Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 185 of 250
Found at i:58380354 original size:19 final size:19
Alignment explanation
Indices: 58380330--58380398 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
58380320 AATCTTTAAG
58380330 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58380349 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58380368 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
58380385 GATTTGCAATCTTA
1 GATATGCAATCTTA
58380399 AATTCTTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 16 0.34
19 31 0.66
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:58380360 original size:36 final size:35
Alignment explanation
Indices: 58380320--58380397 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
58380310 ATGGAAATAT
58380320 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
*
58380356 AATC-TTAGATATGATACAATCTTAGATATGATTTGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
58380392 AATCTT
1 AATCTT
58380398 AAATTCTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 6 0.16
34 1 0.03
35 2 0.05
36 27 0.73
37 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:58386847 original size:7 final size:7
Alignment explanation
Indices: 58386835--58386863 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
58386825 TTTGGATTCT
58386835 TTTAAAA
1 TTTAAAA
58386842 TTTAAAA
1 TTTAAAA
58386849 TTTAAAA
1 TTTAAAA
58386856 TTTAAAA
1 TTTAAAA
58386863 T
1 T
58386864 GTAATCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:58390490 original size:3 final size:3
Alignment explanation
Indices: 58390482--58390511 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
58390472 TATTAACATG
58390482 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58390512 GGCAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:58393085 original size:50 final size:52
Alignment explanation
Indices: 58393027--58393142 Score: 166
Period size: 50 Copynumber: 2.3 Consensus size: 52
58393017 TTAATAAAGT
*
58393027 CATGCATTATGTAACTCTCATGTTAGCT-AAGTTTGCATCA-TAAATTACA-A
1 CATGCATTATGTAACTCCCATGTTAGCTAAAGTTTGCATCATTAAATTA-AGA
* *
58393077 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGCTAAAGTTTGCATCATTAAATTAAGA
*
58393129 CATGCATTAAGTAA
1 CATGCATTATGTAA
58393143 TTCATTTGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 26 0.44
51 13 0.22
52 20 0.34
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGCTAAAGTTTGCATCATTAAATTAAGA
Found at i:58398853 original size:13 final size:13
Alignment explanation
Indices: 58398805--58398860 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
58398795 CAAATAAACC
58398805 AAAATTGTATTACT
1 AAAATT-TATTACT
**
58398819 AAAATCCATCT-CT
1 AAAATTTAT-TACT
58398832 AAAATTTTATTACT
1 AAAA-TTTATTACT
58398846 AAAATTTATTA-T
1 AAAATTTATTACT
58398858 AAA
1 AAA
58398861 CATTAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.11
13 16 0.46
14 15 0.43
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (13 bp):
AAAATTTATTACT
Found at i:58400635 original size:20 final size:20
Alignment explanation
Indices: 58400610--58400662 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
58400600 ATTTTTAATA
*
58400610 TATTTTTAATAATTTATATT
1 TATTTTTAAGAATTTATATT
** *
58400630 TATTTTTAAGCTTTTTTATT
1 TATTTTTAAGAATTTATATT
58400650 TATTTTT-AGAATT
1 TATTTTTAAGAATT
58400663 ATTGTTAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (20 bp):
TATTTTTAAGAATTTATATT
Found at i:58402311 original size:42 final size:41
Alignment explanation
Indices: 58402235--58402388 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 41
58402225 CTAAGTTTAT
* * *
58402235 GTGTAAGACCATATCT-GGATATGGAATCAGTATGATACTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTC
58402276 GTGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTC
* * * * *
58402318 GTATAAGACCATAGCTGGGCTATTGGCATCCATATGAGATTAC
1 GTGTAAGACCATATCTAGGATA-TGGCATCAATATGAGATT-C
*
58402361 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
58402389 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
41 16 0.17
42 47 0.49
43 33 0.34
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (41 bp):
GTGTAAGACCATATCTAGGATATGGCATCAATATGAGATTC
Found at i:58409842 original size:42 final size:41
Alignment explanation
Indices: 58409767--58409919 Score: 191
Period size: 42 Copynumber: 3.7 Consensus size: 41
58409757 TAAGTTTATG
* * *
58409767 TGTAAGACCATATCT-GGATATGGAATCAGTATGATACTTCA
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTCA
*
58409808 TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTCA
* * * *
58409850 TGTAAGACCATAGCTGGGCTATTGGCATCCATATGAGATTACA
1 TGTAAGACCATATCTAGGATA-TGGCATCAATATGAGATT-CA
58409893 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
58409920 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
41 15 0.16
42 47 0.49
43 34 0.35
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTCA
Found at i:58412906 original size:27 final size:27
Alignment explanation
Indices: 58412839--58412908 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
58412829 ATGGAGGAAG
* * *
58412839 TACT-ATACTGGTGACTATGTCACATT
1 TACTGATACTGGTGGCTATGCCACAAT
*
58412865 TACTGTTACTGGTGGCTATGCCACAAT
1 TACTGATACTGGTGGCTATGCCACAAT
58412892 TACTGATACTGGTGGCT
1 TACTGATACTGGTGGCT
58412909 TTACTACATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
TACTGATACTGGTGGCTATGCCACAAT
Found at i:58414882 original size:8 final size:8
Alignment explanation
Indices: 58414871--58414910 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
58414861 TTTAAGAAAT
58414871 TAATATAA
1 TAATATAA
*
58414879 TAATATAT
1 TAATATAA
58414887 TAATATAA
1 TAATATAA
58414895 T-ATAATAA
1 TAAT-ATAA
58414903 TAATATAA
1 TAATATAA
58414911 AACAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 2 0.07
8 24 0.86
9 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAATATAA
Found at i:58414937 original size:23 final size:25
Alignment explanation
Indices: 58414901--58414950 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
58414891 ATAATATAAT
*
58414901 AATAATATAAAAC-AAA-AAAAAGA
1 AATAAAATAAAACAAAAGAAAAAGA
*
58414924 AATAAAATAGAACAAAAGAAAAAGA
1 AATAAAATAAAACAAAAGAAAAAGA
58414949 AA
1 AA
58414951 CATATAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (25 bp):
AATAAAATAAAACAAAAGAAAAAGA
Found at i:58415962 original size:93 final size:93
Alignment explanation
Indices: 58415803--58415996 Score: 316
Period size: 93 Copynumber: 2.1 Consensus size: 93
58415793 TGGGTCAATG
*
58415803 AGGCACTAATAGTGTCGTACTGTTACTTCGACTTCGTGTCGATTAGGCACTTCGTGTGTTGTACT
1 AGGCACTAATAGTGTCGTACTGTTACTTCGACTTCGTGTCGATGAGGCACTTCGTGTGTTGTACT
* * *
58415868 GTTTCTATTACTTCGGTTTAATCTGATA
66 GTTTCTATTACTTCAGTTTAACCCGATA
*
58415896 AGGCACTAATAGTGTCGTACTGTTACTTCGACTTTGTGTCGATGAGGCACTTCGTGTGTTGTACT
1 AGGCACTAATAGTGTCGTACTGTTACTTCGACTTCGTGTCGATGAGGCACTTCGTGTGTTGTACT
* *
58415961 GTTTTTGTTACTTCAGTTTAACCCGATA
66 GTTTCTATTACTTCAGTTTAACCCGATA
*
58415989 AGGTACTA
1 AGGCACTA
58415997 GGTACCGTAC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (93 bp):
AGGCACTAATAGTGTCGTACTGTTACTTCGACTTCGTGTCGATGAGGCACTTCGTGTGTTGTACT
GTTTCTATTACTTCAGTTTAACCCGATA
Found at i:58415963 original size:44 final size:44
Alignment explanation
Indices: 58415782--58415946 Score: 136
Period size: 44 Copynumber: 3.6 Consensus size: 44
58415772 TGTACAGGGA
* * *
58415782 TACTTCGACCTTGGGTCAATGAGGCACTAATAGTGTCGTACTGT
1 TACTTCGACTTTGTGTCGATGAGGCACTAATAGTGTCGTACTGT
* * ** *
58415826 TACTTCGACTTCGTGTCGATTAGGCACTTCGT-GTGTTGTACTGT
1 TACTTCGACTTTGTGTCGATGAGGCAC-TAATAGTGTCGTACTGT
* * * * *
58415870 TTCTAT-TACTTCGGTTTAATCTGATAAGGCACTAATAGTGTCGTACTGT
1 TACT-TCGACTT---TGT-GTC-GATGAGGCACTAATAGTGTCGTACTGT
58415919 TACTTCGACTTTGTGTCGATGAGGCACT
1 TACTTCGACTTTGTGTCGATGAGGCACT
58415947 TCGTGTGTTG
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
44 50 0.56
45 5 0.06
46 2 0.02
47 1 0.01
48 5 0.06
49 27 0.30
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (44 bp):
TACTTCGACTTTGTGTCGATGAGGCACTAATAGTGTCGTACTGT
Found at i:58419494 original size:11 final size:11
Alignment explanation
Indices: 58419480--58419520 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
58419470 TATTTTCTCT
58419480 CTATTTTGCTA
1 CTATTTTGCTA
*
58419491 CTATTTTACTA
1 CTATTTTGCTA
* *
58419502 TTATGTTGCTA
1 CTATTTTGCTA
58419513 CTATTTTG
1 CTATTTTG
58419521 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:58419585 original size:30 final size:30
Alignment explanation
Indices: 58419551--58419607 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
58419541 TATAAAAGTT
58419551 ATTTTATTATTATTTTAAAGACATTTGGTA
1 ATTTTATTATTATTTTAAAGACATTTGGTA
* * *
58419581 ATTTTGTTATTATTTTAGAGGCATTTG
1 ATTTTATTATTATTTTAAAGACATTTG
58419608 CTTGTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (30 bp):
ATTTTATTATTATTTTAAAGACATTTGGTA
Found at i:58419761 original size:12 final size:12
Alignment explanation
Indices: 58419731--58419764 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
