171--482242 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 35
482161 AACATCTACC
*
482171 AAACTTTACCAAACTTTGAAAAATATTTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACA-TTTTTCAAAG
482207 AAACATTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
482243 TTGATTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:484520 original size:8 final size:8
Alignment explanation
Indices: 484507--484546 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
484497 TACTAAACTT
484507 AGGGAGAG
1 AGGGAGAG
484515 AGGGAGAG
1 AGGGAGAG
484523 AGGGAGAG
1 AGGGAGAG
484531 AGGGAGAG
1 AGGGAGAG
*
484539 AGAGAGAG
1 AGGGAGAG
484547 CCAGCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (8 bp):
AGGGAGAG
Found at i:485005 original size:104 final size:105
Alignment explanation
Indices: 484816--485029 Score: 319
Period size: 104 Copynumber: 2.0 Consensus size: 105
484806 CCTTGTTGGC
* * *
484816 GTTTTGCGCCTGCTCGGTGACCTCGCCGAGTCAGTTTCTCTCTCTCCACGCTTACACTTATCAGA
1 GTTTTGCGCCAGCTCGGTGACCTCGCCGAGTCAG-CTCTCTCTCTCCACGCTTACACTAATCAGA
*
484881 TTGGTTGAATTTTATTTGTTTGTTAGTTTGCTTAATTCTCT
65 TTGGTTGAATTTTATTTGTTTGTTAGTTTGCTTAATTCGCT
*
484922 GTTTTGCGCCAGCTCGGTGACC-CGCCGAGTCA-CTCTCTCTCT-C-TGTCTTACACTAATCAGA
1 GTTTTGCGCCAGCTCGGTGACCTCGCCGAGTCAGCTCTCTCTCTCCACG-CTTACACTAATCAGA
484983 TTTTGGTTGAATTTTATTTGTTTGTTAGTTTGCTTAATTCGCT
65 --TTGGTTGAATTTTATTTGTTTGTTAGTTTGCTTAATTCGCT
485026 GTTT
1 GTTT
485030 CCTTGCTTTA
Statistics
Matches: 100, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
101 1 0.01
102 15 0.15
103 9 0.09
104 44 0.44
105 10 0.10
106 21 0.21
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.43
Consensus pattern (105 bp):
GTTTTGCGCCAGCTCGGTGACCTCGCCGAGTCAGCTCTCTCTCTCCACGCTTACACTAATCAGAT
TGGTTGAATTTTATTTGTTTGTTAGTTTGCTTAATTCGCT
Found at i:485832 original size:14 final size:13
Alignment explanation
Indices: 485793--485832 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
485783 ACTCACTTAA
485793 ATTATAATAAAAT
1 ATTATAATAAAAT
*
485806 ATTATTATAAAAT
1 ATTATAATAAAAT
*
485819 ATTTATAATTAAAT
1 A-TTATAATAAAAT
485833 TTAAACATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTATAATAAAAT
Found at i:496174 original size:29 final size:29
Alignment explanation
Indices: 496114--496181 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
496104 CCTAATTTTT
* * * *
496114 TTTATAATTAGGGTCTCTAATTTTTTATA
1 TTTATAATTAGAGCCCCTAATTTTATATA
496143 TTTATAATTAGAGCCCCTAATTTTA-ATAA
1 TTTATAATTAGAGCCCCTAATTTTATAT-A
496172 TTTCATAATT
1 TTT-ATAATT
496182 TTTTAGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 2 0.06
29 25 0.76
30 6 0.18
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.50
Consensus pattern (29 bp):
TTTATAATTAGAGCCCCTAATTTTATATA
Found at i:503294 original size:29 final size:29
Alignment explanation
Indices: 503251--503333 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
503241 CTCACCTAAC
*
503251 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
503281 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
503310 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
503334 ATTTAGTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:505053 original size:18 final size:17
Alignment explanation
Indices: 504996--505067 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 17
504986 GTTGAAAAAG
*
504996 TATAATAAAATAAATAAT
1 TATAATAAAAT-AATAAA
* *
505014 TATAAAAAAAGAA-AAA
1 TATAATAAAATAATAAA
*
505030 AATAATAAAATAATAAA
1 TATAATAAAATAATAAA
*
505047 TAGTAAT--AGTAATAAA
1 TA-TAATAAAATAATAAA
505063 TATAA
1 TATAA
505068 AAGGGGATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 3 0.07
16 22 0.50
17 6 0.14
18 13 0.30
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (17 bp):
TATAATAAAATAATAAA
Found at i:505864 original size:64 final size:64
Alignment explanation
Indices: 505711--505864 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 64
505701 TATAGCCTTC
* * * * * *
505711 AAATTCCTAAAAACAAGCTAAAACATTTTAAATCCTAATTAAAATACTTAAAATTTTTTAAACTA
1 AAATACCTAAAAA-AAGATAAAATATTCTAAATCCTAATTAAAATACTTAAAACTATTTAAACTA
* * *
505776 AAATACCTAAAAAATA-ATATAATATTCTAAATCTTAATTAAAATGC-TAAAACTATTTAAACTA
1 AAATACCTAAAAAA-AGATAAAATATTCTAAATCCTAATTAAAATACTTAAAACTATTTAAACTA
505839 AAATACCTAAAACAAAGATAAAATAT
1 AAATACCTAAAA-AAAGATAAAATAT
505865 AAAAATAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
63 28 0.37
64 35 0.46
65 13 0.17
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (64 bp):
AAATACCTAAAAAAAGATAAAATATTCTAAATCCTAATTAAAATACTTAAAACTATTTAAACTA
Found at i:507614 original size:20 final size:20
Alignment explanation
Indices: 507589--507637 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
507579 TGTTCAGAGA
507589 AAAATAAAATAAAATTACTC
1 AAAATAAAATAAAATTACTC
507609 AAAATAAAATAAAATTACTC
1 AAAATAAAATAAAATTACTC
507629 AAAATAAAA
1 AAAATAAAA
507638 AAATAGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATAAAATAAAATTACTC
Found at i:507688 original size:11 final size:11
Alignment explanation
Indices: 507674--507698 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
507664 AAATAAAACG
507674 AAAAAAAACAA
1 AAAAAAAACAA
507685 AAAAAAAACAA
1 AAAAAAAACAA
507696 AAA
1 AAA
507699 TATAACGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:512936 original size:21 final size:21
Alignment explanation
Indices: 512911--512951 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
512901 TCTGGGTAAA
512911 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
*
512932 GTGTATCGATGCACTTTCAA
1 GTGTATCGATGCACATTCAA
512952 ATAAATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAT
Found at i:514606 original size:23 final size:23
Alignment explanation
Indices: 514580--514663 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
514570 ACATTTTATA
514580 TGGCACTTCGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTATG
*
514603 TGGCACTTTGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTATG
* * * *
514626 TGGCACTTTGGTGCAGTTATACG
1 TGGCACTTCGGTGCAATTCTATG
514649 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
514664 TTTATACAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTATG
Found at i:516884 original size:12 final size:12
Alignment explanation
Indices: 516869--516898 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
516859 AAAAGTATTC
516869 GAAAAATAGAGA
1 GAAAAATAGAGA
*
516881 GAAAACTAGAGA
1 GAAAAATAGAGA
516893 GAAAAA
1 GAAAAA
516899 AGAAGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:517070 original size:64 final size:63
Alignment explanation
Indices: 516997--517118 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 63
516987 TAATACATCT
* * *
516997 TAAATCCTAATTAAAACACTTGAAA-TTATTTAAACTAAAATATCTAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACCTAAAAAA-AATATAATATTC
* *
517061 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAATATAA
1 TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAAATATAA
517119 AATATAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 11 0.21
64 41 0.79
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAAATATAATATTC
Found at i:517088 original size:19 final size:19
Alignment explanation
Indices: 517032--517094 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
517022 TTATTTAAAC
**
517032 TAAAATATCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
517052 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
517072 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
517091 TAAA
1 TAAA
517095 CTAAAATACC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:517119 original size:25 final size:24
Alignment explanation
Indices: 517072--517119 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
