Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 403 of 425
Found at i:123057837 original size:30 final size:30
Alignment explanation
Indices: 123057772--123057838 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
123057762 AGTCCCTTAA
*** *
123057772 AATATTTGCACTATTGGTCCTTCAACTTTT
1 AATATTTGCACTATTAACCCTTCAAATTTT
*
123057802 CATATTTGCACT-TTAACCCTTCAAATTTT
1 AATATTTGCACTATTAACCCTTCAAATTTT
123057831 GAATATTT
1 -AATATTT
123057839 ACTCTTGGGC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.46
Consensus pattern (30 bp):
AATATTTGCACTATTAACCCTTCAAATTTT
Found at i:123059184 original size:37 final size:37
Alignment explanation
Indices: 123059119--123059213 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
123059109 AGTACACAAG
*
123059119 TAATCCAACC-AAAACAC-CTCAAACGCTCATAAGAGC
1 TAATCCAACCGATAACACGC-CAAACGCTCATAAGAGC
* *
123059155 TAATCCAACCGATAACACGCCAAATGCTCATTAGAGC
1 TAATCCAACCGATAACACGCCAAACGCTCATAAGAGC
* *
123059192 TAATCCCACTGATAACACGCCA
1 TAATCCAACCGATAACACGCCA
123059214 CGACACTAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
36 10 0.19
37 41 0.79
38 1 0.02
ACGTcount: A:0.40, C:0.33, G:0.11, T:0.17
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAACGCTCATAAGAGC
Found at i:123061657 original size:39 final size:39
Alignment explanation
Indices: 123061614--123061692 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
123061604 ATTCACGGTT
**
123061614 TGTGTTTCTATAATTTGAAATAAGTTATAAATTATTGCA
1 TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
123061653 TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
1 TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
123061692 T
1 T
123061693 TTTGAATTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (39 bp):
TGTGTTTCTATAATCCGAAATAAGTTATAAATTATTGCA
Found at i:123061848 original size:17 final size:17
Alignment explanation
Indices: 123061826--123061860 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
123061816 ATTGAATTGA
*
123061826 ATATATGTTTATATGTG
1 ATATATGTATATATGTG
123061843 ATATATGTATATATGTG
1 ATATATGTATATATGTG
123061860 A
1 A
123061861 AATTGAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
ATATATGTATATATGTG
Found at i:123062223 original size:18 final size:18
Alignment explanation
Indices: 123062200--123062250 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
123062190 GAAATGACAA
123062200 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
*
123062218 AGATGAGAAATGTGATATG
1 AGATGAGAAATG-AATATG
*
123062237 AAATGATGAAATGA
1 AGATGA-GAAATGA
123062251 GATGTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.43
19 10 0.36
20 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:123062270 original size:32 final size:33
Alignment explanation
Indices: 123062209--123062270 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
123062199 AAGATGAGAA
*
123062209 ATGAATATGAGATGAGAAATGTGATATGAAATG
1 ATGAATATGAGATGAGAAATGTGAAATGAAATG
*
123062242 ATGAA-ATGAGATGTGAAACT-TGAAATGAA
1 ATGAATATGAGATGAGAAA-TGTGAAATGAA
123062271 TTCAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.26
Consensus pattern (33 bp):
ATGAATATGAGATGAGAAATGTGAAATGAAATG
Found at i:123072923 original size:39 final size:39
Alignment explanation
Indices: 123072880--123072954 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
123072870 TTGGTATGGA
*
123072880 AGCTTAGCCTAATGCTTGGTATGTTTTTGGTTTGAAAGT
1 AGCTTAGCCTAATGCTTAGTATGTTTTTGGTTTGAAAGT
* *
123072919 AGCTTAGCCTAATTCTTAGTTTGTTTTTGGTTTGAA
1 AGCTTAGCCTAATGCTTAGTATGTTTTTGGTTTGAA
123072955 GCTTGATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.47
Consensus pattern (39 bp):
AGCTTAGCCTAATGCTTAGTATGTTTTTGGTTTGAAAGT
Found at i:123075310 original size:19 final size:19
Alignment explanation
Indices: 123075286--123075322 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
123075276 CGGTCATATG
*
123075286 ACCCATCCACACGGCCTCA
1 ACCCATCCACAAGGCCTCA
123075305 ACCCATCCACAAGGCCTC
1 ACCCATCCACAAGGCCTC
123075323 GAAACACGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.51, G:0.11, T:0.11
Consensus pattern (19 bp):
ACCCATCCACAAGGCCTCA
Found at i:123076123 original size:2 final size:2
Alignment explanation
Indices: 123076116--123076145 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
123076106 TAAAATTCAA
*
123076116 GT GT GT GT GT TT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
123076146 TCTTTTGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
GT
Found at i:123079304 original size:24 final size:24
Alignment explanation
Indices: 123079277--123079332 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
123079267 CTCGTAAGAA
*
123079277 CTTACTGTTTTCAGCTCAT-TGGAG
1 CTTACTGTTTTCAACTCATAT-GAG
* *
123079301 CTTACT-ATTTCAACTCGTATGAG
1 CTTACTGTTTTCAACTCATATGAG
123079324 CTTACTGTT
1 CTTACTGTT
123079333 AAGCTTGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (24 bp):
CTTACTGTTTTCAACTCATATGAG
Found at i:123079367 original size:23 final size:23
Alignment explanation
Indices: 123079285--123079373 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
123079275 AACTTACTGT
* *
123079285 TTTCAGCTCATTGGAGCTTACTA
1 TTTCAGCTCATTAGAGCTTACCA
* *
123079308 TTTCAACTC-GTATGAGCTTA-C-
1 TTTCAGCTCATTA-GAGCTTACCA
* *
123079329 TGTTAAGCTTGA-TAGAGCTTACCA
1 T-TTCAGC-TCATTAGAGCTTACCA
123079353 TTTCAGCTCATTAGAGCTTAC
1 TTTCAGCTCATTAGAGCTTAC
123079374 TGTTATCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
21 1 0.02
22 14 0.28
23 34 0.68
24 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACCA
Found at i:123081513 original size:2 final size:2
Alignment explanation
Indices: 123081506--123081531 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
123081496 TTGGAGAGCG
123081506 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
123081532 GTTTCCCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123081707 original size:36 final size:35
Alignment explanation
Indices: 123081596--123081714 Score: 132
Period size: 35 Copynumber: 3.4 Consensus size: 35
123081586 TCTGTTTTGA
* *
123081596 TGTGTTTCGGTTGGACTAGCTATTATGAGCATTGG
1 TGTGTTTCGGATGGACTAGCTATTGTGAGCATTGG
** * * *
123081631 TGTGTTTTAGAGGGATTAGCTTTTGTGAGCATTGG
1 TGTGTTTCGGATGGACTAGCTATTGTGAGCATTGG
* * *
123081666 TGTGTTTCGGATGGACTGGCTCTTGCGAGCATCTGG
1 TGTGTTTCGGATGGACTAGCTATTGTGAGCAT-TGG
123081702 TGTGTTT-GGATGG
1 TGTGTTTCGGATGG
123081715 TTTGTCAATG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
35 59 0.86
36 10 0.14
ACGTcount: A:0.14, C:0.11, G:0.35, T:0.39
Consensus pattern (35 bp):
TGTGTTTCGGATGGACTAGCTATTGTGAGCATTGG
Found at i:123097639 original size:34 final size:34
Alignment explanation
Indices: 123097596--123097663 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
123097586 CTACTCTTTT
* *
123097596 TTATTCGAGATTAATTTACTTATTTGTTAAGAAC
1 TTATTCGAGATGAATTTACTTAGTTGTTAAGAAC
*
123097630 TTATTCGAGATGAATTTACTTGGTTGTTAAGAAC
1 TTATTCGAGATGAATTTACTTAGTTGTTAAGAAC
123097664 ACATAAGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (34 bp):
TTATTCGAGATGAATTTACTTAGTTGTTAAGAAC
Found at i:123102846 original size:13 final size:13
Alignment explanation
Indices: 123102818--123102890 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 13
123102808 ACACTTAAAT
* *
123102818 TTTTCTAAAGCTC
1 TTTTCAAAAGCAC
* *
123102831 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
123102844 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* * * *
123102857 TTTTCCACAGTAT
1 TTTTCAAAAGCAC
123102870 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
123102883 TTTTCAAA
1 TTTTCAAA
123102891 CGCAATGAAG
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:123102854 original size:26 final size:26
Alignment explanation
Indices: 123102824--123102890 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
123102814 AAATTTTTCT
* *
123102824 AAAGCTCTTCTCAAAAGTACTTCTCA
1 AAAGCACTTTTCAAAAGTACTTCTCA
* * * *
123102850 AAAGCACTTTTCCACAGTATTTTTCA
1 AAAGCACTTTTCAAAAGTACTTCTCA
123102876 AAAGCACTTTTCAAA
1 AAAGCACTTTTCAAA
123102891 CGCAATGAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
AAAGCACTTTTCAAAAGTACTTCTCA
Found at i:123105513 original size:21 final size:21
Alignment explanation
Indices: 123105487--123105529 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
123105477 TTGAAGGATT
*
123105487 TGTAAATCTTTTTAAACATGC
1 TGTAAATCTTCTTAAACATGC
123105508 TGTAAATCTTCTTAAACATGC
1 TGTAAATCTTCTTAAACATGC
123105529 T
1 T
123105530 TTCATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (21 bp):
TGTAAATCTTCTTAAACATGC
Found at i:123108664 original size:18 final size:17
Alignment explanation
Indices: 123108641--123108685 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
123108631 AAAATCCTAG
*
123108641 TTTTTCCTTTCTTTTTCT
1 TTTTTCCTTT-TTCTTCT
123108659 TTTTTCCCTTTTTCTTCT
1 TTTTT-CCTTTTTCTTCT
123108677 TTCTTTCCT
1 TT-TTTCCT
123108686 CTGTTTCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCCTTTTTCTTCT
Found at i:123116965 original size:131 final size:131
Alignment explanation
Indices: 123116707--123117033 Score: 453
Period size: 131 Copynumber: 2.5 Consensus size: 131
123116697 CAACCGTCAG
* * *
123116707 CCTACTCCACTACAACTTTAGGGAGCTAGGGCGATAGT--C-CAAATCTGCTTCACTGCAACATC
1 CCTACTCCACTACAACTTTAGGGAGCTA--G-GTTAGTGACTTAAATCTGCTTCACTGCAACTTC
** * * *
123116769 AGGAAGCCTAGATTCACCGTCTTTGATCTGTTCCACTGCAACTTCAGGGAAACGAGATCTAAAAT
63 A-GAAGCAAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAAATCTAAAAT
123116834 TTCAA