58419721 TATATATTTT
58419731 AAAATT-ATATA
1 AAAATTAATATA
58419742 AAAA-TAATATA
1 AAAATTAATATA
58419753 AAAATTAATATA
1 AAAATTAATATA
58419765 GGCAGGCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:58423126 original size:47 final size:47
Alignment explanation
Indices: 58422934--58423156 Score: 149
Period size: 47 Copynumber: 4.8 Consensus size: 47
58422924 CACATTATGA
* * * * *
58422934 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATTGGCATTGAGACGA-
1 GAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGA-TAT
* * * * * * *
58422982 GTGCTAGTGGAAGA-CATGTCTGGGACAT-GCTTCGGCCTTGAGATGT
1 GAGCCAGAGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATAT
* * * *
58423028 AAGCTA-ATGTAAGA-CATGTCTGGGACAT-GCATCGA-TT-ACAAAAT
1 GAGCCAGA-GTAAGACCATGTCTGGGACATGGCATCGACTTGA-GATAT
58423072 GATAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
1 G--AGCCAGAGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
* *
58423121 GAGCCA-ATGTAAGACTATGTTTGGGACATGGCATCG
1 GAGCCAGA-GTAAGACCATGTCTGGGACATGGCATCG
58423157 GCATCCTACC
Statistics
Matches: 139, Mismatches: 24, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 1 0.01
46 47 0.34
47 61 0.44
48 18 0.13
49 6 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
Found at i:58423146 original size:140 final size:140
Alignment explanation
Indices: 58422889--58423150 Score: 332
Period size: 140 Copynumber: 1.9 Consensus size: 140
58422879 CACTTGTGTG
* ** *
58422889 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 AGCTAATGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAGAGTAAGACCATGT
* * * * * *
58422954 CTGGGATATGGCATTGGCATTGAGACGAGTGCTAGTGGAAGACATGTCTGGGACATGCTTCGGCC
66 CTGGGACATGGCATCGACATTGAGACGAGAGCCAATGGAAGACATGTCTGGGACATGCTTCGGCC
58423019 TTGAGATGTA
131 TTGAGATGTA
** *
58423029 AGCTAATGTAAGACATGTCTGGGACATGCATC-GATTACAAAATGATAGCCAGAGTAAGACCATG
1 AGCTAATGTAAGACATGTCTGGGACATGCATCAG-CCACAAAATGAGAGCCAGAGTAAGACCATG
* * *
58423093 TCTGGGACATGGCATCGAC-TTGAGA-TATGAGCCAATGTAAGACTATGTTTGGGACATG
65 TCTGGGACATGGCATCGACATTGAGACGA-GAGCCAATGGAAGAC-ATGTCTGGGACATG
58423151 GCATCGGCAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 84 0.82
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (140 bp):
AGCTAATGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAGAGTAAGACCATGT
CTGGGACATGGCATCGACATTGAGACGAGAGCCAATGGAAGACATGTCTGGGACATGCTTCGGCC
TTGAGATGTA
Found at i:58426096 original size:8 final size:8
Alignment explanation
Indices: 58426085--58426130 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
58426075 TTTAAGAAAT
58426085 TAATATAA
1 TAATATAA
58426093 TAATAT-A
1 TAATATAA
*
58426100 TTA-ATAA
1 TAATATAA
58426107 -AATATAA
1 TAATATAA
58426114 TAATAATAA
1 TAAT-ATAA
58426123 TAATATAA
1 TAATATAA
58426131 AACAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
6 3 0.09
7 8 0.25
8 13 0.41
9 8 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATATAA
Found at i:58426104 original size:16 final size:16
Alignment explanation
Indices: 58426083--58426129 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 16
58426073 TATTTAAGAA
58426083 ATTAATATAATAATAT
1 ATTAATATAATAATAT
58426099 ATT-A-ATAA-AATAT
1 ATTAATATAATAATAT
*
58426112 AATAATAATAATAATAT
1 ATTAAT-ATAATAATAT
58426129 A
1 A
58426130 AAACAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 1 0.04
16 7 0.27
17 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAATATAATAATAT
Found at i:58428240 original size:21 final size:21
Alignment explanation
Indices: 58428213--58428269 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
58428203 ACACGGGATG
58428213 ACAACACGGGCGTGTC-ATAA
1 ACAACACGGGCGTGTCTATAA
* * * *
58428233 AGACACACAGGCATGTCTCTAA
1 ACA-ACACGGGCGTGTCTATAA
58428255 ACAACACGGGCGTGT
1 ACAACACGGGCGTGT
58428270 GGTATTGTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.07
21 21 0.75
22 5 0.18
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (21 bp):
ACAACACGGGCGTGTCTATAA
Found at i:58429663 original size:3 final size:3
Alignment explanation
Indices: 58429651--58429800 Score: 96
Period size: 3 Copynumber: 49.7 Consensus size: 3
58429641 GTTATTTTGC
* * *
58429651 TAT T-T TAT TAT TAA AAT TAAT TAAT TAAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT
* *
58429698 T-T TCAC TAT TAT TAT TAT TAT TAA TA- TAT TAT TAT TAAT GTAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT
* * * *
58429744 TAT TTT CTAC T-T TAT TAT TAT TAT T-G TAT TAT TAC TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
58429788 CAT CA- TAT TAT TA
1 TAT TAT TAT TAT TA
58429801 AACTAATTAA
Statistics
Matches: 117, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
2 9 0.08
3 90 0.77
4 17 0.15
5 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:58429707 original size:18 final size:17
Alignment explanation
Indices: 58429682--58429785 Score: 79
Period size: 17 Copynumber: 6.0 Consensus size: 17
58429672 TAATTAATTA
58429682 TTACTATTATTATTATT
1 TTACTATTATTATTATT
58429699 TTCACTATTATTATTATT
1 TT-ACTATTATTATTATT
*
58429717 ATTAATA-TATTATTA-T
1 -TTACTATTATTATTATT
* *
58429733 TAATGTATTATTATT-TT
1 TTA-CTATTATTATTATT
*
58429750 CTACTTTATTATTATTATT
1 TTAC--TATTATTATTATT
* * *
58429769 GTATTATTACTATTATT
1 TTACTATTATTATTATT
58429786 ATCATCATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
15 2 0.03
16 3 0.04
17 31 0.44
18 28 0.40
19 6 0.09
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (17 bp):
TTACTATTATTATTATT
Found at i:58429760 original size:32 final size:31
Alignment explanation
Indices: 58429651--58429801 Score: 86
Period size: 32 Copynumber: 4.9 Consensus size: 31
58429641 GTTATTTTGC
58429651 TATT-TTATTATTAA-A-ATTAATTAATTAAT-
1 TATTATTATTATTAATATATT-ATT-ATTAATG
* * * *
58429680 TATTACTATTATTATTATTTTCACTATT-AT-
1 TATTATTATTATTAATATATT-ATTATTAATG
58429710 TATTATTA-T-T-AATATATTATTATTAATG
1 TATTATTATTATTAATATATTATTATTAATG
* * * *
58429738 TATTATTATTTTCTACTTTATTATTATTATTG
1 TATTATTATTAT-TAATATATTATTATTAATG
* *
58429770 TATTATTACTATTATTATCATCATATTATTAA
1 TATTATTATTATTAATAT-AT--TATTATTAA
58429802 ACTAATTAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
26 5 0.05
27 8 0.09
28 9 0.10
29 6 0.06
30 18 0.19
31 8 0.09
32 31 0.33
34 8 0.09
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.58
Consensus pattern (31 bp):
TATTATTATTATTAATATATTATTATTAATG
Found at i:58429777 original size:49 final size:49
Alignment explanation
Indices: 58429689--58429783 Score: 140
Period size: 49 Copynumber: 1.9 Consensus size: 49
58429679 TTATTACTAT
*
58429689 TATTATTATTTTCACTATTATTATTATTATTAATATATTATTATTAATG
1 TATTATTATTTTCACTATTATTATTATTATTAATATATTACTATTAATG
*
58429738 TATTATTATTTTCTACT-TTATTATTATTATT-GTATTATTACTATTA
1 TATTATTATTTTC-ACTATTATTATTATTATTAATA-TATTACTATTA
58429784 TTATCATCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 2 0.05
49 37 0.88
50 3 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (49 bp):
TATTATTATTTTCACTATTATTATTATTATTAATATATTACTATTAATG
Found at i:58429910 original size:17 final size:17
Alignment explanation
Indices: 58429880--58429912 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58429870 ATTATTACCC
58429880 TTTTACTTTTTATTTTA
1 TTTTACTTTTTATTTTA
58429897 TTTTA-TTTTATATTTT
1 TTTTACTTTT-TATTTT
58429913 TCTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTACTTTTTATTTTA
Found at i:58431961 original size:15 final size:15
Alignment explanation
Indices: 58431941--58431992 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
58431931 ATGACACTTA
*
58431941 ATGAATAAGAATATC
1 ATGAATAACAATATC
*
58431956 ATGAATAACAATGTC
1 ATGAATAACAATATC
58431971 ATGCAATGACACAAT-TC
1 ATG-AAT-A-ACAATATC
58431988 ATGAA
1 ATGAA
58431993 AATAGTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 16 0.50
16 5 0.16
17 6 0.19
18 5 0.16
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (15 bp):
ATGAATAACAATATC
Found at i:58433029 original size:26 final size:26
Alignment explanation
Indices: 58432993--58433102 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
58432983 TGATACAAAT
58432993 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
58433019 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
58433045 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
58433071 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
58433097 TGATAA
1 TGATAA
58433103 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:58434609 original size:25 final size:26
Alignment explanation
Indices: 58434581--58434632 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
58434571 TTTACAGTTT
58434581 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
58434606 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
58434632 T
1 T
58434633 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:58438800 original size:26 final size:26
Alignment explanation
Indices: 58438763--58438846 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
58438753 TGATACAAAT
* *