517062 AAATCCTAAT
** *
517072 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
517096 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
517120 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:517140 original size:32 final size:32
Alignment explanation
Indices: 517099--517160 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
517089 TTTAAACTAA
517099 AATACCTAAAAC-AAATATAAAATA-TAAAAAT
1 AATACCTAAAACTAAAT-TAAAATACTAAAAAT
*
517130 AATATCCTAAAACTTAATTAAAATACTAAAA
1 AATA-CCTAAAACTAAATTAAAATACTAAAA
517161 CATATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (32 bp):
AATACCTAAAACTAAATTAAAATACTAAAAAT
Found at i:517203 original size:76 final size:75
Alignment explanation
Indices: 517041--517215 Score: 210
Period size: 76 Copynumber: 2.3 Consensus size: 75
517031 CTAAAATATC
* * * * *
517041 TAAAAAATAATATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT
1 TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACCT
*
517106 AAAACAAATA
66 AAAAAAAATA
*
517116 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAACATATTTAAACTAAAATA-C
1 TAAAATAT-AAAATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACC
517180 -AAAGATAAAATA
65 TAAA-A-AAAATA
** * *
517192 TAATGTTTAAAATATTATCCTAAA
1 TAAAATATAAAATAATATCCTAAA
517216 CTTGAGTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
74 3 0.03
75 24 0.28
76 59 0.69
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACCT
AAAAAAAATA
Found at i:523860 original size:42 final size:42
Alignment explanation
Indices: 523808--523892 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
523798 ACCACACCTG
* ** *
523808 AAGCTGCATTGGGACGATTTTTTTGAAAGTAGAATTCTTTGT
1 AAGCTCCATTGGGACGATTTTGCTGAAAGTAGAATTCATTGT
* *
523850 AAGCTCCATTGTGACGATTTTGCTGAAAGTTGAATTCATTGT
1 AAGCTCCATTGGGACGATTTTGCTGAAAGTAGAATTCATTGT
523892 A
1 A
523893 GAGAATCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAGCTCCATTGGGACGATTTTGCTGAAAGTAGAATTCATTGT
Found at i:529852 original size:15 final size:15
Alignment explanation
Indices: 529832--529865 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
529822 TAGGGTATAA
529832 TACCGGGAATGTCAT
1 TACCGGGAATGTCAT
529847 TACCGGGAATGTCAT
1 TACCGGGAATGTCAT
529862 TACC
1 TACC
529866 TCCCCTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (15 bp):
TACCGGGAATGTCAT
Found at i:531945 original size:45 final size:45
Alignment explanation
Indices: 531894--531980 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
531884 CACTTCTACG
531894 AGTTGAAACCTAGAAAATTTATGGGTAAAGTATAAAAATAGTTGA
1 AGTTGAAACCTAGAAAATTTATGGGTAAAGTATAAAAATAGTTGA
*
531939 AGTTGAAACCTAGAAAATTTATGTGTAAAGTATAAAAATAGT
1 AGTTGAAACCTAGAAAATTTATGGGTAAAGTATAAAAATAGT
531981 CTTCTAAGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (45 bp):
AGTTGAAACCTAGAAAATTTATGGGTAAAGTATAAAAATAGTTGA
Found at i:532770 original size:2 final size:2
Alignment explanation
Indices: 532763--532795 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
532753 CTTATTTTAT
532763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
532796 TAACAATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:534399 original size:8 final size:8
Alignment explanation
Indices: 534386--534411 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
534376 AAATGATAAA
534386 TTATTAAT
1 TTATTAAT
534394 TTATTAAT
1 TTATTAAT
534402 TTATTAAT
1 TTATTAAT
534410 TT
1 TT
534412 TCTATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTAAT
Found at i:534399 original size:46 final size:50
Alignment explanation
Indices: 534348--534445 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 50
534338 ATTCAACAAA
534348 TTATTAATTTACTAA-TT-AAT-AATAA-TAAAAATGA-TAAATTATTAAT
1 TTATTAATTTACTAATTTCAATAAATAATTAAAAAT-ATTAAATTATTAAT
* *
534394 TTATTAATTTATTAATTTTCTATAAATAATTAAAAATATTAAATTATTAAT
1 TTATTAATTTACTAA-TTTCAATAAATAATTAAAAATATTAAATTATTAAT
534445 T
1 T
534446 AATAATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
46 14 0.32
48 2 0.05
49 2 0.05
50 6 0.14
51 20 0.45
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (50 bp):
TTATTAATTTACTAATTTCAATAAATAATTAAAAATATTAAATTATTAAT
Found at i:536402 original size:2 final size:2
Alignment explanation
Indices: 536395--536419 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
536385 ATTATATTTC
536395 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
536420 CACACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:536643 original size:18 final size:17
Alignment explanation
Indices: 536605--536637 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
536595 AATAATATAT
536605 AAATTATATTAAAAATA
1 AAATTATATTAAAAATA
536622 AAATTAT-TTAGAAAAT
1 AAATTATATTA-AAAAT
536638 CCAAATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATTATATTAAAAATA
Found at i:536727 original size:2 final size:2
Alignment explanation
Indices: 536720--536744 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
536710 CTATAATTTA
536720 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
536745 ATTTATTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:537751 original size:16 final size:17
Alignment explanation
Indices: 537721--537752 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
537711 ATATTTATTT
537721 ATATAAAATATAATATA
1 ATATAAAATATAATATA
537738 ATATAAAA-ATAATAT
1 ATATAAAATATAATAT
537753 TATGACAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:537790 original size:16 final size:17
Alignment explanation
Indices: 537771--537807 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
537761 TAAAATATTA
537771 TTTTA-AATAATTAC-AT
1 TTTTACAATAA-TACTAT
537787 TTTTACAATAATACTAT
1 TTTTACAATAATACTAT
537804 TTTT
1 TTTT
537808 TACATCCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTACAATAATACTAT
Found at i:552344 original size:54 final size:54
Alignment explanation
Indices: 552263--552375 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
552253 AGCACTCTTG
*
552263 TATTATTTGATGAAGCAACAACTTGCTGACTGTGACCAGTATCGGAGGAAGAGT
1 TATTATTTGATGAAGCAACAACTTGCTGAATGTGACCAGTATCGGAGGAAGAGT
* ** * *
552317 TATTATTTGATGGAGCAACTGCTTGCTGAATGTGACCAGTATCGGGGGTAGAGT
1 TATTATTTGATGAAGCAACAACTTGCTGAATGTGACCAGTATCGGAGGAAGAGT
552371 TATTA
1 TATTA
552376 GTAATACTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.31
Consensus pattern (54 bp):
TATTATTTGATGAAGCAACAACTTGCTGAATGTGACCAGTATCGGAGGAAGAGT
Found at i:555139 original size:24 final size:24
Alignment explanation
Indices: 555107--555160 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
555097 ATATTATACA
*
555107 TTCTTCCCAATCAAGAATAGTTCG
1 TTCTCCCCAATCAAGAATAGTTCG
555131 TTCTCCCCAATCAAGAATAGTTCG
1 TTCTCCCCAATCAAGAATAGTTCG
555155 TTCTCC
1 TTCTCC
555161 ATTTCCTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (24 bp):
TTCTCCCCAATCAAGAATAGTTCG
Found at i:569044 original size:29 final size:29
Alignment explanation
Indices: 569008--569092 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
568998 ACCCAACCCA
* *
569008 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCGGCGACCTAC
* * *
569037 TAGGTCGCCATGCACTCCGGGCGACCAAG
1 TAGGTCGCCATGCACTCCCGGCGACCTAC
* *
569066 GAGGTCGCCATGCACGCCCGGCGACCT
1 TAGGTCGCCATGCACTCCCGGCGACCT
569093 TGTCTCCTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.14
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCGGCGACCTAC
Found at i:569282 original size:29 final size:29
Alignment explanation
Indices: 569235--569321 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
569225 GGGTTAAAAG
*
569235 CTTGGTCGCCGGGCA-TGCATGGCGACCTC
1 CTTGGTCGCCGGG-AGTGCATGGCGACCTA
*
569264 CTTGGTCGCCCGGAGTGCATGGCGACCTA
1 CTTGGTCGCCGGGAGTGCATGGCGACCTA
*** *
569293 GGAGGTCGCTGGGAGTGCATGGCGACCTA
1 CTTGGTCGCCGGGAGTGCATGGCGACCTA
