Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2309
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: 135274
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 1 of 2
Found at i:5028 original size:27 final size:27
Alignment explanation
Indices: 4992--5050 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
4982 CACCATATTT
*
4992 TCCTACTCAACCTCCATACCCGTCATA
1 TCCTACTCAACCTCCATACCCATCATA
5019 TCCTACTCAACCTCCATACCCATCATA
1 TCCTACTCAACCTCCATACCCATCATA
5046 TCCTA
1 TCCTA
5051 TCACGACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.44, G:0.02, T:0.27
Consensus pattern (27 bp):
TCCTACTCAACCTCCATACCCATCATA
Found at i:9877 original size:22 final size:22
Alignment explanation
Indices: 9852--9894 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9842 TTGAATATCC
*
9852 TTAAAAGCTGGTTTGATCATCT
1 TTAAAAGCTAGTTTGATCATCT
9874 TTAAAAGCTAGTTTGATCATC
1 TTAAAAGCTAGTTTGATCATC
9895 CAATGAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (22 bp):
TTAAAAGCTAGTTTGATCATCT
Found at i:14437 original size:2 final size:2
Alignment explanation
Indices: 14432--14456 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14422 TTTTTATTTT
14432 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14457 GCATGTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15094 original size:13 final size:13
Alignment explanation
Indices: 15076--15101 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15066 TACACAAAGT
15076 ATGTATCGATACA
1 ATGTATCGATACA
15089 ATGTATCGATACA
1 ATGTATCGATACA
15102 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:15099 original size:32 final size:33
Alignment explanation
Indices: 15058--15121 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
15048 TAGCCAAACT
**
15058 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
15090 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
15122 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:15603 original size:36 final size:35
Alignment explanation
Indices: 15560--15627 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
15550 CTAAGTGATT
15560 GAGAGG-TTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTTCTATCTTAGCC-TTG-AAAAGATAGAGA
*
15596 GAGAGGTTTCTATCTTAGTCTTGAAAAGATAG
1 GAGAGGTTTCTATCTTAGCCTTGAAAAGATAG
15628 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 9 0.30
36 9 0.30
37 12 0.40
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (35 bp):
GAGAGGTTTCTATCTTAGCCTTGAAAAGATAGAGA
Found at i:15908 original size:14 final size:13
Alignment explanation
Indices: 15881--15919 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15871 AGCTCACAAA
*
15881 ATTAATTCATTTT
1 ATTAATTTATTTT
15894 ATTAATTTTATTTT
1 ATTAA-TTTATTTT
*
15908 ATTTATTTATTT
1 ATTAATTTATTT
15920 CTTTTCTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTAATTTATTTT
Found at i:20077 original size:3 final size:3
Alignment explanation
Indices: 20069--20094 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20059 TAATTACACA
20069 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
20095 CAAATCTAAT
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:21210 original size:6 final size:6
Alignment explanation
Indices: 21179--21209 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
21169 GCTAAGTCCC
*
21179 TATAAA TATAAA TATAAA TATAAA TTTAAA T
1 TATAAA TATAAA TATAAA TATAAA TATAAA T
21210 TATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
TATAAA
Found at i:21446 original size:2 final size:2
Alignment explanation
Indices: 21439--21479 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
21429 AAGTGACCAT
*
21439 TA TA TA TA TA GA TA TCA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
21480 TACCTAAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.94
3 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:22103 original size:15 final size:15
Alignment explanation
Indices: 22085--22113 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22075 AATTTTAAAA
22085 ACAAAAAATTATCGC
1 ACAAAAAATTATCGC
22100 ACAAAAAATTATCG
1 ACAAAAAATTATCG
22114 TAAAAGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (15 bp):
ACAAAAAATTATCGC
Found at i:22716 original size:34 final size:34
Alignment explanation
Indices: 22678--22813 Score: 236
Period size: 34 Copynumber: 4.0 Consensus size: 34
22668 CTTTGTTAAG
22678 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
* *
22712 TGTATTTGGTGAGAATGTTAAGTGTGTTAAGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
22746 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
22780 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
22814 GAATGTTAGG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 97 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:22731 original size:56 final size:56
Alignment explanation
Indices: 22671--22863 Score: 188
Period size: 56 Copynumber: 3.2 Consensus size: 56
22661 TTAATTTCTT
*
22671 TGTTAAGTGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
1 TGTTAAGTGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
* * ** * *
22727 TGTTAAGTGTGTTAAGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGA
1 TGTTAAGTGTGTT---TGGTGAGAAT-GTTAG---G-T----GTGTTAGGTGATGTATTTGGTGA
22792 GAA
54 GAA
* *
22795 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
1 TGTTAAGTGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
*
22851 TGTTAGGTGTGTT
1 TGTTAAGTGTGTT
22864 AACATGTATA
Statistics
Matches: 110, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
56 50 0.45
59 6 0.05
60 5 0.05
61 1 0.01
63 1 0.01
64 5 0.05
65 5 0.05
68 37 0.34
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (56 bp):
TGTTAAGTGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
Found at i:22757 original size:12 final size:11
Alignment explanation
Indices: 22735--22859 Score: 64
Period size: 13 Copynumber: 10.9 Consensus size: 11
22725 AATGTTAAGT
*
22735 GTGTTAAGTGA
1 GTGTTAGGTGA
*
22746 TGTGTTTGGTGA
1 -GTGTTAGGTGA
22758 GAATGTTAGGT--
1 G--TGTTAGGTGA
22769 GTGTTAGGTGA
1 GTGTTAGGTGA
*
22780 TGTGTTTGGTGA
1 -GTGTTAGGTGA
22792 GAATGTTAGGT--
1 G--TGTTAGGTGA
22803 GTGTTAGGTGA
1 GTGTTAGGTGA
22814 GAATGTTAGGT--
1 G--TGTTAGGTGA
22825 GTGTTAGGTGA
1 GTGTTAGGTGA
* *
22836 TGTATTTGGTGA
1 -GTGTTAGGTGA
22848 GAATGTTAGGTG
1 G--TGTTAGGTG
22860 TGTTAACATG
Statistics
Matches: 88, Mismatches: 9, Indels: 31
0.69 0.07 0.24
Matches are distributed among these distances:
9 24 0.27
11 7 0.08
12 28 0.32
13 29 0.33
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (11 bp):
GTGTTAGGTGA
Found at i:22812 original size:22 final size:22
Alignment explanation
Indices: 22780--22835 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
22770 TGTTAGGTGA
*
22780 TGTGTTTGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
22802 TGTGTTAGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
22824 TGTGTTAGGTGA
1 TGTGTTAGGTGA
22836 TGTATTTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
TGTGTTAGGTGAGAATGTTAGG
Found at i:22864 original size:56 final size:56
Alignment explanation
Indices: 22746--22864 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 56
22736 TGTTAAGTGA
* *
22746 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGG
22802 TGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGG
22858 TGTGTTA
1 TGTGTTA
22865 ACATGTATAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.41
Consensus pattern (56 bp):
TGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGG
Found at i:23371 original size:21 final size:21
Alignment explanation
Indices: 23347--23393 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23337 ATTTTTAAAA
* * *
23347 TTTTTAAGATGATTTTTTATT
1 TTTTTAAGATAATTATTAATT
*
23368 TTTTTGAGATAATTATTAATT
1 TTTTTAAGATAATTATTAATT
23389 TTTTT
1 TTTTT
23394 TTAAATTCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (21 bp):
TTTTTAAGATAATTATTAATT
Found at i:24828 original size:2 final size:2
Alignment explanation
Indices: 24821--24861 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24811 GAAATTTGCA
24821 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24862 ACACTAAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25839 original size:2 final size:2
Alignment explanation
Indices: 25832--25869 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
