Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 144 of 202
Found at i:44845653 original size:19 final size:19
Alignment explanation
Indices: 44845618--44845671 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
44845608 TTAAAAAATA
* *
44845618 TAAA-ATTTTAAAATTTTG
1 TAAATATTTTGAATTTTTG
44845636 TAAATATTTTGAATTTTTG
1 TAAATATTTTGAATTTTTG
44845655 -AAGATTATTTTGAATTT
1 TAA-A-TATTTTGAATTT
44845672 GTTTTTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.19
19 13 0.42
20 12 0.39
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
TAAATATTTTGAATTTTTG
Found at i:44847244 original size:15 final size:15
Alignment explanation
Indices: 44847224--44847279 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
44847214 ATTCAATATT
44847224 AATATTTTAATAATA
1 AATATTTTAATAATA
*
44847239 AATATTTATTGCAATTATA
1 AATA-TT-TT--AATAATA
*
44847258 AATATATTAATAATA
1 AATATTTTAATAATA
44847273 AAT-TTTT
1 AATATTTT
44847280 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44852537 original size:2 final size:2
Alignment explanation
Indices: 44852530--44852565 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
44852520 TACTAGTTAC
44852530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44852566 GAGAACTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44854715 original size:28 final size:28
Alignment explanation
Indices: 44854674--44854728 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
44854664 AAGGAGTATA
44854674 AAACTTATACTTTATTTTATTTCCTATC
1 AAACTTATACTTTATTTTATTTCCTATC
*
44854702 AAACTTATATTTTATTTTATTTCCTAT
1 AAACTTATACTTTATTTTATTTCCTAT
44854729 TTTTTGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (28 bp):
AAACTTATACTTTATTTTATTTCCTATC
Found at i:44861029 original size:21 final size:21
Alignment explanation
Indices: 44860988--44861030 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
44860978 TTCATTGCAT
* *
44860988 AATCAAATAACAATTATGCTC
1 AATCAAATAACAATAAAGCTC
*
44861009 AATCAAATAGCAATAAAGCTC
1 AATCAAATAACAATAAAGCTC
44861030 A
1 A
44861031 CTCTCTCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (21 bp):
AATCAAATAACAATAAAGCTC
Found at i:44867355 original size:11 final size:11
Alignment explanation
Indices: 44867335--44867363 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44867325 TTTCATGTCA
44867335 AAAATA-GGGG
1 AAAATAGGGGG
44867345 AAAATAGGGGG
1 AAAATAGGGGG
44867356 AAAATAGG
1 AAAATAGG
44867364 CTGATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.52, C:0.00, G:0.38, T:0.10
Consensus pattern (11 bp):
AAAATAGGGGG
Found at i:44870559 original size:17 final size:17
Alignment explanation
Indices: 44870503--44870559 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
44870493 GCCCAATATT
44870503 CCCACACGCTCGTGTGG
1 CCCACACGCTCGTGTGG
** * *
44870520 TTCACCCG-T-GTGAGG
1 CCCACACGCTCGTGTGG
*
44870535 CCCGCACGCTCGTGTGG
1 CCCACACGCTCGTGTGG
44870552 CCCACACG
1 CCCACACG
44870560 GCCCAATTCG
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
15 9 0.32
16 2 0.07
17 17 0.61
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.18
Consensus pattern (17 bp):
CCCACACGCTCGTGTGG
Found at i:44875782 original size:25 final size:25
Alignment explanation
Indices: 44875754--44875802 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
44875744 ATGCTCATTT
*
44875754 GAGCTA-AAGATCGGTATGCTCTCAC
1 GAGCTATAA-ATCAGTATGCTCTCAC
44875779 GAGCTATAAATCAGTATGCTCTCA
1 GAGCTATAAATCAGTATGCTCTCA
44875803 TAAGCCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GAGCTATAAATCAGTATGCTCTCAC
Found at i:44875812 original size:25 final size:25
Alignment explanation
Indices: 44875767--44875815 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
44875757 CTAAAGATCG
* *
44875767 GTATGCTCTCACGAGCTATAAATCA
1 GTATGCTCTCACAAGCCATAAATCA
*
44875792 GTATGCTCTCATAAGCCATAAATC
1 GTATGCTCTCACAAGCCATAAATC
44875816 GGTAATCCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACAAGCCATAAATCA
Found at i:44878825 original size:23 final size:23
Alignment explanation
Indices: 44878798--44878889 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
44878788 TGTTTAAGCT
*
44878798 TAATATAT-TTTTAAACTTATCA
1 TAATATATATTTTAAATTTATCA
*
44878820 TCAATAT-TATTTT-AATTTATAA
1 T-AATATATATTTTAAATTTATCA
44878842 T-ATATTATTATTTTAAATTTATCA
1 TAATA-TA-TATTTTAAATTTATCA
*
44878866 TAA-ACATATTTTTAAATTTATCA
1 TAATATATA-TTTTAAATTTATCA
44878889 T
1 T
44878890 GTATTTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
20 3 0.05
21 1 0.02
22 12 0.21
23 31 0.53
24 10 0.17
25 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATATATATTTTAAATTTATCA
Found at i:44878879 original size:46 final size:47
Alignment explanation
Indices: 44878806--44878914 Score: 114
Period size: 46 Copynumber: 2.3 Consensus size: 47
44878796 CTTAATATAT
* * *
44878806 TTTTAAACTTATCATCAATATTATTTT-AATTTATAATATATTATTA
1 TTTTAAATTTATCATAAACATTATTTTAAATTTATAATATATTATTA
* * * *
44878852 TTTTAAATTTATCATAAACA-TATTTTTAAATTTATCATGTATTTTTT
1 TTTTAAATTTATCATAAACATTA-TTTTAAATTTATAATATATTATTA
*
44878899 TATTTAAATTCATCAT
1 T-TTTAAATTTATCAT
44878915 GTATTATTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
45 2 0.04
46 21 0.40
47 16 0.31
48 13 0.25
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (47 bp):
TTTTAAATTTATCATAAACATTATTTTAAATTTATAATATATTATTA
Found at i:44878932 original size:25 final size:25
Alignment explanation
Indices: 44878803--44878951 Score: 114
Period size: 25 Copynumber: 6.2 Consensus size: 25
44878793 AAGCTTAATA
* * *
44878803 TATTTTTAAACTTATCAT-CAATAT
1 TATTTTTAAATTTATCATGTATTAT
* *
44878827 TA-TTTT-AATTTATAATATATTAT
1 TATTTTTAAATTTATCATGTATTAT
* **
44878850 TA-TTTTAAATTTATCAT-AAACA-
1 TATTTTTAAATTTATCATGTATTAT
44878872 TATTTTTAAATTTATCATGTATT-T
1 TATTTTTAAATTTATCATGTATTAT
* *
44878896 TTTTATTTAAATTCATCATGTATTAT
1 TATT-TTTAAATTTATCATGTATTAT
* * * *
44878922 TATTTTAAAATTTATCGTCTATGAT
1 TATTTTTAAATTTATCATGTATTAT
44878947 TATTT
1 TATTT
44878952 AGATTCATTG
Statistics
Matches: 99, Mismatches: 19, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
22 10 0.10
23 31 0.31
24 15 0.15
25 39 0.39
26 4 0.04
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
TATTTTTAAATTTATCATGTATTAT
Found at i:44879223 original size:24 final size:24
Alignment explanation
Indices: 44879195--44879240 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44879185 GTTTAAATTC
*
44879195 TCTTTTAAATATGTTTATATATCT
1 TCTTTTAAATATATTTATATATCT
*
44879219 TCTTTTAAATCTATTTATATAT
1 TCTTTTAAATATATTTATATAT
44879241 ATAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (24 bp):
TCTTTTAAATATATTTATATATCT
Found at i:44891233 original size:12 final size:11
Alignment explanation
Indices: 44891209--44891255 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
44891199 CTGACAGAAG
44891209 AAAATAAAATA
1 AAAATAAAATA
*
44891220 AAAATTAAACTA
1 AAAA-TAAAATA
* *
44891232 AAAACAAGATA
1 AAAATAAAATA
44891243 AAAATAAAA-A
1 AAAATAAAATA
44891253 AAA
1 AAA
44891256 TGGCTAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
10 4 0.14
11 15 0.52
12 10 0.34
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:44895406 original size:29 final size:29
Alignment explanation
Indices: 44895352--44895407 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
44895342 AACCCTGTTA
* *
44895352 AAAGCCTTTTTGGTTGTTTCTATTAAATT
1 AAAGCCTTTGTGGTTGTTTATATTAAATT
*
44895381 AAAGCCTTTGTGGTTGTTTATGTTAAA
1 AAAGCCTTTGTGGTTGTTTATATTAAA
44895408 AGGATGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (29 bp):
AAAGCCTTTGTGGTTGTTTATATTAAATT
Found at i:44895500 original size:28 final size:29
Alignment explanation
Indices: 44895429--44895500 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
44895419 GTGGATATGC
* * *
44895429 CTGTTAAAAGGATGCTTTTGTGACCATCT
1 CTGTTAAAAGGATGCTCTTGTGACAAACT
*
44895458 CTATT-AAAGGAATGC-CTTGT-ACAAAACT
1 CTGTTAAAAGG-ATGCTCTTGTGAC-AAACT
44895486 CTGTTAAAAGGATGC
1 CTGTTAAAAGGATGC
44895501 ATTCGTGGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 2 0.06
28 20 0.57
29 13 0.37
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (29 bp):
CTGTTAAAAGGATGCTCTTGTGACAAACT
Found at i:44908315 original size:21 final size:21
Alignment explanation
Indices: 44908291--44908342 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
44908281 CAAATAACAT
*
44908291 ATCATACTTAAAATAATACGG
1 ATCATACTTAAAATAATACAG
* **
44908312 ATCATAGTTACCATAATACAG
1 ATCATACTTAAAATAATACAG
*
44908333 ATCACACTTA
1 ATCATACTTA
44908343 GCTTATAACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (21 bp):
ATCATACTTAAAATAATACAG