127 TTCAA
*
123116839 CCTACTCCACTACAACCTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGA
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGA
* * *
123116904 AGTAAAGATTCATCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAGACGAAATCTAAAATTTCA
66 AGCAAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAAATCTAAAATTTCA
*
123116969 G
131 A
* * *
123116970 CCTACTCCACTACAACTTTAGGGAGCTAAGTTAGTGACTTAAATCTGTTTTACTGCAACTTCAG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAG
123117034 GGAAACAGGA
Statistics
Matches: 175, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
129 5 0.03
130 1 0.01
131 120 0.69
132 49 0.28
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (131 bp):
CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGA
AGCAAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACGAAATCTAAAATTTCA
A
Found at i:123132826 original size:3 final size:3
Alignment explanation
Indices: 123132790--123133018 Score: 147
Period size: 3 Copynumber: 77.0 Consensus size: 3
123132780 TTAATTTGAC
* * * *
123132790 ATT ATT ATC ATT ATT -TT AAT ATT ATC ACT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
123132835 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
123132883 AAC ATGT -TT ATT TTT ATT TTT A-T ATTT ATT A-T ATT A-T ATTT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A-TT ATT
* * **
123132927 -TT ATT -TCT GTT ACT ATT ATT -TT A-T ATAT ATTT ATT ACC ATTT ATTT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT A-TT A-TT
* ** *
123132973 ATT ATT ATT AGT AAC A-T ATT ATT ATT TTT ATT ATT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
123133019 TTTTTATCAT
Statistics
Matches: 177, Mismatches: 30, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
2 19 0.11
3 140 0.79
4 17 0.10
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:123134400 original size:12 final size:12
Alignment explanation
Indices: 123134385--123134414 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
123134375 ATATCTAAAT
123134385 TTAATTATAATA
1 TTAATTATAATA
*
123134397 TTAATAATAATA
1 TTAATTATAATA
123134409 TTAATT
1 TTAATT
123134415 TATATAAATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATTATAATA
Found at i:123139815 original size:15 final size:14
Alignment explanation
Indices: 123139746--123139875 Score: 72
Period size: 15 Copynumber: 9.0 Consensus size: 14
123139736 TATATTATTG
*
123139746 CTATTATTATGTT-T
1 CTATTTTTAT-TTAT
*
123139760 CTATTTATATTTAT
1 CTATTTTTATTTAT
*
123139774 -T-TTGTTATTCTAAT
1 CTATTTTTATT-T-AT
*
123139788 ACTATTGTTATTTAT
1 -CTATTTTTATTTAT
123139803 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
123139818 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
123139832 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
123139847 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
*
123139862 CTATTTCTATTTAT
1 CTATTTTTATTTAT
123139876 ATACTAATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
12 6 0.06
13 6 0.06
14 32 0.34
15 38 0.40
16 4 0.04
17 8 0.09
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.64
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:123139828 original size:29 final size:28
Alignment explanation
Indices: 123139746--123139875 Score: 83
Period size: 29 Copynumber: 4.5 Consensus size: 28
123139736 TATATTATTG
*
123139746 CTATTATTATGTT-TCTATTTATATTTAT
1 CTATTTTTAT-TTATCTATTTATATTTAT
*
123139774 -T-TTGTTATTCTAATACTATTGT-TATTTAT
1 CTATTTTTATT-T-AT-CTATT-TATATTTAT
*
123139803 CTAATTTTTATTTATCTATTTATATTTCT
1 CT-ATTTTTATTTATCTATTTATATTTAT
*
123139832 ACTATTATTATATT-TCTATTTATTATATT-T
1 -CTATTTTTAT-TTATCTATTTA-TAT-TTAT
*
123139862 CTATTTCTATTTAT
1 CTATTTTTATTTAT
123139876 ATACTAATAT
Statistics
Matches: 82, Mismatches: 6, Indels: 27
0.71 0.05 0.23
Matches are distributed among these distances:
25 1 0.01
26 7 0.09
27 1 0.01
28 4 0.05
29 47 0.57
30 12 0.15
31 3 0.04
32 7 0.09
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.64
Consensus pattern (28 bp):
CTATTTTTATTTATCTATTTATATTTAT
Found at i:123139835 original size:44 final size:44
Alignment explanation
Indices: 123139787--123139906 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 44
123139777 GTTATTCTAA
*
123139787 TACTATTGTTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTC
1 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTC
* *
123139831 TACTATTATTATATTTCTATTTATTATATTTCTATTTCTATTTATA
1 TACTATTATTATATTTCTATTTATTATATTTCTATTTATA-TT-TC
* *
123139877 TACTAATATTAT-TTTC-A-TTATTATTTTTCT
1 TACTATTATTATATTTCTATTTATTATATTTCT
123139907 TATATATGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
43 16 0.24
44 28 0.42
45 10 0.15
46 12 0.18
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (44 bp):
TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTC
Found at i:123139844 original size:17 final size:15
Alignment explanation
Indices: 123139822--123139867 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
123139812 ATTTATCTAT
123139822 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
123139839 TTATATTTCTATTTA
1 TTATATTTCTATTTA
123139854 TTATATTTCTATTT
1 TTATATTTCTATTT
123139868 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:123140042 original size:25 final size:25
Alignment explanation
Indices: 123140014--123140062 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
123140004 CTCATTTCAA
* *
123140014 ATTTTTATACAGTATTTATTTTAAT
1 ATTTTCATACAGTATGTATTTTAAT
* *
123140039 ATTTTCATATATTATGTATTTTAA
1 ATTTTCATACAGTATGTATTTTAA
123140063 ACTTTTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
ATTTTCATACAGTATGTATTTTAAT
Found at i:123141937 original size:19 final size:20
Alignment explanation
Indices: 123141913--123141953 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
123141903 AGGTGAGAAG
123141913 TAAAAA-TTTAGGGGGAAAA
1 TAAAAAGTTTAGGGGGAAAA
*
123141932 TAAAAAGTTTTGGGGGAAAA
1 TAAAAAGTTTAGGGGGAAAA
123141952 TA
1 TA
123141954 GTAGATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (20 bp):
TAAAAAGTTTAGGGGGAAAA
Found at i:123146386 original size:2 final size:2
Alignment explanation
Indices: 123146379--123146404 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
123146369 ATCAGCTAAT
123146379 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
123146405 GAAATTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:123158842 original size:2 final size:2
Alignment explanation
Indices: 123158835--123158868 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
123158825 TATTAGTCTC
123158835 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
123158869 CTTACAACCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123169016 original size:25 final size:26
Alignment explanation
Indices: 123168988--123169036 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
123168978 GAAAGTAAAA
* *
123168988 AAATTAGTTAAATTATATA-ATATTT
1 AAATAAGTTAAAATATATATATATTT
*
123169013 AAATAATTTAAAATATATATATAT
1 AAATAAGTTAAAATATATATATAT
123169037 GAAACATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AAATAAGTTAAAATATATATATATTT
Found at i:123169115 original size:27 final size:25
Alignment explanation
Indices: 123169068--123169117 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
123169058 TTTAAATAAT
**
123169068 TAATATAAATTATTTGTAAAATTAA
1 TAATATAAAAAATTTGTAAAATTAA
123169093 TAATATAAAAAATATTGTTAAAATT
1 TAATATAAAAAAT-TTG-TAAAATT
123169118 TTAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 3 0.14
27 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TAATATAAAAAATTTGTAAAATTAA
Found at i:123169137 original size:30 final size:27
Alignment explanation
Indices: 123169089--123169157 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 27
123169079 ATTTGTAAAA
123169089 TTAATA-ATATAAAAAATATTGTTAAA-ATT
1 TTAATATA-ATAAAAAATA-T-TTAAATA-T
*
123169118 TTAAATATAATAAATAATATTTAAATAT
1 TT-AATATAATAAAAAATATTTAAATAT
123169146 TTAATATAATAA
1 TTAATATAATAA
123169158 TATATAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 10 0.28
28 8 0.22
29 4 0.11
30 13 0.36
31 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (27 bp):
TTAATATAATAAAAAATATTTAAATAT
Found at i:123169142 original size:20 final size:21
Alignment explanation
Indices: 123169117--123169171 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 21
123169107 TTGTTAAAAT
123169117 TTTAAATATAATA-AATAATA
1 TTTAAATATAATATAATAATA
123169137 TTTAAATATTTAATATAATAATA
1 TTTAAATA--TAATATAATAATA
*
123169160 TATAAAATATAA
1 T-TTAAATATAA
123169172 ATCAATCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.27
22 8 0.27
23 8 0.27
24 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAATATAATATAATAATA
Found at i:123169143 original size:27 final size:27
Alignment explanation
Indices: 123169093--123169169 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
123169083 GTAAAATTAA
* * *
123169093 TAATATAAAAAATATTGTTAAAAT-TT
1 TAATATAATAAATAATATTAAAATATT
*
123169119 TAAATATAATAAATAATATTTAAATATT
1 T-AATATAATAAATAATATTAAAATATT
123169147 TAATATAAT-AAT-ATA-TAAAATAT
1 TAATATAATAAATAATATTAAAATAT
123169170 AAATCAATCT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 7 0.16
25 3 0.07
26 4 0.09
27 27 0.61
28 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (27 bp):
TAATATAATAAATAATATTAAAATATT
Found at i:123172567 original size:31 final size:31
Alignment explanation
Indices: 123172532--123172593 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
123172522 ATTATTAGCC