25822 TGGTATGCAC
*
25832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25870 AAGAATGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26067 original size:3 final size:3
Alignment explanation
Indices: 26059--26099 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
26049 TGTTTGGATA
26059 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26100 AGAAAGTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26420 original size:2 final size:2
Alignment explanation
Indices: 26413--26440 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26403 TAAGTTTCTC
26413 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
26441 GTTATGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27003 original size:19 final size:20
Alignment explanation
Indices: 26981--27018 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
26971 TTGTTTTCTT
*
26981 TTATTTAAAC-AAAAAAAAC
1 TTATCTAAACTAAAAAAAAC
27000 TTATCTAAACTAAAAAAAA
1 TTATCTAAACTAAAAAAAA
27019 AAAAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (20 bp):
TTATCTAAACTAAAAAAAAC
Found at i:27273 original size:24 final size:23
Alignment explanation
Indices: 27227--27273 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
27217 GTTAAGTATG
27227 TTTTATTTTTCTTAAAATATTTT
1 TTTTATTTTTCTTAAAATATTTT
* *
27250 TTTTAATTTTTTTTGAAA-ATTTT
1 TTTT-ATTTTTCTTAAAATATTTT
27273 T
1 T
27274 AAAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTATTTTTCTTAAAATATTTT
Found at i:29700 original size:16 final size:15
Alignment explanation
Indices: 29676--29718 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
29666 ACATAATTTT
*
29676 TATTAAATATTTATTA
1 TATTTAATATTTA-TA
*
29692 TATTTAATATTTATG
1 TATTTAATATTTATA
29707 TATTTAAT-TTTA
1 TATTTAATATTTA
29719 AAATTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 4 0.16
15 9 0.36
16 12 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTTAATATTTATA
Found at i:30007 original size:19 final size:20
Alignment explanation
Indices: 29984--30035 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
29974 CATTTAGTTT
29984 TTTTAATTATATTAATCA-TA
1 TTTTAATTATATTAAT-ATTA
*
30004 -TTTAAATATA-TAATATTA
1 TTTTAATTATATTAATATTA
*
30022 TTTTTATTATATTA
1 TTTTAATTATATTA
30036 TTTTTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 6 0.23
19 17 0.65
20 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATTATATTAATATTA
Found at i:30035 original size:14 final size:14
Alignment explanation
Indices: 30016--30042 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30006 TAAATATATA
30016 ATATTATTTTTATT
1 ATATTATTTTTATT
30030 ATATTATTTTTAT
1 ATATTATTTTTAT
30043 ATTTATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATATTATTTTTATT
Found at i:30057 original size:20 final size:20
Alignment explanation
Indices: 30019--30057 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30009 ATATATAATA
* * *
30019 TTATTTTTATTATATTATTT
1 TTATATTTATTAAAGTATTT
30039 TTATATTTATTAAAGTATT
1 TTATATTTATTAAAGTATT
30058 ATATTTATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TTATATTTATTAAAGTATTT
Found at i:33851 original size:22 final size:22
Alignment explanation
Indices: 33821--33863 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
33811 CCTCTAATGT
33821 AGTTCAATTGGAATCATGGTTG
1 AGTTCAATTGGAATCATGGTTG
*
33843 AGTTTAATTGGAATCATGGTT
1 AGTTCAATTGGAATCATGGTT
33864 AGAAAAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (22 bp):
AGTTCAATTGGAATCATGGTTG
Found at i:35383 original size:14 final size:15
Alignment explanation
Indices: 35359--35387 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35349 TATCTGCAAA
35359 CAAAAAGTAAAAAAT
1 CAAAAAGTAAAAAAT
35374 CAAAAA-TAAAAAAT
1 CAAAAAGTAAAAAAT
35388 AATTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (15 bp):
CAAAAAGTAAAAAAT
Found at i:35405 original size:16 final size:17
Alignment explanation
Indices: 35376--35419 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
35366 TAAAAAATCA
*
35376 AAAATAAAAAATAAT-T
1 AAAATATAAAATAATAT
*
35392 AAAATATAATATAATAT
1 AAAATATAAAATAATAT
35409 AAATATATAAA
1 AAA-ATATAAA
35420 CGTCTCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 13 0.57
17 4 0.17
18 6 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATAAAATAATAT
Found at i:36344 original size:27 final size:27
Alignment explanation
Indices: 36313--36405 Score: 82
Period size: 31 Copynumber: 3.3 Consensus size: 27
36303 TAATTATGTG
*
36313 ATATAAATATAAAATTAAAAAATTAAA
1 ATATAAATATAAAATTAAAAAATTATA
* *
36340 ATAT-AATATAAAAATAATATTAA-TATA
1 ATATAAATATAAAATTAA-A-AAATTATA
*
36367 ATATAAATAAAGAAATATATAAAAATATATA
1 ATATAAATATA-AAAT-TA-AAAAAT-TATA
36398 ATATAAAT
1 ATATAAAT
36406 TATTAATATA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
26 12 0.23
27 12 0.23
28 7 0.13
29 5 0.10
30 3 0.06
31 13 0.25
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (27 bp):
ATATAAATATAAAATTAAAAAATTATA
Found at i:36445 original size:20 final size:20
Alignment explanation
Indices: 36384--36445 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 20
36374 TAAAGAAATA
*
36384 TATAAAAATATATAATATAAAT
1 TATAAAAATATATAAT-T-ATT
* * *
36406 TATTAATATAT-TAAAT-TT
1 TATAAAAATATATAATTATT
36424 TATAAAAATATATAATTATT
1 TATAAAAATATATAATTATT
36444 TA
1 TA
36446 AATGTAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 10 0.32
19 4 0.13
20 5 0.16
21 3 0.10
22 9 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAAAAATATATAATTATT
Found at i:36446 original size:27 final size:27
Alignment explanation
Indices: 36402--36483 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 27
36392 TATATAATAT
*
36402 AAAT-TATTAATATATTAAATTTTATAA
1 AAATATATAAATAT-TTAAATTTTATAA
* * * *
36429 AAATATATAATTATTTAAATGTAATTA
1 AAATATATAAATATTTAAATTTTATAA
* * *
36456 TAATATATAAATATATAAA-TATATAA
1 AAATATATAAATATTTAAATTTTATAA
36482 AA
1 AA
36484 TTATCAATAT
Statistics
Matches: 41, Mismatches: 13, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
26 4 0.10
27 30 0.73
28 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
AAATATATAAATATTTAAATTTTATAA
Found at i:36470 original size:8 final size:8
Alignment explanation
Indices: 36313--36482 Score: 86
Period size: 8 Copynumber: 20.9 Consensus size: 8
36303 TAATTATGTG
36313 ATATAAAT
1 ATATAAAT
36321 ATA-AAAT
1 ATATAAAT
*
36328 -TA-AAAA
1 ATATAAAT
36334 AT-TAAA-
1 ATATAAAT
36340 ATAT-AAT
1 ATATAAAT
*
36347 ATAAAAAT
1 ATATAAAT
36355 AATATTAATAT
1 -ATA-TAA-AT
36366 AATATAAAT
1 -ATATAAAT
* *
36375 AAAGAAAT
1 ATATAAAT
*
36383 ATATAAAA
1 ATATAAAT
*
36391 ATATATA-
1 ATATAAAT
36398 ATATAAAT
1 ATATAAAT
*
36406 -TATTAAT
1 ATATAAAT
36413 ATATTAAATTTT
1 ATA-TAAA---T
*
36425 ATAAAAAT
1 ATATAAAT
*
36433 ATATAATT
1 ATATAAAT
*
36441 ATTTAAAT
1 ATATAAAT
*
36449 GTAATTATAAT
1 AT-A-TA-AAT
36460 ATATAAAT
1 ATATAAAT
36468 ATATAAAT
1 ATATAAAT
36476 ATATAAA
1 ATATAAA
36483 ATTATCAATA
Statistics
Matches: 125, Mismatches: 20, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
6 9 0.07
7 24 0.19
8 57 0.46
9 10 0.08
10 8 0.06
11 13 0.10
12 4 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:36852 original size:22 final size:21
Alignment explanation
Indices: 36827--36894 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
36817 AAATAATATC
36827 ATATATAATATTATATATTTAA
1 ATATATAATATTAT-TATTTAA
* *
36849 ATATAATTAATATAATTTTTTAA
1 ATAT-A-TAATATTATTATTTAA
* *
36872 TATATATTATATTTTTATTTAA
1 -ATATATAATATTATTATTTAA
36894 A
1 A
36895 ATTTTAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.03
22 16 0.43
23 8 0.22
24 12 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATATAATATTATTATTTAA
Found at i:36854 original size:20 final size:20
Alignment explanation
Indices: 36829--36888 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
36819 ATAATATCAT
*
36829 ATATAATATTATATATTTAA
1 ATATAATATTATATTTTTAA
* *
36849 ATATAATTAATATAATTTTTTA
1 ATATAA-TATTAT-ATTTTTAA
36871 ATAT-ATATTATATTTTTA
1 ATATAATATTATATTTTTA
36889 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 6 0.18
22 10 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATAATATTATATTTTTAA
Found at i:37106 original size:18 final size:18
Alignment explanation
Indices: 37085--37137 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
37075 TTTGGTATAT
37085 AATATTTTTTAAAAAATA
1 AATATTTTTTAAAAAATA
* *