Found at i:44913624 original size:40 final size:40
Alignment explanation
Indices: 44913564--44913758 Score: 293
Period size: 40 Copynumber: 4.9 Consensus size: 40
44913554 GTTAATTTTA
* *
44913564 CCTGATTGCACATACGTGCCCCTATTTGAAATTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
* *
44913604 CCTGATTGCACATACATGCCCCTGTTTGAACTTCGGTACT
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
* *
44913644 CCTGATTGCACATACGTGCCTCTGTTTGTACTTCGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
* **
44913684 CCTGATTGCACATACGTGCCCCTGTTTGTACTTTAGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
44913724 CCTGATTGCACATACGTGCCCCTGTTT-ATACTTCG
1 CCTGATTGCACATACGTGCCCCTGTTTGA-ACTTCG
44913759 ATAATTTCAA
Statistics
Matches: 140, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.33
Consensus pattern (40 bp):
CCTGATTGCACATACGTGCCCCTGTTTGAACTTCGGTACC
Found at i:44913625 original size:20 final size:20
Alignment explanation
Indices: 44913564--44913747 Score: 126
Period size: 20 Copynumber: 9.2 Consensus size: 20
44913554 GTTAATTTTA
44913564 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * *
44913584 CCT-ATTTG-AAATTCGGTACC
1 CCTGA-TTGCACATAC-GTGCC
*
44913604 CCTGATTGCACATACATGCC
1 CCTGATTGCACATACGTGCC
* * * * *
44913624 CCTGTTTGAAC-TTCGGTACT
1 CCTGATTGCACATAC-GTGCC
44913644 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * * * *
44913664 TCTGTTTGTAC-TTCGGTACC
1 CCTGATTGCACATAC-GTGCC
44913684 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * * *
44913704 CCTGTTTGTACTTTA-GTACC
1 CCTGATTGCAC-ATACGTGCC
44913724 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
44913744 CCTG
1 CCTG
44913748 TTTATACTTC
Statistics
Matches: 118, Mismatches: 36, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
19 11 0.09
20 96 0.81
21 11 0.09
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.32
Consensus pattern (20 bp):
CCTGATTGCACATACGTGCC
Found at i:44920795 original size:15 final size:15
Alignment explanation
Indices: 44920771--44920808 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
44920761 CCCACCACGC
*
44920771 CCACGAGTACCTCGT
1 CCACGAGTACCTCAT
*
44920786 CCATGAGTACCTCAT
1 CCACGAGTACCTCAT
44920801 CCACGAGT
1 CCACGAGT
44920809 TCTACGCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (15 bp):
CCACGAGTACCTCAT
Found at i:44922121 original size:21 final size:21
Alignment explanation
Indices: 44922097--44922150 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
44922087 ATAACATATT
*
44922097 ATACTTAACATAATATGGATC
1 ATACTTAACATAATATAGATC
*
44922118 ATACTTACCATAATATAGATC
1 ATACTTAACATAATATAGATC
* *
44922139 ATTCTTAGCATA
1 ATACTTAACATA
44922151 TAACTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTTAACATAATATAGATC
Found at i:44925246 original size:26 final size:25
Alignment explanation
Indices: 44925195--44925246 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
44925185 TTATTTTTAA
* * *
44925195 TTTTAAAATATATATTTTTAATAAT
1 TTTTAAAATATAAATTTTAAAAAAT
*
44925220 TTTTAAAATTTTAAATTTTAAAAAAT
1 TTTTAAAA-TATAAATTTTAAAAAAT
44925246 T
1 T
44925247 AATTAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTAAAATATAAATTTTAAAAAAT
Found at i:44926826 original size:27 final size:27
Alignment explanation
Indices: 44926791--44926844 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
44926781 TATTATTGAA
44926791 TTAAAGATTAATTTTATAGTTTACTTT
1 TTAAAGATTAATTTTATAGTTTACTTT
* *
44926818 TTAATGATTAATTTTGTAGTTTACTTT
1 TTAAAGATTAATTTTATAGTTTACTTT
44926845 CATAACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (27 bp):
TTAAAGATTAATTTTATAGTTTACTTT
Found at i:44930804 original size:22 final size:21
Alignment explanation
Indices: 44930772--44930840 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
44930762 TATGCATTAT
*
44930772 TAAACAAAGAGCATTAAAGTGC
1 TAAACAGAGAGCA-TAAAGTGC
* *
44930794 TATACAGAGAGCACAAATGTGC
1 TAAACAGAGAGCATAAA-GTGC
* *
44930816 TAAACGGAGAGCACTAATGTGC
1 TAAACAGAGAGCA-TAAAGTGC
44930838 TAA
1 TAA
44930841 TAAGCAGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.08
22 33 0.87
23 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (21 bp):
TAAACAGAGAGCATAAAGTGC
Found at i:44935343 original size:27 final size:27
Alignment explanation
Indices: 44935305--44935360 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
44935295 GCGACATTTC
*
44935305 TTGTCTTGTTTCCTTGATGCTACCAAA
1 TTGTCTTATTTCCTTGATGCTACCAAA
44935332 TTGTCTTATTTCCTTGATGCTACCAAA
1 TTGTCTTATTTCCTTGATGCTACCAAA
44935359 TT
1 TT
44935361 CAAGGTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (27 bp):
TTGTCTTATTTCCTTGATGCTACCAAA
Found at i:44940159 original size:29 final size:30
Alignment explanation
Indices: 44940127--44940192 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
44940117 AAAAAATTAC
* **
44940127 CCAAAATGTTATCCTTTTTTTTTTA-TTTA
1 CCAAAATATTATAATTTTTTTTTTATTTTA
*
44940156 CCAAAATATTATAATTTTTTTTTTATTTTC
1 CCAAAATATTATAATTTTTTTTTTATTTTA
44940186 CCAAAAT
1 CCAAAAT
44940193 TACCAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.55
Consensus pattern (30 bp):
CCAAAATATTATAATTTTTTTTTTATTTTA
Found at i:44940255 original size:27 final size:27
Alignment explanation
Indices: 44940225--44940294 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
44940215 AAAAAAAAAC
*
44940225 TGCCAATCACATTGGCGGCACCAAAGG
1 TGCCAAACACATTGGCGGCACCAAAGG
***
44940252 TGCCAAAGTGATTGGCGGCACCAAAGG
1 TGCCAAACACATTGGCGGCACCAAAGG
* *
44940279 TGCCAAAGAGATTGGC
1 TGCCAAACACATTGGC
44940295 CTGATCGGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.16
Consensus pattern (27 bp):
TGCCAAACACATTGGCGGCACCAAAGG
Found at i:44941253 original size:27 final size:27
Alignment explanation
Indices: 44941215--44941271 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
44941205 ATTTTAGTCC
44941215 GGTCAGGCCAATCACTTTGGCACCTTT
1 GGTCAGGCCAATCACTTTGGCACCTTT
44941242 GGTCAGGCCAATCACTTTGGCACCTTT
1 GGTCAGGCCAATCACTTTGGCACCTTT
44941269 GGT
1 GGT
44941272 GCCGCCAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.30
Consensus pattern (27 bp):
GGTCAGGCCAATCACTTTGGCACCTTT
Found at i:44941278 original size:27 final size:27
Alignment explanation
Indices: 44941215--44941280 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
44941205 ATTTTAGTCC
*
44941215 GGTCAGGCCAATCACTTTGGCACCTTT
1 GGTCACGCCAATCACTTTGGCACCTTT
*
44941242 GGTCAGGCCAATCACTTTGGCACCTTT
1 GGTCACGCCAATCACTTTGGCACCTTT
44941269 GGTGC-CGCCAAT
1 GGT-CACGCCAAT
44941281 GTGATTGGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.30, G:0.24, T:0.27
Consensus pattern (27 bp):
GGTCACGCCAATCACTTTGGCACCTTT
Found at i:44941367 original size:27 final size:27
Alignment explanation
Indices: 44941337--44941392 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
44941327 TTATTTTTTT
44941337 ATTTTGAT-ATATTTTGGTAAATAAAAA
1 ATTTT-ATAATATTTTGGTAAATAAAAA
44941364 ATTTTATAATATTTTGGTAAATAAAAA
1 ATTTTATAATATTTTGGTAAATAAAAA
44941391 AT
1 AT
44941393 AACATTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (27 bp):
ATTTTATAATATTTTGGTAAATAAAAA
Found at i:44942149 original size:40 final size:41
Alignment explanation
Indices: 44942104--44942190 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 41
44942094 TTTAAAAATA
44942104 AAAAATTA-AAGTAAAATAAAATTTATGATAATTATACA-TT
1 AAAAATTATAA-TAAAATAAAATTTATGATAATTATACATTT
** * * *
44942144 AAAAATTATAATTTAATAGAATTTGTGATAATTATATATTT
1 AAAAATTATAATAAAATAAAATTTATGATAATTATACATTT
44942185 AAAAAT
1 AAAAAT
44942191 AATTATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 30 0.75
41 10 0.25
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (41 bp):
AAAAATTATAATAAAATAAAATTTATGATAATTATACATTT
Found at i:44942194 original size:18 final size:18
Alignment explanation
Indices: 44942171--44942225 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
44942161 AGAATTTGTG
44942171 ATAATTATATATTTAAAA
1 ATAATTATATATTTAAAA
**
44942189 ATAATTATA-ATTTAATTT
1 ATAATTATATATTTAA-AA
*
44942207 ATAATTAT-TAGTTAAAA
1 ATAATTATATATTTAAAA
44942224 AT
1 AT
44942226 TGTGCTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATAATTATATATTTAAAA
Found at i:44942306 original size:6 final size:6
Alignment explanation
Indices: 44942295--44942326 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
44942285 AAAGGATATG
44942295 ATAATT ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT AT
44942327 TAGTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:44948384 original size:15 final size:16
Alignment explanation
Indices: 44948353--44948390 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