569322 TGGGTTGGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 1 0.02
29 49 0.98
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.20
Consensus pattern (29 bp):
CTTGGTCGCCGGGAGTGCATGGCGACCTA
Found at i:569756 original size:15 final size:15
Alignment explanation
Indices: 569738--569775 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
569728 CTAAAGCGTT
*
569738 AAAAACAAACTTAAAA
1 AAAAACAAAC-AAAAA
569754 AAAAA-AAACAAAAA
1 AAAAACAAACAAAAA
569768 AAAAACAA
1 AAAAACAA
569776 CTCGAGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 6 0.30
16 5 0.25
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (15 bp):
AAAAACAAACAAAAA
Found at i:573348 original size:21 final size:21
Alignment explanation
Indices: 573318--573364 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
573308 GTATATTAAC
573318 TTAAAATATTT-TATTTTTATA
1 TTAAAATATTTATATTTTT-TA
*
573339 TTAAATTATTTAATATTTTTTA
1 TTAAAATATTT-ATATTTTTTA
573361 TTAA
1 TTAA
573365 TGTAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 6 0.26
23 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAAATATTTATATTTTTTA
Found at i:573417 original size:31 final size:28
Alignment explanation
Indices: 573380--573477 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 28
573370 TATAAAAATA
573380 TTTATTTTCATTATAAATTAAAAATATATAT
1 TTTATTTT-ATT-TAAATT-AAAATATATAT
**
573411 TTTATTTTTATCTTAGGTT-AAATATATAT
1 TTTA-TTTTAT-TTAAATTAAAATATATAT
*
573440 TTTATTCTTATTTTAACTTAAAA-ATATAT
1 TTTATT-TTA-TTTAAATTAAAATATATAT
573469 TTTATTTTA
1 TTTATTTTA
573478 AATTTTGAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
28 5 0.09
29 34 0.59
30 4 0.07
31 10 0.17
32 5 0.09
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTATTTTATTTAAATTAAAATATATAT
Found at i:573443 original size:29 final size:29
Alignment explanation
Indices: 573401--573476 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
573391 TATAAATTAA
**
573401 AAATATATATTTTATTTTTATCTTAGGTT
1 AAATATATATTTTATTTTTATCTTAACTT
* *
573430 AAATATATATTTTATTCTTATTTTAACTT
1 AAATATATATTTTATTTTTATCTTAACTT
*
573459 AAAAATATATTTTATTTT
1 AAATATATATTTTATTTT
573477 AAATTTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (29 bp):
AAATATATATTTTATTTTTATCTTAACTT
Found at i:573477 original size:23 final size:25
Alignment explanation
Indices: 573442--573501 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
573432 ATATATATTT
573442 TATTCTTATTTT-AA-CTTAAAAATA
1 TATT-TTATTTTAAATCTTAAAAATA
* * *
573466 TATTTTATTTTAAATTTTGAACATA
1 TATTTTATTTTAAATCTTAAAAATA
573491 TATTTTATTTT
1 TATTTTATTTT
573502 TATCTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 6 0.19
25 18 0.58
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTTTATTTTAAATCTTAAAAATA
Found at i:573528 original size:67 final size:70
Alignment explanation
Indices: 573451--573596 Score: 219
Period size: 72 Copynumber: 2.1 Consensus size: 70
573441 TTATTCTTAT
*
573451 TTTAACTT-AAAA-ATA-TATTTTATTTTAAATTTTGAACA-TATATTTTATTTTTATCTTTATT
1 TTTAAATTAAAAATATATTATTTTATTTTAAATTTTGAA-AGTATATTTTATTTTTATCTTTATT
573512 TAAAAA
65 TAAAAA
573518 TTTAAATTAAAAATATATTTTATTTTATTTTAAATTTTGAAAGTATATTTTATTTTTATCTTTAT
1 TTTAAATTAAAAATATA--TTATTTTATTTTAAATTTTGAAAGTATATTTTATTTTTATCTTTAT
573583 TTAAAAA
64 TTAAAAA
573590 TATTAAA
1 T-TTAAA
573597 AATATATATT
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
67 7 0.10
68 4 0.06
69 3 0.04
71 1 0.01
72 51 0.72
73 5 0.07
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (70 bp):
TTTAAATTAAAAATATATTATTTTATTTTAAATTTTGAAAGTATATTTTATTTTTATCTTTATTT
AAAAA
Found at i:573539 original size:36 final size:36
Alignment explanation
Indices: 573496--573596 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 36
573486 ACATATATTT
*
573496 TATTTTTATCTTTATTTAAAAATTTAAATTAAAA-A
1 TATTTTTATCTTTATTTAAAAATTTAAAGTAAAATA
* * * * *
573531 TATATTTTAT-TTTATTTTAAATTTTGAAAGTATATTT
1 TAT-TTTTATCTTTATTTAAAAATTT-AAAGTAAAATA
573568 TATTTTTATCTTTATTTAAAAATATTAAA
1 TATTTTTATCTTTATTTAAAAAT-TTAAA
573597 AATATATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
35 16 0.30
36 18 0.34
37 17 0.32
38 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (36 bp):
TATTTTTATCTTTATTTAAAAATTTAAAGTAAAATA
Found at i:573687 original size:28 final size:30
Alignment explanation
Indices: 573654--573715 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
573644 AAATATATTT
573654 TAAAAATA-TTTTT-AAATTAAGATAAAAA
1 TAAAAATATTTTTTGAAATTAAGATAAAAA
*
573682 TAAAAATATTTTTTTGAACTTAAGATAAAAA
1 TAAAAATA-TTTTTTGAAATTAAGATAAAAA
573713 TAA
1 TAA
573716 TATATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 8 0.27
30 5 0.17
31 17 0.57
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (30 bp):
TAAAAATATTTTTTGAAATTAAGATAAAAA
Found at i:573722 original size:2 final size:2
Alignment explanation
Indices: 573715--573742 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
573705 GATAAAAATA
573715 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
573743 TAAGTTATGA
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:573799 original size:2 final size:2
Alignment explanation
Indices: 573792--573835 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
573782 TATGTTTTTA
573792 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
573834 AT
1 AT
573836 TAAGTTATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:573868 original size:27 final size:27
Alignment explanation
Indices: 573835--574026 Score: 112
Period size: 27 Copynumber: 7.1 Consensus size: 27
573825 TATATATATA
* *
573835 TTAAGTTATGATAAGAATAAAGTATTT
1 TTAAGTTAAGATAAGAATAAAATATTT
* * *
573862 TTAAGTTAACATAATATTAAAATATTT
1 TTAAGTTAAGATAAGAATAAAATATTT
* *
573889 TTAAGTTAAGGTAAGACTAAAATATATT
1 TTAAGTTAAGATAAGAATAAAATAT-TT
* * * *
573917 TAATAATTTAA-AGTAATAATATAATATAT
1 T--TAAGTTAAGA-TAAGAATAAAATATTT
* *
573946 TCAA--TAA-ATTAAG-ATAATATATATT
1 TTAAGTTAAGA-TAAGAATAAAATAT-TT
* *
573971 TTAAATTAA-ATAA-AATTCAAATA-TT
1 TTAAGTTAAGATAAGAA-TAAAATATTT
* *
573996 TTAAGTTAAGATAATAATAAAATATAT
1 TTAAGTTAAGATAAGAATAAAATATTT
574023 TTAA
1 TTAA
574027 TAAGTTAATA
Statistics
Matches: 126, Mismatches: 27, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
24 7 0.06
25 21 0.17
26 14 0.11
27 61 0.48
28 3 0.02
29 2 0.02
30 18 0.14
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (27 bp):
TTAAGTTAAGATAAGAATAAAATATTT
Found at i:573944 original size:30 final size:30
Alignment explanation
Indices: 573872--574034 Score: 97
Period size: 30 Copynumber: 5.9 Consensus size: 30
573862 TTAAGTTAAC
* * *
573872 ATAATATTAAAATATTT-TTAAGTTAAGGTA
1 ATAATA-TAATATATTTAATAAGTTAAAGTA
* * * *
573902 AGACTAAAATATATTTAATAATTTAAAGTA
1 ATAATATAATATATTTAATAAGTTAAAGTA
* *
573932 ATAATATAATATATTCAATAAATT-AAG--
1 ATAATATAATATATTTAATAAGTTAAAGTA
573959 ATAATAT-ATAT-TTT-A-AA-TTAAA-TA
1 ATAATATAATATATTTAATAAGTTAAAGTA
573983 A-AAT-TCAA-ATATTT--TAAGTT-AAGATA
1 ATAATAT-AATATATTTAATAAGTTAAAG-TA
*
574009 ATAATAAAATATATTTAATAAGTTAA
1 ATAATATAATATATTTAATAAGTTAA
574035 TATAAAAAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 33
0.68 0.09 0.22
Matches are distributed among these distances:
22 3 0.03
23 9 0.09
24 10 0.10
25 4 0.04
26 7 0.07
27 12 0.12
28 6 0.06
29 11 0.11
30 39 0.38
31 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (30 bp):
ATAATATAATATATTTAATAAGTTAAAGTA
Found at i:573999 original size:25 final size:26
Alignment explanation
Indices: 573950--574049 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 26
573940 ATATATTCAA
573950 TAAATTAAGATAAT-AT---ATATTT
1 TAAATTAAGATAATAATAAAATATTT
*
573972 TAAATTAA-ATAA-AATTCAAATATTT
1 TAAATTAAGATAATAA-TAAAATATTT
*
573997 TAAGTTAAGATAATAATAAAATATATT