58438763 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
58438789 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
58438815 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
58438841 TGATAA
1 TGATAA
58438847 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:58444439 original size:19 final size:19
Alignment explanation
Indices: 58444396--58444441 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
58444386 AAAATTAATA
58444396 AAATTAAT--CATTTAAAT
1 AAATTAATAACATTTAAAT
*
58444413 TAATTAATAACATTTAAA-
1 AAATTAATAACATTTAAAT
58444431 AAATATAATAA
1 AAAT-TAATAA
58444442 ATAAATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 14 0.58
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAATAACATTTAAAT
Found at i:58444473 original size:44 final size:43
Alignment explanation
Indices: 58444383--58444474 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 43
58444373 AATATTTTAA
* *
58444383 TAAAAAATTAATAAAATTAATCATTTAAATTAATTAATAACATT
1 TAAAAAATTAATAAAATAAATCATTCAAATTAA-TAATAACATT
* *
58444427 TAAAAAATATAAT-AAATAAATTATGTCAAATTAA-AATAATAGTT
1 TAAAAAAT-TAATAAAATAAATCAT-TCAAATTAATAATAACA-TT
58444471 TAAA
1 TAAA
58444475 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.15
44 23 0.56
45 12 0.29
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (43 bp):
TAAAAAATTAATAAAATAAATCATTCAAATTAATAATAACATT
Found at i:58448556 original size:46 final size:46
Alignment explanation
Indices: 58448504--58448679 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
58448494 TATTTGGGCA
*
58448504 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
58448550 TCCGAGCTCGTTGAGTTGAGTCCAAGTTC-GTGA--GACGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
58448597 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
58448643 -CATGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58448680 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 61 0.58
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58448659 original size:93 final size:93
Alignment explanation
Indices: 58448500--58448672 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
58448490 AGGATATTTG
* *
58448500 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCATTGAG
58448565 TTGAGTCCAAGTTCGTGAGACGTAACTA
66 TTGAGTCCAAGTTCGTGAGACGTAACTA
* *
58448593 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CATGAGCTCATTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAGCTCATTGA
*
58448657 GTTGAGTCCGAGTTCG
65 GTTGAGTCCAAGTTCG
58448673 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCATTGAG
TTGAGTCCAAGTTCGTGAGACGTAACTA
Found at i:58454613 original size:35 final size:34
Alignment explanation
Indices: 58454547--58454617 Score: 115
Period size: 35 Copynumber: 2.1 Consensus size: 34
58454537 GGAAGGTCTG
**
58454547 AATGAGGAAATCAAGCTGTTGATTGGGATTCTCTA
1 AATGAGGAAATCAAGCTGTTGATTGAAATTCT-TA
58454582 AATGAGGAAATCAAGCTGTTGATTGAAATTCTTA
1 AATGAGGAAATCAAGCTGTTGATTGAAATTCTTA
58454616 AA
1 AA
58454618 ATACGGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (34 bp):
AATGAGGAAATCAAGCTGTTGATTGAAATTCTTA
Found at i:58463865 original size:10 final size:10
Alignment explanation
Indices: 58463841--58463902 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
58463831 AATGAAATTC
58463841 TAAAAGATAAA
1 TAAAA-ATAAA
*
58463852 TAAAAATAAT
1 TAAAAATAAA
* *
58463862 TAAAGATAAT
1 TAAAAATAAA
*
58463872 TAAAGATAAA
1 TAAAAATAAA
*
58463882 TAAAGATAAA
1 TAAAAATAAA
*
58463892 TGAAAATAAA
1 TAAAAATAAA
58463902 T
1 T
58463903 TCTAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 41 0.89
11 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:58463866 original size:20 final size:20
Alignment explanation
Indices: 58463843--58463902 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
58463833 TGAAATTCTA
*
58463843 AAAGATAAATAAAAATAATT
1 AAAGATAAATAAAAATAAAT
* *
58463863 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAAAATAAAT
*
58463883 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
58463903 TCTAAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:58465567 original size:25 final size:25
Alignment explanation
Indices: 58465524--58465579 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
58465514 ATCTGAAAAT
* * *
58465524 AATAAATAATAAGATAATAAGATAA
1 AATAAATAAAAAGAAAATAAAATAA
*
58465549 AATAAATAAAAATAAAATAAAATAA
1 AATAAATAAAAAGAAAATAAAATAA
58465574 AATAAA
1 AATAAA
58465580 AATTGGGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (25 bp):
AATAAATAAAAAGAAAATAAAATAA
Found at i:58465569 original size:15 final size:14
Alignment explanation
Indices: 58465519--58465580 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 14
58465509 TTAATATCTG
58465519 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
* *
58465534 AAGATAAT-AAGAT
1 AAAATAATAAAAAT
58465547 AAAATAAATAAAAAT
1 AAAAT-AATAAAAAT
*
58465562 AAAATAAAATAAAAT
1 AAAATAATA-AAAAT
58465577 AAAA
1 AAAA
58465581 ATTGGGTTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 6 0.15
14 8 0.21
15 25 0.64
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:58465580 original size:5 final size:5
Alignment explanation
Indices: 58465539--58465580 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
58465529 ATAATAAGAT
*
58465539 AATAA GATAA AAT-A AATAAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AA
58465581 ATTGGGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.76
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:58467783 original size:38 final size:38
Alignment explanation
Indices: 58467732--58467809 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
58467722 GGAAAGCACG
*
58467732 TAGTTCAATTTGATCCTCAGTTACCCCTTGAGGTTTCA
1 TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
58467770 TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
1 TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
58467808 TA
1 TA
58467810 CTAAGGCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (38 bp):
TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
Found at i:58469329 original size:10 final size:10
Alignment explanation
Indices: 58469310--58469379 Score: 99
Period size: 10 Copynumber: 7.0 Consensus size: 10
58469300 TGAAATTCTA
58469310 AAAGATAAAT
1 AAAGATAAAT
58469320 ACAA-ATAAAT
1 A-AAGATAAAT
*
58469330 AAAGATAATT
1 AAAGATAAAT
58469340 AAAGATAAAT
1 AAAGATAAAT
58469350 AAAGATAAAT
1 AAAGATAAAT
58469360 AAAGATAAAT
1 AAAGATAAAT
58469370 GAAA-ATAAAT
1 -AAAGATAAAT
58469380 CCTAAAATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
9 2 0.04
10 48 0.87
11 5 0.09
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:58469358 original size:16 final size:16
Alignment explanation
Indices: 58469326--58469378 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
58469316 AAATACAAAT
*
58469326 AAATAAAGAT-AATTA
1 AAATAAAGATAAATGA
58469341 AAGAT-AA-ATAAA-GA
1 AA-ATAAAGATAAATGA
58469355 TAAATAAAGATAAATGA
1 -AAATAAAGATAAATGA
58469372 AAATAAA
1 AAATAAA
58469379 TCCTAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
14 5 0.16
15 10 0.32
16 14 0.45
17 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAATAAAGATAAATGA
Found at i:58477708 original size:17 final size:17
Alignment explanation
Indices: 58477686--58477719 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58477676 ATAAATATTT
58477686 ATAATGAAGATCAAACC
1 ATAATGAAGATCAAACC
58477703 ATAATGAAGATCAAACC
1 ATAATGAAGATCAAACC
58477720 TAGACAAACT
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:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
ATAATGAAGATCAAACC
Found at i:58482895 original size:14 final size:13
Alignment explanation
Indices: 58482876--58482906 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
58482866 GATGGATTCG
58482876 TATAATTCTTATCA
1 TATAATTCTTAT-A
58482890 TATAATTCTTATA
1 TATAATTCTTATA
58482903 TATA
1 TATA
58482907 TTGTACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATTCTTATA
Found at i:58485815 original size:26 final size:25
Alignment explanation
Indices: 58485764--58485828 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
58485754 ATAATTTTCC
*
58485764 GCTCT-TTCGAGCT-ATGAACAGTAA
1 GCTCTATT-GAGCTGATGAACAATAA
* *
58485788 GCTCCTCTTGAGCTGATGGACAATAA
1 GCT-CTATTGAGCTGATGAACAATAA
58485814 GCTCTATTGAGCTGA
1 GCTCTATTGAGCTGA
58485829 AACGGTAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 18 0.51
26 14 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
GCTCTATTGAGCTGATGAACAATAA
Found at i:58485849 original size:23 final size:22
Alignment explanation
Indices: 58485811--58485898 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 22
58485801 TGATGGACAA
* *
58485811 TAAGCTCTATTGAGCTGAAACGG
1 TAAGCTCTA-CGAGCTGAAACAG
* *
58485834 TAAGCTCTGACAAGCTGAATCAG
1 TAAGCTCT-ACGAGCTGAAACAG
58485857 TAAGCTCATACGAGCTGAGAACAG
1 TAAGCTC-TACGAGCTGA-AACAG
58485881 TAAGCTCTCACGAGCTGA
1 TAAGCTCT-ACGAGCTGA
58485899 TATATTGGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
23 33 0.60
24 22 0.40