37103 AATATTTTTTAATTAATTA
1 AATATTTTTTAA-AAAATA
**
37122 CCTATTTTTTAAAAAA
1 AATATTTTTTAAAAAA
37138 ATATTTATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTTTTAAAAAATA
Found at i:37646 original size:9 final size:9
Alignment explanation
Indices: 37632--37705 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
37622 ATATATAAAT
37632 TTAAAAAAA
1 TTAAAAAAA
*
37641 TTAAAAGAA
1 TTAAAAAAA
*
37650 TT-AAATAA
1 TTAAAAAAA
*
37658 TATAAATAAA
1 T-TAAAAAAA
37668 TTAATAAGATAA
1 TTAA-AA-A-AA
*
37680 TATGAAAAAA
1 T-TAAAAAAA
37690 TTAAAAATAA
1 TTAAAAA-AA
37700 TTAAAA
1 TTAAAA
37706 TATTTAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
8 6 0.12
9 19 0.37
10 17 0.33
11 2 0.04
12 5 0.10
13 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:37679 original size:22 final size:19
Alignment explanation
Indices: 37621--37705 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 19
37611 ATTCATGTTA
* *
37621 AATATATAAATTTAAAAA-
1 AATATAAAAAATTAAAAAT
37639 AAT-TAAAAGAATT--AAAT
1 AATATAAAA-AATTAAAAAT
37656 AATATAAATAAATTAATAAGAT
1 AATATAAA-AAATTAA-AA-AT
37678 AATATGAAAAAATTAAAAAT
1 AATAT-AAAAAATTAAAAAT
37698 AAT-TAAAA
1 AATATAAAA
37706 TATTTAATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
16 3 0.05
17 7 0.12
18 18 0.32
19 2 0.04
20 5 0.09
21 4 0.07
22 14 0.25
23 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
AATATAAAAAATTAAAAAT
Found at i:38371 original size:3 final size:3
Alignment explanation
Indices: 38363--38391 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38353 ATCAAGTTAA
38363 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
38392 GTACAGTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:38653 original size:18 final size:18
Alignment explanation
Indices: 38604--38657 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
38594 GAAAACTTAA
38604 AATATTATATTT-TATTTT
1 AATA-TATATTTATATTTT
*
38622 -TTA-ATA-TTACTATTTT
1 AATATATATTTA-TATTTT
38638 AATATATATTTATATTTT
1 AATATATATTTATATTTT
38656 AA
1 AA
38658 ACTTAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 2 0.07
15 3 0.10
16 6 0.21
17 4 0.14
18 11 0.38
19 3 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
AATATATATTTATATTTT
Found at i:38810 original size:22 final size:22
Alignment explanation
Indices: 38750--38829 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 22
38740 GTAGGTATTA
*
38750 TATTTAAAAATATATTATTAATAAT
1 TATTTAAAAATA-ATTATT--TTAT
38775 T-TTTAAAAAT-ATTATTTTAT
1 TATTTAAAAATAATTATTTTAT
*
38795 TATTTAAATATAATTATTTTAATT
1 TATTTAAAAATAATTATTTT-A-T
*
38819 TATTTATAAAT
1 TATTTAAAAAT
38830 TTTTTTACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
20 4 0.09
21 8 0.17
22 14 0.30
23 1 0.02
24 19 0.40
25 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTAAAAATAATTATTTTAT
Found at i:39157 original size:60 final size:62
Alignment explanation
Indices: 39046--39209 Score: 228
Period size: 61 Copynumber: 2.7 Consensus size: 62
39036 CAAAAACCCA
* * * * *
39046 AATTTT-CAACTTAATTTAAAATAAAAAATATATATATAAGTTTATTCAATTATTAAAATATT
1 AATTTTCCAA-TTAAATTAAAATAAAAAATAAATATATAAATTTACTAAATTATTAAAATATT
*
39108 -ATTTTCCAATTAAATTAAAAT-AAAAATAAATATATAAATTTACTAAATTATTAAAATTTT
1 AATTTTCCAATTAAATTAAAATAAAAAATAAATATATAAATTTACTAAATTATTAAAATATT
*
39168 AATTTTCCAATTAAATTAAAATAAAAAATAAATA-AAAAATTT
1 AATTTTCCAATTAAATTAAAATAAAAAATAAATATATAAATTT
39210 TTAAATAGAG
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
60 34 0.37
61 44 0.48
62 14 0.15
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (62 bp):
AATTTTCCAATTAAATTAAAATAAAAAATAAATATATAAATTTACTAAATTATTAAAATATT
Found at i:42561 original size:16 final size:16
Alignment explanation
Indices: 42540--42573 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42530 TTTTTTGAAT
*
42540 ATTTTTTATTTCTTTA
1 ATTTTTAATTTCTTTA
*
42556 ATTTTTAATTTTTTTA
1 ATTTTTAATTTCTTTA
42572 AT
1 AT
42574 ATATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTAATTTCTTTA
Found at i:43171 original size:42 final size:43
Alignment explanation
Indices: 43125--44241 Score: 837
Period size: 42 Copynumber: 25.8 Consensus size: 43
43115 GCCTATAAGG
* * *
43125 TCAAAGCCGACAGGCAGAATTAGGAAATAAAAGTCTCCA-GGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* *
43167 TCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * * *
43210 -CGAAGCCGACAGGCATACTAAGCG-ATGAAAAGTCTCTAGGGA
1 TCAAAGCCGACAGGCAGACTAAG-GAAAGAAAAGTCTCCAGGGA
* * * * *
43252 -CGAAGCCGACAGGCATACTAAGGGAAGGAAAGTCTCTAGGG-
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * * * *
43293 GCAAAACCGATAGGCAGACTAAAGAAAGAAAAGTCTCCA-AGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * ***
43335 TCAAAGCCGACAGACAGACTGAGGGTTGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * *
43378 -CGAAGCCGTCAGGCAGACTAAGGAAAGGAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * *
43420 T-GAAGCCGACAGGCAGACTAAAGAAAGAAAAGTCTCCAAGG-
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * **
43461 TCAAAGCCGATAGACAGACTGAAGG-TTGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACT-AAGGAAAGAAAAGTCTCCAGGGA
*
43504 -CAAAGCCGACAGGTAGACTAAGGGAAGGAAAGAAAAGTCTCCAGGG-
1 TCAAAGCCGACAGGCAGACT-----AAGGAAAGAAAAGTCTCCAGGGA
* ***
43550 TCAAAGCCGACAGGCAGACTGAGGGTTGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * *
43593 -CGAAGCCGACAGGTAAACTAAGGGAAAG-AAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAA-GGAAAGAAAAGTCTCCAGGGA
* *
43635 ACGAAA-CCGACAAGCAGACTAAGGGAAGGAAAGAAAAGTCTCCAGGG-
1 TC-AAAGCCGACAGGCAGACT-----AAGGAAAGAAAAGTCTCCAGGGA
* * * ***
43682 TCAAAGCCGATAGGCAGATTGAGGGTTGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * *
43725 -CGAAGCCGACAGGTAGACTAAGGGAAAG-AAAGTCTCTAGGGA
1 TCAAAGCCGACAGGCAGACTAA-GGAAAGAAAAGTCTCCAGGGA
* * * * * *
43767 ACGAAGCTGACAAGCAGACTAAGGGAAGGAAAGAAGAGTCTCCAGAG-
1 TCAAAGCCGACAGGCAGACT-----AAGGAAAGAAAAGTCTCCAGGGA
***
43814 TCAAAGCCGACAGGCAGACTAAGGGTTGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* *
43857 -CGAAGCCGACAGGTAGACTAAGGGAAGGAAAGAAAAGTCTCCAGGG-
1 TCAAAGCCGACAGGCAGACT-----AAGGAAAGAAAAGTCTCCAGGGA
* * ***
43903 TCAAAGCCGACAAGCAGACTGAGGGTTGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * * * *
43946 -CGAAGCCGATAGGTAGACTAAGGGAAGGAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * * *
43988 ACGAAGCCGACAAGCTGACTAAAGGAAGGAAAGAAAAGTCTCCAGGG-
1 TCAAAGCCGACAGGCAGACT-----AAGGAAAGAAAAGTCTCCAGGGA
* *** *
44035 TCAAAGCCGACAGGCAGACTGAGGGTTGAAAAGTCTCTAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * *
44078 T-GAAGCCGATAGGTAGACTAAAGGAAGGAAAGAAAAGTCTCCAGGG-
1 TCAAAGCCGACAGGCAGACT-----AAGGAAAGAAAAGTCTCCAGGGA
* ***
44124 TCAAAGCCGACAGGCAGACTGAGGGTTGAAAAGTCTCCAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * * * *
44167 ACGAAGCCGACAAGCAGACTAAAGAAAGAAAAGTCTCTAGGGA
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
* * * * *
44210 -CGAAGTCGACAGGTAGACTAAGGGAAGGAAAG
1 TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAG
44242 AAAAGTCATC
Statistics
Matches: 851, Mismatches: 166, Indels: 116
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.00
42 541 0.64
43 93 0.11
44 2 0.00
46 9 0.01
47 156 0.18
48 47 0.06
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.12
Consensus pattern (43 bp):
TCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGA
Found at i:43697 original size:132 final size:132
Alignment explanation
Indices: 43146--44234 Score: 904
Period size: 132 Copynumber: 8.4 Consensus size: 132
43136 AGGCAGAATT
* *
43146 AGGAAATAAAAGTCTCCAGGATCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* * * * * * *
43211 GAAGCCGACAGGCATACTAAGCG-ATGAAAAGTCTCTAGGGACGAAGCCGACAGGCATACTAAGG
66 GAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGGACGAAACCGACAAGCAGACTAAGG
43275 GA
131 GA
* * * * * * * *
43277 A-G---G-AAAGTCTCTAGGGGCAAAACCGATAGGCAGACTAAAGAAAGAAAAGTCTCCA-AGAT
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGA-
* * * ** * * *
43336 CAAAGCCGACAGACAGACTGAGGG-TTGAAAAGTCTCCAGGGACGAAGCCGTCAGGCAGACT---
65 CGAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGGACGAAACCGACAAGCAGACTAAG
43397 --A
130 GGA
* * * * * * *
43398 AGGAAAGGAAAGTCTCCAGGGAT-GAAGCCGACAGGCAGACTAAAGAAAGAAAAGTCTCCAAGGT
1 AGGAAAGAAAAGTCTCCAGGG-TCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGA
* * * ** * *
43462 CAAAGCCGATAGACAGACTGAA-GG-TTGAAAAGTCTCCAGGGAC-AAAGCCGACAGGTAGACTA