1 TAAATTAAGATAATAATAAAATAT-TT
* *
574024 T-AA-TAAGTTAATATAAAAAATATTT
1 TAAATTAAGATAATA-ATAAAATATTT
574049 T
1 T
574050 TTAAAGATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
21 5 0.08
22 9 0.14
25 25 0.39
26 20 0.31
27 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (26 bp):
TAAATTAAGATAATAATAAAATATTT
Found at i:574046 original size:24 final size:25
Alignment explanation
Indices: 574002--574048 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
573992 TATTTTAAGT
*
574002 TAAGATAATAATAAAATATATTTAA
1 TAAGATAATAATAAAAAATATTTAA
*
574027 TAAGTTAAT-ATAAAAAATATTT
1 TAAGATAATAATAAAAAATATTT
574049 TTTAAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
TAAGATAATAATAAAAAATATTTAA
Found at i:574060 original size:25 final size:26
Alignment explanation
Indices: 573989--574063 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
573979 AATAAAATTC
*
573989 AAATAT-TTTAAGTTAAGATAATA-ATA
1 AAATATATTTAA--TAAGATAATATAAA
*
574015 AAATATATTTAATAAGTTAATATAAA
1 AAATATATTTAATAAGATAATATAAA
* *
574041 AAATATTTTTTA-AAGATAATATA
1 AAATATATTTAATAAGATAATATA
574064 TATAAGATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
25 19 0.45
26 18 0.43
27 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (26 bp):
AAATATATTTAATAAGATAATATAAA
Found at i:574915 original size:50 final size:51
Alignment explanation
Indices: 574850--574959 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
574840 TACATGAATT
**
574850 ATCTTTATTAAGATT-AAAAGGGAAATTACAAGTTTTGTACCTAAATTATC
1 ATCTTTATTAAGATTAAAAAGAAAAATTACAAGTTTTGTACCTAAATTATC
* * * *
574900 ATCTTTGTTAAGATTAAAAAGAAAAATTACATGTTTTGTACCTGAATTATT
1 ATCTTTATTAAGATTAAAAAGAAAAATTACAAGTTTTGTACCTAAATTATC
*
574951 ATTTTTATT
1 ATCTTTATT
574960 TTATTTTAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 14 0.27
51 37 0.73
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (51 bp):
ATCTTTATTAAGATTAAAAAGAAAAATTACAAGTTTTGTACCTAAATTATC
Found at i:575618 original size:23 final size:23
Alignment explanation
Indices: 575567--575628 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
575557 AATTTAAAAA
* **
575567 TAATATTATTTAAAATATATATT
1 TAATATTATTTAAAATAAATAGG
*
575590 TAATATTATTTCAAATAAATAGG
1 TAATATTATTTAAAATAAATAGG
* *
575613 TGATATGATTTTAAAA
1 TAATATTA-TTTAAAA
575629 ATTAAATACA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (23 bp):
TAATATTATTTAAAATAAATAGG
Found at i:575680 original size:23 final size:23
Alignment explanation
Indices: 575638--575716 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
575628 AATTAAATAC
*
575638 ATATTTTAAA-AT-ATTTTTAAA
1 ATATTATAAATATAATTTTTAAA
575659 ATATTATAAATATAATTTTT-AA
1 ATATTATAAATATAATTTTTAAA
* *
575681 ATAATT-TAATATAAAATTTATTAAT
1 AT-ATTATAA-ATATAATTT-TTAAA
575706 ATA-TATAAATA
1 ATATTATAAATA
575717 ATTATTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
21 9 0.19
22 9 0.19
23 21 0.44
24 6 0.12
25 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTATAAATATAATTTTTAAA
Found at i:575686 original size:11 final size:12
Alignment explanation
Indices: 575630--575687 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 12
575620 ATTTTAAAAA
*
575630 TTAAATACATATT
1 TTAAATATAT-TT
575643 TTAAA-ATATTT
1 TTAAATATATTT
575654 TTAAA-ATA-TT
1 TTAAATATATTT
*
575664 ATAAATATAATTT
1 TTAAATAT-ATTT
575677 TTAAATA-ATTT
1 TTAAATATATTT
575688 AATATAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 6 0.15
11 16 0.41
12 4 0.10
13 13 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAATATATTT
Found at i:578796 original size:29 final size:29
Alignment explanation
Indices: 578754--578811 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
578744 TGTTGCTAAT
*
578754 GACAAAGATCAGCACTGTCTAAAATGTCA
1 GACAAAGATCAGCACTGTCCAAAATGTCA
578783 GACAAAGATCAGCACTGTCCAAAATGTCA
1 GACAAAGATCAGCACTGTCCAAAATGTCA
578812 AATCTTGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (29 bp):
GACAAAGATCAGCACTGTCCAAAATGTCA
Found at i:579709 original size:50 final size:50
Alignment explanation
Indices: 579655--579759 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 50
579645 TTAAAAAAAA
*
579655 TCAAACCGTTCTAAATTTATAAAGTTATGACATCA-AATTATTTAATTTTT
1 TCAAACCATTCTAAATTTATAAAGTTATGACATCATAA-TATTTAATTTTT
* * *
579705 TCAAATCATTTTAAATTTATGAAGTTATGACATCATAATATTTAATTTTT
1 TCAAACCATTCTAAATTTATAAAGTTATGACATCATAATATTTAATTTTT
579755 TCAAA
1 TCAAA
579760 TCGCCCCCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 48 0.96
51 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (50 bp):
TCAAACCATTCTAAATTTATAAAGTTATGACATCATAATATTTAATTTTT
Found at i:579760 original size:50 final size:50
Alignment explanation
Indices: 579666--579761 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
579656 CAAACCGTTC
579666 TAAATTTATAAAGTTATGACATCAAATTATTTAATTTTTTCAAATCATTT
1 TAAATTTATAAAGTTATGACATCAAATTATTTAATTTTTTCAAATCATTT
*
579716 TAAATTTATGAAGTTATGACATCATAA-TATTTAATTTTTTCAAATC
1 TAAATTTATAAAGTTATGACATCA-AATTATTTAATTTTTTCAAATC
579762 GCCCCCAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (50 bp):
TAAATTTATAAAGTTATGACATCAAATTATTTAATTTTTTCAAATCATTT
Found at i:582240 original size:2 final size:2
Alignment explanation
Indices: 582233--582265 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
582223 AAAATATTTA
582233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
582266 ATTAGTTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:595244 original size:26 final size:26
Alignment explanation
Indices: 595162--595244 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
595152 GAAAAAGAAA
595162 TAAATTATGATTTGTCTTGTGTGTAG
1 TAAATTATGATTTGTCTTGTGTGTAG
* * * * **
595188 TAAAATTTTGGCATATAT-TTCTG-GTTT
1 T-AAATTAT-G-ATTTGTCTTGTGTGTAG
595215 TAAATTATGATTTGTCTTGTGTGTAG
1 TAAATTATGATTTGTCTTGTGTGTAG
595241 TAAA
1 TAAA
595245 GTTTTGTTAT
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 4 0.10
25 5 0.12
26 13 0.32
27 9 0.22
28 5 0.12
29 4 0.10
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (26 bp):
TAAATTATGATTTGTCTTGTGTGTAG
Found at i:598358 original size:23 final size:23
Alignment explanation
Indices: 598301--598370 Score: 99
Period size: 23 Copynumber: 3.0 Consensus size: 23
598291 ACCCTTAAAT
*
598301 ATTATTATTTATAATATCTTTTA
1 ATTATTATTTATATTATCTTTTA
598324 ATTATTATTTATATTATCTTTTA
1 ATTATTATTTATATTATCTTTTA
598347 ATTATT-TATTATTATTAT-TTTTA
1 ATTATTAT-TTA-TATTATCTTTTA
598370 A
1 A
598371 GAATAGAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
22 1 0.02
23 37 0.84
24 6 0.14
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTATTATTTATATTATCTTTTA
Found at i:598410 original size:18 final size:18
Alignment explanation
Indices: 598387--598459 Score: 53
Period size: 18 Copynumber: 3.9 Consensus size: 18
598377 AATATTAGTT
* *
598387 TTAATTTAATATTATTAA
1 TTAATTTAATATAAATAA
598405 TTAA-TTAATTATAAATAA
1 TTAATTTAA-TATAAATAA
*
598423 -TAATTTAATTGATAAATTAT
1 TTAATTTAA-T-ATAAA-TAA
598443 TTAAATTTAAT-TAAATA
1 TT-AATTTAATATAAATA
598460 TTTTTATATG
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
17 7 0.15
18 19 0.41
19 9 0.20
20 2 0.04
21 2 0.04
22 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (18 bp):
TTAATTTAATATAAATAA
Found at i:598810 original size:11 final size:10
Alignment explanation
Indices: 598782--598816 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
598772 TTAATTGAAT
598782 AAAATAATTA
1 AAAATAATTA
598792 AAAGATAATATA
1 AAA-ATAAT-TA
598804 AAAATAATTA
1 AAAATAATTA
598814 AAA
1 AAA
598817 CATGCTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.35
11 10 0.43
12 5 0.22
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAATAATTA
Found at i:599899 original size:27 final size:27
Alignment explanation