44948343 TATATATATA
44948353 TTATTTTAAATTAATT
1 TTATTTTAAATTAATT
*
44948369 TTATTTT-AATTTATT
1 TTATTTTAAATTAATT
*
44948384 TTCTTTT
1 TTATTTT
44948391 CCCGAATCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTAAATTAATT
Found at i:44955832 original size:2 final size:2
Alignment explanation
Indices: 44955827--44955857 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
44955817 TATACCACAC
44955827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44955858 ATGTTATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44956543 original size:31 final size:30
Alignment explanation
Indices: 44956480--44956546 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
44956470 ATCCCAAAAT
44956480 TATACATGAACTTTGATTTAATATGCAATTA
1 TATACATGAACTTTGATTT-ATATGCAATTA
* * *
44956511 TATACATGAACTTTGATTT-TGTGTAATTT
1 TATACATGAACTTTGATTTATATGCAATTA
44956540 TATACAT
1 TATACAT
44956547 AAAAGTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 14 0.42
31 19 0.58
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATATGCAATTA
Found at i:44957839 original size:20 final size:20
Alignment explanation
Indices: 44957804--44957858 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
44957794 TAAATTGTTG
*
44957804 AATATC-ATTAAAATA-TATT
1 AATATCAATTCAAATATTA-T
44957823 AATATCAATTCAAATATTAT
1 AATATCAATTCAAATATTAT
*
44957843 AATAGACAATTCAAAT
1 AATA-TCAATTCAAAT
44957859 CATAATTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.19
20 13 0.42
21 12 0.39
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATCAATTCAAATATTAT
Found at i:44959251 original size:30 final size:30
Alignment explanation
Indices: 44959189--44959251 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
44959179 ACTTTTCCCT
* * * *
44959189 CAAAACTTTTACTCCTTCTCGCTTTCCCCC
1 CAAAACTTTTACTCCTCCTCCCCTCCCCCC
44959219 CAAAACTTTTACTCC-CCTCCCCTCCCCTCC
1 CAAAACTTTTACTCCTCCTCCCCTCCCC-CC
44959249 CAA
1 CAA
44959252 CCCCTCAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.19, C:0.49, G:0.02, T:0.30
Consensus pattern (30 bp):
CAAAACTTTTACTCCTCCTCCCCTCCCCCC
Found at i:44964588 original size:11 final size:11
Alignment explanation
Indices: 44964572--44964618 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
44964562 AATTGCATAT
44964572 ATATAATGTTC
1 ATATAATGTTC
44964583 ATATAATGTTC
1 ATATAATGTTC
* *
44964594 ATAAACAT-ATC
1 ATATA-ATGTTC
44964605 ATATAATGTTC
1 ATATAATGTTC
44964616 ATA
1 ATA
44964619 ATTAACAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 26 0.87
12 2 0.07
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (11 bp):
ATATAATGTTC
Found at i:44964782 original size:45 final size:45
Alignment explanation
Indices: 44964713--44964928 Score: 247
Period size: 45 Copynumber: 4.8 Consensus size: 45
44964703 TTGTTCAAGA
* * * * * **
44964713 TGCCATAGCGCCTTTCAGCCATGGTCTTATTTATTTCTAACAT-G
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCATAG
* * *
44964757 ATGTCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGTCAT-G
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCATAG
* *
44964802 TTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGTATAG
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCATAG
* * *
44964848 TGCCATAGTGTCCTTCACCTATGGTCTTATTCATTTCTGGTATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCATAG
* *
44964893 TGCCATGGTGCCTTTCAACTATGGTCTTATTCATTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
44964929 TTCAAGCCAA
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 147 0.99
46 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCATAG
Found at i:44966106 original size:17 final size:17
Alignment explanation
Indices: 44966081--44966124 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
44966071 AATTCGTTTG
* *
44966081 TTTATTTTTCTTTATTTC
1 TTTATTTTT-GTTATTTA
44966099 TTTATTTTTGTTATTTA
1 TTTATTTTTGTTATTTA
44966116 TTTATTTTT
1 TTTATTTTT
44966125 ATTCCCCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTATTTTTGTTATTTA
Found at i:44981494 original size:13 final size:12
Alignment explanation
Indices: 44981470--44981502 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
44981460 AATTAAAATT
44981470 AAATTAAATTAA
1 AAATTAAATTAA
44981482 AAATTATAATTAA
1 AAATTA-AATTAA
44981495 AAATTAAA
1 AAATTAAA
44981503 GTAGTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATTAAATTAA
Found at i:44981882 original size:2 final size:2
Alignment explanation
Indices: 44981875--44981903 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
44981865 ACATACATAC
44981875 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44981904 GGGTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:44984484 original size:27 final size:28
Alignment explanation
Indices: 44984454--44984511 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
44984444 GCACCTCTAA
*
44984454 TGGAT-GGTTGGGCTTATTTCTCCCTAG
1 TGGATAGGTTGGGCTCATTTCTCCCTAG
* * *
44984481 TGGATAGTTTGGGCTCCTTTCTCCTTAG
1 TGGATAGGTTGGGCTCATTTCTCCCTAG
44984509 TGG
1 TGG
44984512 GCTATCTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.41
Consensus pattern (28 bp):
TGGATAGGTTGGGCTCATTTCTCCCTAG
Found at i:44987584 original size:17 final size:17
Alignment explanation
Indices: 44987564--44987598 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44987554 GTATAAGTAC
44987564 AATCATGGTATTATTTA
1 AATCATGGTATTATTTA
44987581 AATCATGGTATTATTTA
1 AATCATGGTATTATTTA
44987598 A
1 A
44987599 CCTTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (17 bp):
AATCATGGTATTATTTA
Found at i:44988466 original size:96 final size:96
Alignment explanation
Indices: 44988302--44988489 Score: 304
Period size: 96 Copynumber: 2.0 Consensus size: 96
44988292 AACCAAAAAT
* * *
44988302 CGAAAGGGACGACCTCTAGACAAGGTAACTTCCGAGAAAAGGGAGATGAGAAGTGGTCTATGATC
1 CGAAAGGGACGACCTCTAGACAAGGTAACCTCCGAGAAAAGGGAGAGGAGAAGGGGTCTATGATC
44988367 AGACTTGATCTTTGGAAGGTAAGTAATAAAC
66 AGACTTGATCTTTGGAAGGTAAGTAATAAAC
* * * *
44988398 CGAAAGGGATGACCTCTAGACAAGGTAACCTCCGGGAAATGGGAGAGGCGAAGGGGTCTATGATC
1 CGAAAGGGACGACCTCTAGACAAGGTAACCTCCGAGAAAAGGGAGAGGAGAAGGGGTCTATGATC
*
44988463 AGACTTGATCTTTGGAAGGTGAGTAAT
66 AGACTTGATCTTTGGAAGGTAAGTAAT
44988490 CGAACAAGTT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.21
Consensus pattern (96 bp):
CGAAAGGGACGACCTCTAGACAAGGTAACCTCCGAGAAAAGGGAGAGGAGAAGGGGTCTATGATC
AGACTTGATCTTTGGAAGGTAAGTAATAAAC
Found at i:44990437 original size:31 final size:29
Alignment explanation
Indices: 44990397--44990470 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
44990387 TTAATGGCTC
*
44990397 AGTGCCTAAAATGTTACAACACGTT-AACATA
1 AGTGACTAAAATGTT--AACA-GTTAAACATA
* *
44990428 AGTGACTAAAACG-TAACATTTGAAACATA
1 AGTGACTAAAATGTTAACAGTT-AAACATA
44990457 AGTGACTAAAATGT
1 AGTGACTAAAATGT
44990471 AACCTGAGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
27 2 0.06
28 4 0.11
29 18 0.50
30 1 0.03
31 11 0.31
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTTAACAGTTAAACATA
Found at i:44990599 original size:22 final size:20
Alignment explanation
Indices: 44990558--44990629 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 20
44990548 ATTAATTTGC
44990558 ATATTTATCATAATA--T-AT
1 ATATTTA-CATAATAGTTAAT
44990576 ATATTTACCATAATCAGTTAAT
1 ATATTTA-CATAAT-AGTTAAT
* *
44990598 ATAATCACA-AATAGTTAAT
1 ATATTTACATAATAGTTAAT
*
44990617 ACATTTATCATAA
1 ATATTTA-CATAA
44990630 CTAATGCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
18 13 0.31
19 12 0.29
20 5 0.12
21 5 0.12
22 7 0.17
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (20 bp):
ATATTTACATAATAGTTAAT
Found at i:44990712 original size:24 final size:24
Alignment explanation
Indices: 44990682--44990736 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
44990672 TTAATTTTCA
*
44990682 TAATATA-AATTCACCATAATTAGT
1 TAATATATAATT-ACCATAATTAAT
*
44990706 TAATATATAATTATCATAATTAAT
1 TAATATATAATTACCATAATTAAT
44990730 TAATATA
1 TAATATA
44990737 GGCTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATATATAATTACCATAATTAAT
Found at i:44992612 original size:3 final size:3
Alignment explanation
Indices: 44992604--44992635 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
44992594 GTCATTTCAT
*
44992604 TTC TTC TTC TCC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
44992636 TTGCATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:44995513 original size:45 final size:45
Alignment explanation
Indices: 44995423--44995515 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 45
44995413 GCTACATGTG
* * *