65 CGAAGCCGACAGGCAGACT-AAGGGAAAGAAAAGTCTCCAGGGACGAAA-CCGACAAGCAGACTA
43524 AGGGA
128 AGGGA
* *
43529 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTTGAAAAGTCTCCAGGGAC
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* *
43594 GAAGCCGACAGGTAAACTAAGGGAAAG-AAAGTCTCCAGGGAACGAAACCGACAAGCAGACTAAG
66 GAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGG-ACGAAACCGACAAGCAGACTAAG
43658 GGA
130 GGA
* * * *
43661 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGATAGGCAGATTGAGGGTTGAAAAGTCTCCAGGGAC
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* * * *
43726 GAAGCCGACAGGTAGACTAAGGGAAAG-AAAGTCTCTAGGGAACGAAGCTGACAAGCAGACTAAG
66 GAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGG-ACGAAACCGACAAGCAGACTAAG
43790 GGA
130 GGA
* * *
43793 AGGAAAGAAGAGTCTCCAGAGTCAAAGCCGACAGGCAGACTAAGGGTTGAAAAGTCTCCAGGGAC
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* *
43858 GAAGCCGACAGGTAGACTAAGGGAAGGAAAGAAAAGTCTCCAGGGTC-AAAGCCGACAAGCAGAC
66 GAAGCCGACAGGCAGACTAA--G--GGAAAGAAAAGTCTCCAGGGACGAAA-CCGACAAGCAGAC
43922 T----G-
126 TAAGGGA
*** * * * * * *
43924 AGGGTTGAAAAGTCTCCAGGGACGAAGCCGATAGGTAGACTAAGGGAAGGAAAGTCTCCAGGGAA
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGG-A
* * * *
43989 CGAAGCCGACAAGCTGACTAAAGGAAGGAAAGAAAAGTCTCCAGGGTC-AAAGCCGACAGGCAGA
65 CGAAGCCGACAGGCAGACT-AA-G--GGAAAGAAAAGTCTCCAGGGACGAAA-CCGACAAGCAGA
44053 CT----G-
125 CTAAGGGA
*** * * * * *
44056 AGGGTTGAAAAGTCTCTAGGGAT-GAAGCCGATAGGTAGACTAAAGGAAGGAAAGAAAAGTCTCC
1 AGGAAAGAAAAGTCTCCAGGG-TCAAAGCCGACAGGCAGACT-AA-G--GG-ATGAAAAGTCTCC
* * * ** *
44120 AGGGTCAAAGCCGACAGGCAGACTGAGGG-TTGAAAAGTCTCCAGGGAACGAAGCCGACAAGCAG
60 AGGGACGAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGG-ACGAAACCGACAAGCAG
44184 ACT-A---A
124 ACTAAGGGA
* * * * *
44189 A-GAAAGAAAAGTCTCTAGGGACGAAGTCGACAGGTAGACTAAGGGA
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA
44235 AGGAAAGAAA
Statistics
Matches: 820, Mismatches: 99, Indels: 82
0.82 0.10 0.08
Matches are distributed among these distances:
121 2 0.00
122 1 0.00
125 5 0.01
126 193 0.24
127 3 0.00
128 2 0.00
130 5 0.01
131 152 0.19
132 375 0.46
133 10 0.01
134 3 0.00
135 3 0.00
136 38 0.05
137 28 0.03
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.12
Consensus pattern (132 bp):
AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
GAAGCCGACAGGCAGACTAAGGGAAAGAAAAGTCTCCAGGGACGAAACCGACAAGCAGACTAAGG
GA
Found at i:43877 original size:221 final size:221
Alignment explanation
Indices: 43146--44281 Score: 1239
Period size: 221 Copynumber: 5.2 Consensus size: 221
43136 AGGCAGAATT
* *
43146 AGGAAATAAAAGTCTCCAGGATCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* * * * * * * *
43211 GAAGCCGACAGGCATACTAA-G--CG-ATGAAAAGTCTCTAGGGACGAAGCCGACAGGCATACTA
66 GAAGCCGACAGGCAGACTAAGGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTG
** * * * * * * * * *
43272 AGGGAAGGAAAGTCTCTAGGGGCAAAACCGATAGGCAGACTAA-AGAAAGAAAAGTCTCCA-AGA
131 AGGGTTGAAAAGTCTCCAGGGACGAAGCCGACAGGTAGACTAAGGGAAAGAAAAGTCTCCAGGGA
* *
43335 TCAAAGCCGAC-AGACAGACT----G-
196 ACGAAGCCGACAAG-CAGACTAAGGGA
*** * * * * * * *
43356 AGGGTTGAAAAGTCTCCAGGGACGAAGCCGTCAGGCAGACTAAGGAAAGGAAAGTCTCCAGGGAT
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* * *
43421 GAAGCCGACAGGCAGACT-A--AA-GAAAGAAAAGTCTCCAAGGTCAAAGCCGATAGACAGACTG
66 GAAGCCGACAGGCAGACTAAGGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTG
* *
43482 AAGGTTGAAAAGTCTCCAGGGACAAAGCCGACAGGTAGACTAAGGGAAGGAAAGAAAAGTCTCCA
131 AGGGTTGAAAAGTCTCCAGGGACGAAGCCGACAGGTAGACTAA--G--GGAAAGAAAAGTCTCCA
* * *
43547 GGG-TCAAAGCCGACAGGCAGACT----G-
192 GGGAACGAAGCCGACAAGCAGACTAAGGGA
*** * * * * *
43571 AGGGTTGAAAAGTCTCCAGGGACGAAGCCGACAGGTAAACTAAGGGA-AAGAAAGTCTCCAGGGA
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGA-AAAGTCTCCAGGG-
* * *
43635 ACGAAACCGACAAGCAGACTAAGGGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGATAGGCAGA
64 ACGAAGCCGACAGGCAGACTAA-GGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGA
* *
43700 TTGAGGGTTGAAAAGTCTCCAGGGACGAAGCCGACAGGTAGACTAAGGGAAAG-AAAGTCTCTAG
128 CTGAGGGTTGAAAAGTCTCCAGGGACGAAGCCGACAGGTAGACTAAGGGAAAGAAAAGTCTCCAG
*
43764 GGAACGAAGCTGACAAGCAGACTAAGGGA
193 GGAACGAAGCCGACAAGCAGACTAAGGGA
* * *
43793 AGGAAAGAAGAGTCTCCAGAGTCAAAGCCGACAGGCAGACTAAGGGTTGAAAAGTCTCCAGGGAC
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* *
43858 GAAGCCGACAGGTAGACTAAGGGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACT
66 GAAGCCGACAGGCAGACTAA-GGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT
* *
43923 GAGGGTTGAAAAGTCTCCAGGGACGAAGCCGATAGGTAGACTAAGGG-AAGGAAAGTCTCCAGGG
130 GAGGGTTGAAAAGTCTCCAGGGACGAAGCCGACAGGTAGACTAAGGGAAAGAAAAGTCTCCAGGG
* *
43987 AACGAAGCCGACAAGCTGACTAAAGGA
195 AACGAAGCCGACAAGCAGACTAAGGGA
* * * *
44014 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTTGAAAAGTCTCTAGGGAT
1 AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
* *
44079 GAAGCCGATAGGTAGACTAAAGGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT
66 GAAGCCGACAGGCAGACT-AAGGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT
* * * *
44144 GAGGGTTGAAAAGTCTCCAGGGAACGAAGCCGACAAGCAGACTAA-AGAAAGAAAAGTCTCTAGG
130 GAGGGTTGAAAAGTCTCCAGGG-ACGAAGCCGACAGGTAGACTAAGGGAAAGAAAAGTCTCCAGG
* * *
44208 G-ACGAAGTCGACAGGTAGACTAAGGGA
194 GAACGAAGCCGACAAGCAGACTAAGGGA
* * * *
44235 AGGAAAGAAAAGTCAT-CGGGGTCAAAGCCGATAGGTAAACTAAGGGA
1 AGGAAAGAAAAGTC-TCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA
44282 AAACAAAAAA
Statistics
Matches: 798, Mismatches: 99, Indels: 47
0.85 0.10 0.05
Matches are distributed among these distances:
209 2 0.00
210 133 0.17
215 90 0.11
216 31 0.04
217 23 0.03
219 1 0.00
220 5 0.01
221 425 0.53
222 87 0.11
223 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.31, T:0.12
Consensus pattern (221 bp):
AGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGAC
GAAGCCGACAGGCAGACTAAGGAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTG
AGGGTTGAAAAGTCTCCAGGGACGAAGCCGACAGGTAGACTAAGGGAAAGAAAAGTCTCCAGGGA
ACGAAGCCGACAAGCAGACTAAGGGA
Found at i:56815 original size:16 final size:15
Alignment explanation
Indices: 56789--56819 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
56779 TAAAAAAAGA
56789 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
56804 ATTTTGTTATTATTTT
1 ATTTT-TTATTATTTT
56820 TATGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:57988 original size:16 final size:16
Alignment explanation
Indices: 57967--58000 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57957 TTTTTTGAAT
*
57967 ATTTTTTATTTATTTA
1 ATTTTTAATTTATTTA
*
57983 ATTTTTAATTTTTTTA
1 ATTTTTAATTTATTTA
57999 AT
1 AT
58001 ATATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTAATTTATTTA
Found at i:57989 original size:15 final size:15
Alignment explanation
Indices: 57969--58014 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
57959 TTTTGAATAT
*
57969 TTTTTATTTATTTAA
1 TTTTTATTTTTTTAA
57984 TTTTTAATTTTTTTAA
1 TTTTT-ATTTTTTTAA
* *
58000 TATATATTTTTTTAA
1 TTTTTATTTTTTTAA
58015 AAAAATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTATTTTTTTAA
Found at i:58463 original size:9 final size:9
Alignment explanation
Indices: 58424--58485 Score: 60
Period size: 9 Copynumber: 7.1 Consensus size: 9
58414 TGAAAGAAAT
58424 TTATATTTA
1 TTATATTTA
*
58433 -TAAATTTA
1 TTATATTTA
58441 TGTAT-TTATA
1 T-TATATT-TA
58451 TTATATTTA
1 TTATATTTA
58460 TTATATTTA
1 TTATATTTA
*
58469 ATATA-TTA
1 TTATATTTA
58477 -TATATTTA
1 TTATATTTA
58485 T
1 T
58486 AAAAATTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.09
8 13 0.30
9 20 0.45
10 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TTATATTTA
Found at i:58480 original size:16 final size:17
Alignment explanation
Indices: 58425--58484 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 17
58415 GAAAGAAATT
*
58425 TATATTT-ATAAATTTA
1 TATATTTAATATATTTA
*
58441 TGTATTTATATTATATTTA
1 TATATTTA-A-TATATTTA
58460 TTATATTTAATATA-TTA
1 -TATATTTAATATATTTA
58477 TATATTTA
1 TATATTTA
58485 TAAAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 14 0.38
17 3 0.08
18 5 0.14
19 8 0.22
20 7 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TATATTTAATATATTTA
Found at i:58510 original size:16 final size:16
Alignment explanation
Indices: 58447--58510 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