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
TAAGCTCTACGAGCTGAAACAG
Found at i:58488497 original size:34 final size:34
Alignment explanation
Indices: 58488471--58488546 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
58488461 ATAACAGTCT
58488471 AGTAACAGT-TAGGGCCTTAGCCCAATACAGTATC
1 AGTAACAGTGTA-GGCCTTAGCCCAATACAGTATC
* * * *
58488505 AGTAGCAGTGTAGGCTTTAGCCCATTACAGTAAC
1 AGTAACAGTGTAGGCCTTAGCCCAATACAGTATC
58488539 AGTAACAG
1 AGTAACAG
58488547 AAATGCAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (34 bp):
AGTAACAGTGTAGGCCTTAGCCCAATACAGTATC
Found at i:58488997 original size:18 final size:18
Alignment explanation
Indices: 58488969--58489003 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
58488959 AAAGTTCATA
58488969 ACACGGCCCATGTAGGCCC
1 ACACGGCCCATGT-GGCCC
58488988 ACAC-GCCCATGTGGCC
1 ACACGGCCCATGTGGCC
58489004 TACAAAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11
Consensus pattern (18 bp):
ACACGGCCCATGTGGCCC
Found at i:58496974 original size:43 final size:43
Alignment explanation
Indices: 58496890--58496975 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
58496880 TATGTGATTC
* *
58496890 CGATATGTGTTTACGAGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATGTGGTTACGAGTAAGACCCTGTCTAGGACAGTGGCAT
58496933 CGATATGTGGTTAC-ATGTAAGACCAC-GTCTAGGAC-GTTGGCAT
1 CGATATGTGGTTACGA-GTAAGACC-CTGTCTAGGACAG-TGGCAT
58496976 TGTACCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 35 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
CGATATGTGGTTACGAGTAAGACCCTGTCTAGGACAGTGGCAT
Found at i:58503975 original size:7 final size:6
Alignment explanation
Indices: 58503950--58504004 Score: 74
Period size: 6 Copynumber: 9.0 Consensus size: 6
58503940 AAATTTGTTT
* * *
58503950 ATAAAA ACATAAA ATAAAA ATAAAA ATAAAA ATTAAA ATAAAA ATAAAG
1 ATAAAA ATA-AAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
58503999 ATAAAA
1 ATAAAA
58504005 TGAAATTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:58503986 original size:24 final size:25
Alignment explanation
Indices: 58503950--58504004 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
58503940 AAATTTGTTT
58503950 ATAAAAACATAAAATAAAAATAAAA
1 ATAAAAACATAAAATAAAAATAAAA
* *
58503975 ATAAAAA-TTAAAATAAAAATAAAG
1 ATAAAAACATAAAATAAAAATAAAA
58503999 ATAAAA
1 ATAAAA
58504005 TGAAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (25 bp):
ATAAAAACATAAAATAAAAATAAAA
Found at i:58512656 original size:18 final size:18
Alignment explanation
Indices: 58512607--58512646 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
58512597 ATCAGGCAAG
58512607 TTTCACATACATGTATTT
1 TTTCACATACATGTATTT
58512625 TTTCACATACATGTATTT
1 TTTCACATACATGTATTT
58512643 TTTC
1 TTTC
58512647 CATGTCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTCACATACATGTATTT
Found at i:58524805 original size:41 final size:41
Alignment explanation
Indices: 58524748--58524830 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
58524738 CAGTAAGGCA
*
58524748 AGTTGTCGAATAAGACCATAGCCGAGCTGTGGCAATCGAAT
1 AGTTGTCGAATAAGACCAAAGCCGAGCTGTGGCAATCGAAT
* *
58524789 AGTTGTCGAATAAGACCAAAGTCGGGCTGTGGCAATCGAAT
1 AGTTGTCGAATAAGACCAAAGCCGAGCTGTGGCAATCGAAT
58524830 A
1 A
58524831 ATAAGGCCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (41 bp):
AGTTGTCGAATAAGACCAAAGCCGAGCTGTGGCAATCGAAT
Found at i:58525583 original size:24 final size:23
Alignment explanation
Indices: 58525556--58525600 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
58525546 TAAAGTAAGA
58525556 TAAATTGAT-TGGTATTTGAGTAGG
1 TAAA-TGATATGG-ATTTGAGTAGG
*
58525580 TAAATGGTATGGATTTGAGTA
1 TAAATGATATGGATTTGAGTA
58525601 ATGAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (23 bp):
TAAATGATATGGATTTGAGTAGG
Found at i:58527329 original size:47 final size:45
Alignment explanation
Indices: 58527125--58527440 Score: 262
Period size: 49 Copynumber: 6.7 Consensus size: 45
58527115 ATATGTTGCT
* * *
58527125 GATGCCATGTCCC-GAACATGGTCTTACACTGGCTATCATCATCGAGGCT
1 GATG-CATGTCCCAG-ACAT-GTCTTACACTGGCTCTCATC-T-TAGGCC
* * * *
58527174 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTATACGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCT-TA-G-GCC
* * * *
58527224 AATGCATGTCCCAGACATGTCTTACACTAGCAC-AACTCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA-TCTTAGGCC
*
58527268 GATGCATGTCCCAGACACGTCTTACACTGGCTCTCATCGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATC-TT-AGGCC
* * *
58527315 GATGCATGTGCCAGACATGTCTTACACTGG-TGCTCATTCTCTACGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-CTCA-TCT-TAGGCC
* * * *
58527362 GATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATATTGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTT-AGGCC
58527410 GATGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
58527441 ACACAAGTAA
Statistics
Matches: 223, Mismatches: 29, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
44 33 0.15
45 3 0.01
46 15 0.07
47 59 0.26
48 41 0.18
49 64 0.29
50 8 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTAGGCC
Found at i:58527414 original size:95 final size:93
Alignment explanation
Indices: 58527225--58527439 Score: 276
Period size: 95 Copynumber: 2.3 Consensus size: 93
58527215 ATACGTGCTA
58527225 ATGCATGTCCCAGACATGTCTTACACT--AGCACAACTCTTAGCCGATGCATGTCCCAGACACGT
1 ATGCATGTCCCAGACATGTCTTACACTGGAGCACAACTCTTAGCCGATGCATGTCCCAGACACGT
* *
58527288 CTTACACTGGCTCTCATCGTTGAGGCCG
66 CTTACACTGGCTATCATCATTGAGGCCG
* * * * * *
58527316 ATGCATGTGCCAGACATGTCTTACACTGGTGCTC-ATTCTCTACGTCGATGCCATGTCCTAGACA
1 ATGCATGTCCCAGACATGTCTTACACTGGAGCACAACTCT-TA-GCCGATG-CATGTCCCAGACA
* *
58527380 TGGTCTTACACTGGCTATCAT-ATTGTGGCCG
63 -CGTCTTACACTGGCTATCATCATTGAGGCCG
58527411 ATGCATGTCCCAGACATGTCTTACACTGG
1 ATGCATGTCCCAGACATGTCTTACACTGG
58527440 CACACAAGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
91 26 0.24
92 4 0.04
93 5 0.05
94 6 0.06
95 48 0.45
96 18 0.17
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
ATGCATGTCCCAGACATGTCTTACACTGGAGCACAACTCTTAGCCGATGCATGTCCCAGACACGT
CTTACACTGGCTATCATCATTGAGGCCG
Found at i:58536420 original size:44 final size:44
Alignment explanation
Indices: 58536350--58536574 Score: 236
Period size: 44 Copynumber: 5.1 Consensus size: 44
58536340 AACGGGTTGT
* * * *
58536350 TACAAATCTTATCTCCCTAAAATTGTAGTGGAGTAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * *
58536394 TACAAATCTTATCTCCCTGAAGTTGTAGAGGAGCAAATTAAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * *
58536438 TACAAATATTATCTCCCTAAAGTTGCAATGGAGCA-AGTGAAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGC
* * * * *
58536482 TACAAATCTCATCTCCTTGAAGCTGCAATGGAGCATATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
** * * *
58536526 TATGAACCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
58536570 TACAA
1 TACAA
58536575 TTTCTATACC
Statistics
Matches: 150, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
43 2 0.01
44 145 0.97
45 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:58539559 original size:20 final size:20
Alignment explanation
Indices: 58539512--58539559 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
58539502 AGATAGGGGC
*
58539512 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTGGA
*
58539532 ACACGCCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
58539552 ACATGCCC
1 ACATGCCC
58539560 ATGGGCAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.35, G:0.33, T:0.17
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:58540059 original size:13 final size:13
Alignment explanation
Indices: 58540041--58540077 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
58540031 AGATAATTAG
58540041 CAAATCATACATA
1 CAAATCATACATA
58540054 CAAATCATACATA
1 CAAATCATACATA
*
58540067 TAAATTCATAC
1 CAAA-TCATAC
58540078 CAAACTGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:58540233 original size:48 final size:48
Alignment explanation
Indices: 58540174--58540329 Score: 188
Period size: 48 Copynumber: 3.1 Consensus size: 48
58540164 TTCATCTCTC
*
58540174 AACCACGTATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
1 AACCACATATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
* *
58540222 AACCACATATAATTATTCAATTCACATTTCAAATATGAAC-CTTTGATTCATCTCTC
1 AACCACATATAATTATTCAATTCACATTTCAAATATAAACAC-----TTCA----TA
*
58540278 AACCACATATAATTATTCACTTCACATTTCAAATATAAACACTTCATA
1 AACCACATATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
58540326 AACC
1 AACC
58540330 TTTGGTTCAT
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
47 1 0.01
48 43 0.47
52 8 0.09
56 39 0.42
57 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (48 bp):
AACCACATATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
Found at i:58541578 original size:19 final size:18
Alignment explanation
Indices: 58541545--58541592 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
58541535 ATTTTCCCTT
* *
58541545 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
58541563 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