123172532 TAATGACTTAAATAAAAATTTTCGAATAGTT
1 TAATGACTTAAATAAAAATTTTCGAATAGTT
* * * * *
123172563 TAATGATTTGAATTATAATTTTTGAATAGTT
1 TAATGACTTAAATAAAAATTTTCGAATAGTT
123172594 CAATAACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.45
Consensus pattern (31 bp):
TAATGACTTAAATAAAAATTTTCGAATAGTT
Found at i:123190007 original size:11 final size:11
Alignment explanation
Indices: 123189989--123190028 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
123189979 ACAATAACAA
123189989 TAAAATAATAG
1 TAAAATAATAG
* *
123190000 TAATATAATAT
1 TAAAATAATAG
*
123190011 TAAAATGATAG
1 TAAAATAATAG
123190022 TAAAATA
1 TAAAATA
123190029 GGAAGAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (11 bp):
TAAAATAATAG
Found at i:123190007 original size:22 final size:22
Alignment explanation
Indices: 123189981--123190053 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
123189971 ATATCGAAAC
123189981 AATAACAATAAAATAATAGTAA
1 AATAACAATAAAATAATAGTAA
* * * *
123190003 TATAATATTAAAATGATAGTAA
1 AATAACAATAAAATAATAGTAA
** *
123190025 AATAGGAAGAAAATAATAAG-AA
1 AATAACAATAAAATAAT-AGTAA
123190047 AATAACA
1 AATAACA
123190054 TTTAAAAATA
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
22 36 0.95
23 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (22 bp):
AATAACAATAAAATAATAGTAA
Found at i:123194045 original size:17 final size:18
Alignment explanation
Indices: 123194023--123194059 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
123194013 TAATAAAAAT
123194023 ATAA-TTATATTATTT-TA
1 ATAATTTATA-TATTTATA
123194040 ATAATTTATATATTTATA
1 ATAATTTATATATTTATA
123194058 AT
1 AT
123194060 TTTAAAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTATATATTTATA
Found at i:123194089 original size:16 final size:16
Alignment explanation
Indices: 123194068--123194101 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
123194058 ATTTTAAAGG
123194068 ATTAAAATAAAATTTT
1 ATTAAAATAAAATTTT
123194084 ATTAAAATAAAATTTT
1 ATTAAAATAAAATTTT
123194100 AT
1 AT
123194102 CATTTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAAATAAAATTTT
Found at i:123198555 original size:11 final size:11
Alignment explanation
Indices: 123198539--123198565 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
123198529 ATGAAAATCC
123198539 ATTAATTAAAT
1 ATTAATTAAAT
123198550 ATTAATTAAAT
1 ATTAATTAAAT
123198561 ATTAA
1 ATTAA
123198566 ACACTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAATTAAAT
Found at i:123205218 original size:31 final size:31
Alignment explanation
Indices: 123205183--123205248 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
123205173 TCTTTAAATA
*
123205183 TGTACAACTGAATCAAAA-TCAAAGTTTAATG
1 TGTACAACTGAACCAAAAGT-AAAGTTTAATG
** *
123205214 TGTACATTTGAACCAAAAGTAAAGTTTCATG
1 TGTACAACTGAACCAAAAGTAAAGTTTAATG
123205245 TGTA
1 TGTA
123205249 TAATTACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (31 bp):
TGTACAACTGAACCAAAAGTAAAGTTTAATG
Found at i:123208013 original size:18 final size:19
Alignment explanation
Indices: 123207977--123208014 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
123207967 TTTTAATTTC
*
123207977 TATTCCTGAATACTTTGTT
1 TATTCATGAATACTTTGTT
123207996 TATTCATGAATA-TTTGTT
1 TATTCATGAATACTTTGTT
123208014 T
1 T
123208015 CCTTGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (19 bp):
TATTCATGAATACTTTGTT
Found at i:123213696 original size:56 final size:56
Alignment explanation
Indices: 123213636--123213750 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
123213626 AAGTGTGGGT
123213636 TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
1 TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
123213692 TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
1 TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
123213748 TTT
1 TTT
123213751 AATGGTTTCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (56 bp):
TTTGAAATTAGGACATGTAATGGAAGAACAACAGTTATTTATCCATTAACAGGCTC
Found at i:123223212 original size:46 final size:44
Alignment explanation
Indices: 123223108--123223215 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
123223098 TGTCTTTGAC
** * * *
123223108 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
123223152 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
123223198 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
123223216 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:123230597 original size:46 final size:44
Alignment explanation
Indices: 123230493--123230600 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
123230483 TGTCTTTGAC
** * * *
123230493 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
123230537 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
123230583 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
123230601 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:123233088 original size:18 final size:18
Alignment explanation
Indices: 123233064--123233109 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
123233054 TTATAAATAG
*
123233064 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
123233083 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
123233101 TATTATTTT
1 TATTATTTT
123233110 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:123237383 original size:20 final size:20
Alignment explanation
Indices: 123237347--123237385 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
123237337 AAAAGAGAAA
* *
123237347 AAAACAAAAATATAAAAAAC
1 AAAACAAAAAAACAAAAAAC
123237367 AAAACAAAAAAACAAAAAA
1 AAAACAAAAAAACAAAAAA
123237386 GAGAGATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAACAAAAAAACAAAAAAC
Found at i:123237996 original size:15 final size:16
Alignment explanation
Indices: 123237978--123238012 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
123237968 AAGCAAAAAA
123237978 AAAAAAAAAAGAAA-G
1 AAAAAAAAAAGAAATG
*
123237993 AAAAAAGAAAGAAATG
1 AAAAAAAAAAGAAATG
123238009 AAAA
1 AAAA
123238013 TGGAGAGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGAAATG
Found at i:123237999 original size:11 final size:11
Alignment explanation
Indices: 123237967--123238006 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
123237957 CATTCATTCA
123237967 AAAGCAAAAAA-
1 AAAG-AAAAAAG
*
123237978 AAAAAAAAAAG
1 AAAGAAAAAAG
123237989 AAAGAAAAAAG
1 AAAGAAAAAAG
123238000 AAAGAAA
1 AAAGAAA
123238007 TGAAAATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:123239700 original size:75 final size:75
Alignment explanation
Indices: 123239595--123240445 Score: 683
Period size: 75 Copynumber: 10.9 Consensus size: 75
123239585 TTTCTGTTTC
* * ** * *
123239595 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACATGCTGAAGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
123239660 TGTTTTTCAA
66 TGTTTTTCAA
* * *
123239670 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTTAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
123239734 TTCTGTTTTAATTTCTATTTTTTA
63 TTCTG--TT--TTTC-A------A
* * * * * * *
123239758 AAAAATTAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCGCGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
123239823 TGTATTTTAATTTA
66 TGT-TTTTCA---A
* *
123239837 TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTGAGGTATTTTC
1 ------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
123239902 AATTTCTGTTTTTCAA
60 AATTTCTGTTTTTCAA
* * * * **
123239918 AAAAATCAACTCATATTGCGAGAGTTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAA-TT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* **
123239981 T-ATCATC-A
66 TGTTTTTCAA
* * *
123239989 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
***
123240054 TGCTCAATTTATGTTTTTC
66 TG-------T-T-TTTCAA
*
123240073 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
123240138 TGTTTTTC-A
66 TGTTTTTCAA
* * * **
123240147 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAAGTCACATTGAGGTATTTT--A----
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
123240206 ---TTATCAA
66 TGTTTTTCAA
* * *
123240213 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
123240278 TGTTTTAATTTTCGTGTTTCAA
66 TG---------T--T-TTTCAA
* * * ** *
123240300 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACAATGAGGTATTTTTAATT
1 AAAA--ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
123240365 TCTGTTTTTC--
64 TCTGTTTTTCAA
* * *
123240375 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
123240440 TGTTTT
66 TGTTTT
123240446 CTTCAATTTA
Statistics
Matches: 631, Mismatches: 86, Indels: 120
0.75 0.10 0.14
Matches are distributed among these distances:
65 4 0.01
66 52 0.08
68 1 0.00
71 57 0.09
72 6 0.01
73 60 0.10
74 56 0.09
75 94 0.15
76 1 0.00
77 28 0.04
78 1 0.00
79 6 0.01
80 1 0.00
81 5 0.01
82 3 0.00
83 4 0.01
84 69 0.11
85 60 0.10
86 22 0.03
87 9 0.01
88 35 0.06
89 57 0.09
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAA
Found at i:123239831 original size:88 final size:87
Alignment explanation
Indices: 123239649--123239914 Score: 315
Period size: 85 Copynumber: 3.1 Consensus size: 87
123239639 TGCTGAAGTA
* * * * *
123239649 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTTTAATTTCTATTTTT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG--GA
*
123239714 CACGCTGAGGTATTTTTAATTTCTG
63 CACGCTGAGGTATTTTCAATTTCTG
* * * * *
123239739 -TTTTAATTTCTATTTTTTAAAAAATTAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCGC
1 TTTTTAATTTCTATTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACAC
* *