Indices: 599845--599900 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
599835 ACTCAATCTA
* *
599845 ATCCGAAAATTATACATTCTTTATTTG
1 ATCCAAAAATTATACATTCTTTACTTG
599872 ATCCAAAAATTATACA-TCTTTCACTTG
1 ATCCAAAAATTATACATTCTTT-ACTTG
599899 AT
1 AT
599901 TCAACTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (27 bp):
ATCCAAAAATTATACATTCTTTACTTG
Found at i:599976 original size:20 final size:20
Alignment explanation
Indices: 599953--600026 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
599943 GATCAGACCT
599953 AAAATAATATATTTATAAAA
1 AAAATAATATATTTATAAAA
* *
599973 AAAATATTATTTTTATTAAATA
1 AAAATAATATATTTA-TAAA-A
* *
599995 AAAATAAGA-ATTTAATTAAA
1 AAAATAATATATTT-ATAAAA
600015 AAAATAATATAT
1 AAAATAATATAT
600027 AGATGAATCT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 22 0.51
21 12 0.28
22 9 0.21
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (20 bp):
AAAATAATATATTTATAAAA
Found at i:605154 original size:21 final size:21
Alignment explanation
Indices: 605124--605177 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
605114 GCGTTACATT
605124 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
605145 TCGTGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
605166 TCGCGTTGCGAT
1 TCGCGTTGCGAT
605178 TTTTCATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:605234 original size:19 final size:19
Alignment explanation
Indices: 605210--605253 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
605200 TCTACAGTTG
*
605210 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTCCAAAT
605229 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
605248 TCGTTG
1 TCGTTG
605254 TGATAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:605353 original size:6 final size:6
Alignment explanation
Indices: 605342--605371 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
605332 CGTATTACCG
*
605342 CGACCC CGACCC CGACCC CGATCC CGACCC
1 CGACCC CGACCC CGACCC CGACCC CGACCC
605372 GAGACGGACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.63, G:0.17, T:0.03
Consensus pattern (6 bp):
CGACCC
Found at i:605867 original size:5 final size:5
Alignment explanation
Indices: 605859--605907 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
605849 CCGTCTCGTC
*
605859 TCGGG TCGGG TCGGG TCGGA TCGTGG TCGGGG TCGGGG TCGGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG TCG-GG TC-GGG TC-GGG TC-GGG TCGGG
605908 GTCGTTAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 20 0.50
6 19 0.47
7 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.59, T:0.20
Consensus pattern (5 bp):
TCGGG
Found at i:605894 original size:6 final size:6
Alignment explanation
Indices: 605861--605911 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
605851 GTCTCGTCTC
* *
605861 GGGTC- GGGTC- GGGTC- GGATCG TGGTCG GGGTCG GGGTCG GGGTCG
1 GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG GGGTCG
605906 GGGTCG
1 GGGTCG
605912 TTAACACAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
5 14 0.34
6 27 0.66
ACGTcount: A:0.02, C:0.18, G:0.61, T:0.20
Consensus pattern (6 bp):
GGGTCG
Found at i:607030 original size:17 final size:17
Alignment explanation
Indices: 607005--607038 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
606995 GAATGTCCAG
607005 AGGGAACCGATTCCCCC
1 AGGGAACCGATTCCCCC
*
607022 AGGGTACCGATTCCCCC
1 AGGGAACCGATTCCCCC
607039 TGAATGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (17 bp):
AGGGAACCGATTCCCCC
Found at i:608594 original size:22 final size:22
Alignment explanation
Indices: 608569--608643 Score: 141
Period size: 22 Copynumber: 3.4 Consensus size: 22
608559 AGAGCTTTCA
608569 AAAATGAAATTTGAAAGTATTG
1 AAAATGAAATTTGAAAGTATTG
*
608591 AAAACGAAATTTGAAAGTATTG
1 AAAATGAAATTTGAAAGTATTG
608613 AAAATGAAATTTGAAAGTATTG
1 AAAATGAAATTTGAAAGTATTG
608635 AAAATGAAA
1 AAAATGAAA
608644 ATTTCGATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.53, C:0.01, G:0.17, T:0.28
Consensus pattern (22 bp):
AAAATGAAATTTGAAAGTATTG
Found at i:612565 original size:22 final size:23
Alignment explanation
Indices: 612540--612587 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
612530 GGAATCGATA
612540 CCCCC-TTGAA-GAGGAACTGATT
1 CCCCCTTTGAATG-GGAACTGATT
612562 CCCCCTTTGAATGGGAACTGATT
1 CCCCCTTTGAATGGGAACTGATT
612585 CCC
1 CCC
612588 TCATTGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (23 bp):
CCCCCTTTGAATGGGAACTGATT
Found at i:612599 original size:21 final size:23
Alignment explanation
Indices: 612540--612594 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
612530 GGAATCGATA
612540 CCCCC-TTGAA-GAGGAACTGATT
1 CCCCCATTGAATG-GGAACTGATT
*
612562 CCCCCTTTGAATGGGAACTGATT
1 CCCCCATTGAATGGGAACTGATT
*
612585 CCCTCATTGA
1 CCCCCATTGA
612595 GGGAATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.17
23 23 0.79
24 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (23 bp):
CCCCCATTGAATGGGAACTGATT
Found at i:614735 original size:24 final size:24
Alignment explanation
Indices: 614703--614765 Score: 96
Period size: 22 Copynumber: 2.8 Consensus size: 24
614693 AATGTCCAGA
614703 GGGA-ACCGATTCCCCCCCCCAAG
1 GGGATACCGATTCCCCCCCCCAAG
614726 GGGATACCGATT--CCCCCCCAAG
1 GGGATACCGATTCCCCCCCCCAAG
*
614748 GGGATACTGATTCCCCCC
1 GGGATACCGATTCCCCCC
614766 TGAATGGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 21 0.58
23 4 0.11
24 11 0.31
ACGTcount: A:0.21, C:0.43, G:0.22, T:0.14
Consensus pattern (24 bp):
GGGATACCGATTCCCCCCCCCAAG
Found at i:614832 original size:22 final size:22
Alignment explanation
Indices: 614807--614863 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
614797 CTCGGAAGGA
614807 ACCGATTCCCCCTCAAGGGGGT
1 ACCGATTCCCCCTCAAGGGGGT
614829 ACCGATTCCCCCTCAAGGGGGT
1 ACCGATTCCCCCTCAAGGGGGT
614851 ACCGATTCCCCCT
1 ACCGATTCCCCCT
614864 GTTTAACGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.18, C:0.40, G:0.23, T:0.19
Consensus pattern (22 bp):
ACCGATTCCCCCTCAAGGGGGT
Found at i:618020 original size:16 final size:16
Alignment explanation
Indices: 617982--618013 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
617972 TATCGCCGAC
*
617982 CAAATTTTACTATTCA
1 CAAAATTTACTATTCA
617998 CAAAATTTACTATTCA
1 CAAAATTTACTATTCA
618014 TGTAATTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (16 bp):
CAAAATTTACTATTCA
Found at i:620192 original size:22 final size:23
Alignment explanation
Indices: 620151--620200 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
620141 AATAAGATGA
620151 ACAATCAAATTGAAAAAAAAAGC
1 ACAATCAAATTGAAAAAAAAAGC
*
620174 ACAATCAAATTGAAAAAAAAAAC
1 ACAATCAAATTGAAAAAAAAAGC
620197 ACAA
1 ACAA
620201 AAAAGAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.68, C:0.14, G:0.06, T:0.12
Consensus pattern (23 bp):
ACAATCAAATTGAAAAAAAAAGC
Found at i:620418 original size:2 final size:2
Alignment explanation
Indices: 620411--620468 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
620401 TAGTAATTTA
*
620411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
620452 AT AT AA AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
620469 TTTATTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:620486 original size:22 final size:24
Alignment explanation
Indices: 620409--620473 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 24
620399 TTTAGTAATT
* *
620409 TAATATATATATATATATATATATA
1 TAATATATATAT-TATGTATATAAA
620434 TATATATATATATTATGTATATAAA
1 TA-ATATATATATTATGTATATAAA
*
620459 TAATATATATTTTAT
1 TAATATATATATTAT
620474 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.33
25 14 0.39
26 10 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATATATATATTATGTATATAAA
Found at i:626340 original size:26 final size:28
Alignment explanation