58541582 TTTCTTTCTCT
1 TTTCTTTCTCT
58541593 GTAACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:58541862 original size:26 final size:26
Alignment explanation
Indices: 58541813--58541862 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
58541803 ATAATAAATA
* *
58541813 AATAAATAAATAAATATCTTTAACTT
1 AATAAATAAATAAATATATATAACTT
*
58541839 AATAAATAAGTAAATATATATAAC
1 AATAAATAAATAAATATATATAAC
58541863 ATACATTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (26 bp):
AATAAATAAATAAATATATATAACTT
Found at i:58542999 original size:19 final size:19
Alignment explanation
Indices: 58542951--58543000 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
58542941 TGCTTCTGAT
* *
58542951 TTTTTTATTTTTTTTTAAC
1 TTTTTTATTTTTCTTTAAA
* *
58542970 TTTTGTCTTTTTCTTTAAA
1 TTTTTTATTTTTCTTTAAA
58542989 TTTTTTATTTTT
1 TTTTTTATTTTT
58543001 TAAGTTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTATTTTTCTTTAAA
Found at i:58543008 original size:16 final size:16
Alignment explanation
Indices: 58542983--58543017 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
58542973 TGTCTTTTTC
*
58542983 TTTAAATTTTTTATTT
1 TTTAAATTTTATATTT
*
58542999 TTTAAGTTTTATATTT
1 TTTAAATTTTATATTT
58543015 TTT
1 TTT
58543018 CTTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTAAATTTTATATTT
Found at i:58543039 original size:13 final size:13
Alignment explanation
Indices: 58543023--58543065 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
58543013 TTTTTCTTAT
*
58543023 TTTATTTTGTTTA
1 TTTATTTTATTTA
58543036 TTTATTTTATTTA
1 TTTATTTTATTTA
* *
58543049 TTTTTTGTTATTAA
1 TTTATT-TTATTTA
58543063 TTT
1 TTT
58543066 TAAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:58543060 original size:10 final size:9
Alignment explanation
Indices: 58543019--58543052 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
58543009 ATATTTTTTC
58543019 TTATTTTAT
1 TTATTTTAT
58543028 TT-TGTTTAT
1 TTAT-TTTAT
58543037 TTATTTTAT
1 TTATTTTAT
58543046 TTATTTT
1 TTATTTT
58543053 TTGTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:58543127 original size:23 final size:23
Alignment explanation
Indices: 58543069--58543135 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
58543059 TTAATTTTAA
* *
58543069 AAAATTTGAAATGTATA--TTTG
1 AAAATTTTAAATATATATTTTTG
*
58543090 AAATATTTTATAATATATATTTTTT
1 AAA-ATTTTA-AATATATATTTTTG
58543115 AAAATTTTAAATAT-TATTTTT
1 AAAATTTTAAATATATATTTTT
58543136 AAATTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.08
22 12 0.31
23 12 0.31
24 6 0.15
25 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
AAAATTTTAAATATATATTTTTG
Found at i:58543128 original size:33 final size:32
Alignment explanation
Indices: 58543085--58543238 Score: 139
Period size: 36 Copynumber: 4.5 Consensus size: 32
58543075 TGAAATGTAT
*
58543085 ATTTGAAATAT-TTTATAATATATATTTTTTAAA
1 ATTTTAAATATATTTATAA-AT-TATTTTTTAAA
*
58543118 ATTTTAAATATTATTTTTAAATTATTTTTTAAA
1 ATTTTAAATA-TATTTATAAATTATTTTTTAAA
* *
58543151 ATTTTAAATATATATTTTTGAAATTATTTCTTATAA
1 ATTTT-AA-ATATATTTAT-AAATTATTTTTTA-AA
* *
58543187 ATTTTAAAAATATATTTTTGAAATTAATTTTTATAA
1 ATTTT--AAATATATTTAT-AAATTATTTTTTA-AA
58543223 ATTTTAAATAATATTT
1 ATTTTAAAT-ATATTT
58543239 TTTAAATATT
Statistics
Matches: 108, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
33 25 0.23
34 16 0.15
35 27 0.25
36 37 0.34
37 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTTAAATATATTTATAAATTATTTTTTAAA
Found at i:58543137 original size:13 final size:12
Alignment explanation
Indices: 58543119--58543225 Score: 64
Period size: 13 Copynumber: 8.8 Consensus size: 12
58543109 TTTTTTAAAA
58543119 TTTTAAATATTAT
1 TTTTAAA-ATTAT
58543132 TTTT-AAATTAT
1 TTTTAAAATTAT
*
58543143 TTTTTAAA--A-
1 TTTTAAAATTAT
58543152 TTTTAAATATATAT
1 TTTTAAA-AT-TAT
*
58543166 TTTTGAAATTAT
1 TTTTAAAATTAT
*
58543178 TTCTTATAA--AT
1 TT-TTAAAATTAT
*
58543189 TTTAAAAATATAT
1 TTTTAAAAT-TAT
*
58543202 TTTTGAAATTAAT
1 TTTTAAAATT-AT
58543215 TTTTATAAATT
1 TTTTA-AAATT
58543226 TTAAATAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 23
0.70 0.09 0.22
Matches are distributed among these distances:
9 6 0.08
10 6 0.08
11 13 0.18
12 11 0.15
13 26 0.36
14 11 0.15
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:58543144 original size:23 final size:25
Alignment explanation
Indices: 58543090--58543145 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
58543080 TGTATATTTG
58543090 AAATATTTTATAATATATATTTTTT
1 AAATATTTTATAATATATATTTTTT
58543115 AAA-ATTTTA-AATAT-TA-TTTTT
1 AAATATTTTATAATATATATTTTTT
58543136 AAATTATTTT
1 AAA-TATTTT
58543146 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.28
22 2 0.07
23 10 0.34
24 6 0.21
25 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
AAATATTTTATAATATATATTTTTT
Found at i:58543166 original size:23 final size:23
Alignment explanation
Indices: 58543140--58543274 Score: 61
Period size: 22 Copynumber: 5.8 Consensus size: 23
58543130 ATTTTTAAAT
58543140 TATTTTTTAAAATTTTAAATATA
1 TATTTTTTAAAATTTTAAATATA
* ***
58543163 TA-TTTTTGAAATTATTTCTTATA
1 TATTTTTTAAAATT-TTAAATATA
* **
58543186 AATTTTAAAAATATATTTTTGAAAT-TA
1 TATTTT-TTAA-A-A-TTTT-AAATATA
58543213 -A-TTTTTATAAATTTTAAATA-A
1 TATTTTTTA-AAATTTTAAATATA
*
58543234 TATTTTTT-AAATATT-AA-ATA
1 TATTTTTTAAAATTTTAAATATA
58543254 TATTTTTTAATAATATTTAAA
1 TATTTTTTAA-AAT-TTTAAA
58543275 AATTAAAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 31
0.64 0.12 0.24
Matches are distributed among these distances:
19 1 0.01
20 11 0.14
21 12 0.15
22 18 0.22
23 17 0.21
24 7 0.09
25 5 0.06
26 2 0.02
27 5 0.06
28 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTTTTTAAAATTTTAAATATA
Found at i:58543174 original size:22 final size:20
Alignment explanation
Indices: 58543132--58543175 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
58543122 TAAATATTAT
58543132 TTTTAAATTATTTTTTAAAA
1 TTTTAAATTATTTTTTAAAA
*
58543152 TTTTAAATATATATTTTTGAAA
1 TTTTAAAT-TAT-TTTTTAAAA
58543174 TT
1 TT
58543176 ATTTCTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAAATTATTTTTTAAAA
Found at i:58543194 original size:36 final size:35
Alignment explanation
Indices: 58543107--58543245 Score: 203
Period size: 36 Copynumber: 4.0 Consensus size: 35
58543097 TTATAATATA
58543107 TATTTTTTAAAATTTTAAATAT-TATTTTT-AAAT
1 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
58543140 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
1 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
* *
58543175 TATTTCTTATAAATTTTAAAAATATATTTTTGAAAT
1 TATTTTTTA-AAATTTTAAATATATATTTTTGAAAT
* *
58543211 TAATTTTTATAAATTTTAAATA-ATATTTTTTAAAT
1 TATTTTTTA-AAATTTTAAATATATATTTTTGAAAT
58543246 ATTAAATATA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
33 22 0.23
34 7 0.07
35 24 0.25
36 44 0.45
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (35 bp):
TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
Found at i:58543218 original size:71 final size:68
Alignment explanation
Indices: 58543107--58543245 Score: 199
Period size: 71 Copynumber: 2.0 Consensus size: 68
58543097 TTATAATATA
* * *
58543107 TATTTTTTAAAATTTTAAATATTATTTTTAAATTATTTTTTA-AAATTTTAAATATATATTTTTG
1 TATTTCTTAAAATTTTAAAAATTATTTTTAAATTAATTTTTATAAATTTTAAATA-ATATTTTTG
58543171 AAAT
65 AAAT
58543175 TATTTCTTATAAATTTTAAAAATATATTTTTGAAATTAATTTTTATAAATTTTAAATAATATTTT
1 TATTTCTTA-AAATTTTAAAAAT-TATTTTT-AAATTAATTTTTATAAATTTTAAATAATATTTT
*
58543240 TTAAAT
63 TGAAAT
58543246 ATTAAATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
68 8 0.13
69 12 0.19
70 7 0.11
71 24 0.38
72 12 0.19
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (68 bp):
TATTTCTTAAAATTTTAAAAATTATTTTTAAATTAATTTTTATAAATTTTAAATAATATTTTTGA
AAT
Found at i:58543227 original size:22 final size:21
Alignment explanation
Indices: 58543202--58543280 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
58543192 AAAAATATAT
58543202 TTTTGAAATTAATTTTTATAAA
1 TTTT-AAATTAATTTTTATAAA
*
58543224 TTTTAAA-TAATATTTTTTAAA
1 TTTTAAATTAAT-TTTTATAAA
* *
58543245 TATTAAATATATTTTTTAATAATA
1 TTTTAAAT-TAATTTTT-ATAA-A
*
58543269 TTTAAAAATTAA
1 TTT-TAAATTAA
58543281 AATTTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 17 0.39
22 8 0.18
23 6 0.14
24 5 0.11
25 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (21 bp):
TTTTAAATTAATTTTTATAAA
Found at i:58543258 original size:20 final size:21
Alignment explanation
Indices: 58543213--58543263 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
58543203 TTTGAAATTA
*
58543213 ATTTTTATAAATTTTAAATAAT
1 ATTTTT-TAAATATTAAATAAT
58543235 ATTTTTTAAATATTAAAT-AT
1 ATTTTTTAAATATTAAATAAT
58543255 ATTTTTTAA
1 ATTTTTTAA
58543264 TAATATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 11 0.39
21 11 0.39
22 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTTAAATATTAAATAAT
Found at i:58543307 original size:12 final size:13
Alignment explanation
Indices: 58543255--58543313 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