123239803 GCTGAGGTATTGTCAATTTTTG
66 GCTGAGGTATTTTCAATTTCTG
* * **
123239825 TATTTTAA-TT-TA-TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACA
1 T-TTTTAATTTCTATTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACA
123239887 CGCTGAGGTATTTTCAATTTCTG
65 CGCTGAGGTATTTTCAATTTCTG
123239910 TTTTT
1 TTTTT
123239915 CAAAAAAATC
Statistics
Matches: 150, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
84 4 0.03
85 63 0.42
86 23 0.15
87 2 0.01
88 43 0.29
89 15 0.10
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (87 bp):
TTTTTAATTTCTATTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACAC
GCTGAGGTATTTTCAATTTCTG
Found at i:123240000 original size:71 final size:73
Alignment explanation
Indices: 123239843--123240276 Score: 420
Period size: 84 Copynumber: 5.9 Consensus size: 73
123239833 TTTATGTTTC
* *
123239843 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TT-
* **
123239908 TGTTTTTCAA
64 TGATCATCAA
* * * *
123239918 AAAAATCAACTCATATTGCGAGAGTTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTG
123239982 ATCATC-A
66 ATCATCAA
*
123239989 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TT-
* * *
123240054 TGCTCAATTTATGTTTTTC
64 TGATC-A-TCA-------A
* * *
123240073 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TT-
* **
123240138 TGTTTTTC-A
64 TGATCATCAA
* * *
123240147 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAAGTCACATTGAGGTATTTT--A--T-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTG
123240207 -T-ATCAA
66 ATCATCAA
* * * * *
123240213 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
123240277 CTGTTTTAAT
Statistics
Matches: 301, Mismatches: 40, Indels: 41
0.79 0.10 0.11
Matches are distributed among these distances:
65 2 0.01
66 53 0.18
68 2 0.01
70 1 0.00
71 57 0.19
72 6 0.02
73 2 0.01
74 56 0.19
75 56 0.19
76 1 0.00
82 1 0.00
84 64 0.21
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTG
ATCATCAA
Found at i:123240269 original size:66 final size:66
Alignment explanation
Indices: 123240146--123240270 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
123240136 TCTGTTTTTC
* * * *
123240146 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAAGTCACATTGAGGTATTTTATTATC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGATATTTTATTATC
123240211 A
66 A
* * *
123240212 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGATATTTT
123240271 CAATTTCTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (66 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGATATTTTATTATC
A
Found at i:123240320 original size:229 final size:227
Alignment explanation
Indices: 123239757--123240415 Score: 925
Period size: 229 Copynumber: 2.9 Consensus size: 227
123239747 TCTATTTTTT
* * * * *
123239757 AAAAAATTAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCGCGCTGAGGTATTGTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * * *
123239822 TTGTATTTTAA-TTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGAC
66 CTG--TTTTAATTTTGTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
123239886 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGTTGAGTTGA
129 ACGCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
123239951 ACCTCAAGTCACATTGAGGTATTTTCAATTTATCATC
193 GCCTCAAGTCACATTGAGGTATTTT-AATTTATCA-C
* * * *
123239988 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * * *
123240053 CTG-CTCAATTTATGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 CTGTTTTAATTT-TGTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
123240117 CGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGC
130 CGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
123240182 CTCAAGTCACATTGAGGTATTTT-A-TTATCA-
195 CTCAAGTCACATTGAGGTATTTTAATTTATCAC
* *
123240212 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* *
123240277 CTGTTTTAATTTTCGTGTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAG
66 CTGTTTTAATTTT-GTGTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* ** *
123240342 GTCACAATGAGGTATTTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTT
126 GACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
123240406 GAGCCTCAAG
191 GAGCCTCAAG
123240416 ACATGCTGAG
Statistics
Matches: 384, Mismatches: 36, Indels: 19
0.87 0.08 0.04
Matches are distributed among these distances:
224 63 0.16
225 12 0.03
226 6 0.02
227 1 0.00
228 43 0.11
229 124 0.32
230 76 0.20
231 59 0.15
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (227 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGTTTTAATTTTGTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAAGTCACATTGAGGTATTTTAATTTATCAC
Found at i:123240426 original size:73 final size:73
Alignment explanation
Indices: 123240302--123240445 Score: 207
Period size: 73 Copynumber: 2.0 Consensus size: 73
123240292 TGTTTCAAAA
* * * * *
123240302 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACAATGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACAATGAGGTAATTTCAATTTC
123240367 TGTTTTTC
66 TGTTTTTC
* ***
123240375 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACAATGAGGTAATTTCAATTTC
123240440 TGTTTT
66 TGTTTT
123240446 CTTCAATTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACAATGAGGTAATTTCAATTTC
TGTTTTTC
Found at i:123240445 original size:162 final size:155
Alignment explanation
Indices: 123240146--123240504 Score: 415
Period size: 162 Copynumber: 2.3 Consensus size: 155
123240136 TCTGTTTTTC
** *
123240146 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAAGTCACATTGAGGTATTTTATTATC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACAATGAGGTATTTTATTATC
* * * *
123240211 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGATATTTTCAATT
66 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATAATTTCAATT
123240276 TCTGTTTTAATTTTCGTGTTTCAAA
131 TCTGTTTTAATTTTCGTGTTTCAAA
* *
123240301 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACAATGAGGTATTTTTAATT-
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACAATGAGGTA-TTTT-ATTA
** * *
123240365 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAA
64 TC------AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATAA
*
123240430 TTTCAATTTCTGTTTTCTTCAATTTAT-GTTTTTC---
123 TTTCAATTTCTG--TT-TT-AATTT-TCGTGTTTCAAA
* *
123240464 -AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG
123240505 ACCCGTTAAG
Statistics
Matches: 173, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
155 50 0.29
156 6 0.03
157 3 0.02
162 98 0.57
164 2 0.01
165 2 0.01
166 11 0.06
167 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (155 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACAATGAGGTATTTTATTATC
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATAATTTCAATT
TCTGTTTTAATTTTCGTGTTTCAAA
Found at i:123240452 original size:16 final size:16
Alignment explanation
Indices: 123240431--123240461 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123240421 CTGAGGTAAT
*
123240431 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
123240447 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
123240462 TCAAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:123241573 original size:18 final size:20
Alignment explanation
Indices: 123241527--123241575 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
123241517 CATGATATAC
123241527 ATAACATATATATGAAAAACA
1 ATAACATA-ATATGAAAAACA
*
123241548 ATAA-ATAATAT-AAAAATA
1 ATAACATAATATGAAAAACA
123241566 A-AACATAATA
1 ATAACATAATA
123241576 AAGATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 4 0.15
20 3 0.12
21 4 0.15
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (20 bp):
ATAACATAATATGAAAAACA
Found at i:123241782 original size:22 final size:22
Alignment explanation
Indices: 123241735--123241782 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
123241725 ATTTAAGGAA
* *
123241735 AATAATATATATAATAAGTAAT
1 AATAATATATATAATAAGAAAG
*
123241757 AATAATATATATGATTAA-AAAG
1 AATAATATATAT-AATAAGAAAG
123241779 AATA
1 AATA
123241783 CTTATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (22 bp):
AATAATATATATAATAAGAAAG
Found at i:123243317 original size:73 final size:73
Alignment explanation
Indices: 123243240--123243383 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 73
123243230 TGTTTAAAAA
* * * * *
123243240 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGATGAGGTAATTTCAATTTC
123243305 TGTTTTTC
66 TGTTTTTC
* * *
123243313 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGATGAGGTAATTTCAATTTC
123243378 TGTTTT
66 TGTTTT
123243384 CTTCAATTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGATGAGGTAATTTCAATTTC
TGTTTTTC
Found at i:123243317 original size:75 final size:75
Alignment explanation
Indices: 123243238--123243618 Score: 442
Period size: 75 Copynumber: 4.9 Consensus size: 75
123243228 CGTGTTTAAA
* * * * *
123243238 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
123243303 TCTGTTTTTC
66 TCTGTTTTTC
* * *
123243313 --AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
123243376 TCTGTTTTCTTC
66 TCTG-TTT-TTC
* * *
123243388 AATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAG
1 -A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
123243453 GTATTTTCAATTTCTGCTTTTC
54 GTATTTTCAATTTCTGTTTTTC
* * *
123243475 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
* * *
123243540 TATATTTGTC
66 TCTGTTTTTC
* *
123243550 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
123243615 TCTG
66 TCTG
123243619 CTTTCCAATT
Statistics