44995423 AAGAGGAGGATAAGTTTTTATGGCTGTCTTAGTTTGTGTTTGGTTT
1 AAGAGGAGGATAAGTTTCTATGCCTG-CTTAGTTTATGTTTGGTTT
44995469 AAGAGGAGGATAAGTTTCTATGACCTG-TTAGTTTATGTTTGGTTT
1 AAGAGGAGGATAAGTTTCTATG-CCTGCTTAGTTTATGTTTGGTTT
44995514 AA
1 AA
44995516 AAGAATTATG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 19 0.44
46 21 0.49
47 3 0.07
ACGTcount: A:0.24, C:0.05, G:0.28, T:0.43
Consensus pattern (45 bp):
AAGAGGAGGATAAGTTTCTATGCCTGCTTAGTTTATGTTTGGTTT
Found at i:44997734 original size:23 final size:22
Alignment explanation
Indices: 44997683--44997734 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
44997673 CCTCGTCTTT
*
44997683 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
44997705 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
44997728 TTCTTTT
1 TTCTTTT
44997735 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:45009363 original size:12 final size:13
Alignment explanation
Indices: 45009346--45009378 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45009336 TTAAACTAAG
45009346 TAAATAAATAA-A
1 TAAATAAATAATA
45009358 TAAATAAATAATA
1 TAAATAAATAATA
*
45009371 AAAATAAA
1 TAAATAAA
45009379 ACTTTACAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAATA
Found at i:45012924 original size:3 final size:3
Alignment explanation
Indices: 45012916--45012958 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
45012906 ATAAATTTCA
* * *
45012916 TAT TAT TAT TGT TAT TAT TAT TTT TAT TAT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
45012959 GCTTTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:45013287 original size:37 final size:38
Alignment explanation
Indices: 45013244--45013335 Score: 109
Period size: 37 Copynumber: 2.4 Consensus size: 38
45013234 TTATTTTATG
45013244 ATTCATATATATATATACATACCTATATGTATATACTT
1 ATTCATATATATATATACATACCTATATGTATATACTT
* * *
45013282 -TTCATAT-TTTAATTTACATACGTATATGTATATACTT
1 ATTCATATATAT-ATATACATACCTATATGTATATACTT
*
45013319 ACTT-ATATATATCTATA
1 A-TTCATATATATATATA
45013336 TAATAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
36 2 0.05
37 31 0.70
38 7 0.16
39 4 0.09
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (38 bp):
ATTCATATATATATATACATACCTATATGTATATACTT
Found at i:45013923 original size:107 final size:108
Alignment explanation
Indices: 45013735--45014038 Score: 488
Period size: 108 Copynumber: 2.8 Consensus size: 108
45013725 TTTCTAATTG
* *
45013735 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
45013800 CGTTCAACCAACTAGCTAAATATCCTTTC-AAAATTACAAAATA
65 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
45013843 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
45013908 GTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 GTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
* * * *
45013951 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGCTGGGTTTCGA--TTTCTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
* * *
45014014 GTTTAACCAAATTGCCAAATATCCT
66 GTTCAACCAAATAGCTAAATATCCT
45014039 CTTGAATTTT
Statistics
Matches: 185, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
106 28 0.15
107 63 0.34
108 94 0.51
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
GTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
Found at i:45014544 original size:12 final size:12
Alignment explanation
Indices: 45014527--45014577 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
45014517 ACTTAATCAT
45014527 TTTAATATTAAA
1 TTTAATATTAAA
*
45014539 TTTAATCTAATAAA
1 TTTAA--TATTAAA
*
45014553 TATT-AGATTAAA
1 T-TTAATATTAAA
45014565 TTTAATATTAAA
1 TTTAATATTAAA
45014577 T
1 T
45014578 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 2 0.06
12 19 0.61
14 8 0.26
15 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:45014554 original size:21 final size:21
Alignment explanation
Indices: 45014530--45014571 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45014520 TAATCATTTT
*
45014530 AATATTAAATTTAATCTAATA
1 AATATTAAATTAAATCTAATA
* *
45014551 AATATTAGATTAAATTTAATA
1 AATATTAAATTAAATCTAATA
45014572 TTAAATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATATTAAATTAAATCTAATA
Found at i:45015092 original size:19 final size:19
Alignment explanation
Indices: 45015054--45015093 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45015044 AAAATATCAT
* *
45015054 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGACTTG
*
45015073 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTGACTTG
45015092 AT
1 AT
45015094 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:45016292 original size:4 final size:4
Alignment explanation
Indices: 45016283--45016307 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45016273 AGAAATTAGC
45016283 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
45016308 CGTTCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:45024154 original size:187 final size:188
Alignment explanation
Indices: 45023399--45024139 Score: 1187
Period size: 188 Copynumber: 3.9 Consensus size: 188
45023389 ATTAGATACC
* * * *
45023399 TTAAGCTCTTATGGTCTGAAAACACACGACACTTCTCCCTATAAAGGTAGTGTCTTTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
** * * ** *
45023464 AGTGCCAACACTACCATTGCAAGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGTGGCTTGAG
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCAGCTTGAT
* * **
45023529 CTAGCGAGATGTATAGGCCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
45023587 TTAAGTTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
* * * * *
45023652 AGCACCAACACTACCACTGAAAGCTTTATGTCTTGAGTTGGATAATTATTTTAATGCGGCCTCAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCAGCTTGAT
* *
45023717 CTGGCAAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCATACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
* * *
45023775 TTAAGCTTTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTTTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
45023840 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCAGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCAGCTTGAT
45023905 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
* * *
45023963 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCT-CCCATAAAGGTAGTATCTCTAGCTCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
45024027 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCAGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCAGCTTGAT
* * *
45024092 CTGGCGAGATGCATTCACCATAACCTTTTCTTTTTGCATAAGCACACA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACA
45024140 TCCAAAACCA
Statistics
Matches: 515, Mismatches: 38, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
187 136 0.26
188 379 0.74
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (188 bp):
TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCAGCTTGAT
CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
Found at i:45031838 original size:26 final size:26
Alignment explanation
Indices: 45031809--45031877 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
45031799 CATTTCAACG
* * * *
45031809 CACATCTCGTTTGAGTAGGCCTATTT
1 CACAGCTCGTGTGAGCAGACCTATTT
* *
45031835 CACAGCTTGTGTGAGCATACCTATTT
1 CACAGCTCGTGTGAGCAGACCTATTT
45031861 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
45031878 ACTATGTGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCTATTT
Found at i:45033436 original size:20 final size:20
Alignment explanation
Indices: 45033397--45033435 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
45033387 TTTAATAAGG
45033397 TATCGATACCCAACATAAAA
1 TATCGATACCCAACATAAAA
*
45033417 TATCGATA-CCAACTTAAAA
1 TATCGATACCCAACATAAAA
45033436 ACTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (20 bp):
TATCGATACCCAACATAAAA
Found at i:45036940 original size:122 final size:122
Alignment explanation
Indices: 45036805--45037032 Score: 388
Period size: 122 Copynumber: 1.9 Consensus size: 122
45036795 ATTTCGAATT
* *
45036805 TTTTTTAAAAGGATATTTAGCCATTTGGTTGAA-CGAGAAAAATCGACACCCAGCACCTTAGGTC
1 TTTTTTAAAAGGATATTAAGCCATTTGGTT-AAGCGAGAAAAATCGACACCCAGCACCTTAGGGC
45036869 ACGTTTTCTCGAATTTTCCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAA
65 ACGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAA
45036928 TTTTTT-AAAGGATATTAAGCCATTTGGTTAAGCGAGAAAAATCGACACCCAGCACCTTAGGGCA
1 TTTTTTAAAAGGATATTAAGCCATTTGGTTAAGCGAGAAAAATCGACACCCAGCACCTTAGGGCA
* *
45036992 CGTTTTCTCGAATTTCCAAACGCTAAATATTGCCTTATTTT
66 CGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTT
45037033 GAAATTTTTT
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
121 29 0.29