58437 TTTATGTATT
*
58447 TATATT-ATATTTATTA
1 TATATTAATAATT-TTA
*
58463 TAT-TTAATATATTATA
1 TATATTAATA-ATTTTA
* *
58479 TATTTATAAAAATTTTA
1 TATAT-TAATAATTTTA
58496 TATATTAATAATTTT
1 TATATTAATAATTTT
58511 TATTATATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.05
16 20 0.53
17 12 0.32
18 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTAATAATTTTA
Found at i:58514 original size:13 final size:13
Alignment explanation
Indices: 58496--58573 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 13
58486 AAAAATTTTA
58496 TATATTAATAATT
1 TATATTAATAATT
*
58509 TTTATTATATAAATT
1 TATATTA-AT-AATT
58524 TATATT-AT-ATT
1 TATATTAATAATT
*
58535 TATATTAATTATT
1 TATATTAATAATT
* *
58548 TATAATATTATATTT
1 TAT-AT-TAATAATT
58563 TATATT-ATAAT
1 TATATTAATAAT
58574 CGTATCATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
11 9 0.17
12 6 0.11
13 15 0.28
14 6 0.11
15 17 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATATTAATAATT
Found at i:58529 original size:15 final size:15
Alignment explanation
Indices: 58420--58533 Score: 54
Period size: 18 Copynumber: 7.0 Consensus size: 15
58410 ATGCTGAAAG
58420 AAATTTATATT-TAT
1 AAATTTATATTATAT
58434 AAATTTATGTATTTATATT
1 AAATTTA--TA-TTATA-T
* *
58453 ATATTTATTATATTTAAT
1 AAATTTA-TAT-TAT-AT
* *
58471 ATATTATATATTTATAA
1 AAATT-TATA-TTATAT
58488 AAATTT-TA-TATATT
1 AAATTTATATTATA-T
*
58502 AATAATTTTTATTATAT
1 -A-AATTTATATTATAT
58519 AAATTTATATTATAT
1 AAATTTATATTATAT
58534 TTATATTAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 27
0.69 0.07 0.24
Matches are distributed among these distances:
13 4 0.05
14 7 0.09
15 16 0.21
16 9 0.12
17 11 0.14
18 20 0.26
19 11 0.14
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (15 bp):
AAATTTATATTATAT
Found at i:58539 original size:39 final size:39
Alignment explanation
Indices: 58444--58571 Score: 106
Period size: 39 Copynumber: 3.3 Consensus size: 39
58434 AAATTTATGT
58444 ATTTATATTATA-TT-TATT-AT-ATTTA-ATATATTATA
1 ATTTATATTATATTTATATTAATAATTTATA-ATATTATA
** * * *
58479 TATTTATAAAAATTTTATATATTAATAATTTTTATTA-TATAA
1 -ATTTAT-ATTATATT-TATATTAATAATTTATAATATTAT-A
*
58521 ATTTATATTATATTTATATTAATTATTTATAATATTATA
1 ATTTATATTATATTTATATTAATAATTTATAATATTATA
*
58560 TTTTATATTATA
1 ATTTATATTATA
58572 ATCGTATCAT
Statistics
Matches: 71, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
36 6 0.08
37 3 0.04
38 1 0.01
39 30 0.42
40 12 0.17
41 11 0.15
42 7 0.10
43 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (39 bp):
ATTTATATTATATTTATATTAATAATTTATAATATTATA
Found at i:58565 original size:52 final size:50
Alignment explanation
Indices: 58447--58565 Score: 118
Period size: 52 Copynumber: 2.3 Consensus size: 50
58437 TTTATGTATT
*
58447 TATATTATA-TTTATTATATTTAATATATTATATATTTATAAAAATTTTA
1 TATATTATATTTTATTATATTAAATATATTATATATTTATAAAAATTTTA
* * *
58496 TATATTAATAATTTTTATTATA-TAAATTTA-TATTATATTTATATTAATTATTTA
1 TATATT-AT-A-TTTTATTATATTAAATATATTA-TATATTTATA-AAAAT-TTTA
58550 TAATATTATATTTTAT
1 T-ATATTATATTTTAT
58566 ATTATAATCG
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
49 6 0.10
50 2 0.03
51 3 0.05
52 22 0.38
53 13 0.22
54 7 0.12
55 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (50 bp):
TATATTATATTTTATTATATTAAATATATTATATATTTATAAAAATTTTA
Found at i:59273 original size:19 final size:18
Alignment explanation
Indices: 59245--59284 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
59235 GTAATTAATT
59245 TTATTATTTAAATAAATA
1 TTATTATTTAAATAAATA
*
59263 TTATATATTTAAATATATA
1 TTAT-TATTTAAATAAATA
59282 TTA
1 TTA
59285 ATTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTATTTAAATAAATA
Found at i:59676 original size:33 final size:34
Alignment explanation
Indices: 59625--59691 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
59615 GTAACATATA
*
59625 AATATATTAAAATCTATAT-AAA-ATAAATTATT
1 AATATATCAAAATCTATATGAAATATAAATTATT
* *
59657 AATATTATCAAAATTTATATGAAATATATATTATT
1 AATA-TATCAAAATCTATATGAAATATAAATTATT
59692 TTGAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 4 0.14
33 13 0.45
34 3 0.10
35 9 0.31
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (34 bp):
AATATATCAAAATCTATATGAAATATAAATTATT
Found at i:63027 original size:2 final size:2
Alignment explanation
Indices: 63020--63046 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63010 AGTCAAAAAT
63020 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
63047 CTACTCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63645 original size:27 final size:24
Alignment explanation
Indices: 63582--63645 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
63572 TTTAAAGCTA
*
63582 ATTA-ATTTATTATTTATAATAAT
1 ATTATATTAATTATTTATAATAAT
63605 ATTATATTAA--ATTTAGTAATTAAT
1 ATTATATTAATTATTTA-TAA-TAAT
*
63629 AATTTTATTAATTATTT
1 -ATTATATTAATTATTT
63646 TCAAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 5 0.15
23 7 0.21
24 8 0.24
25 9 0.27
27 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTATATTAATTATTTATAATAAT
Found at i:63759 original size:3 final size:3
Alignment explanation
Indices: 63753--63780 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
63743 TTATTATTAT
63753 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
63781 GGTGGTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:63942 original size:5 final size:5
Alignment explanation
Indices: 63932--63973 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
63922 ATCATATATG
63932 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
63974 GAATCATACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:65523 original size:2 final size:2
Alignment explanation
Indices: 65516--65565 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
65506 TTGAAGAAAT
65516 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
65558 TA GA TA TA
1 TA TA TA TA
65566 ATGATAGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:67913 original size:6 final size:6
Alignment explanation
Indices: 67902--68061 Score: 285
Period size: 6 Copynumber: 27.5 Consensus size: 6
67892 AGCATCTTAT
67902 TGTGCG TGTGCG TGTGCG TGT--G -GTGCG TGTGCG TGTGCG TGTGCG
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
67947 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
67995 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
68043 TGTGC- -GTGCG TGTGCG TGT
1 TGTGCG TGTGCG TGTGCG TGT
68062 TAAACTTTGG
Statistics
Matches: 149, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
3 2 0.01
4 5 0.03
5 1 0.01
6 141 0.95
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
TGTGCG
Found at i:71098 original size:13 final size:13
Alignment explanation
Indices: 71080--71107 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
71070 TTAGGTATAT
71080 ATAGATAGAGTGC
1 ATAGATAGAGTGC
71093 ATAGATAGAGTGC
1 ATAGATAGAGTGC
71106 AT
1 AT
71108 CAAAAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.29, T:0.25
Consensus pattern (13 bp):
ATAGATAGAGTGC
Found at i:73282 original size:12 final size:12
Alignment explanation
Indices: 73265--73295 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
73255 ATAAAAAATT
73265 AATATTTTGATA
1 AATATTTTGATA
*
73277 AATATTTTTATA
1 AATATTTTGATA
73289 AATATTT
1 AATATTT
73296 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (12 bp):
AATATTTTGATA
Found at i:73577 original size:18 final size:18
Alignment explanation
Indices: 73555--73602 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
73545 ATATTTTATT
*
73555 AAAAATTGATATT-ATTTA
1 AAAAATTAAT-TTAATTTA
73573 AAAAA-TAATTTAATTTA
1 AAAAATTAATTTAATTTA
73590 AAAAA-TAATTTAA
1 AAAAATTAATTTAA
73603 ATTATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 21 0.75
18 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAAATTAATTTAATTTA
Found at i:73605 original size:18 final size:17
Alignment explanation
Indices: 73568--73602 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
73558 AATTGATATT
73568 ATTTAAAAAATAATTTA
1 ATTTAAAAAATAATTTA
73585 ATTTAAAAAATAATTTA
1 ATTTAAAAAATAATTTA
73602 A
1 A
73603 ATTATATATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAAAAATAATTTA
Found at i:73700 original size:34 final size:36
Alignment explanation
Indices: 73657--73728 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 36
73647 AAAACTATAA
*
73657 AATTATTTTAAA-ATTACAAAT-TTGAATATATA-ATT