Matches: 258, Mismatches: 32, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
73 59 0.23
74 3 0.01
75 128 0.50
83 1 0.00
86 1 0.00
87 3 0.01
88 2 0.01
89 61 0.24
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTGTTTTTC
Found at i:123243390 original size:16 final size:16
Alignment explanation
Indices: 123243369--123243399 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123243359 CTGAGGTAAT
*
123243369 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
123243385 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
123243400 TCAAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:123243451 original size:89 final size:90
Alignment explanation
Indices: 123243299--123243474 Score: 282
Period size: 89 Copynumber: 2.0 Consensus size: 90
123243289 AGGTATTTTT
* * *
123243299 AATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTATGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
123243364 GTAATTTCAATTTCTG-TTTTCTTC
66 GTAATTTCAATTTCTGCTTTTCTTC
* * *
123243388 AATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAG
1 AATTTATGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
*
123243453 GTATTTTCAATTTCTGCTTTTC
66 GTAATTTCAATTTCTGCTTTTC
123243475 AAAAAAATCA
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 74 0.94
90 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (90 bp):
AATTTATGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTTCAATTTCTGCTTTTCTTC
Found at i:123243630 original size:164 final size:161
Alignment explanation
Indices: 123243456--123244016 Score: 637
Period size: 164 Copynumber: 3.4 Consensus size: 161
123243446 CGCTGAGGTA
123243456 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
123243521 TGCTGAGGTAATTTCAATTTATATTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
64 CGCTGAGGTAATTTCAATTTATATTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
123243586 CCTCAGGGCACGCTGAGGTATTTTCGATTTCTGC
129 CCTC-GGGCACGCTGAGGTATTTTCAATTTCTGT
* * *
123243620 TTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * *
123243685 CGCTGAGGTAATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAG
64 CGCTGAGGTAATTTCAATTTATATTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
123243748 CCTC-GGCTTACATGTTGAGGTCTTTTCAATTTCTAT
129 CCTCGGGC--AC--GCTGAGGTATTTTCAATTTCTGT
*
123243784 TTTTCAATTTCTG-TTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGCTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * * * *
123243847 GCTGAGGTATTTTCAATTGATGTTTTTTTCAATTTACGCTTTTCAAAAATCAACTCATATTACGA
65 GCTGAGGTAATTTCAATT--TATATTTGTC-A---A--------AAAAATCAACTCATATTGCGA
* **
123243912 GAGGTGAGTTGAGCCTCGGGGAACGCTGAGGTATTTTCAATTAATGTT
116 GAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTCTG-T
* * *
123243960 TTTTCAATTTATGCTTTTCTAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
123244017 GGGTCACATG
Statistics
Matches: 340, Mismatches: 31, Indels: 39
0.83 0.08 0.10
Matches are distributed among these distances:
160 3 0.01
161 60 0.18
162 39 0.11
163 8 0.02
164 120 0.35
175 17 0.05
176 15 0.04
177 76 0.22
179 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (161 bp):
TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
CTGAGGTAATTTCAATTTATATTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCGGGCACGCTGAGGTATTTTCAATTTCTGT
Found at i:123243875 original size:88 final size:90
Alignment explanation
Indices: 123243696--123244103 Score: 451
Period size: 88 Copynumber: 4.6 Consensus size: 90
123243686 GCTGAGGTAA
* * * *
123243696 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTTACAT
1 TTTCAATTTCTGCTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GTACAC
* * *
123243761 GTTGAGGTCTTTTCAATT--TCTATT
65 GCTGAGGTATTTTCAATTAATCTTTT
**
123243785 TTTCAATTTCTG-TTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC
1 TTTCAATTTCTGCTT-GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACAC
* *
123243847 GCTGAGGTATTTTCAATTGATGTTTT
65 GCTGAGGTATTTTCAATTAATCTTTT
* * *
123243873 TTTCAATTTAC-GCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGA-AC
1 TTTCAATTT-CTGCTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACAC
*
123243936 GCTGAGGTATTTTCAATTAAT-GTTT
65 GCTGAGGTATTTTCAATTAATCTTTT
* * * * *
123243961 TTTCAATTTATGCTTTTCTAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTGCTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-ACAC
* *
123244026 GCCGAGGTATTTTCAA--AATCTGTT
65 GCTGAGGTATTTTCAATTAATCTTTT
*** * * *
123244050 TGGAAAATTCTGATT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTCAATTTCTGCTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
123244104 TTGCTCACGT
Statistics
Matches: 277, Mismatches: 31, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
86 19 0.07
88 152 0.55
89 89 0.32
90 17 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (90 bp):
TTTCAATTTCTGCTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACG
CTGAGGTATTTTCAATTAATCTTTT
Found at i:123243992 original size:177 final size:177
Alignment explanation
Indices: 123243696--123244103 Score: 447
Period size: 177 Copynumber: 2.3 Consensus size: 177
123243686 GCTGAGGTAA
* ** *
123243696 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTTACAT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCGGACAC
* * * *
123243761 GTTGAGGTCTTTTCAATTTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAG
66 GCTGAGGTATTTTCAATTTCTATTTTTCAATTTATGTTCGTCAAAATCAACTCATATTACGAGAG
123243826 GTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTGATGTTTT
131 GTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTGATGTTTT
*
123243873 TTTCAATTTAC-GCTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG-GGA-
1 TTTCAATTT-CTG-TTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCGGAC
* *
123243934 ACGCTGAGGTATTTTCAATTAATGT-TTTTTCAATTTATGCTT-TTCTAAAATCAACTCATATTA
64 ACGCTGAGGTATTTTCAATT--TCTATTTTTCAATTTATG-TTCGTC-AAAATCAACTCATATTA
** * * * * *
123243997 CGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAA--AATCTGTT
125 CGAGAGGTGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTGATGTTTT
*** * * ** *
123244050 TGGAAAATTCTGATT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCT
123244104 TTGCTCACGT
Statistics
Matches: 197, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
175 17 0.09
176 56 0.28
177 102 0.52
178 4 0.02
179 18 0.09
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (177 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCGGACAC
GCTGAGGTATTTTCAATTTCTATTTTTCAATTTATGTTCGTCAAAATCAACTCATATTACGAGAG
GTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTGATGTTTT
Found at i:123244125 original size:88 final size:87
Alignment explanation
Indices: 123243975--123244188 Score: 227
Period size: 88 Copynumber: 2.4 Consensus size: 87
123243965 AATTTATGCT
* * * * *
123243975 TTTCTAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-TTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTTT
123244039 CAAAATCTGTTTGGAAAAT-TCT-GA
66 CAAAATCTGTTT----AATGTCTAGA
** * *
123244063 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTTT
** *
123244128 CAATTTCTGTTTAATGTCTAGT
66 CAAAATCTGTTTAATGTCTAGA
* * * *
123244150 TTTTAAAAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
123244189 TCAGGATCAC
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 36 0.34
88 51 0.48
89 14 0.13
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCCGAGCTATTTTT
CAAAATCTGTTTAATGTCTAGA
Found at i:123245080 original size:10 final size:10
Alignment explanation
Indices: 123245065--123245089 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
123245055 ATCATTTTAC
123245065 AAAGATTGAA
1 AAAGATTGAA
123245075 AAAGATTGAA
1 AAAGATTGAA
123245085 AAAGA
1 AAAGA
123245090 GACAATCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (10 bp):
AAAGATTGAA
Found at i:123245216 original size:2 final size:2
Alignment explanation
Indices: 123245211--123245251 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
123245201 TCCTTCTTTC
* *
123245211 TA TA TA CA TA TA CA 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 TA TA TA TA T
123245252 TATTAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:123246610 original size:18 final size:18
Alignment explanation
Indices: 123246586--123246631 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
123246576 TTATAAATAG
*
123246586 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
123246605 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
123246623 TATTATTTT
1 TATTATTTT
123246632 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:123254193 original size:2 final size:2
Alignment explanation
Indices: 123254186--123254212 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
123254176 AGTAATGTAG
123254186 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 A
123254213 ATTGAGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:123255396 original size:3 final size:3
Alignment explanation
Indices: 123255390--123255426 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
123255380 ATAATAATAC
123255390 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
123255427 AGTCTTCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:123257510 original size:25 final size:25
Alignment explanation
Indices: 123257476--123257530 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
123257466 AAATAAATAC
* * **
123257476 ATATATTTATTTTTATATTGAATTA
1 ATATACTTATTTGTATATACAATTA
*
123257501 ATATACTTATTTGTGTATACAATTA