122 65 0.65
123 6 0.06
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (122 bp):
TTTTTTAAAAGGATATTAAGCCATTTGGTTAAGCGAGAAAAATCGACACCCAGCACCTTAGGGCA
CGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAA
Found at i:45037474 original size:67 final size:61
Alignment explanation
Indices: 45037390--45037516 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 61
45037380 ATCATGACAG
*
45037390 ATGATAAACAGGCAAAAACTAAAGCAAGAAAAACAATAACAAACATGTACATAAATAAACGAACA
1 ATGATAAACAGACAAAAACTAAAGCAAG----A-AA-AACAAACATGTACATAAATAAACGAACA
45037455 AA
60 AA
*
45037457 ATGATAAACAGATAAAAACTAAAGCAAGAAAAACAAACATGTACATAAATAAACGAACAA
1 ATGATAAACAGACAAAAACTAAAGCAAGAAAAACAAACATGTACATAAATAAACGAACAA
45037517 GACTAACAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
61 29 0.50
62 2 0.03
63 1 0.02
67 26 0.45
ACGTcount: A:0.63, C:0.14, G:0.10, T:0.13
Consensus pattern (61 bp):
ATGATAAACAGACAAAAACTAAAGCAAGAAAAACAAACATGTACATAAATAAACGAACAAA
Found at i:45038002 original size:3 final size:3
Alignment explanation
Indices: 45037994--45038088 Score: 111
Period size: 3 Copynumber: 31.7 Consensus size: 3
45037984 TATAAATTAG
* * * * * **
45037994 TAA TAA TAA TAT TAG TAA TAA TAC TAA CAA -ATA TAG TAA GGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
45038039 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45038087 TA
1 TA
45038089 GAATTACTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 1 0.01
3 76 0.97
4 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45041120 original size:4 final size:4
Alignment explanation
Indices: 45041111--45041135 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45041101 TAATGAAGAA
45041111 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
45041136 TACCCACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:45046749 original size:60 final size:60
Alignment explanation
Indices: 45046622--45046749 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
45046612 ATGTGCAGTT
* * * * * *
45046622 AGGGGCATCGAAGTGTTAACAGGGGCATAGACATGCAAATAGGGACACCGAAGTGTATAC
1 AGGGGCACCGAAGTGTGAACAGGAGCACAGACATGCAAATAGAGACACCGAAGTGGATAC
* *
45046682 AGAGGCACCGAAGTGTGAACAGGAGCACAGGCATGCAAATAGAGACACCGAAGTGCGA-AC
1 AGGGGCACCGAAGTGTGAACAGGAGCACAGACATGCAAATAGAGACACCGAAGTG-GATAC
45046742 AGGGGCAC
1 AGGGGCAC
45046750 AGTTGTGCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.33, T:0.12
Consensus pattern (60 bp):
AGGGGCACCGAAGTGTGAACAGGAGCACAGACATGCAAATAGAGACACCGAAGTGGATAC
Found at i:45046763 original size:60 final size:60
Alignment explanation
Indices: 45046639--45046769 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
45046629 TCGAAGTGTT
* * * * **
45046639 AACAGGGGCATAGACATGCAAATAGGGACACCGAAGTGTATACAGAGGCACCGAAGTGTG
1 AACAGGGGCACAGACATGCAAATAGAGACACCGAAGTGGATACAGAGGCACAGAAGTGCA
* * * **
45046699 AACAGGAGCACAGGCATGCAAATAGAGACACCGAAGTGCGA-ACAGGGGCACAGTTGTGCA
1 AACAGGGGCACAGACATGCAAATAGAGACACCGAAGTG-GATACAGAGGCACAGAAGTGCA
45046759 AACAGGGGCAC
1 AACAGGGGCAC
45046770 TTCTTCATTT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.32, T:0.11
Consensus pattern (60 bp):
AACAGGGGCACAGACATGCAAATAGAGACACCGAAGTGGATACAGAGGCACAGAAGTGCA
Found at i:45046848 original size:2 final size:2
Alignment explanation
Indices: 45046841--45046869 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45046831 TCTTAATTTC
45046841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45046870 CATGTATAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45053295 original size:24 final size:24
Alignment explanation
Indices: 45053268--45053319 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
45053258 ACAAATTTTT
45053268 TTTAATTTTATTAAATTTTAAATA
1 TTTAATTTTATTAAATTTTAAATA
* * * *
45053292 TTTATTTTTTTTAAGTTTTATATA
1 TTTAATTTTATTAAATTTTAAATA
45053316 TTTA
1 TTTA
45053320 CCTGAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTAATTTTATTAAATTTTAAATA
Found at i:45056299 original size:16 final size:16
Alignment explanation
Indices: 45056278--45056310 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45056268 TTCGCTGTAT
45056278 TGGAATAGATGCGTAA
1 TGGAATAGATGCGTAA
45056294 TGGAATAGATGCGTAA
1 TGGAATAGATGCGTAA
45056310 T
1 T
45056311 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.27
Consensus pattern (16 bp):
TGGAATAGATGCGTAA
Found at i:45056385 original size:44 final size:45
Alignment explanation
Indices: 45056292--45056386 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
45056282 ATAGATGCGT
*
45056292 AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
45056337 AATGGAATAGATGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGATGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
45056381 AATGGA
1 AATGGA
45056387 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (45 bp):
AATGGAATAGATGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:45056584 original size:17 final size:18
Alignment explanation
Indices: 45056543--45056577 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45056533 TTATTATTAA
*
45056543 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
45056561 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
45056578 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:45056636 original size:61 final size:61
Alignment explanation
Indices: 45056571--45056758 Score: 188
Period size: 61 Copynumber: 3.1 Consensus size: 61
45056561 ATATAATTTA
* *
45056571 ATAAAATTATTAATAATCAATATTGTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
* * * * ** * * *
45056632 ATAAAA-TA-TAAT-TTAAGATAATTATTAT-TAAATTTATTTTAATTAAAATATATGAT-TT
1 ATAAAATTATTAATAATCA-AT-ATTATTATATGAATTTACTAAAATCATAATATATGATACT
* * *
45056690 AATAAAATTCTTAATAATCAATATTATTATATGAATTTCCTAAAATCATAATATATGATAGT
1 -ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
45056752 ATAAAAT
1 ATAAAAT
45056759 ATAATTTGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.35
60 18 0.18
61 40 0.41
62 3 0.03
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (61 bp):
ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:45056670 original size:120 final size:120
Alignment explanation
Indices: 45056531--45056818 Score: 479
Period size: 120 Copynumber: 2.4 Consensus size: 120
45056521 ATTTTAACAA
* *
45056531 AATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTG
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAATCAATATTA
*
45056596 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT-AAGAT
66 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA-AT
* *
45056651 AATTATTATTAAATTTATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTA
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAATCAATATTA
* *
45056716 TTATATGAATTTCCTAAAATCATAATATATGATAGTATAAAATATAATTTGAAAT
66 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAAT
* *
45056771 AATTATTATTAAAAATATTTTAATTAAAACATATGATTTAATAAAATT
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
45056819 TAAAATAATA
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 155 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (120 bp):
AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAATCAATATTA
TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAAAT
Found at i:45056831 original size:57 final size:58
Alignment explanation
Indices: 45056531--45056853 Score: 192
Period size: 59 Copynumber: 5.4 Consensus size: 58
45056521 ATTTTAACAA
* * *
45056531 AATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAAT
1 AATTATTATTAAAAATATTTTAATTAAAATATATGATTTAATAAAA-T-TTAA-AATAAAT
* * ** * ** * * * * **
45056592 -ATTGTTATATGAATTTACTCAAATCATAATATATGATACT-ATAAAATATAATTTAAGAT
1 AATTATTAT-TAAAAATATTTTAATTAAAATATATGAT-TTAATAAAATTTAAAATAA-AT
** *
45056651 AATTATTATTAAATTTATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAAT
1 AATTATTATTAAAAATATTTTAATTAAAATATATGATTTAATAAAA-T-TTAA-AATAAAT
** * * * * * **
45056712 -ATTATTA-TATGAAT-TTCCTAAAATCATAATATATGATAGT-ATAAAATATAATTTGAAAT
1 AATTATTATTAAAAATATT--T-TAATTAAAATATATGAT-TTAATAAAATTTAAAAT-AAAT
*
45056771 AATTATTATTAAAAATATTTTAATTAAAACATATGATTTAATAAAATTTAAAAT-AAT
1 AATTATTATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATTTAAAATAAAT
* *
45056828 AATTATTATTAAATATAATTTAATTA
1 AATTATTATTAAAAATATTTTAATTA
45056854 TATGAATTTG
Statistics
Matches: 195, Mismatches: 50, Indels: 38
0.69 0.18 0.13
Matches are distributed among these distances:
57 27 0.14
58 7 0.04
59 66 0.34
60 33 0.17
61 56 0.29
62 6 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (58 bp):
AATTATTATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATTTAAAATAAAT
Found at i:45056847 original size:29 final size:29
Alignment explanation
Indices: 45056768--45056850 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
45056758 TATAATTTGA
* * *
45056768 AATAATTATTATTAAAAAT-ATTTTAATT
1 AATAATTATTATTAAATATAATTTAAAAT
* * * *
45056796 AA-AACATATGATTTAATAAAATTTAAAAT
1 AATAA-TTATTATTAAATATAATTTAAAAT
45056825 AATAATTATTATTAAATATAATTTAA
1 AATAATTATTATTAAATATAATTTAA
45056851 TTATATGAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
27 2 0.05
28 11 0.27
29 26 0.63
30 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (29 bp):
AATAATTATTATTAAATATAATTTAAAAT
Found at i:45056946 original size:91 final size:89
Alignment explanation
Indices: 45056851--45057135 Score: 417
Period size: 91 Copynumber: 3.1 Consensus size: 89
45056841 TATAATTTAA
* * * * *
45056851 TTATATGAATTTGTATAATTTAATATAATTATTATTAAACATAATTTAATAATAATATATAACTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAA-TT
* *
45056916 CATCAAATTCTTGATAATAAATTTT
65 CATAAAATTCTTAATAATAAATTTT
* *
45056941 GTTATATGAATTTATATGATTTAAAATAATTAATATTAAATATAATTTCATAATGATATATAATT
1 -TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAA-T
* *
45057006 TCATAAAATTTTTTATAATAAATTTT
64 TCATAAAATTCTTAATAATAAATTTT
*
45057032 CTTATATGAATTTATATAATTTAAAATAATTAATAATAAATATAATTTAATAATGATATATAATT
1 -TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATT
45057097 CATAAAATTCTTAATAATAAATATTT
65 CATAAAATTCTTAATAATAAAT-TTT
45057123 TTATATGAATTTA
1 TTATATGAATTTA
45057136 CTAAAATCAC
Statistics
Matches: 176, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
90 35 0.20
91 141 0.80
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (89 bp):
TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTC
ATAAAATTCTTAATAATAAATTTT
Found at i:45057101 original size:17 final size:16
Alignment explanation
Indices: 45057053--45057120 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 16
45057043 TTATATAATT
45057053 TAAA-ATAATTAATAA
1 TAAATATAATTAATAA
45057068 TAAATATAATTTAATAA
1 TAAATATAA-TTAATAA
* *
45057085 TGATATATAATTCAT-A
1 T-AAATATAATTAATAA
*
45057101 -AAAT-T-CTTAATAA
1 TAAATATAATTAATAA
45057114 TAAATAT
1 TAAATAT
45057121 TTTTATATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 7 0.17
15 5 0.12
16 5 0.12
17 12 0.29
18 7 0.17
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (16 bp):
TAAATATAATTAATAA
Found at i:45066707 original size:15 final size:16
Alignment explanation
Indices: 45066687--45066724 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
45066677 ATTAAACTAG
45066687 TTTAATTAACTTAA-C
1 TTTAATTAACTTAAGC
45066702 TTTAATT-ACTTAAGC
1 TTTAATTAACTTAAGC
45066717 TTTAATTA
1 TTTAATTA
45066725 CCAATTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTAATTAACTTAAGC
Found at i:45070183 original size:24 final size:24
Alignment explanation
Indices: 45070151--45070202 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
45070141 GTAGGGGTCA
45070151 ACACGCCCGTATTGAAGGAGGTAT
1 ACACGCCCGTATTGAAGGAGGTAT
45070175 ACACGCCCGTATTGAAGGAGGTAT
1 ACACGCCCGTATTGAAGGAGGTAT
45070199 ACAC
1 ACAC
45070203 CCGTGTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (24 bp):
ACACGCCCGTATTGAAGGAGGTAT
Found at i:45077457 original size:25 final size:25
Alignment explanation
Indices: 45077415--45077476 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
45077405 TATAATAAAT
* * *
45077415 TTAAAT-ATTATATTTATATTTATA
1 TTAAATAAATATAATTATATTAATA
45077439 TTAAATAAATATAATTATATTAATA
1 TTAAATAAATATAATTATATTAATA
*
45077464 TTAAGTAAA-ATAA
1 TTAAATAAATATAA
45077477 AAATTCCCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 10 0.30
25 23 0.70
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAATAAATATAATTATATTAATA
Found at i:45086675 original size:43 final size:43
Alignment explanation
Indices: 45086627--45086740 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
45086617 ATGTTCCAAT
*
45086627 ATCGATTTCAGATTTTGTGTAAGACCACAGCTGGGATATTGGC
1 ATCGATTTCAGATTTCGTGTAAGACCACAGCTGGGATATTGGC
* * * *
45086670 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATTTCAGATTTCGTGTAAGACCACAGCTGGGATATTGGC
* *
45086713 ATCGA-TACGAGATTTCCATGTAAGACCA
1 ATCGATTTC-AGATTT-CGTGTAAGACCA
45086741 TGTCTAGGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 49 0.80
44 11 0.18
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
ATCGATTTCAGATTTCGTGTAAGACCACAGCTGGGATATTGGC
Found at i:45094894 original size:24 final size:24
Alignment explanation
Indices: 45094858--45094910 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
45094848 GAGGGAATTT
*
45094858 TTATTTTATTTAATAATAATATAA
1 TTATTTTATTTAATAATAACATAA
*
45094882 TTATATTTA-TTAATATTAACATAA
1 TTAT-TTTATTTAATAATAACATAA
*
45094906 ATATT
1 TTATT
45094911 AATATAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 20 0.80
25 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTATTTTATTTAATAATAACATAA
Found at i:45094940 original size:18 final size:19
Alignment explanation
Indices: 45094903--45094940 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
45094893 AATATTAACA
45094903 TAAATATTAATATAATATT
1 TAAATATTAATATAATATT
* *
45094922 TAAAT-TTATTATCATATT
1 TAAATATTAATATAATATT
45094940 T
1 T
45094941 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATATTAATATAATATT
Found at i:45096902 original size:23 final size:23
Alignment explanation
Indices: 45096868--45096921 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
45096858 ATTTTAAAAA
45096868 TAAAAC-TTATTTAAGTACAAAT
1 TAAAACATTATTTAAGTACAAAT
**
45096890 TAAAACATTATTTTGGTACAAAT
1 TAAAACATTATTTAAGTACAAAT
45096913 TAAAA-ATTA
1 TAAAACATTA
45096922 AGCATTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (23 bp):
TAAAACATTATTTAAGTACAAAT
Found at i:45101874 original size:21 final size:20
Alignment explanation
Indices: 45101844--45101889 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
45101834 AACCCCTGAT
45101844 CTTAAACACATAAACAGAGCA
1 CTTAAACACATAAACAGAG-A
* * *
45101865 CTTAACCACATATATAGAGA
1 CTTAAACACATAAACAGAGA
45101885 CTTAA
1 CTTAA
45101890 TTATTAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.22
Consensus pattern (20 bp):
CTTAAACACATAAACAGAGA
Found at i:45102285 original size:30 final size:28
Alignment explanation
Indices: 45102230--45102305 Score: 71
Period size: 31 Copynumber: 2.6 Consensus size: 28
45102220 AAATCAATTC
* * ** *
45102230 AAATTTCAAAACATTTATAAAAAAAAAA
1 AAATTTTAAAAAATTTATTTAAAAATAA
*
45102258 CAAATTTTCATAAAAATTTATTTAAAAATTA
1 -AAATTTT-A-AAAAATTTATTTAAAAATAA
45102289 AAATTTTAAAAAATTTA
1 AAATTTTAAAAAATTTA
45102306 AAATTCTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 9 0.23
29 7 0.18
30 8 0.21
31 15 0.38
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATTTTAAAAAATTTATTTAAAAATAA
Found at i:45102302 original size:16 final size:17
Alignment explanation
Indices: 45102281--45102315 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45102271 AAATTTATTT
*
45102281 AAAAA-TTAAAATTTTA
1 AAAAATTTAAAATTCTA
45102297 AAAAATTTAAAATTCTA
1 AAAAATTTAAAATTCTA
45102314 AA
1 AA
45102316 GAAGATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATTTAAAATTCTA
Found at i:45106160 original size:20 final size:20
Alignment explanation
Indices: 45106137--45106183 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45106127 AACTACAATA
*
45106137 ATAATGAGAATA-CTAATTTT
1 ATAATAAGAATATC-AATTTT
*
45106157 ATAATAATAATATCAATTTT
1 ATAATAAGAATATCAATTTT
45106177 ATAATAA
1 ATAATAA
45106184 TATCGATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAATAAGAATATCAATTTT
Found at i:45111186 original size:17 final size:18
Alignment explanation
Indices: 45111143--45111188 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
45111133 AAACTACAAA
45111143 TAATAAAAAA-TATGTTT
1 TAATAAAAAATTATGTTT
45111160 TAA-AGGAAAAATTAT-TTT
1 TAATA--AAAAATTATGTTT
45111178 TAATAAAAAAT
1 TAATAAAAAAT
45111189 GAGAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 11 0.44
19 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (18 bp):
TAATAAAAAATTATGTTT
Found at i:45112559 original size:31 final size:31
Alignment explanation
Indices: 45112524--45112591 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
45112514 TTTACAGCCT
*
45112524 AGTGACTTGAAT-AAAAATTTCTAAATAGTTC
1 AGTGACTTAAATGAAAAATTT-TAAATAGTTC
** *
45112555 AGTGACTTAAATGAAACCTTTTGAATAGTTC
1 AGTGACTTAAATGAAAAATTTTAAATAGTTC
45112586 AGTGAC
1 AGTGAC
45112592 CAAATTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATGAAAAATTTTAAATAGTTC
Found at i:45117322 original size:2 final size:2