Indices: 626280--626341 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
626270 GAGTATTGCT
*
626280 GAGCTCGACTCGACTCGAAAACTCTGAAATG
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
626311 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
626337 GAGCT
1 GAGCT
626342 TAAAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:627370 original size:29 final size:28
Alignment explanation
Indices: 627325--627379 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
627315 CTAACGATTA
*
627325 AAAAGTTGAATAATAAAA-ATATAGTTTG
1 AAAAGTTAAATAATAAAATA-ATAGTTTG
*
627353 AAAAGTTTAAATATTAAAATAATAGTT
1 AAAAG-TTAAATAATAAAATAATAGTT
627380 AAGATACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 17 0.74
30 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.35
Consensus pattern (28 bp):
AAAAGTTAAATAATAAAATAATAGTTTG
Found at i:628224 original size:3 final size:3
Alignment explanation
Indices: 628211--628284 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
628201 TTAAAAAATA
* *
628211 TAT TA- TAT TAT TAT TAT TAT TAT AAT TACT TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
628256 TAT TAT TAT T-T TAT ATAT AAT TAT T-T TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
628285 AGGTCTCAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
2 6 0.10
3 48 0.80
4 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:633262 original size:105 final size:105
Alignment explanation
Indices: 633023--633790 Score: 1130
Period size: 105 Copynumber: 7.4 Consensus size: 105
633013 CATTCATAGT
* * * * *
633023 CAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
633088 GGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCATAGC
66 GGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGC
633129 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
633194 GGACCGCTGGTTGTTAATAATAACTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
* *
633234 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
633299 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
*
633339 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
633404 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAGAGC
*
633445 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
633510 GGACCGCTGGTTGTCAACAACAACTTCCCAAATTCAGAGC
66 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
* *
633550 CAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
633615 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA-A--
66 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
* * * *
633652 C---TTC-A---CA-A-CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
** * *
633708 GGATGGCTGGTTGTCAACAA-ATAGTTTCCCAATTTCGGAGC
66 GGACCGCTGGTTGTCAACAACA-A-CTTCCCAATTTCAGAGC
* *
633749 CAATTTTAACTTCACAGCGAAGGATATTGGACTCGAGACAAC
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
633791 ACAACTTTCA
Statistics
Matches: 610, Mismatches: 37, Indels: 30
0.90 0.05 0.04
Matches are distributed among these distances:
92 1 0.00
93 62 0.10
94 12 0.02
95 3 0.00
97 1 0.00
98 1 0.00
99 3 0.00
100 2 0.00
101 1 0.00
102 1 0.00
104 3 0.00
105 319 0.52
106 201 0.33
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
Found at i:633435 original size:211 final size:209
Alignment explanation
Indices: 633023--633790 Score: 1137
Period size: 211 Copynumber: 3.7 Consensus size: 209
633013 CATTCATAGT
* * * *
633023 CAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAG
* * * *
633088 GGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGA
66 GGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* *
633153 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAATAAC
130 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACAA-
633218 TTCCCAATTTCAGAGC
194 TTCCCAATTTCAGAGC
** *
633234 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAG
633299 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
66 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
*
633364 ATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
131 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT-AACAA-
633429 TTCCCAATTTCAGAGC
194 TTCCCAATTTCAGAGC
* * *
633445 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAG
* *
633510 GGACCGCTGGTTGTCAACAACAACTTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
*
633575 ATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC---AACAA--
131 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACAATT
*
633635 --CAACTTC----C
196 CCCAATTTCAGAGC
* *
633643 CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAG
** * * *
633708 GGATGGCTGGTTGTCAACAA-ATAGTTTCCCAATTTCGGAGCCAATTTTAACTTCACAGCGAAGG
66 GGACCGCTGGTTGTCAACAACA-A-CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
633772 ATATTGGACTCGAGACAAC
129 ATATTGGACTCCAGACAAC
633791 ACAACTTTCA
Statistics
Matches: 517, Mismatches: 37, Indels: 18
0.90 0.06 0.03
Matches are distributed among these distances:
197 1 0.00
198 80 0.15
199 52 0.10
202 6 0.01
207 5 0.01
210 100 0.19
211 273 0.53
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (209 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAG
GGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACAATT
CCCAATTTCAGAGC
Found at i:633598 original size:316 final size:313
Alignment explanation
Indices: 633023--633790 Score: 1248
Period size: 316 Copynumber: 2.5 Consensus size: 313
633013 CATTCATAGT
*
633023 CAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
*
633088 GGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGA
66 GGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* * *
633153 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAATAAC
131 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAAC
* * *
633218 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTT
196 TTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTT
633283 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGA
261 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA-A
* ** *
633337 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGA
1 --CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGA
* * * *
633402 AGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAG
64 ATGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAG
*
633467 GATATTGGACTCCAGACAACTCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACA
129 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACA
633532 ACTTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAG
194 ACTTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAG
633597 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAA
259 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAA
633652 C---TTC-A---CA-A-CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
* * * *
633708 GGATGGCTGGTTGTCAACAAATAGTTTCCCAATTTCGGAGCCAATTTTAACTTCACAGCGAAGGA
66 GGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
*
633773 TATTGGACTCGAGACAAC
131 TATTGGACTCCAGACAAC
633791 ACAACTTTCA
Statistics
Matches: 422, Mismatches: 30, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
304 118 0.28
305 1 0.00
306 2 0.00
309 1 0.00
310 3 0.01
313 1 0.00
315 1 0.00
316 295 0.70
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (313 bp):
CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAT
GGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAAC
TTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAA
Found at i:633717 original size:93 final size:93
Alignment explanation
Indices: 633549--633727 Score: 295
Period size: 93 Copynumber: 1.9 Consensus size: 93
633539 AAATTCAGAG
* *
633549 CCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAACTTCACAACGAA
633614 GGGACCGCTGGTTGTCAACAACAACTTC