1 ATATACTTATTTGTATATACAATTA
123257526 ATATA
1 ATATA
123257531 TGAACATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (25 bp):
ATATACTTATTTGTATATACAATTA
Found at i:123260048 original size:3 final size:3
Alignment explanation
Indices: 123260040--123260128 Score: 99
Period size: 3 Copynumber: 28.7 Consensus size: 3
123260030 GGTCTTCAAT
123260040 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
123260088 AGTA CTA GAGA A-A GATGA GTA ATA ACA ATA ATA ATA ATA AT
1 A-TA ATA -ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA AT
123260129 TAGTACTAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
2 1 0.01
3 68 0.92
4 4 0.05
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:123260111 original size:42 final size:42
Alignment explanation
Indices: 123260065--123260156 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
123260055 ATAATAATAA
*
123260065 TAATAATAATAATAATAATAATAAGTACTAGAGAAAGATGAG
1 TAATAATAATAATAATAATAATAAGTACTAGACAAAGATGAG
* *
123260107 TAATAACAATAATAATAATAATTAGTACTAGACAAAGATGAG
1 TAATAATAATAATAATAATAATAAGTACTAGACAAAGATGAG
123260149 TAATAATA
1 TAATAATA
123260157 GCTAGGAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (42 bp):
TAATAATAATAATAATAATAATAAGTACTAGACAAAGATGAG
Found at i:123267843 original size:52 final size:52
Alignment explanation
Indices: 123267781--123267885 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
123267771 ACTACTAGAA
123267781 TCAAACGCGGCAAGTAAGAAAACAAATATCTGTTAAACTAAATAAGACCAAG
1 TCAAACGCGGCAAGTAAGAAAACAAATATCTGTTAAACTAAATAAGACCAAG
123267833 TCAAACGCGGCAAGTAAGAAAACAAATATCTGTTAAACTAAATAAGACCAAG
1 TCAAACGCGGCAAGTAAGAAAACAAATATCTGTTAAACTAAATAAGACCAAG
123267885 T
1 T
123267886 TTTTCTATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (52 bp):
TCAAACGCGGCAAGTAAGAAAACAAATATCTGTTAAACTAAATAAGACCAAG
Found at i:123269687 original size:17 final size:17
Alignment explanation
Indices: 123269665--123269716 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
123269655 AATTTCCCAA
123269665 AGTAATAATATAATATT
1 AGTAATAATATAATATT
123269682 AGTAATAATATAATATT
1 AGTAATAATATAATATT
**
123269699 AGTAATAACGTAATATT
1 AGTAATAATATAATATT
123269716 A
1 A
123269717 ATAGAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (17 bp):
AGTAATAATATAATATT
Found at i:123270032 original size:100 final size:97
Alignment explanation
Indices: 123269920--123270215 Score: 430
Period size: 91 Copynumber: 3.1 Consensus size: 97
123269910 TATGCTGTTG
123269920 TATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGTTTAACATACTATATTT
1 TATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGTTTAACATAC--T-TTT
123269985 TTTTTGTTTAATTTATGCTGTTGTACTTGTACTAT
63 TTTTTGTTTAATTTATGCTGTTGTACTTGTACTAT
* * *
123270020 TATATTAATTTAGGCTTCAATTAACTAACTTTAAATTTTAAAC-AGTAGCTTAACAAACTTTTTT
1 TATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTA-TAGTTTAACATACTTTTTT
123270084 TTTGTTTAATTTATGC-----TA-TTGTACTAT
65 TTTGTTTAATTTATGCTGTTGTACTTGTACTAT
* * *
123270111 TATATTAATTTAGGCTTCAATTAACTAATTTTAAAGTTTAAAATGTAGTTTAACATAC--TTTTT
1 TATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGTTTAACATACTTTTTTT
*
123270174 TTGTTTAATTTATGCTGTTGTACCTGTACTAT
66 TTGTTTAATTTATGCTGTTGTACTTGTACTAT
123270206 TATATTAATT
1 TATATTAATT
123270216 AATTTTTAAT
Statistics
Matches: 178, Mismatches: 10, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
89 20 0.11
91 60 0.34
92 2 0.01
94 2 0.01
95 18 0.10
97 21 0.12
98 1 0.01
99 1 0.01
100 53 0.30
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.50
Consensus pattern (97 bp):
TATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGTTTAACATACTTTTTTT
TTGTTTAATTTATGCTGTTGTACTTGTACTAT
Found at i:123271028 original size:35 final size:35
Alignment explanation
Indices: 123270982--123271051 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
123270972 TAAATAAATC
*
123270982 AAGACAATCCCTTCTAATTATCCAACGAGATGGAA
1 AAGACAATCCCTTCTAATTATCCAACAAGATGGAA
123271017 AAGACAATCCCTTCTAATTATCCAACAAGATGGAA
1 AAGACAATCCCTTCTAATTATCCAACAAGATGGAA
123271052 GACTAAACCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (35 bp):
AAGACAATCCCTTCTAATTATCCAACAAGATGGAA
Found at i:123271874 original size:99 final size:96
Alignment explanation
Indices: 123271609--123271901 Score: 436
Period size: 91 Copynumber: 3.1 Consensus size: 96
123271599 ATTAAAAATT
* *
123271609 AATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAAGTATGTTAAACAATAT
1 AATTAATATAATAGTACAAGTACAAC-GCATAAATTAAACAAAAAAAAAGTATGTTAAACTATAG
123271673 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
* * **
123271705 AATTAATATAATAGTACAA-T---A-GCATAAATTAAACAAAAAAAAAGTTTGTTAAGCTACCGT
1 AATTAATATAATAGTACAAGTACAACGCATAAATTAAACAAAAAAAAAGTATGTTAAACTATAGT
*
123271765 TTAAAATTTAAAGTTAGTTAATTGAAGCCTA
66 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
*
123271796 AATTAATATAATAGTATAAGTACAACGGCATAAATTAAACAAAAAAAAATAGTATGTTAAACTAT
1 AATTAATATAATAGTACAAGTACAAC-GCATAAATTAAAC-AAAAAAAA-AGTATGTTAAACTAT
123271861 AGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
63 AGTTTAAACTTTAAAGTTAGTTAATTGAAGCCTA
123271895 AATTAAT
1 AATTAAT
123271902 GTACAACAGC
Statistics
Matches: 175, Mismatches: 13, Indels: 15
0.86 0.06 0.07
Matches are distributed among these distances:
90 13 0.07
91 67 0.38
92 2 0.01
95 2 0.01
96 19 0.11
97 13 0.07
98 8 0.05
99 51 0.29
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (96 bp):
AATTAATATAATAGTACAAGTACAACGCATAAATTAAACAAAAAAAAAGTATGTTAAACTATAGT
TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
Found at i:123272126 original size:17 final size:17
Alignment explanation
Indices: 123272104--123272155 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
123272094 TTTTCTCTAT
*
123272104 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
123272121 TAATATTATATTATTAC
1 TAATATTACATTATTAC
123272138 TAATATTACATTATTAC
1 TAATATTACATTATTAC
123272155 T
1 T
123272156 TTGGGAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:123277009 original size:17 final size:17
Alignment explanation
Indices: 123276987--123277020 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
123276977 TAATATTGTA
123276987 AAATAAAATATAAATTT
1 AAATAAAATATAAATTT
* *
123277004 AAATAATATTTAAATTT
1 AAATAAAATATAAATTT
123277021 GTTAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAAAATATAAATTT
Found at i:123280022 original size:41 final size:40
Alignment explanation
Indices: 123279977--123280317 Score: 425
Period size: 41 Copynumber: 8.3 Consensus size: 40
123279967 TAGCGGCGTT
* *
123279977 AAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTAGTAAA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT--TGAA
* ** * *
123280018 AAACGCTGCTAAAAAATAGAGCGTTAGCGGCGCTTTTGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GAA
* *
123280059 AAACGCCGCT-AAAACCAGAGCATTAGCGGTGCTTTTGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GAA
* * *
123280099 AAACGCCGCTAAAAACCAGAGCATTAGCGGTGCCTTTGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTTGAA
* *
123280140 AAACGCCGCTAAAAACCAGAGCATTAGCTGCGGTTTTGGAA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GAA
123280181 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GAA
* * *
123280222 AAACGCCGCTAAAAACTAGAGCATTAGCTGCGGTTTTGATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA-A
*
123280263 AAACGCCGCTAAAAACCAGAACATTAGCGGCGCTTTTGGAA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GAA
123280304 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
123280318 TTCATATAAC
Statistics
Matches: 267, Mismatches: 26, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
40 42 0.16
41 202 0.76
42 23 0.09
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (40 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGAA
Found at i:123280230 original size:123 final size:122
Alignment explanation
Indices: 123279977--123280317 Score: 479
Period size: 123 Copynumber: 2.8 Consensus size: 122
123279967 TAGCGGCGTT
* * * ** *
123279977 AAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTAGTAAAAAACGCTGCTAAAAAATAGAGCG
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGT--AAAACGCCGCTAAAAACCAGAGCA
* * *
123280041 TTAGCGGCGCTTTTGGTAAAACGCCGCT-AAAACCAGAGCATTAGCGGTGCTTTTGGTA
64 TTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAA
*
123280099 AAACGCCGCTAAAAACCAGAGCATTAGCGGTGCCTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
* *
123280164 TAGCTGCGGTTTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAA
65 TAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAA
* * * * *
123280222 AAACGCCGCTAAAAACTAGAGCATTAGCTGCGGTTTTGATAAAACGCCGCTAAAAACCAGAACAT
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGC-GCTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
123280287 TAGCGGCGCTTTTGGAAAAACGCCGCTAAAA
65 TAGCGGCGCTTTTGGAAAAACGCCGCTAAAA
123280318 TTCATATAAC
Statistics
Matches: 195, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
122 60 0.31
123 128 0.66
124 7 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (122 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGTAAAACGCCGCTAAAAACCAGAGCATT
AGCGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAA
Found at i:123280496 original size:14 final size:14
Alignment explanation
Indices: 123280474--123280567 Score: 52
Period size: 14 Copynumber: 6.7 Consensus size: 14
123280464 TTAATTATCA
*
123280474 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
123280488 TTATGGTTTAAGATGGT