1 AATTATTTTAAATA-TA-AAATATTAAATATATATATT
73692 AATT-TTTTAAATATAAAATATTAAATATATATATT
1 AATTATTTTAAATATAAAATATTAAATATATATATT
73727 AA
1 AA
73729 AATATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 4 0.12
34 19 0.58
35 10 0.30
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (36 bp):
AATTATTTTAAATATAAAATATTAAATATATATATT
Found at i:73752 original size:36 final size:33
Alignment explanation
Indices: 73663--73752 Score: 83
Period size: 37 Copynumber: 2.6 Consensus size: 33
73653 ATAAAATTAT
* *
73663 TTTAAAAT-TACAAATTTGAATATATAATTAATT
1 TTTAAAATATA-AAATTTAAATATATAATTAATA
*
73696 TTTTAAATATAAAATATTAAATATATATATTAAAATA
1 TTTAAAATATAAAAT-TTAAATATATA-ATT--AATA
* *
73733 TTTAAAATCTGAAATTTAAA
1 TTTAAAATATAAAATTTAAA
73753 AAAATTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
33 11 0.24
34 12 0.26
35 3 0.07
36 5 0.11
37 15 0.33
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (33 bp):
TTTAAAATATAAAATTTAAATATATAATTAATA
Found at i:75617 original size:17 final size:15
Alignment explanation
Indices: 75576--75619 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
75566 TTTCTAATAT
75576 TTTTTAA-AATTTAA
1 TTTTTAATAATTTAA
75590 TTTTTAATAATTTAA
1 TTTTTAATAATTTAA
*
75605 TATGTTTATTAATTT
1 T-T-TTTAATAATTT
75620 TTAGAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.27
15 8 0.31
16 1 0.04
17 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTTTAATAATTTAA
Found at i:76970 original size:23 final size:23
Alignment explanation
Indices: 76941--76988 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
76931 CATAAAGCCA
76941 TTAAGC-AAACTTTTAACATAAAT
1 TTAAGCAAAAC-TTTAACATAAAT
*
76964 TTAAGCAAAACTTTAATATAAAT
1 TTAAGCAAAACTTTAACATAAAT
76987 TT
1 TT
76989 TATTTAGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (23 bp):
TTAAGCAAAACTTTAACATAAAT
Found at i:80985 original size:21 final size:22
Alignment explanation
Indices: 80957--81018 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 22
80947 ATATATAATA
80957 ATAA-TATATTTTTTTAATTTT
1 ATAATTATATTTTTTTAATTTT
80978 -TAATTATATTTTTTTTAATTTT
1 ATAATTATA-TTTTTTTAATTTT
81000 ATAATTATATATATTTTTA
1 ATAATTATAT-T-TTTTTA
81019 TACCCTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.08
21 4 0.11
22 14 0.39
23 9 0.25
24 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATAATTATATTTTTTTAATTTT
Found at i:80986 original size:23 final size:24
Alignment explanation
Indices: 80954--81018 Score: 98
Period size: 23 Copynumber: 2.8 Consensus size: 24
80944 TATATATATA
*
80954 ATAATAATATATTTTTTTAATTTT
1 ATAATTATATATTTTTTTAATTTT
80978 -TAATTATAT-TTTTTTTAATTTT
1 ATAATTATATATTTTTTTAATTTT
*
81000 ATAATTATATATATTTTTA
1 ATAATTATATATTTTTTTA
81019 TACCCTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.35
23 17 0.46
24 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
ATAATTATATATTTTTTTAATTTT
Found at i:81082 original size:2 final size:2
Alignment explanation
Indices: 81075--81101 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
81065 TTAAGCCTAT
81075 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
81102 TTGATCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87008 original size:5 final size:5
Alignment explanation
Indices: 87000--87027 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
86990 TCTTAAAAAA
87000 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
87028 TAGCTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:87179 original size:16 final size:16
Alignment explanation
Indices: 87154--87270 Score: 61
Period size: 16 Copynumber: 7.3 Consensus size: 16
87144 ATCTTAAAAA
87154 TTTA-TATATTTATAT
1 TTTATTATATTTATAT
87169 TTTATTATA-TTATAAT
1 TTTATTATATTTAT-AT
* **
87185 TATATT-TA-AAATAT
1 TTTATTATATTTATAT
87199 TTTA-TAT-TTTAT-T
1 TTTATTATATTTATAT
87212 TTATAATTATATTTAAAATAT
1 TT-T-ATTATATTT---ATAT
*
87233 TTTA-TATATATATAATT
1 TTTATTATATTTAT-A-T
*
87250 TTTATTATATTAATAT
1 TTTATTATATTTATAT
87266 TTTAT
1 TTTAT
87271 ATTATATAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 29
0.67 0.08 0.25
Matches are distributed among these distances:
13 4 0.05
14 9 0.12
15 15 0.19
16 21 0.27
17 9 0.12
18 13 0.17
19 1 0.01
20 3 0.04
21 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATTATATTTATAT
Found at i:87221 original size:34 final size:37
Alignment explanation
Indices: 87157--87239 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 37
87147 TTAAAAATTT
87157 ATATATTTATATTTTATTATATTATAATTATATTTAAA
1 ATAT-TTTATATTTTATTATATTATAATTATATTTAAA
87195 ATATTTTATATTTTA-T-T-TTATAATTATATTTAAA
1 ATATTTTATATTTTATTATATTATAATTATATTTAAA
87229 ATATTTTATAT
1 ATATTTTATAT
87240 ATATATAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
34 28 0.62
35 1 0.02
36 1 0.02
37 11 0.24
38 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (37 bp):
ATATTTTATATTTTATTATATTATAATTATATTTAAA
Found at i:87240 original size:18 final size:18
Alignment explanation
Indices: 87185--87272 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 18
87175 ATATTATAAT
87185 TATATTTAAAATATTTTA
1 TATATTTAAAATATTTTA
*** **
87203 TAT-TTTATTTTATAAT-
1 TATATTTAAAATATTTTA
87219 TATATTTAAAATATTTTA
1 TATATTTAAAATATTTTA
* *
87237 TATATATATAAT-TTTTA
1 TATATTTAAAATATTTTA
87254 T-TATATT--AATATTTTA
1 TATAT-TTAAAATATTTTA
87270 TAT
1 TAT
87273 TATATAAATT
Statistics
Matches: 52, Mismatches: 13, Indels: 11
0.68 0.17 0.14
Matches are distributed among these distances:
15 3 0.06
16 12 0.23
17 24 0.46
18 13 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTAAAATATTTTA
Found at i:87283 original size:16 final size:17
Alignment explanation
Indices: 87171--87285 Score: 82
Period size: 16 Copynumber: 7.0 Consensus size: 17
87161 ATTTATATTT
* *
87171 TATTATATTATA-ATTA
1 TATTATATAATATTTTA
*
87187 TATT-TAAAATATTTTA
1 TATTATATAATATTTTA
* ** *
87203 TATTTTATTTTATAATTA
1 TATTATATAATAT-TTTA
*
87221 TATT-TAAAATATTTTA
1 TATTATATAATATTTTA
87237 TA-TATAT-ATAATTTT-
1 TATTATATAAT-ATTTTA
87252 TATTATATTAATATTTTA
1 TATTATA-TAATATTTTA
87270 TATTATATAA-ATTTTA
1 TATTATATAATATTTTA
87286 AAAATATATT
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
15 10 0.13
16 33 0.42
17 19 0.24
18 16 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATATAATATTTTA
Found at i:87291 original size:27 final size:27
Alignment explanation
Indices: 87202--87297 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
87192 AAAATATTTT
87202 ATATTTTAT-TT-TATAATTATATTT-AAA
1 ATATTTTATATTATATAA--AT-TTTAAAA
*
87229 ATATTTTATATATATATAATTTTTATTATATTA
1 ATATTTTATAT-TATATAAATTTTA--A-A--A
87262 ATATTTTATATTATATAAATTTTAAAA
1 ATATTTTATATTATATAAATTTTAAAA
87289 ATATATTTA
1 ATAT-TTTA
87298 AATCAGATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
27 17 0.30
28 6 0.11
29 2 0.04
30 7 0.12
31 1 0.02
32 12 0.21
33 12 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATATTTTATATTATATAAATTTTAAAA
Found at i:87933 original size:22 final size:21
Alignment explanation
Indices: 87889--87927 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
87879 TATTTAATAC
87889 TTATTTAATA-TTAAAATTAT
1 TTATTTAATATTTAAAATTAT
*
87909 TTATTTAATATTTTAAATT
1 TTATTTAATATTTAAAATT
87928 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTAATATTTAAAATTAT
Found at i:87938 original size:22 final size:23
Alignment explanation
Indices: 87894--87947 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
87884 AATACTTATT
*
87894 TAATATTAAAATTATTT-ATTTAA
1 TAAT-TTAAAATTATTTAATTAAA
* * *
87917 TATTTTAAATTTTTTTAATTAAA
1 TAATTTAAAATTATTTAATTAAA
87940 TAATTTAA
1 TAATTTAA
87948 TTCAACCGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATTTAAAATTATTTAATTAAA
Found at i:92215 original size:2 final size:2
Alignment explanation
Indices: 92208--92253 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
92198 ACTATGCAGA
92208 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92250 AT AT
1 AT AT
92254 GCACTTCACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93748 original size:13 final size:13
Alignment explanation
Indices: 93730--93756 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93720 TCGCATAAGC
93730 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
93743 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
93756 A
1 A
93757 GGCTGCCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:95316 original size:21 final size:23