58543245 TATTAAATAT
* *
58543255 ATTTTTTAATAAT
1 ATTTTTAAATAAA
**
58543268 ATTTAAAAATTAAA
1 ATTTTTAAA-TAAA
58543282 ATTTTTAAATAAA
1 ATTTTTAAATAAA
*
58543295 ATTTTTATAAAAAA
1 ATTTTTA-AATAAA
58543309 ATTTT
1 ATTTT
58543314 ACATATAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 17 0.46
14 20 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTTAAATAAA
Found at i:58543314 original size:13 final size:14
Alignment explanation
Indices: 58543278--58543314 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
58543268 ATTTAAAAAT
58543278 TAAAATTTT-TAAA
1 TAAAATTTTATAAA
58543291 TAAAATTTTTATAAA
1 TAAAA-TTTTATAAA
58543306 -AAAATTTTA
1 TAAAATTTTA
58543315 CATATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAATTTTATAAA
Found at i:58543364 original size:13 final size:13
Alignment explanation
Indices: 58543343--58543444 Score: 50
Period size: 13 Copynumber: 7.8 Consensus size: 13
58543333 AAATTTTTTT
*
58543343 AAAATTAAAAATA
1 AAAAATAAAAATA
* *
58543356 AAAAATAAATAGA
1 AAAAATAAAAATA
*
58543369 CAAAAT-AAAATA
1 AAAAATAAAAATA
*
58543381 AGAAAA-AAATATA
1 A-AAAATAAAAATA
**
58543394 AAACTTAAAAA-A
1 AAAAATAAAAATA
* *
58543406 AGAAAAAAATTAAAGA
1 A-AAAATAA--AAATA
58543422 AAAAATAAAAAGTA
1 AAAAATAAAAA-TA
58543436 AAAAA-AAAA
1 AAAAATAAAA
58543445 CAAATTTAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
12 8 0.12
13 40 0.62
14 6 0.09
15 9 0.14
16 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:58543405 original size:17 final size:17
Alignment explanation
Indices: 58543349--58543460 Score: 88
Period size: 17 Copynumber: 6.3 Consensus size: 17
58543339 TTTTAAAATT
*
58543349 AAAAATAAAAAATAAATA
1 AAAAATAAAAATTAAA-A
58543367 GACAAAAT-AAAA-TAAGAA
1 -A-AAAATAAAAATTAA-AA
58543385 AAAAATATAAAACTTAAAA
1 AAAAATA-AAAA-TTAAAA
58543404 AAAGAA-AAAAATTAAAGA
1 AAA-AATAAAAATTAAA-A
*
58543422 AAAAATAAAAAGTAAAA
1 AAAAATAAAAATTAAAA
*
58543439 AAAAA-ACAAATTTAAAA
1 AAAAATA-AAAATTAAAA
58543456 AAAAA
1 AAAAA
58543461 CCAAAAGCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 22
0.76 0.03 0.21
Matches are distributed among these distances:
16 6 0.08
17 27 0.34
18 25 0.31
19 12 0.15
20 10 0.12
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (17 bp):
AAAAATAAAAATTAAAA
Found at i:58545590 original size:2 final size:2
Alignment explanation
Indices: 58545583--58545611 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58545573 TCAAGTAAGC
58545583 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
58545612 TGTGTGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:58549002 original size:12 final size:12
Alignment explanation
Indices: 58548985--58549009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58548975 TCAATGACAT
58548985 TATAAAAATAAA
1 TATAAAAATAAA
58548997 TATAAAAATAAA
1 TATAAAAATAAA
58549009 T
1 T
58549010 GGATCAAATT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAAAAATAAA
Found at i:58550075 original size:14 final size:14
Alignment explanation
Indices: 58550058--58550087 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
58550048 CCTTCTGGTT
58550058 CCTTTCTTGCTTTC
1 CCTTTCTTGCTTTC
58550072 CCTTTCTTGCTTTC
1 CCTTTCTTGCTTTC
58550086 CC
1 CC
58550088 CCTGCTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53
Consensus pattern (14 bp):
CCTTTCTTGCTTTC
Found at i:58556279 original size:28 final size:27
Alignment explanation
Indices: 58556221--58556286 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
58556211 GGGAATGAAC
*
58556221 TATATACAT-AATAGATTTAAAAAAAA
1 TATATATATAAATAGATTTAAAAAAAA
* * *
58556247 CATATATATAAATAGATTTAGAATAAAT
1 TATATATATAAATAGATTTA-AAAAAAA
*
58556275 TATATGTATAAA
1 TATATATATAAA
58556287 ATAACATGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.22
27 10 0.31
28 15 0.47
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (27 bp):
TATATATATAAATAGATTTAAAAAAAA
Found at i:58558082 original size:90 final size:88
Alignment explanation
Indices: 58557968--58558165 Score: 213
Period size: 90 Copynumber: 2.2 Consensus size: 88
58557958 TGTTCTATTG
* * * * * *
58557968 CAACTTCAGAGAGATAAGGATGGTGGCTTCAATCTGC-TCCACTGCAACTTCAGGGAGATGAGAT
1 CAACTTCAGGGAGATAA-GATGGTGACTTAAATCTGCTTCC-CTGCAACCTCAGGAAGATAAGAT
*
58558032 CTGCTATCTTC-AGTCTACTCCACTA
64 CTGCCATCTTCGA-TCTACTCCACTA
* * *
58558057 CAACTTCAGGGAGATAAGACTTGGTGACTTAAATCTGCTTCCTTGCTACCTCAGGAAGATAATAT
1 CAACTTCAGGGAGATAAGA--TGGTGACTTAAATCTGCTTCCCTGCAACCTCAGGAAGATAAGAT
* *
58558122 TTGCCATCTTCGATCTGCTCCACTA
64 CTGCCATCTTCGATCTACTCCACTA
*
58558147 CTACTT-AGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
58558166 CTACAATCTT
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
87 1 0.01
88 2 0.02
89 28 0.30
90 57 0.62
91 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
CAACTTCAGGGAGATAAGATGGTGACTTAAATCTGCTTCCCTGCAACCTCAGGAAGATAAGATCT
GCCATCTTCGATCTACTCCACTA
Found at i:58574125 original size:38 final size:37
Alignment explanation
Indices: 58574082--58574213 Score: 133
Period size: 39 Copynumber: 3.5 Consensus size: 37
58574072 ATAAAGTATG
58574082 GTTTTAATTAATAATAAATAAAATAGTATGAGGAAGTA
1 GTTTTAATTAATAATAAA-AAAATAGTATGAGGAAGTA
* * *
58574120 GTTTTAATTAACAATAAAACAAGATAGTATGGGGAAATA
1 GTTTTAATTAATAATAAAA-AA-ATAGTATGAGGAAGTA
* ** * *
58574159 GTTTTAATTAAATAA-AACAAAATAACAT-AGGGAGTG
1 GTTTTAATT-AATAATAAAAAAATAGTATGAGGAAGTA
*
58574195 GTTTTGATTAATAATAAAA
1 GTTTTAATTAATAATAAAA
58574214 CAAAGTAGCA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 5 0.06
36 15 0.19
37 6 0.08
38 21 0.27
39 26 0.34
40 4 0.05
ACGTcount: A:0.49, C:0.03, G:0.16, T:0.32
Consensus pattern (37 bp):
GTTTTAATTAATAATAAAAAAATAGTATGAGGAAGTA
Found at i:58574216 original size:38 final size:38
Alignment explanation
Indices: 58574082--58574217 Score: 143
Period size: 38 Copynumber: 3.6 Consensus size: 38
58574072 ATAAAGTATG
* *
58574082 GTTTTAATTAATAAT-AAATAAAATAGTATGAGGAAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTAT-AGGGAGTA
* * * *
58574120 GTTTTAATTAACAATAAAACAAGATAGTATGGGGAAATA
1 GTTTTAATTAATAATAAAACAAAATAGTATAGGG-AGTA
** *
58574159 GTTTTAATT-A-AATAAAACAAAATAACATAGGGAGTG
1 GTTTTAATTAATAATAAAACAAAATAGTATAGGGAGTA
*
58574195 GTTTTGATTAATAATAAAACAAA
1 GTTTTAATTAATAATAAAACAAA
58574218 GTAGCATGGG
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
36 10 0.12
37 19 0.23
38 28 0.35
39 24 0.30
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (38 bp):
GTTTTAATTAATAATAAAACAAAATAGTATAGGGAGTA
Found at i:58575673 original size:25 final size:25
Alignment explanation
Indices: 58575634--58575693 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
58575624 TTCAAAGTTA
*
58575634 AAATATTTTAAAGAGGACTACATCTT
1 AAAT-TTTTTAAGAGGACTACATCTT
58575660 AAATTTTTTAAGAGGACTACATCTT
1 AAATTTTTTAAGAGGACTACATCTT
58575685 AAATTTTTT
1 AAATTTTTT
58575694 TCTTTCGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (25 bp):
AAATTTTTTAAGAGGACTACATCTT
Found at i:58579122 original size:21 final size:22
Alignment explanation
Indices: 58579096--58579143 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
58579086 TGTTTTGCTA
58579096 TCTTTATACTTTTGAGATG-TT
1 TCTTTATACTTTTGAGATGTTT
58579117 TCTTTATACTTTTGAGATGTTT
1 TCTTTATACTTTTGAGATGTTT
58579139 TCTTT
1 TCTTT
58579144 CATAAGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.60
Consensus pattern (22 bp):
TCTTTATACTTTTGAGATGTTT
Found at i:58582299 original size:20 final size:22
Alignment explanation
Indices: 58582274--58582317 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
58582264 CATTATAACA
58582274 ACTTTAC-TAGAA-GAAAAATT
1 ACTTTACATAGAACGAAAAATT
*
58582294 ACTTTACATAGAACGAATAATT
1 ACTTTACATAGAACGAAAAATT
58582316 AC
1 AC
58582318 ATATACAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (22 bp):
ACTTTACATAGAACGAAAAATT
Found at i:58589487 original size:20 final size:20
Alignment explanation
Indices: 58589445--58589491 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
58589435 GATTTCGTAC
**
58589445 TTTGGCCTATTTTTCTCGTT
1 TTTGGCCTATTTTTCTCACT
*
58589465 TTTGGCCTATTTTTTTCACT
1 TTTGGCCTATTTTTCTCACT
58589485 TTTGGCC
1 TTTGGCC
58589492 CGTTTCTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.06, C:0.21, G:0.15, T:0.57
Consensus pattern (20 bp):
TTTGGCCTATTTTTCTCACT
Found at i:58600169 original size:34 final size:34
Alignment explanation
Indices: 58600131--58600200 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
58600121 CAAGGAGGAG
* *
58600131 TCAATGGCATTTTCGCAAGGTAATACCTCACCTC
1 TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
58600165 TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
1 TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
58600199 TC
1 TC
58600201 TCTTCTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (34 bp):
TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
Found at i:58603789 original size:13 final size:12
Alignment explanation
Indices: 58603771--58603813 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
58603761 TTCTTTAATG
58603771 TTTATAGTAATAT