1 TTATGGTTT-A-A-GGT
* *
123280505 TTAGGGTTTAGGGT
1 TTATGGTTTAAGGT
123280519 TTATGAG-TTAA---
1 TTATG-GTTTAAGGT
* *
123280530 CTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
123280544 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
123280558 TTAAGGTTTA
1 TTATGGTTTA
123280568 GGAGTTAACT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
10 1 0.02
11 8 0.13
14 37 0.61
15 2 0.03
16 2 0.03
17 11 0.18
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:123280634 original size:7 final size:7
Alignment explanation
Indices: 123280605--123280733 Score: 59
Period size: 7 Copynumber: 18.1 Consensus size: 7
123280595 GATGAATTAT
123280605 GGGTTTA
1 GGGTTTA
*
123280612 GGGATTA
1 GGGTTTA
* *
123280619 TGATTTA
1 GGGTTTA
123280626 GGGTTTA
1 GGGTTTA
*
123280633 GGGGTTA
1 GGGTTTA
123280640 GGG-TT-
1 GGGTTTA
123280645 GGAGTTTA
1 GG-GTTTA
* **
123280653 AGGTGCAA
1 GGGT-TTA
123280661 GGGTTT-
1 GGGTTTA
*
123280667 GGTGTTAA
1 GG-GTTTA
*
123280675 GGGTTAA
1 GGGTTTA
123280682 GGGTTTA
1 GGGTTTA
*
123280689 GTGTTTA
1 GGGTTTA
*
123280696 GTGTTTA
1 GGGTTTA
*
123280703 TGGG-ATA
1 -GGGTTTA
*
123280710 GGGGTTAA
1 -GGGTTTA
123280718 GAGGTTTA
1 G-GGTTTA
123280726 GGGTTTA
1 GGGTTTA
123280733 G
1 G
123280734 ATTAATTAGT
Statistics
Matches: 91, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.02
6 5 0.05
7 68 0.75
8 16 0.18
ACGTcount: A:0.20, C:0.01, G:0.41, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:123281361 original size:3 final size:3
Alignment explanation
Indices: 123281353--123281417 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
123281343 CATTTTAGTA
123281353 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
123281401 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
123281418 AAGATAAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:123289596 original size:2 final size:2
Alignment explanation
Indices: 123289589--123289616 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123289579 CTATGATAAT
123289589 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
123289617 GTAAGCTATA
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):
TA
Found at i:123290542 original size:42 final size:42
Alignment explanation
Indices: 123290427--123290571 Score: 164
Period size: 43 Copynumber: 3.4 Consensus size: 42
123290417 TTTTTGAATT
* * * * *
123290427 TCATGACATTTAGCGGCGTTTTTGAGAAAAGCGCCACTAAAGG
1 TCATGAC-TTTTGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGG
* * * *
123290470 TCATGACCTTTGGCGGTGTTTGTGGGGAAAGTGCTGCTAAAGG
1 TCATGA-CTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGG
*
123290513 TCATGACTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTAAAAG
1 TCATGACTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGG
*
123290555 TCATGATTTTTAGCGGC
1 TCATGACTTTT-GCGGC
123290572 ACTTAAAAGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 41 0.48
43 44 0.51
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (42 bp):
TCATGACTTTTGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGG
Found at i:123292026 original size:13 final size:13
Alignment explanation
Indices: 123292008--123292038 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
123291998 TAAATCAAAC
123292008 AAAAAAAACACGAA
1 AAAAAAAAC-CGAA
123292022 AAAAAAAACCGAA
1 AAAAAAAACCGAA
123292035 AAAA
1 AAAA
123292039 TATGGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.81, C:0.13, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAACCGAA
Found at i:123302538 original size:24 final size:24
Alignment explanation
Indices: 123302511--123302587 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
123302501 ACAAATAATT
123302511 TAAAATTTATAAAATATTCAAAAA
1 TAAAATTTATAAAATATTCAAAAA
** * *
123302535 TAAAA-AAATAAAAATATAC-AATA
1 TAAAATTTAT-AAAATATTCAAAAA
123302558 TACAAAGTTTATAAAA-ATTCAAAAA
1 TA-AAA-TTTATAAAATATTCAAAAA
*
123302583 AAAAA
1 TAAAA
123302588 GCATGAAGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
23 7 0.18
24 22 0.56
25 8 0.21
26 2 0.05
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (24 bp):
TAAAATTTATAAAATATTCAAAAA
Found at i:123306765 original size:33 final size:33
Alignment explanation
Indices: 123306721--123306783 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
123306711 GGTGTCAGAC
*
123306721 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCGTGGTGACCAAAGCTGAGGGGCAT
* *
123306754 GCGTGGGGCGTGGTGGCCAAAGCTGAGGGG
1 GCGTGGAGCGTGGTGACCAAAGCTGAGGGG
123306784 TATGGTACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.16, C:0.17, G:0.52, T:0.14
Consensus pattern (33 bp):
GCGTGGAGCGTGGTGACCAAAGCTGAGGGGCAT
Found at i:123316457 original size:2 final size:2
Alignment explanation
Indices: 123316450--123316476 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
123316440 GCTTTACGTT
123316450 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 T
123316477 CCTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123318297 original size:39 final size:40
Alignment explanation
Indices: 123318254--123318337 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 40
123318244 CGATTTATTG
123318254 TTTTTAATAATTAAAATA-TATAAA-ATTA-ATTCATATTAT
1 TTTTTAATAATTAAAA-ACTA-AAATATTATATTCATATTAT
* * *
123318293 TTTTT-ATATTTAAAAACTAAAATATTATTTTCATTTTAT
1 TTTTTAATAATTAAAAACTAAAATATTATATTCATATTAT
123318332 TTTTTA
1 TTTTTA
123318338 TATTTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
37 4 0.11
38 15 0.39
39 19 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (40 bp):
TTTTTAATAATTAAAAACTAAAATATTATATTCATATTAT
Found at i:123331313 original size:22 final size:23
Alignment explanation
Indices: 123331287--123331332 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
123331277 CAACCAAACC
123331287 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
123331309 AATTCATACGTATTTATAAGATA
1 AATTCATACATATTTATAAGATA
123331332 A
1 A
123331333 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:123339750 original size:35 final size:35
Alignment explanation
Indices: 123339683--123339850 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
123339673 TCCTCATTGA
*** *
123339683 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
123339719 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
123339759 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
123339794 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
123339829 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
123339851 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:123339809 original size:75 final size:73
Alignment explanation
Indices: 123339678--123339850 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
123339668 GGTTTTCCTC
*** * * **
123339678 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
123339743 TCAGTATGG
65 TCAGTATGG
*
123339752 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
123339816 ACTCAGTATGG
63 ACTCAGTATGG
123339827 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
123339851 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:123345532 original size:13 final size:13
Alignment explanation
Indices: 123345514--123345540 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
123345504 GTCCTCCGGA
123345514 GAACACATCATCT
1 GAACACATCATCT
123345527 GAACACATCATCT
1 GAACACATCATCT
123345540 G
1 G
123345541 TTTAAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.22
Consensus pattern (13 bp):
GAACACATCATCT
Found at i:123347251 original size:35 final size:35
Alignment explanation
Indices: 123347214--123347359 Score: 177
Period size: 35 Copynumber: 4.0 Consensus size: 35
123347204 TACATTTTTT
* * **
123347214 AACTCGGTATGGGA-AATGCCATACCTACATTTCTT
1 AACTCAGTAT-GGATAATACCATACCTACATTTCAC
123347249 AACTCAGTATGGATTTGATAATACCATACCTACATTTCAC
1 AACTCAGTAT-G----GATAATACCATACCTACATTTCAC
*
123347289 AGCTCAGTATGGATAATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
*
123347324 AACTCAGTATGGATGATACCATACCTACATTTCAC
1 AACTCAGTATGGATAATACCATACCTACATTTCAC
123347359 A
1 A
123347360 CTTTGCCATG
Statistics
Matches: 99, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
35 69 0.70
39 3 0.03
40 27 0.27
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACATTTCAC
Found at i:123349248 original size:22 final size:23
Alignment explanation
Indices: 123349222--123349267 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
123349212 CAACCAAACC
123349222 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
123349244 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
123349267 A
1 A
123349268 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:123349273 original size:23 final size:23
Alignment explanation
Indices: 123349229--123349273 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
123349219 ACCAATTCAA
*
123349229 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
123349252 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
123349274 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:123360884 original size:6 final size:6
Alignment explanation
Indices: 123360873--123360913 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
123360863 GTGCTAATTC
*
123360873 AGGTGA AGGTGA AGGTAA AGGTGA AGGTGA AGGTGA AGGTG
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGGTG
123360914 CAGGAGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.49, T:0.17
Consensus pattern (6 bp):
AGGTGA
Found at i:123366647 original size:11 final size:11
Alignment explanation