Alignment explanation
Indices: 95292--95340 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 23
95282 CACACCCTTT
95292 TTTTGTATTTCATT-A-ATTAAA
1 TTTTGTATTTCATTAAGATTAAA
*
95313 -TTT-TATTTGATTAAGATTAAA
1 TTTTGTATTTCATTAAGATTAAA
95334 TTTTGTA
1 TTTTGTA
95341 AAAACTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 8 0.35
20 4 0.17
21 6 0.26
22 3 0.13
23 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (23 bp):
TTTTGTATTTCATTAAGATTAAA
Found at i:95325 original size:19 final size:21
Alignment explanation
Indices: 95297--95337 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
95287 CCTTTTTTTG
95297 TATTTCATT-A-ATTAAATTT
1 TATTTCATTAAGATTAAATTT
*
95316 TATTTGATTAAGATTAAATTT
1 TATTTCATTAAGATTAAATTT
95337 T
1 T
95338 GTAAAAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TATTTCATTAAGATTAAATTT
Found at i:97178 original size:22 final size:21
Alignment explanation
Indices: 97153--97193 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
97143 CATTTACATA
97153 TAAATATAAAAAAATATTTTTT
1 TAAATATAAAAAAAT-TTTTTT
*
97175 TAAATATATAAAAATTTTT
1 TAAATATAAAAAAATTTTT
97194 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATAAAAAAATTTTTTT
Found at i:97511 original size:31 final size:33
Alignment explanation
Indices: 97449--97521 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 33
97439 AACTTGTTGA
97449 ATTAAAT-TATGCAATTAAAATATAAATTAAAT
1 ATTAAATATATGCAATTAAAATATAAATTAAAT
*
97481 ATTAAATATATG-ATATTAATAT-TAAA-TAAAT
1 ATTAAATATATGCA-ATTAAAATATAAATTAAAT
97512 ATTAAATATA
1 ATTAAATATA
97522 ACAGTTAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
31 15 0.39
32 12 0.32
33 11 0.29
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (33 bp):
ATTAAATATATGCAATTAAAATATAAATTAAAT
Found at i:100073 original size:79 final size:79
Alignment explanation
Indices: 99978--100170 Score: 257
Period size: 79 Copynumber: 2.4 Consensus size: 79
99968 TATTTTGGAG
* *
99978 ATAAAAATGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAA
1 ATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
*
100043 -TCGATGTTTAGGAA
66 CT-GATGTTTAGAAA
* * *
100057 ATAAAACTAGGGTTGGAGTATTCCCC-C-AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
1 ATAAAACTGGGGTTGGAGTA-TCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCAATTATGAAA
* *
100120 AACTGGTGTTTTGAAA
64 AACTGATGTTTAGAAA
*
100136 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAA
1 ATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAA
100171 AAACATGAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
78 6 0.06
79 86 0.87
80 7 0.07
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (79 bp):
ATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
CTGATGTTTAGAAA
Found at i:101690 original size:21 final size:21
Alignment explanation
Indices: 101661--101718 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
101651 AAACCAAAGA
* *
101661 ACAA-CAAAGTCATAAGCACC
1 ACAACCAAAGCCACAAGCACC
101681 ACAACCAAAGCCACAAGCACC
1 ACAACCAAAGCCACAAGCACC
101702 ACAACCAAAGCCACAAG
1 ACAACCAAAGCCACAAG
101719 AATGCATGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.50, C:0.36, G:0.10, T:0.03
Consensus pattern (21 bp):
ACAACCAAAGCCACAAGCACC
Found at i:105703 original size:14 final size:15
Alignment explanation
Indices: 105684--105713 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
105674 TTCATTTATC
105684 ATAAGTAC-TTTGAT
1 ATAAGTACTTTTGAT
105698 ATAAGTACTTTTGAT
1 ATAAGTACTTTTGAT
105713 A
1 A
105714 CAGATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (15 bp):
ATAAGTACTTTTGAT
Found at i:105745 original size:15 final size:15
Alignment explanation
Indices: 105692--105745 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
105682 TCATAAGTAC
* *
105692 TTTGATATAAGTACT
1 TTTGATACAAATACT
*
105707 TTTGATACAGATA-T
1 TTTGATACAAATACT
*
105721 TTTGGTACAAATACT
1 TTTGATACAAATACT
*
105736 TTTGACACAA
1 TTTGATACAA
105746 TTATTTTAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (15 bp):
TTTGATACAAATACT
Found at i:105759 original size:29 final size:29
Alignment explanation
Indices: 105703--105768 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
105693 TTGATATAAG
* * *
105703 TACTTTTGATACAGATATTTTGGTACAAA
1 TACTTTTGACACAGATATTTTAGCACAAA
*
105732 TACTTTTGACACA-ATTATTTTAGCACAAG
1 TACTTTTGACACAGA-TATTTTAGCACAAA
*
105761 TATTTTTG
1 TACTTTTG
105769 TGTAGCTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (29 bp):
TACTTTTGACACAGATATTTTAGCACAAA
Found at i:106631 original size:2 final size:2
Alignment explanation
Indices: 106624--106666 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
106614 CCTTAAAGTT
*
106624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106665 TA
1 TA
106667 GAGAGAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:108167 original size:4 final size:4
Alignment explanation
Indices: 108158--108182 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
108148 AAATAATACT
108158 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
108183 GATTGACATG
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):
AATA
Found at i:108700 original size:13 final size:13
Alignment explanation
Indices: 108682--108707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108672 TACACAAAGT
108682 ATGTATCGATACA
1 ATGTATCGATACA
108695 ATGTATCGATACA
1 ATGTATCGATACA
108708 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:108705 original size:32 final size:33
Alignment explanation
Indices: 108664--108727 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
108654 TAGCCAAACT
**
108664 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
108696 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
108728 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:114579 original size:202 final size:202
Alignment explanation
Indices: 114233--114636 Score: 808
Period size: 202 Copynumber: 2.0 Consensus size: 202
114223 TAAAATGTGA
114233 CAATGCTAGTGCAATTTGTCTAACCAAAAATCCGGTACAACATTCTAGGACTAAGCACATTGAAA
1 CAATGCTAGTGCAATTTGTCTAACCAAAAATCCGGTACAACATTCTAGGACTAAGCACATTGAAA
114298 TAAGACATAATTTTATTAGAGATCATGTGCAAAAAGGGGATGTTGTAGTAGAATTTGTAGATACC
66 TAAGACATAATTTTATTAGAGATCATGTGCAAAAAGGGGATGTTGTAGTAGAATTTGTAGATACC
114363 TTGCACCAACTTGTCGATATTTTCACTAAACCACTTGACAAAAGTAGATTTTGCACCATTAGGAG
131 TTGCACCAACTTGTCGATATTTTCACTAAACCACTTGACAAAAGTAGATTTTGCACCATTAGGAG
114428 AGAACTT
196 AGAACTT
114435 CAATGCTAGTGCAATTTGTCTAACCAAAAATCCGGTACAACATTCTAGGACTAAGCACATTGAAA
1 CAATGCTAGTGCAATTTGTCTAACCAAAAATCCGGTACAACATTCTAGGACTAAGCACATTGAAA
114500 TAAGACATAATTTTATTAGAGATCATGTGCAAAAAGGGGATGTTGTAGTAGAATTTGTAGATACC
66 TAAGACATAATTTTATTAGAGATCATGTGCAAAAAGGGGATGTTGTAGTAGAATTTGTAGATACC
114565 TTGCACCAACTTGTCGATATTTTCACTAAACCACTTGACAAAAGTAGATTTTGCACCATTAGGAG
131 TTGCACCAACTTGTCGATATTTTCACTAAACCACTTGACAAAAGTAGATTTTGCACCATTAGGAG
114630 AGAACTT
196 AGAACTT
114637 GGTTTAATGA
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 202 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (202 bp):
CAATGCTAGTGCAATTTGTCTAACCAAAAATCCGGTACAACATTCTAGGACTAAGCACATTGAAA
TAAGACATAATTTTATTAGAGATCATGTGCAAAAAGGGGATGTTGTAGTAGAATTTGTAGATACC
TTGCACCAACTTGTCGATATTTTCACTAAACCACTTGACAAAAGTAGATTTTGCACCATTAGGAG
AGAACTT
Found at i:115052 original size:20 final size:20
Alignment explanation
Indices: 115027--115092 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
115017 GAAAATTTAA
115027 TGTATCGATACATCTTTCTT
1 TGTATCGATACATCTTTCTT
115047 TGTATCGATACA-------T
1 TGTATCGATACATCTTTCTT
115060 TGTATCGATACATCTTTCTT
1 TGTATCGATACATCTTTCTT
115080 TGTATCGATACAT
1 TGTATCGATACAT
115093 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATCTTTCTT
Found at i:115064 original size:13 final size:13
Alignment explanation
Indices: 115046--115117 Score: 77
Period size: 13 Copynumber: 6.0 Consensus size: 13
115036 ACATCTTTCT
115046 TTGTATCGATACA
1 TTGTATCGATACA
115059 TTGTATCGATACA
1 TTGTATCGATACA
115072 TCT-T-TC--T---
1 T-TGTATCGATACA
115079 TTGTATCGATACA
1 TTGTATCGATACA
115092 TTGTATCGATACA
1 TTGTATCGATACA
*
115105 CTGTATCGATACA
1 TTGTATCGATACA
115118 GGGGGTTTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 2 0.04
10 2 0.04
12 2 0.04
13 40 0.80
14 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:115069 original size:33 final size:33