66 GGGACCGCTGGTTGTCAACAACAACTTC
* *
633642 CCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAACTTCACAACGAA
* **
633707 TGGATGGCTGGTTGTCAACAA
66 GGGACCGCTGGTTGTCAACAA
633728 ATAGTTTCCC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (93 bp):
CCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACACAAGTTCAACTTCACAACGAA
GGGACCGCTGGTTGTCAACAACAACTTC
Found at i:634720 original size:3 final size:3
Alignment explanation
Indices: 634707--634777 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
634697 TTAAAAAATA
* * *
634707 TAT TA- TAT TAT TAT TAT TAT AAT TACT TAT TAT TAT TAG TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* *
634752 TAT TAA T-T TAT ATAT AAT TAT T-T TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT
634778 AGGTCTCAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 5 0.09
3 43 0.80
4 6 0.11
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:636959 original size:24 final size:24
Alignment explanation
Indices: 636932--636979 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
636922 GCCAAAGAAA
*
636932 ATATTTAATTAAATTTTAAACATT
1 ATATATAATTAAATTTTAAACATT
*
636956 ATATATAATTAAATTTTATACATT
1 ATATATAATTAAATTTTAAACATT
636980 TTAAACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATATATAATTAAATTTTAAACATT
Found at i:636974 original size:17 final size:17
Alignment explanation
Indices: 636954--637008 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
636944 ATTTTAAACA
636954 TTATATATAATTAAATT
1 TTATATATAATTAAATT
* * **
636971 TTATACAT-TTTAAACA
1 TTATATATAATTAAATT
636987 TTATATATAATTAAATT
1 TTATATATAATTAAATT
637004 TTATA
1 TTATA
637009 CATTATATAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATATATAATTAAATT
Found at i:636981 original size:33 final size:33
Alignment explanation
Indices: 636944--637012 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
636934 ATTTAATTAA
636944 ATTTTAAACATTATATATAATTAAATTTTATAC
1 ATTTTAAACATTATATATAATTAAATTTTATAC
636977 ATTTTAAACATTATATATAATTAAATTTTATAC
1 ATTTTAAACATTATATATAATTAAATTTTATAC
637010 ATT
1 ATT
637013 ATATAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTTTAAACATTATATATAATTAAATTTTATAC
Found at i:637481 original size:41 final size:42
Alignment explanation
Indices: 637434--637560 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 42
637424 ATTCGCGTTG
*
637434 CATTTCGCGTTGCGATAAT-TGAAAATCG-CGTTGCGATTTTT
1 CATTTCGCGTTGCGATAATCT-AAAATCGTCGTTGCGATTTTC
* * * *
637475 CATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAATCTAAAATCGTCGTTGCGATTTTC
* * * * * *
637517 CAGTTCGCGTTGCGATAGTCTACAGTTGTCGTTACGATTTTC
1 CATTTCGCGTTGCGATAATCTAAAATCGTCGTTGCGATTTTC
637559 CA
1 CA
637561 AATTCGTTGG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 22 0.29
42 55 0.71
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (42 bp):
CATTTCGCGTTGCGATAATCTAAAATCGTCGTTGCGATTTTC
Found at i:637484 original size:20 final size:20
Alignment explanation
Indices: 637459--637692 Score: 91
Period size: 20 Copynumber: 11.8 Consensus size: 20
637449 TAATTGAAAA
* *
637459 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTACAGT
*
637479 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTACAGT
*
637501 T-GTCGTTGCGATTTTCCAGT
1 TCG-CGTTGCGATTTTACAGT
*
637521 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTACAGT
* * *
637543 T-GTCGTTACGATTTTCCAAAT
1 TCG-CGTTGCGATTTTAC-AGT
* *
637564 T--CGTTGGGA----A-A-A
1 TCGCGTTGCGATTTTACAGT
* *
637576 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTACAGT
*
637596 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTACAGT
* **
637616 TCGCGTTGCGATAGTTGA-AAA
1 TCGCGTTGCGAT--TTTACAGT
* *
637637 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTAC-AGT
637658 T--CGTTGCGATAGTTTACAGT
1 TCGCGTTGCGAT--TTTACAGT
637678 T-GTCGTTGCGATTTT
1 TCG-CGTTGCGATTTT
637693 CCAAATTCGT
Statistics
Matches: 161, Mismatches: 29, Indels: 48
0.68 0.12 0.20
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 7 0.04
19 18 0.11
20 67 0.42
21 26 0.16
22 41 0.25
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTACAGT
Found at i:637510 original size:22 final size:22
Alignment explanation
Indices: 637482--637554 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
637472 TTTCATTTCG
637482 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* *
637504 CGTTGCGAT--TTTCCAGTTCG-
1 CGTTGCGATAGTCTACAGTT-GT
637524 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
637546 CGTTACGAT
1 CGTTGCGAT
637555 TTTCCAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 16 0.38
21 2 0.05
22 24 0.57
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:637524 original size:42 final size:42
Alignment explanation
Indices: 637462--637560 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
637452 TTGAAAATCG
* *
637462 CGTTGCGATTTTTCATTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGT
637504 CGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGT
*
637546 CGTTACGATTTTCCA
1 CGTTGCGATTTTCCA
637561 AATTCGTTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.40
Consensus pattern (42 bp):
CGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGTTGT
Found at i:637648 original size:41 final size:40
Alignment explanation
Indices: 637596--637847 Score: 193
Period size: 41 Copynumber: 6.3 Consensus size: 40
637586 ATTTTTCATT
637596 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCAGTT-GCGTTGCGATAGTTGAAAA
* * * *
637637 TCGCGTTGCGATTTTCCAAATT-CGTTGCGATAGTTTACAG
1 TCGCGTTGCGATTTTCC-AGTTGCGTTGCGATAGTTGAAAA
* *
637677 TTGTCGTTGCGATTTTCCAAATT-CGTTGC-------GAAAA
1 TCG-CGTTGCGATTTTCC-AGTTGCGTTGCGATAGTTGAAAA
*
637711 TCGCGTTGAGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCAGTT-GCGTTGCGATAGTTGAAAA
* * * **
637752 TCGCGTTGCGATAGTCTACAGTTGTCGTTGCGAT-TTTCCAAA
1 TCGCGTTGCGAT--TTTCCAGTTG-CGTTGCGATAGTTGAAAA
* * *
637794 T-GCGTTGCGATAGTCTACAGTTATCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT--TTTCCAGTT-GCGTTGCGATAGTTGAAAA
637836 TCGCGTTGCGAT
1 TCGCGTTGCGAT
637848 AGTCTACAGT
Statistics
Matches: 173, Mismatches: 21, Indels: 32
0.77 0.09 0.14
Matches are distributed among these distances:
32 3 0.02
33 13 0.08
34 10 0.06
40 17 0.10
41 88 0.51
42 16 0.09
43 26 0.15
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (40 bp):
TCGCGTTGCGATTTTCCAGTTGCGTTGCGATAGTTGAAAA
Found at i:637664 original size:19 final size:19
Alignment explanation
Indices: 637640--637707 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
637630 TTGAAAATCG
637640 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
* **
637659 CGTTGCGATAGTTTACAGTTGT
1 CGTTGCGAT--TTTCCAAAT-T
637681 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
637700 CGTTGCGA
1 CGTTGCGA
637708 AAATCGCGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 18 0.45
20 6 0.15
21 6 0.15
22 10 0.25
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:637783 original size:22 final size:22
Alignment explanation
Indices: 637755--637910 Score: 121
Period size: 22 Copynumber: 7.4 Consensus size: 22
637745 TTGAAAATCG
637755 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
637777 CGTTGCGAT--TTTCCAAATG-
1 CGTTGCGATAGTCTACAGTTGT
*
637796 CGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATAGTCTACAGTTGT
* * *
637818 CGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATAGTCT-ACAGTTGT
637839 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
637861 CGTTGCGAT--TTTCCAAATG-
1 CGTTGCGATAGTCTACAGTTGT
* *
637880 CGTTGCGATAGTCTGCAGTTAT
1 CGTTGCGATAGTCTACAGTTGT
637902 CGTTGCGAT
1 CGTTGCGAT
637911 TTTCTAAATT
Statistics
Matches: 100, Mismatches: 25, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
19 18 0.18
20 12 0.12