Indices: 123366633--123366700 Score: 64
Period size: 11 Copynumber: 6.2 Consensus size: 11
123366623 ATATTCAAAT
123366633 AATAATAACAA
1 AATAATAACAA
*
123366644 AATAATAGCAA
1 AATAATAACAA
* * *
123366655 TATAACAATAA
1 AATAATAACAA
*
123366666 AATGATAACAA
1 AATAATAACAA
* *
123366677 AACAACAACAA
1 AATAATAACAA
*
123366688 AATATTAACAA
1 AATAATAACAA
123366699 AA
1 AA
123366701 CAACAGGAAA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (11 bp):
AATAATAACAA
Found at i:123366659 original size:22 final size:22
Alignment explanation
Indices: 123366633--123366705 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
123366623 ATATTCAAAT
* *
123366633 AATAATAACAAAATAATAGCAA
1 AATAACAACAAAATAATAACAA
* * *
123366655 TATAACAATAAAATGATAACAA
1 AATAACAACAAAATAATAACAA
* *
123366677 AACAACAACAAAATATTAACAA
1 AATAACAACAAAATAATAACAA
*
123366699 AACAACA
1 AATAACA
123366706 GGAAAAAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.67, C:0.14, G:0.03, T:0.16
Consensus pattern (22 bp):
AATAACAACAAAATAATAACAA
Found at i:123368247 original size:21 final size:19
Alignment explanation
Indices: 123368225--123368262 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
123368215 AATTAGAATT
*
123368225 TTTTATAAAAATCGTAAAA
1 TTTTATAAAAATCATAAAA
123368244 TTTTATAAAAATCATAAAA
1 TTTTATAAAAATCATAAAA
123368263 AATAATAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTTATAAAAATCATAAAA
Found at i:123368482 original size:56 final size:55
Alignment explanation
Indices: 123368422--123368528 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
123368412 ATTTACGAAA
*
123368422 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGA-CTTTATAAAATTTTATTTT
1 TTTATATTTCTATACA-TTT-TATAATTTTCTTACGATCTTTATAAAATTTTATTTT
* * *
123368478 TTTATATTTCTATATATTTTATAATTTTTTTACGATTTTTATAAAATTTTA
1 TTTATATTTCTATACATTTTATAATTTTCTTACGATCTTTATAAAATTTTA
123368529 CAATCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 15 0.33
55 17 0.37
56 14 0.30
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (55 bp):
TTTATATTTCTATACATTTTATAATTTTCTTACGATCTTTATAAAATTTTATTTT
Found at i:123368519 original size:20 final size:19
Alignment explanation
Indices: 123368494--123368564 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
123368484 TTTCTATATA
123368494 TTTTATAATTTTTTTACGAT
1 TTTTAT-ATTTTTTTACGAT
*** *
123368514 TTTTATAAAATTTTACAAT
1 TTTTATATTTTTTTACGAT
*
123368533 CTTTT-TATATTTTTTATGAT
1 -TTTTATAT-TTTTTTACGAT
123368553 TTTTATATTTTT
1 TTTTATATTTTT
123368565 CTAATTTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
19 19 0.49
20 20 0.51
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAT
Found at i:123368547 original size:30 final size:28
Alignment explanation
Indices: 123368460--123368580 Score: 90
Period size: 29 Copynumber: 4.3 Consensus size: 28
123368450 TTCTTACGAC
123368460 TTTATAAAATTTT--ATTTTTTTATATT
1 TTTATAAAATTTTAAATTTTTTTATATT
* * *
123368486 TCTAT-ATATTTTATAATTTTTTTACGATT
1 TTTATAAAATTTTA-AATTTTTTTA-TATT
*
123368515 TTTATAAAATTTTACAATCTTTTTATATT
1 TTTATAAAATTTTA-AATTTTTTTATATT
* * * *
123368544 TTT-TATGATTTTTATATTTTTCTA-ATT
1 TTTATA-AAATTTTAAATTTTTTTATATT
123368571 TTTAATAAAA
1 TTT-ATAAAA
123368581 GTAGGGGCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
25 6 0.08
26 4 0.06
27 6 0.08
28 19 0.26
29 21 0.29
30 16 0.22
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATAAAATTTTAAATTTTTTTATATT
Found at i:123368562 original size:8 final size:9
Alignment explanation
Indices: 123368476--123368574 Score: 60
Period size: 9 Copynumber: 10.7 Consensus size: 9
123368466 AAATTTTATT
123368476 TTTTTAT-A
1 TTTTTATAA
*
123368484 TTTCTAT-A
1 TTTTTATAA
123368492 TATTTTATAA
1 T-TTTTATAA
*
123368502 TTTTTTTACGA
1 TTTTTATA--A
123368513 TTTTTATAAA
1 TTTTTAT-AA
* *
123368523 ATTTTACAA
1 TTTTTATAA
*
123368532 TCTTTTTATAT
1 --TTTTTATAA
*
123368543 TTTTTATGA
1 TTTTTATAA
123368552 TTTTTAT-A
1 TTTTTATAA
*
123368560 TTTTTCTAA
1 TTTTTATAA
123368569 TTTTTA
1 TTTTTA
123368575 ATAAAAGTAG
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
8 15 0.21
9 33 0.47
10 8 0.11
11 13 0.19
12 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:123371284 original size:39 final size:39
Alignment explanation
Indices: 123371227--123371301 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
123371217 CGCATGGTCC
* *
123371227 CACTCCCTCATGCTACTTTGTTTTATTATTAATTAATCT
1 CACTCCCCCATGCCACTTTGTTTTATTATTAATTAATCT
123371266 CACTCCCCCATGCCACTTTGTTTTATTATTAATTAA
1 CACTCCCCCATGCCACTTTGTTTTATTATTAATTAA
123371302 AACCATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.24, C:0.25, G:0.05, T:0.45
Consensus pattern (39 bp):
CACTCCCCCATGCCACTTTGTTTTATTATTAATTAATCT
Found at i:123382084 original size:22 final size:23
Alignment explanation
Indices: 123382059--123382110 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
123382049 GTTGATTGAA
*
123382059 TAAAAAATT-GTTTAAA-AATATT
1 TAAAAAATTAG-TAAAAGAATATT
*
123382081 T-AAAATTTAGTAAAAGAATATT
1 TAAAAAATTAGTAAAAGAATATT
123382103 TAAAAAAT
1 TAAAAAAT
123382111 ATAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 10 0.42
22 9 0.38
23 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
TAAAAAATTAGTAAAAGAATATT
Found at i:123382117 original size:22 final size:22
Alignment explanation
Indices: 123382075--123382116 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
123382065 ATTGTTTAAA
**
123382075 AATATTTAAAATTTAGTAAAAG
1 AATATTTAAAAAATAGTAAAAG
123382097 AATATTTAAAAAATA-TAAAA
1 AATATTTAAAAAATAGTAAAA
123382117 AATTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
AATATTTAAAAAATAGTAAAAG
Found at i:123382126 original size:31 final size:32
Alignment explanation
Indices: 123382072--123382149 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
123382062 AAAATTGTTT
* *
123382072 AAAAATATTTAAAATTTAGTAAAAG-AATATTTA
1 AAAAATA-TAAAAAATTAGTAAAAGAAATA-TTA
*
123382105 AAAAATATAAAAAATTA-TAAAATAAATATTA
1 AAAAATATAAAAAATTAGTAAAAGAAATATTA
*
123382136 AAAATTTATAAAAA
1 AAAA-ATATAAAAA
123382150 TAATTAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 12 0.31
32 20 0.51
33 7 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAAATATAAAAAATTAGTAAAAGAAATATTA
Found at i:123382131 original size:21 final size:22
Alignment explanation
Indices: 123382107--123382148 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
123382097 AATATTTAAA
123382107 AAATA-TAAAAAATTATAAAAT
1 AAATATTAAAAAATTATAAAAT
*
123382128 AAATATTAAAAATTTATAAAA
1 AAATATTAAAAAATTATAAAA
123382149 ATAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATTAAAAAATTATAAAAT
Found at i:123382133 original size:32 final size:33
Alignment explanation
Indices: 123382097--123382168 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 33
123382087 TTAGTAAAAG
123382097 AATATTTAAAAA-ATAT-AAAA-AATTATAAAATA
1 AATA-TTAAAAATATATAAAAATAATTA-AAAATA
*
123382129 AATATTAAAAATTTATAAAAATAATTAAAAATA
1 AATATTAAAAATATATAAAAATAATTAAAAATA
123382162 AA-ATTAA
1 AATATTAA
123382169 GTTGTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 7 0.19
32 12 0.33
33 12 0.33
34 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (33 bp):
AATATTAAAAATATATAAAAATAATTAAAAATA
Found at i:123382150 original size:10 final size:10
Alignment explanation
Indices: 123382103--123382149 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
123382093 AAAGAATATT
123382103 TAAAAAA-TA
1 TAAAAAATTA
123382112 TAAAAAATTA
1 TAAAAAATTA
*
123382122 TAAAATAAATA
1 TAAAA-AATTA
*
123382133 TTAAAAATTTA
1 -TAAAAAATTA
123382144 TAAAAA
1 TAAAAA
123382150 TAATTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 7 0.22
10 13 0.41
11 7 0.22
12 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:123382786 original size:29 final size:30
Alignment explanation
Indices: 123382754--123382816 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
123382744 AAGAGTTTCT
123382754 AATATATATTT-ATTTTT-TTACAAATTTTA
1 AATATAT-TTTAATTTTTCTTACAAATTTTA
** *
123382783 AATA-ATTTTAATTTTTCTTTTACATTTTA
1 AATATATTTTAATTTTTCTTACAAATTTTA
123382812 AATAT
1 AATAT
123382817 TTTCTTCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.11
28 8 0.29
29 17 0.61
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (30 bp):
AATATATTTTAATTTTTCTTACAAATTTTA
Found at i:123387367 original size:27 final size:28
Alignment explanation
Indices: 123387327--123387382 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
123387317 GAAATCGTAG
*
123387327 TTTTTAATTTTCTTTTACAAGCAAACAA
1 TTTTTAATTCTCTTTTACAAGCAAACAA
*
123387355 TTTTT-ATTCTCTTTTATAAGCAAACAA
1 TTTTTAATTCTCTTTTACAAGCAAACAA
123387382 T
1 T
123387383 CTCTACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (28 bp):
TTTTTAATTCTCTTTTACAAGCAAACAA
Found at i:123389139 original size:20 final size:20
Alignment explanation
Indices: 123389097--123389145 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
123389087 TACAACATGA
* *
123389097 TAACATAAGTAACTAATACG
1 TAACATTAGTAACTAAAACG
*
123389117 TAACATTAGTAACTAAAATG
1 TAACATTAGTAACTAAAACG
*
123389137 TAACTTTAG
1 TAACATTAG
123389146 GCAAACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
TAACATTAGTAACTAAAACG
Found at i:123390098 original size:2 final size:2
Alignment explanation
Indices: 123390091--123390118 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123390081 GTGCGATGTG
123390091 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
123390119 TTTAATTTTT
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
Done.