Alignment explanation
Indices: 115027--115104 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
115017 GAAAATTTAA
115027 TGTATCGATACATCTTTCTTTGTATCGATACAT
1 TGTATCGATACATCTTTCTTTGTATCGATACAT
115060 TGTATCGATACATCTTTCTTTGTATCGATACAT
1 TGTATCGATACATCTTTCTTTGTATCGATACAT
115093 TGTATCGATACA
1 TGTATCGATACA
115105 CTGTATCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATCTTTCTTTGTATCGATACAT
Found at i:115263 original size:21 final size:20
Alignment explanation
Indices: 115239--115285 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
115229 AAATCTTTTG
115239 CAAAATAC-TTGTTTTTCACT
1 CAAAATACATTGTTTTTCA-T
*
115259 ACAAATTACATTGTTTTTCAT
1 -CAAAATACATTGTTTTTCAT
115280 CAAAAT
1 CAAAAT
115286 CACCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 8 0.35
22 10 0.43
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACATTGTTTTTCAT
Found at i:117566 original size:20 final size:20
Alignment explanation
Indices: 117541--117594 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
117531 AAAACCCTTA
117541 AAAGTATCGATACACAATT-C
1 AAAGTATCGATACAC-ATTGC
*
117561 AAAGTATCGATACACGTTGC
1 AAAGTATCGATACACATTGC
*
117581 AATGTATCGATACA
1 AAAGTATCGATACA
117595 TGAAAAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:117684 original size:13 final size:13
Alignment explanation
Indices: 117666--117691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117656 TACACAAAGT
117666 ATGTATCGATACA
1 ATGTATCGATACA
117679 ATGTATCGATACA
1 ATGTATCGATACA
117692 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:117689 original size:32 final size:33
Alignment explanation
Indices: 117648--117711 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
117638 TAACCAAACT
**
117648 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
117680 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
117712 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:120369 original size:82 final size:81
Alignment explanation
Indices: 120283--120446 Score: 283
Period size: 82 Copynumber: 2.0 Consensus size: 81
120273 ACTTCCGAAT
120283 TCTCTTTACTTCAAGAGTATCATTTTAAATATTATCATTTTTTAAAAAAAATAAAAATTCTTATA
1 TCTCTTTACTTCAAGAGTATCATTTTAAATATTATCATTTTTT-AAAAAAATAAAAATTCTTATA
*
120348 ATATTTTGAAAGTTCAG
65 ATATTTTGAAAGATCAG
* **
120365 TCTCTTTACTTCAAGAGTGTCATTTTAAATATTATCATTTTTTTTAAAAATAAAAATTCTTATAA
1 TCTCTTTACTTCAAGAGTATCATTTTAAATATTATCATTTTTTAAAAAAATAAAAATTCTTATAA
120430 TATTTTGAAAGATCAG
66 TATTTTGAAAGATCAG
120446 T
1 T
120447 GTCATAAGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 36 0.46
82 42 0.54
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (81 bp):
TCTCTTTACTTCAAGAGTATCATTTTAAATATTATCATTTTTTAAAAAAATAAAAATTCTTATAA
TATTTTGAAAGATCAG
Found at i:121922 original size:21 final size:20
Alignment explanation
Indices: 121892--121939 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
121882 AATTTAGATT
121892 AAATAATTTTAAATATTAAAA
1 AAATAATTTT-AATATTAAAA
* *
121913 AAATATTTTTAATATTAAAT
1 AAATAATTTTAATATTAAAA
121933 AAATAAT
1 AAATAAT
121940 AAATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATAATTTTAATATTAAAA
Found at i:122407 original size:2 final size:2
Alignment explanation
Indices: 122400--122426 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
122390 GAATTACGAC
122400 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
122427 GCTGCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:123003 original size:6 final size:6
Alignment explanation
Indices: 122969--123002 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
122959 GTAGTTAAAA
*
122969 GAAGA- GAAGAC GAAGAC GAAGAC GAAGAT GAAGA
1 GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGA
123003 TAAAGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.53, C:0.09, G:0.35, T:0.03
Consensus pattern (6 bp):
GAAGAC
Found at i:124701 original size:2 final size:2
Alignment explanation
Indices: 124694--124725 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
124684 TTTTGAGGGA
124694 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
124726 CGCAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:126374 original size:16 final size:17
Alignment explanation
Indices: 126348--126407 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
126338 AGAGTAAGAT
126348 AAAAT-AAAATAATAAG
1 AAAATAAAAATAATAAG
*
126364 -AAATAAAAATAAGAAG
1 AAAATAAAAATAATAAG
*
126380 AATAATAAAAA-AATAAT
1 AA-AATAAAAATAATAAG
126397 AAAATTAAAAA
1 AAAA-TAAAAA
126408 AATTTTAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.11
16 12 0.32
17 13 0.35
18 8 0.22
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAATAAAAATAATAAG
Found at i:126408 original size:36 final size:36
Alignment explanation
Indices: 126332--126407 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
126322 GGTTTATTTG
*
126332 AAAAATAGAGTAAGATAAAATAAAATAATAAGAAAT
1 AAAAATAGAGTAAGATAAAAAAAAATAATAAGAAAT
*
126368 AAAAATA-AG-AAGAATAATAAAAAAATAATAA-AATT
1 AAAAATAGAGTAAG-ATAA-AAAAAAATAATAAGAAAT
126403 AAAAA
1 AAAAA
126408 AATTTTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 3 0.08
35 14 0.39
36 19 0.53
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (36 bp):
AAAAATAGAGTAAGATAAAAAAAAATAATAAGAAAT
Found at i:126409 original size:20 final size:20
Alignment explanation
Indices: 126348--126409 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
126338 AGAGTAAGAT
*
126348 AAAATAA-AATAATAAGAAATA
1 AAAATAAGAAGAATAA-AAA-A
*
126369 AAAATAAGAAGAATAATAAA
1 AAAATAAGAAGAATAAAAAA
* *
126389 AAAATAATAA-AATTAAAAA
1 AAAATAAGAAGAATAAAAAA
126408 AA
1 AA
126410 TTTTAGTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.26
20 10 0.29
21 9 0.26
22 7 0.20
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAATAAGAAGAATAAAAAA
Found at i:126926 original size:15 final size:16
Alignment explanation
Indices: 126906--126936 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
126896 GACAACAATT
126906 AAGCAATTAAG-AAAA
1 AAGCAATTAAGCAAAA
126921 AAGCAATTAAGCAAAA
1 AAGCAATTAAGCAAAA
126937 CGGCAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.10, G:0.13, T:0.13
Consensus pattern (16 bp):
AAGCAATTAAGCAAAA
Found at i:127089 original size:15 final size:15
Alignment explanation
Indices: 127071--127114 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
127061 GAACAAATGA
127071 AACAGCAACAGCAGC
1 AACAGCAACAGCAGC
* *
127086 AACAACAATAGCAGC
1 AACAGCAACAGCAGC
* *
127101 AGCCGCAACAGCAG
1 AACAGCAACAGCAG
127115 TAGCACAGCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.32, G:0.20, T:0.02
Consensus pattern (15 bp):
AACAGCAACAGCAGC
Found at i:127167 original size:31 final size:31
Alignment explanation
Indices: 127122--127180 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
127112 CAGTAGCACA
* *
127122 GCAACGACAACAGCAGCAAACATCAGCAGTG
1 GCAACAACAACAGCAGCAAACAACAGCAGTG
*
127153 GCAACAACAGCAGCAGCAAACAACAGCA
1 GCAACAACAACAGCAGCAAACAACAGCA
127181 ATAAGCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.31, G:0.20, T:0.03
Consensus pattern (31 bp):
GCAACAACAACAGCAGCAAACAACAGCAGTG
Found at i:127171 original size:15 final size:15
Alignment explanation
Indices: 127076--127180 Score: 66
Period size: 15 Copynumber: 6.5 Consensus size: 15
127066 AATGAAACAG
*
127076 CAACAGCAGCAACAA
1 CAACAGCAGCAGCAA
*
127091 CAATAGCAGCAGCCGCAA
1 C-A-A-CAGCAGCAGCAA
* *
127109 CAGCAGTAGCACAGCAA
1 CAACAGCAG--CAGCAA
* *
127126 CGACAACAGCAGCAAA
1 CAACAGCAGCAGC-AA
* **
127142 CATCAGCAGTGGCAA
1 CAACAGCAGCAGCAA
127157 CAACAGCAGCAGCAAA
1 CAACAGCAGCAGC-AA
127173 CAACAGCA
1 CAACAGCA
127181 ATAAGCAAAC
Statistics
Matches: 66, Mismatches: 17, Indels: 13
0.69 0.18 0.14
Matches are distributed among these distances:
15 22 0.33
16 21 0.32
17 12 0.18
18 11 0.17
ACGTcount: A:0.45, C:0.31, G:0.20, T:0.04
Consensus pattern (15 bp):
CAACAGCAGCAGCAA
Found at i:127174 original size:16 final size:16
Alignment explanation
Indices: 127132--127180 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
127122 GCAACGACAA
*
127132 CAGCAGCAAACATCAG
1 CAGCAGCAAACAACAG
**
127148 CAGTGGC-AACAACAG
1 CAGCAGCAAACAACAG
127163 CAGCAGCAAACAACAG
1 CAGCAGCAAACAACAG
127179 CA
1 CA
127181 ATAAGCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.45, C:0.31, G:0.20, T:0.04
Consensus pattern (16 bp):
CAGCAGCAAACAACAG
Done.