1 TTTATAGTAA-AT
58603784 TTTATAGTAAAT
1 TTTATAGTAAAT
*
58603796 TTTAGTAATAAAAT
1 TTTA-TAGT-AAAT
58603810 TTTA
1 TTTA
58603814 GAGATGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 6 0.22
13 13 0.48
14 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
TTTATAGTAAAT
Found at i:58603811 original size:14 final size:14
Alignment explanation
Indices: 58603792--58603842 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
58603782 ATTTTATAGT
58603792 AAATTTTAGTAATA
1 AAATTTTAGTAATA
58603806 AAATTTTAG-AGAT-
1 AAATTTTAGTA-ATA
**
58603819 GGATTTTAGTAATA
1 AAATTTTAGTAATA
*
58603833 CAATTTTAGT
1 AAATTTTAGT
58603843 TTATTTGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (14 bp):
AAATTTTAGTAATA
Found at i:58604259 original size:21 final size:22
Alignment explanation
Indices: 58604218--58604260 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
58604208 TAAATTGATT
* *
58604218 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAACATAAC
58604240 CATTAAAAAT-TAAAACATAAC
1 CATTAAAAATGTAAAACATAAC
58604261 TAAAAAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (22 bp):
CATTAAAAATGTAAAACATAAC
Found at i:58606341 original size:3 final size:3
Alignment explanation
Indices: 58606333--58606357 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
58606323 AATTTAAAGG
58606333 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
58606358 AAGGGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:58606372 original size:14 final size:15
Alignment explanation
Indices: 58606348--58606387 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
58606338 AATAATAATA
*
58606348 ATAATAATAAAAGGG
1 ATAATAATAAAAGGC
*
58606363 ATAA-AATAAAATGC
1 ATAATAATAAAAGGC
58606377 ATAATAATAAA
1 ATAATAATAAA
58606388 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (15 bp):
ATAATAATAAAAGGC
Found at i:58607866 original size:13 final size:12
Alignment explanation
Indices: 58607839--58607882 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
58607829 CTTTGAACTC
*
58607839 TTTA-TTTGATT
1 TTTATTTTGTTT
58607850 TTTATTTTGTTT
1 TTTATTTTGTTT
58607862 ATTTATTTTTGTTT
1 -TTTA-TTTTGTTT
58607876 TTTATTT
1 TTTATTT
58607883 GGGCTGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 8 0.28
14 8 0.28
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTATTTTGTTT
Found at i:58607877 original size:20 final size:20
Alignment explanation
Indices: 58607839--58607876 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
58607829 CTTTGAACTC
58607839 TTTATTTGATTTTTATTTTG
1 TTTATTTGATTTTTATTTTG
*
58607859 TTTATTT-ATTTTTGTTTT
1 TTTATTTGATTTTTATTTT
58607877 TTATTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTATTTGATTTTTATTTTG
Found at i:58609528 original size:10 final size:10
Alignment explanation
Indices: 58609513--58609578 Score: 57
Period size: 10 Copynumber: 6.8 Consensus size: 10
58609503 GCCCCCTCCC
58609513 TCCTCTCTCT
1 TCCTCTCTCT
*
58609523 TCCTCTC-CC
1 TCCTCTCTCT
58609532 TCCTC-CT-T
1 TCCTCTCTCT
* *
58609540 TCCCCTCTCCC
1 TCCTCTCT-CT
58609551 TCCTCTCTCT
1 TCCTCTCTCT
*
58609561 TCCTCTCCCT
1 TCCTCTCTCT
*
58609571 TCTTCTCT
1 TCCTCTCT
58609579 TTTTTTTCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
8 5 0.12
9 8 0.19
10 23 0.53
11 7 0.16
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (10 bp):
TCCTCTCTCT
Found at i:58609532 original size:19 final size:19
Alignment explanation
Indices: 58609508--58609579 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
58609498 CAGTAGCCCC
58609508 CTCCCTCCTCTCTCTTCCT
1 CTCCCTCCTCTCTCTTCCT
58609527 CTCCCTCCTC-CT-TTCCCCT
1 CTCCCTCCTCTCTCTT--CCT
58609546 CTCCCTCCTCTCTCTTCCT
1 CTCCCTCCTCTCTCTTCCT
*
58609565 CTCCCTTCT-TCTCTT
1 CTCCCTCCTCTCTCTT
58609580 TTTTTTCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
17 2 0.04
18 8 0.17
19 34 0.71
20 2 0.04
21 2 0.04
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (19 bp):
CTCCCTCCTCTCTCTTCCT
Found at i:58610049 original size:19 final size:19
Alignment explanation
Indices: 58610025--58610067 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
58610015 TTTTGTTTCT
58610025 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
58610044 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
58610063 TTATT
1 TTATT
58610068 CTAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTAAATATTGTTATTA
Found at i:58610498 original size:20 final size:20
Alignment explanation
Indices: 58610448--58610519 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
58610438 ATATTCTTGC
* *
58610448 ATTATGTATATTATTCTTTTT
1 ATTATGTATATT-TTCTATAT
*
58610469 AAATAT-TATATTTTCTATAT
1 -ATTATGTATATTTTCTATAT
*
58610489 ATTATGTATACATTT-TATAT
1 ATTATGTATA-TTTTCTATAT
*
58610509 ATTACGTATAT
1 ATTATGTATAT
58610520 ATCTTTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
19 4 0.10
20 24 0.59
21 9 0.22
22 4 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTATGTATATTTTCTATAT
Found at i:58611152 original size:21 final size:22
Alignment explanation
Indices: 58611128--58611183 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
58611118 TCTCATATAT
*
58611128 TATTATATTATTTATTAT-ACC
1 TATTATTTTATTTATTATCACC
*
58611149 TATTATTTTCA-TTATTATCACT
1 TATTATTTT-ATTTATTATCACC
58611171 TATTATTTTATTT
1 TATTATTTTATTT
58611184 TAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTATTTATTATCACC
Found at i:58611177 original size:22 final size:21
Alignment explanation
Indices: 58611139--58611179 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
58611129 ATTATATTAT
58611139 TTATTATACCTATTATTTTCA
1 TTATTATACCTATTATTTTCA
*
58611160 TTATTATCACTTATTATTTT
1 TTATTAT-ACCTATTATTTT
58611180 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATACCTATTATTTTCA
Found at i:58611191 original size:38 final size:37
Alignment explanation
Indices: 58611098--58611193 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 37
58611088 CTTGTATACA
* *
58611098 TATTTTATATATAGTATTATTCTCATATATTATTATAT
1 TATTTTAT-TATAATATTATTCTCATATATTATCATAT
* *
58611136 TA-TTTATTATACCTATTATTTTCAT-TATTATCACTTAT
1 TATTTTATTATA-ATATTATTCTCATATATTATCA--TAT
*
58611174 TATTTTATTTTAATATTATT
1 TATTTTATTATAATATTATT
58611194 ATGTATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 11 0.22
37 16 0.33
38 14 0.29
39 8 0.16
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (37 bp):
TATTTTATTATAATATTATTCTCATATATTATCATAT
Found at i:58615189 original size:9 final size:9
Alignment explanation
Indices: 58615175--58615208 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
58615165 CCGAATTCAA
58615175 TGAAAGGAT
1 TGAAAGGAT
58615184 TGAAAGGAT
1 TGAAAGGAT
*
58615193 AGAAAGGAT
1 TGAAAGGAT
*
58615202 TCAAAGG
1 TGAAAGG
58615209 GAATTACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.32, T:0.18
Consensus pattern (9 bp):
TGAAAGGAT
Found at i:58623829 original size:87 final size:87
Alignment explanation
Indices: 58623693--58624105 Score: 548
Period size: 87 Copynumber: 4.7 Consensus size: 87
58623683 GTTCAAATTA
* * * *
58623693 TGTTTTT-AATTTCTACTTTTCCAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGAC
1 TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
58623757 ACGCTGAGGTAATTTCAATTCT
66 ACGCTGAGGTATTTTCAATTCT
*
58623779 TGTCTTT-AATTT-TGAATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TGTTTTTCAATTTAT--ATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
58623842 ATACGCTGAGGTATTTTCAATTTT
64 ACACGCTGAGGTATTTTCAATTCT
58623866 TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCT
1 TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* * *
58623930 CGCATGCTGAGGTATTTTCAGTT-T
64 -ACACGCTGAGGTATTTTCAATTCT
* * * *
58623954 CTATTTTTCAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 -TGTTTTTC-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
58624019 ACACGCTGAGGTATTTTCAATTTCTGT
64 ACACGCTGAGGTATTTTCAA-TTC--T
* *
58624046 TTTTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
58624106 GGGTCACATG
Statistics
Matches: 289, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
85 1 0.00
86 13 0.04
87 117 0.40
88 23 0.08
89 28 0.10
90 98 0.34
91 8 0.03
92 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (87 bp):
TGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTCAATTCT
Found at i:58623874 original size:14 final size:14
Alignment explanation
Indices: 58623855--58623889 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
58623845 CGCTGAGGTA
* *
58623855 TTTTCAATTTTTGT
1 TTTTCAATTTATAT
58623869 TTTTCAATTTATAT
1 TTTTCAATTTATAT
58623883 TTTTCAA
1 TTTTCAA
58623890 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:58625476 original size:18 final size:18
Alignment explanation
Indices: 58625442--58625477 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58625432 TTTAATAAAT
*
58625442 AAAATAAAAAAATAAAAA
1 AAAATAAAAAAAGAAAAA
*
58625460 AAAATAAAAAGAGAAAAA
1 AAAATAAAAAAAGAAAAA
58625478 TGTAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.08
Consensus pattern (18 bp):
AAAATAAAAAAAGAAAAA