21 27 0.27
22 43 0.43
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:637800 original size:115 final size:114
Alignment explanation
Indices: 637596--637804 Score: 296
Period size: 115 Copynumber: 1.8 Consensus size: 114
637586 ATTTTTCATT
* * *
637596 TCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAAATTCG
1 TCGCGTTGAGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTCTACAAATTCG
**
637661 TTGCGATAGTTTACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
66 TTGCGATA-TTTACAAATGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
**
637711 TCGCGTTGAGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTG
1 TCGCGTTGAGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT--TCTACAAAT-
*
637776 TCGTTGCGAT-TTTCCAAATG-CGTTGCGAT
63 TCGTTGCGATATTTACAAATGTCGTTGCGAT
637805 AGTCTACAGT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
115 61 0.73
116 7 0.08
117 5 0.06
118 10 0.12
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (114 bp):
TCGCGTTGAGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTCTACAAATTCG
TTGCGATATTTACAAATGTCGTTGCGATTTTCCAAATTCGTTGCGAAAA
Found at i:637868 original size:84 final size:84
Alignment explanation
Indices: 637734--637910 Score: 345
Period size: 84 Copynumber: 2.1 Consensus size: 84
637724 TTCCAGTTCG
637734 CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATGCGT
1 CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATGCGT
637799 TGCGATAGTCTACAGTTAT
66 TGCGATAGTCTACAGTTAT
637818 CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATGCGT
1 CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATGCGT
*
637883 TGCGATAGTCTGCAGTTAT
66 TGCGATAGTCTACAGTTAT
637902 CGTTGCGAT
1 CGTTGCGAT
637911 TTTCTAAATT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (84 bp):
CGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATGCGT
TGCGATAGTCTACAGTTAT
Found at i:637899 original size:41 final size:41
Alignment explanation
Indices: 637749--637928 Score: 261
Period size: 41 Copynumber: 4.3 Consensus size: 41
637739 CGATAGTTGA
*
637749 AAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCC
1 AAAT-GCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCC
* **
637791 AAATGCGTTGCGATAGTCTACAGTTATCGTTGCGATAGTTGA
1 AAATGCGTTGCGATAGTCTACAGTTATCGTTGCGAT-TTTCC
*
637833 AAATCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCC
1 AAAT-GCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCC
* *
637875 AAATGCGTTGCGATAGTCTGCAGTTATCGTTGCGATTTTCT
1 AAATGCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCC
*
637916 AAATTCGTTGCGA
1 AAATGCGTTGCGA
637929 AAAGTCGTTG
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
41 77 0.62
42 16 0.13
43 31 0.25
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (41 bp):
AAATGCGTTGCGATAGTCTACAGTTATCGTTGCGATTTTCC
Found at i:637925 original size:19 final size:19
Alignment explanation
Indices: 637860--637928 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
637850 TCTACAGTTG
*
637860 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCTAAAT
* ** **
637879 GCGTTGCGATAGTCTGCAGTT
1 TCGTTGCGATTTTCT--AAAT
637900 ATCGTTGCGATTTTCTAAAT
1 -TCGTTGCGATTTTCTAAAT
637920 TCGTTGCGA
1 TCGTTGCGA
637929 AAAGTCGTTG
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 20 0.56
20 2 0.06
21 2 0.06
22 12 0.33
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (19 bp):
TCGTTGCGATTTTCTAAAT
Found at i:638031 original size:6 final size:6
Alignment explanation
Indices: 638020--638055 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
638010 ACGTATTACA
638020 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
638056 CGAGACGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:638571 original size:6 final size:6
Alignment explanation
Indices: 638560--638602 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
638550 TCGTCTCGTC
638560 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
638603 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:638748 original size:20 final size:20
Alignment explanation
Indices: 638723--638815 Score: 132
Period size: 20 Copynumber: 4.6 Consensus size: 20
638713 ACTGTACACT
638723 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
638743 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
638763 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
638784 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
638804 ATCGCAACGCGA
1 ATCGCAACGCGA
638816 TTTCCAAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 47 0.76
21 15 0.24
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:638795 original size:41 final size:41
Alignment explanation
Indices: 638743--638886 Score: 173
Period size: 41 Copynumber: 3.4 Consensus size: 41
638733 GAAATGGAAA
*
638743 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACT
*
638784 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAAAT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACT
* * * *
638825 ACAACGCGAATTTGCGATAGTGG-AGATCGCAACGCGATTTCCAACT
1 --ATCGC-AA--CGCGA-AATGGAAAATCGCAACGCGATTTCCAACT
638871 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
638887 CAACGCGAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
40 3 0.03
41 43 0.49
43 6 0.07
44 6 0.07
46 25 0.29
47 4 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTCCAACT
Found at i:638890 original size:21 final size:21
Alignment explanation
Indices: 638850--638890 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
638840 GATAGTGGAG
**
638850 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
638871 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
638891 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:639288 original size:17 final size:17
Alignment explanation
Indices: 639266--639309 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
639256 AATTTATTAA
639266 ATTAAATTAAAATTATG
1 ATTAAATTAAAATTATG
639283 ATTAAATTAAAATTATG
1 ATTAAATTAAAATTATG
639300 ATTAAATTAA
1 ATTAAATTAA
639310 TAAAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
ATTAAATTAAAATTATG
Found at i:644844 original size:29 final size:29
Alignment explanation
Indices: 644812--644877 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
644802 AAAGTTTGAA
*
644812 AATTTAGATACCTATTTTGACCAAAAAAT
1 AATTTAGATACCTATTTTAACCAAAAAAT
* **
644841 AATTTTAGGTATTTATTTTAACCAAAAAAT
1 AA-TTTAGATACCTATTTTAACCAAAAAAT
*
644871 ACTTTAG
1 AATTTAG
644878 GTACTTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (29 bp):
AATTTAGATACCTATTTTAACCAAAAAAT
Found at i:644848 original size:30 final size:30
Alignment explanation
Indices: 644814--644871 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
644804 AGTTTGAAAA
*
644814 TTTAGATACCTATTTTGACCAAAAAATAAT
1 TTTAGATACCTATTTTAACCAAAAAATAAT
* **
644844 TTTAGGTATTTATTTTAACCAAAAAATA
1 TTTAGATACCTATTTTAACCAAAAAATA
644872 CTTTAGGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTAGATACCTATTTTAACCAAAAAATAAT
Found at i:644878 original size:29 final size:30
Alignment explanation
Indices: 644824--644880 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
644814 TTTAGATACC
* *
644824 TATTTTGACCAAAAAATAATTTTAGGTATT
1 TATTTTAACCAAAAAATAACTTTAGGTATT
644854 TATTTTAACCAAAAAAT-ACTTTAGGTA
1 TATTTTAACCAAAAAATAACTTTAGGTA
644881 CTTAAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (30 bp):
TATTTTAACCAAAAAATAACTTTAGGTATT
Found at i:645283 original size:11 final size:11
Alignment explanation
Indices: 645267--645291 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
645257 AGGAAAGACG
645267 GGTTAATATAC
1 GGTTAATATAC
645278 GGTTAATATAC
1 GGTTAATATAC
645289 GGT
1 GGT
645292 AGTACCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Done.