Alignment explanation
Indices: 45117317--45117350 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
45117307 CTTCAGAAAC
45117317 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
45117351 TAAGATGGAA
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:45124115 original size:21 final size:21
Alignment explanation
Indices: 45124091--45124190 Score: 94
Period size: 21 Copynumber: 4.8 Consensus size: 21
45124081 GCTTCTGTTT
*
45124091 AACTCATATGAGTTTCCGTTC
1 AACTCTTATGAGTTTCCGTTC
* ** *
45124112 AACTC-TATTGAGCTTCTTTTT
1 AACTCTTA-TGAGTTTCCGTTC
*
45124133 AACTCTTATGGGTTTCCGTTC
1 AACTCTTATGAGTTTCCGTTC
* *
45124154 AGCTCTTATGAGTTTCCATTC
1 AACTCTTATGAGTTTCCGTTC
* *
45124175 AACCCTTATGGGTTTC
1 AACTCTTATGAGTTTC
45124191 TATTTAGCTC
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
20 2 0.03
21 58 0.94
22 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (21 bp):
AACTCTTATGAGTTTCCGTTC
Found at i:45124127 original size:42 final size:42
Alignment explanation
Indices: 45124080--45124159 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
45124070 AGCTCTCACA
45124080 AGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTATTG
1 AGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTATTG
* * * *
45124122 AGCTTCTTTTTAACTCTTATGGGTTTCCGTTCAGCTCT
1 AGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCT
45124160 TATGAGTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (42 bp):
AGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTATTG
Found at i:45124183 original size:42 final size:42
Alignment explanation
Indices: 45124097--45124217 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
45124087 GTTTAACTCA
* * * * *
45124097 TATGAGTTTCCGTTCAACTC-TATTGAGCTTCTTTTTAACTCT
1 TATGGGTTTCCGTTCAGCTCTTA-TGAGCTTCTATTCAACCCT
* *
45124139 TATGGGTTTCCGTTCAGCTCTTATGAGTTTCCATTCAACCCT
1 TATGGGTTTCCGTTCAGCTCTTATGAGCTTCTATTCAACCCT
** * *
45124181 TATGGGTTTCTATTTAGCTCTCATGAGCTTCTATTCA
1 TATGGGTTTCCGTTCAGCTCTTATGAGCTTCTATTCA
45124218 GGCTTCGGGC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 63 0.97
43 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (42 bp):
TATGGGTTTCCGTTCAGCTCTTATGAGCTTCTATTCAACCCT
Found at i:45124218 original size:63 final size:63
Alignment explanation
Indices: 45124061--45124218 Score: 156
Period size: 63 Copynumber: 2.5 Consensus size: 63
45124051 TCATGTTTAC
** * * * *
45124061 TTTCTATTTAGCTCTCACAAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTATTGAG
1 TTTCTATTTAGCTCTCATGAGCTTCTGTTCAGCTCATATGAGTTTCCATTCAACCCTATTGAG
* * * * * * * * *
45124124 CTTCTTTTTAACTCTTATGGGTTTCCGTTCAGCTCTTATGAGTTTCCATTCAACCCT-TATGGG
1 TTTCTATTTAGCTCTCATGAGCTTCTGTTCAGCTCATATGAGTTTCCATTCAACCCTAT-TGAG
*
45124187 TTTCTATTTAGCTCTCATGAGCTTCTATTCAG
1 TTTCTATTTAGCTCTCATGAGCTTCTGTTCAG
45124219 GCTTCGGGCT
Statistics
Matches: 71, Mismatches: 23, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
62 1 0.01
63 70 0.99
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (63 bp):
TTTCTATTTAGCTCTCATGAGCTTCTGTTCAGCTCATATGAGTTTCCATTCAACCCTATTGAG
Found at i:45124846 original size:14 final size:14
Alignment explanation
Indices: 45124827--45124856 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45124817 TTTTGACCGT
45124827 AATATATTTCAAAA
1 AATATATTTCAAAA
45124841 AATATATTTCAAAA
1 AATATATTTCAAAA
45124855 AA
1 AA
45124857 GAAAAGGAAA
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:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATATTTCAAAA
Found at i:45126495 original size:50 final size:50
Alignment explanation
Indices: 45126414--45127070 Score: 487
Period size: 50 Copynumber: 13.2 Consensus size: 50
45126404 ACAGTTAAAT
* * * * *
45126414 AGATTAAAGTTACAACAGCAAATATTACTTCCCTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAAC
* * * **
45126464 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCT-GACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGGAAC
* * *
45126514 AGATTGAAGCTATAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAAC
* * * * * ** *
45126564 AGATTGAAGCTACAACGGCAAATCTTGCTTTCCCGA-CATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTAC-TTCCCTAGCAGTGCAGTGGAAC
** * *
45126614 AGATTGAAGCTATGACAGCGAATGTTACTTCCCTCGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAAC
* * * * * ** *
45126664 AGATTGAAGCTACAACGGCGAATCTTGCATCCC-CGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGGAAC
* * *
45126714 AGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAAC
* ** * * * * ** *
45126764 AAATTGAAGCTACAATGGTGAATCTTGCTTCCGCGA-CATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCC-CTAGCAGTGCAGTGGAAC
* *
45126814 AGATTGAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAAC
** * ** * * **
45126864 AGATTGAAGCTACAATGGCCAATCTTGTTTCCC-CGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGGAAC
* * *
45126914 AGATTGAAACTACGACAGCGAATATTACTTCCCT-G-ATGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCA--GTGCAGTGGAAC
** * * * * ** *
45126964 AGATTGAAGCTACAATGGCGAATCTTGCTTCTCCGA-CATTGTAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTC-CCTAGCAGTGCAGTGGAAC
* * *
45127014 AGATTGAAG--A-TA-A-CGAATCTTATTTCCCT-GAAGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAG-TGCAGTGGAAC
45127059 AGATTGAAGCTA
1 AGATTGAAGCTA
45127071 TAAATTACAG
Statistics
Matches: 459, Mismatches: 129, Indels: 41
0.73 0.21 0.07
Matches are distributed among these distances:
44 3 0.01
45 27 0.06
47 2 0.00
48 2 0.00
49 11 0.02
50 403 0.88
51 10 0.02
52 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAAC
Found at i:45126531 original size:100 final size:98
Alignment explanation
Indices: 45126400--45127070 Score: 902
Period size: 100 Copynumber: 6.8 Consensus size: 98
45126390 ATCTCTTTGG
* * * * *
45126400 CATTACAGTTAAATAGATTAAAGTTACAACAGCAAATATTACTTCCCTAGCGGTGCAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GCGGTGCAGTGGAACA
45126465 GATTGAAGCTACAACGGCGAATCTTGCTTCCCTGA
65 GATTGAAGCTACAACGGCGAATCTTGCTTCCC-GA
* *
45126500 CATTGCAGTTAAACAGATTGAAGCTATAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GCGGTGCAGTGGAACA
*
45126565 GATTGAAGCTACAACGGCAAATCTTGCTTTCCCGA
65 GATTGAAGCTACAACGGCGAATCTTGC-TTCCCGA
** * *
45126600 CATTGCAGTTAAATAGATTGAAGCTATGACAGCGAATGTTACTTCCCTCGCAGTGCAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GCGGTGCAGTGGAACA
*
45126665 GATTGAAGCTACAACGGCGAATCTTGCATCCCCGA
65 GATTGAAGCTACAACGGCGAATCTTGC-TTCCCGA
*
45126700 CATTGCAGTTAAATAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GCGGTGCAGTGGAACA
* * *
45126765 AATTGAAGCTACAATGGTGAATCTTGCTTCCGCGA
65 GATTGAAGCTACAACGGCGAATCTTGCTTCC-CGA
*
45126800 CATTGCAGTTAAATAGATTGAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGCAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GCGGTGCAGTGGAACA
* * *
45126865 GATTGAAGCTACAATGGCCAATCTTGTTTCCCCGA
65 GATTGAAGCTACAACGGCGAATCTTGCTT-CCCGA
* * * * *
45126900 CATTGCAGTTAAACAGATTGAAACTACGACAGCGAATATTACTTCCCTGATGGTGCAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTG-CGGTGCAGTGGAACA
*
45126965 GATTGAAGCTACAATGGCGAATCTTGCTTCTCCGA
65 GATTGAAGCTACAACGGCGAATCTTGCTTC-CCGA
* * * * *
45127000 CATTGTAGTTAAATAGATTGAAG--A-TA-A-CGAATCTTATTTCCCTGAAGTTGCAGTGGAACA
1 CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTG-CGGTGCAGTGGAACA
45127060 GATTGAAGCTA
65 GATTGAAGCTA
45127071 TAAATTACAG
Statistics
Matches: 518, Mismatches: 48, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
95 40 0.08
96 1 0.00
97 1 0.00
98 1 0.00
99 5 0.01
100 463 0.89
101 7 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (98 bp):
CATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGCGGTGCAGTGGAACAG
ATTGAAGCTACAACGGCGAATCTTGCTTCCCGA
Found at i:45127975 original size:6 final size:6
Alignment explanation
Indices: 45127966--45128011 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
45127956 TGTTTTGTTC
45127966 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
45128012 TTCGAAATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:45128706 original size:3 final size:3
Alignment explanation
Indices: 45128700--45128764 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
45128690 AAACTAATAA
45128700 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
45128748 ATT ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT AT
45128765 CATATTTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:45129220 original size:16 final size:16
Alignment explanation
Indices: 45129183--45129222 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
45129173 TTAATAAAAT
* *