Found at i:58625786 original size:3 final size:3
Alignment explanation
Indices: 58625778--58625803 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58625768 TACTATTAAA
58625778 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
58625804 ATAGTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:58629661 original size:23 final size:24
Alignment explanation
Indices: 58629612--58629661 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
58629602 TGTCCCATTT
* **
58629612 TTTTAAGGTTAGGATTTTTTATTA
1 TTTTAAGGTTAGGAATTTTTAAGA
58629636 TTTTAAGGTTA-GAATTTTTAAGA
1 TTTTAAGGTTAGGAATTTTTAAGA
58629659 TTT
1 TTT
58629662 AGGGTTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (24 bp):
TTTTAAGGTTAGGAATTTTTAAGA
Found at i:58629786 original size:16 final size:17
Alignment explanation
Indices: 58629756--58629789 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58629746 TAATTAAATT
*
58629756 AGGGTTTAGGGTTTTTG
1 AGGGTTTAGGATTTTTG
58629773 AGGG-TTAGGATTTTTG
1 AGGGTTTAGGATTTTTG
58629789 A
1 A
58629790 TTGTTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (17 bp):
AGGGTTTAGGATTTTTG
Found at i:58629820 original size:157 final size:157
Alignment explanation
Indices: 58629610--58630407 Score: 1069
Period size: 156 Copynumber: 5.1 Consensus size: 157
58629600 TTTGTCCCAT
* * * * *
58629610 TTTTTTAAGGTTAGGATTTTTTATTATTTTAAGGTTAGAATTTTTA-AGATTTAGGGTTTTAGTG
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAAGATTAG-AGTTTTAGTGGTTTAGGGTTTTAGTG
* * * * *
58629674 TTTTTTAAGAGAAAATTAATTTAATAAGAGTTAATGGTCAATTAATTAAATTAACTATGAAATTA
65 TTTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTA
* *
58629739 AAAAAATTAATTAAATTAGGGTTTAGGG
130 AAAAAATCAATTAAATTAGGGTTTAGGA
* * * *
58629767 TTTTTGAGGGTTAGGATTTTTGATTGTTTTATGATTAGAGTTTTAGTGGTTTAGGGTTTTAGTG-
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAAGATTAGAGTTTTAGTGGTTTAGGGTTTTAGTGT
*
58629831 TTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAG
66 TTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAA
*
58629896 AAAAATCAATTTAATTAGGGTTTAGGA
131 AAAAATCAATTAAATTAGGGTTTAGGA
* * *
58629923 TTTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGA-TCGAGGTTTTAGTGGTTTAGGGTTTTAGTG
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAAGATTAGA-GTTTTAGTGGTTTAGGGTTTTAGTG
* *
58629987 CTTTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAA
65 -TTTTTTAAGG-GAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTAT-GAAA
* *
58630051 TAAAAAAAATCAATTAAATTAGAGTTTAGGA
127 TTAAAAAAATCAATTAAATTAGGGTTTAGGA
* * * *
58630082 TTTTTTTAAGGTTA-CAGTTTTTTATTGTTTTAAGATCAG-G-GTTA--GGTTTAGGATTTTAGT
1 -TTTTTTAAGGTTAGGA-TTTTTTATTGTTTTAAGATTAGAGTTTTAGTGGTTTAGGGTTTTAGT
*
58630142 ATTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGATAA
64 GTTTTTTAAGGG-AAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGA-AA
*
58630207 -T-AAAAAATCAATTAAATTAGGGTTTAGAA
127 TTAAAAAAATCAATTAAATTAGGGTTTAGGA
* * * * *
58630236 TTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATTAGGGTTTTAGTGGTTTAGGGTTTTAGTAT
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAAGATTAGAGTTTTAGTGGTTTAGGGTTTTAGTGT
*
58630301 TTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGAGTTAATTAATTAAATTAACTATGAAATTA
66 TTTTTAAGGG-AAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTA
*
58630366 AAAATAATCAATTAAATTAGGGTTTAGGGT
130 AAAA-AATCAATTAAATTAGGGTTTA-GGA
58630396 TTTTTTAAGGTT
1 TTTTTTAAGGTT
58630408 TATTAATTAA
Statistics
Matches: 567, Mismatches: 53, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
153 32 0.06
154 27 0.05
155 13 0.02
156 212 0.37
157 128 0.23
158 59 0.10
159 52 0.09
160 43 0.08
161 1 0.00
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (157 bp):
TTTTTTAAGGTTAGGATTTTTTATTGTTTTAAGATTAGAGTTTTAGTGGTTTAGGGTTTTAGTGT
TTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAATTAA
AAAAATCAATTAAATTAGGGTTTAGGA
Found at i:58630273 original size:24 final size:25
Alignment explanation
Indices: 58630222--58630281 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
58630212 AATCAATTAA
58630222 ATTAGGG-TTTAGAATTTTTTAAGG
1 ATTAGGGTTTTAGAATTTTTTAAGG
*
58630246 -TTAGGGTTTTTG-ATTGTTTT-AGG
1 ATTAGGGTTTTAGAATT-TTTTAAGG
58630269 ATTAGGGTTTTAG
1 ATTAGGGTTTTAG
58630282 TGGTTTAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (25 bp):
ATTAGGGTTTTAGAATTTTTTAAGG
Found at i:58630287 original size:23 final size:24
Alignment explanation
Indices: 58630238--58630287 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
58630228 GTTTAGAATT
* *
58630238 TTTTAAGGTTAGGGTTTTTGATTG
1 TTTTAAGGTTAGGGTTTTAGATGG
58630262 TTTT-AGGATTAGGGTTTTAG-TGG
1 TTTTAAGG-TTAGGGTTTTAGATGG
58630285 TTT
1 TTT
58630288 AGGGTTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (24 bp):
TTTTAAGGTTAGGGTTTTAGATGG
Found at i:58630293 original size:313 final size:313
Alignment explanation
Indices: 58629610--58630407 Score: 1094
Period size: 313 Copynumber: 2.5 Consensus size: 313
58629600 TTTGTCCCAT
* ** * *
58629610 TTTTTTAAGGTTAGGATTTTTTATTATTTTAAGG-TTAGAATTTTTA-AGATTTAGGGTTTTAGT
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTT-AGGATTAGAGGTTTTAGTGGTTTAGGGTTTTAGT
* * * * * * * *
58629673 GTTTTTTAAGAGAAAATTAATTTAATAAGAGTTAATGGTCAATTAATTAAATTAACTATGAAATT
65 GTTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAATA
* * * * * * *
58629738 AAAAAAATTAATTAAATTAGGGTTTAGGGTTTTTGAGGGTTAGGATTTTTGATTGTTTTATGATT
130 AAAAAAATCAATTAAATTAGGGTTTAGGTTTTTTTAAGGTTAAGATTTTTGATTGTTTTAAGATC
* *
58629803 AGAGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGT
195 AGAGTGTTAG-GGTTTAGGATTTTAGTGTTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGT
* *
58629868 TAATTAATTAAATTAACTATGAAATTAGAAAAATCAATTTAATTAGGGTTTAGGA
259 TAATTAATTAAATTAACTATGAAATTAGAAAAATCAATTAAATTAGGGTTTAGAA
* *
58629923 TTTTTTAAGGTTAGGTTTTTTTATTGTTTTAGGA-TCGAGGTTTTAGTGGTTTAGGGTTTTAGTG
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAGGATTAGAGGTTTTAGTGGTTTAGGGTTTTAGTG
58629987 CTTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAAAT
66 -TTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTAT-AAAAT
* *
58630052 AAAAAAAATCAATTAAATTAGAGTTTAGGATTTTTTTAAGGTTACAG-TTTTTTATTGTTTTAAG
129 AAAAAAAATCAATTAAATTAGGGTTTAGG-TTTTTTTAAGGTTA-AGATTTTTGATTGTTTTAAG
*
58630116 ATCAG-G-GTTA-GGTTTAGGATTTTAGTATTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGA
192 ATCAGAGTGTTAGGGTTTAGGATTTTAGT-GTTTTTAAGGG-AAAATTAATTTAATTAGAGTTGA
58630178 GGGTTAATTAATTAAATTAACTATGATAA-TA-AAAAATCAATTAAATTAGGGTTTAGAA
255 GGGTTAATTAATTAAATTAACTATGA-AATTAGAAAAATCAATTAAATTAGGGTTTAGAA
* * *
58630236 TTTTTTAAGGTTAGGGTTTTTGATTGTTTTAGGATTAG-GGTTTTAGTGGTTTAGGGTTTTAGTA
1 TTTTTTAAGGTTAGGATTTTTTATTGTTTTAGGATTAGAGGTTTTAGTGGTTTAGGGTTTTAGTG
* * *
58630300 TTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGAGTTAATTAATTAAATTAACTATGAAATT
66 TTTTTT-AGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTAT-AAAAT
*
58630365 AAAAATAATCAATTAAATTAGGGTTTAGGGTTTTTTTAAGGTT
129 AAAAAAAATCAATTAAATTAGGGTTTA-GGTTTTTTTAAGGTT
58630408 TATTAATTAA
Statistics
Matches: 434, Mismatches: 39, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
312 32 0.07
313 228 0.53
314 110 0.25
315 33 0.08
316 30 0.07
317 1 0.00
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (313 bp):
TTTTTTAAGGTTAGGATTTTTTATTGTTTTAGGATTAGAGGTTTTAGTGGTTTAGGGTTTTAGTG
TTTTTTAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATAAAATAA
AAAAAATCAATTAAATTAGGGTTTAGGTTTTTTTAAGGTTAAGATTTTTGATTGTTTTAAGATCA
GAGTGTTAGGGTTTAGGATTTTAGTGTTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTA
ATTAATTAAATTAACTATGAAATTAGAAAAATCAATTAAATTAGGGTTTAGAA
Found at i:58630586 original size:126 final size:126
Alignment explanation
Indices: 58630428--58630862 Score: 638
Period size: 126 Copynumber: 3.5 Consensus size: 126
58630418 ATTAACTATT
* * * *
58630428 AATTAC-AGAAAAAAGCTCTCATGTGGACGCTCTTTTGCTATAGTAGTATCTGAAAAAATAAATT
1 AATTACGA-AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTT
* * * *
58630492 TGAGAAGATGTTTTTGAACAAATAATGTCAAAAACGCTTCAAGAAGGATGCACTGTTAGGAA
65 TGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * * * * *
58630554 AATTACGAAAAAAAGTTCTCACGTGGACGCTCTTTTGCTATAGTAATATCAGATAAAATAATTTT
1 AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
*
58630619 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAATGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
** *
58630680 AATTACGGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
* *
58630745 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCATTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * * *
58630806 AATTATGGAAAAGAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATTTGAAAAA
1 AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
58630863 GCCTTAGACT
Statistics
Matches: 282, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
126 281 1.00
127 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (126 bp):
AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
Done.