45129183 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
45129199 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
45129215 TAAAATTA
1 TAAAATTA
45129223 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:45129222 original size:22 final size:22
Alignment explanation
Indices: 45129155--45129207 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
45129145 TAATTAAAAT
* * *
45129155 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
45129177 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
45129199 TAAAATTAA
1 TAAAATTAA
45129208 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:45129243 original size:50 final size:57
Alignment explanation
Indices: 45129211--45129372 Score: 189
Period size: 68 Copynumber: 2.6 Consensus size: 57
45129201 AAATTAATTG
45129211 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTTGTAATAAAATCTAACATTTGA
1 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTTGTAATAAAATCTAACATTTGA
*
45129268 TTAGTAAATTTATCAAATTATTAATTGTATTAATCGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATT-A----A-T--T-G--TTAATTGTTGTAATAAAATCTAACATT
45129333 TGA
55 TGA
*
45129336 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGT
45129373 ATTAATTGTT
Statistics
Matches: 93, Mismatches: 1, Indels: 20
0.82 0.01 0.18
Matches are distributed among these distances:
57 21 0.23
58 1 0.01
59 11 0.12
60 1 0.01
62 2 0.02
63 2 0.02
65 1 0.01
66 1 0.01
67 1 0.01
68 52 0.56
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (57 bp):
TTAGTAAAATTATCAAATTATTAATTGTTAATTGTTGTAATAAAATCTAACATTTGA
Found at i:45129310 original size:68 final size:68
Alignment explanation
Indices: 45129238--45129411 Score: 330
Period size: 68 Copynumber: 2.6 Consensus size: 68
45129228 TTATTAATTG
45129238 TTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATC
1 TTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATC
45129303 GTA
66 GTA
*
45129306 TTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATT
1 TTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATC
45129371 GTA
66 GTA
*
45129374 TTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
45129412 ACAAACTTGA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 104 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (68 bp):
TTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATC
GTA
Found at i:45129366 original size:9 final size:9
Alignment explanation
Indices: 45129354--45129381 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
45129344 TTTATCAAAT
45129354 TATTAATTG
1 TATTAATTG
45129363 TATTAATTG
1 TATTAATTG
45129372 TATTAATTG
1 TATTAATTG
45129381 T
1 T
45129382 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:45129507 original size:24 final size:22
Alignment explanation
Indices: 45129478--45129521 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
45129468 AAATAAACTT
45129478 AAAATAAAAAACTATCATATTTTA
1 AAAATAAAAAA-TAT-ATATTTTA
45129502 AAAATAAAAAATATATATTT
1 AAAATAAAAAATATATATTT
45129522 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAAAAAATATATATTTTA
Found at i:45130091 original size:21 final size:21
Alignment explanation
Indices: 45130066--45130109 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
45130056 ATCTTCGAGG
45130066 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
45130087 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
45130108 AT
1 AT
45130110 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:45130115 original size:19 final size:19
Alignment explanation
Indices: 45130065--45130120 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
45130055 AATCTTCGAG
45130065 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45130084 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
45130105 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
45130121 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45130127 original size:22 final size:23
Alignment explanation
Indices: 45130078--45130143 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
45130068 ATGCAATCTT
*
45130078 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
45130099 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
45130121 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
45130144 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:45130153 original size:22 final size:23
Alignment explanation
Indices: 45130109--45130153 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45130099 AGATATGATA
*
45130109 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
45130132 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
45130154 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:45130350 original size:19 final size:21
Alignment explanation
Indices: 45130326--45130364 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
45130316 GCTTACTGTT
*
45130326 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
45130345 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
45130365 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:45130769 original size:17 final size:17
Alignment explanation
Indices: 45130749--45130796 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
45130739 TTTTTTTAAT
45130749 TATTTTTTATTTATATA
1 TATTTTTTATTTATATA
* * *
45130766 TATTTTTTGTTTTTATT
1 TATTTTTTATTTATATA
45130783 TATTTATTTATTTA
1 TATTT-TTTATTTA
45130797 AAACAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (17 bp):
TATTTTTTATTTATATA
Found at i:45132178 original size:21 final size:21
Alignment explanation
Indices: 45132126--45132178 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
45132116 TTTTACATTT
* *
45132126 TTATAATTTTATTCATTTTAT
1 TTATTATTTTATTCATTTTAG
* *
45132147 TTATT-TATTTATTTATTTTCG
1 TTATTAT-TTTATTCATTTTAG
45132168 TTATTATTTTA
1 TTATTATTTTA
45132179 AAAGAATGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTATTTTATTCATTTTAG
Found at i:45133314 original size:87 final size:87
Alignment explanation
Indices: 45133211--45133386 Score: 219
Period size: 87 Copynumber: 2.0 Consensus size: 87
45133201 TCTCTCTCTT
* * *
45133211 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTAAAAATGTATAAAAAAGGCCCTCAAACTTCTT
1 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTAAAAATGCATAAAAAAGACCCTCAAAATTCTT
45133276 CAAAGAAACCAATTAAACCCCTA
66 CAAA-AAACCAATTAAACCCCTA
** * * * * *
45133299 TTTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATGCATGAAAAAGACCCTTAAAATTTTT
1 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTAAAAATGCATAAAAAAGACCCTCAAAATTCTT
* * *
45133363 CAAAAAAGCAATTAAGCCTCTA
66 CAAAAAACCAATTAAACCCCTA
45133385 TT
1 TT
45133387 CTTATTAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
86 17 0.23
87 50 0.67
88 8 0.11
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (87 bp):
TTTTTTTTGCACTCAATTAAGCACTTGAACTTTAAAAATGCATAAAAAAGACCCTCAAAATTCTT
CAAAAAACCAATTAAACCCCTA
Found at i:45133482 original size:35 final size:38
Alignment explanation
Indices: 45133389--45133487 Score: 98
Period size: 38 Copynumber: 2.7 Consensus size: 38
45133379 CCTCTATTCT
* * *
45133389 TATTAAAAATTAGAAAAAATAATT-ATAAAAATAATAAA
1 TATTAAAAATT-TAAAAATTTATTAATAAAAATAATAAA
* **
45133427 TTTTAGAAAATTTATTAATTT-TTAATAAAAATAA-AAA
1 TATTA-AAAATTTAAAAATTTATTAATAAAAATAATAAA
45133464 TATT-AAAATTTAAAAATTTATTAA
1 TATTAAAAATTTAAAAATTTATTAA
45133488 AATAATTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
35 13 0.27
36 4 0.08
37 8 0.16
38 18 0.37
39 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (38 bp):
TATTAAAAATTTAAAAATTTATTAATAAAAATAATAAA
Found at i:45133876 original size:8 final size:8
Alignment explanation
Indices: 45133863--45133917 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
45133853 TTTATTAAAA
45133863 TTTATATT
1 TTTATATT
45133871 TTTATATTT
1 TTTATA-TT
*
45133880 TTTACGATT
1 TTTA-TATT
45133889 TTTATATT
1 TTTATATT
*
45133897 TTTATTTT
1 TTTATATT
*
45133905 TTTCTAATT
1 TTTAT-ATT
45133914 TTTA
1 TTTA
45133918 ATAAAAATAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 20 0.53
9 17 0.45
10 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTATATT
Found at i:45133879 original size:27 final size:26
Alignment explanation
Indices: 45133816--45133883 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
45133806 TTTTTATATT
* *
45133816 TTTTTATAATTTTTAATAAATTTTAA
1 TTTTTATATTTTTTAATAAAATTTAA
* *
45133842 TATTTGA-ATTTTTTATTAAAATTTATA
1 T-TTTTATATTTTTTAATAAAATTTA-A
45133869 TTTTTATATTTTTTA
1 TTTTTATATTTTTTA
45133884 CGATTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTTATATTTTTTAATAAAATTTAA
Done.