Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold355
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: 530098
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
File 1 of 4
Found at i:898 original size:3 final size:3
Alignment explanation
Indices: 890--920 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
880 CATAAGTCAC
890 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
921 AATGGAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1482 original size:29 final size:26
Alignment explanation
Indices: 1450--1513 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 26
1440 TTATCATTTC
1450 AAATATAATAAAAAATTATTTTTATAATT
1 AAATATAATAAAAAA-TATTTTT-T-ATT
*
1479 AAATATAA-ATAAAATATTTTTTATT
1 AAATATAATAAAAAATATTTTTTATT
1504 AAATAGTAAT
1 AAATA-TAAT
1514 TTAAGTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.25
26 4 0.12
27 7 0.22
28 5 0.16
29 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATATAATAAAAAATATTTTTTATT
Found at i:2560 original size:15 final size:15
Alignment explanation
Indices: 2541--2581 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
2531 TATTTTATAA
2541 ATATTTATTAATTAT
1 ATATTTATTAATTAT
* *
2556 TTATTTATTAAATAT
1 ATATTTATTAATTAT
2571 AT-TTTATTAAT
1 ATATTTATTAAT
2582 ACAAATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATATTTATTAATTAT
Found at i:2915 original size:19 final size:18
Alignment explanation
Indices: 2891--2934 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
2881 TACTTAAATT
2891 TAAATATAAATATT-ATATA
1 TAAATAT-AATATTCA-ATA
2910 TAAATAT-ATATTCAATA
1 TAAATATAATATTCAATA
2927 TAAATATA
1 TAAATATA
2935 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 15 0.65
18 1 0.04
19 7 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATAATATTCAATA
Found at i:4403 original size:19 final size:20
Alignment explanation
Indices: 4375--4414 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4365 TCTTTGAATT
*
4375 AAAATAATTTTAAATATTAA
1 AAAATAATTTTAAATACTAA
*
4395 AAAAT-ATTTTTAATACTAA
1 AAAATAATTTTAAATACTAA
4414 A
1 A
4415 TTAGCAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATAATTTTAAATACTAA
Found at i:5031 original size:2 final size:2
Alignment explanation
Indices: 5024--5065 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
5014 TCATCTTCTA
*
5024 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT GT 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
5065 A
1 A
5066 CATGTTTGCG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6006 original size:2 final size:2
Alignment explanation
Indices: 5999--6035 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5989 TTGTTTTCTA
5999 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 A
6036 AAGCACATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7365 original size:3 final size:3
Alignment explanation
Indices: 7357--7386 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7347 TATGATTGAC
7357 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7387 GGGTCCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7681 original size:20 final size:22
Alignment explanation
Indices: 7643--7693 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
7633 TAATATTTAA
* *
7643 TAATAAAAAATTATTTAAAT-T
1 TAATTAAAAATTATATAAATGT
7664 TAATTAAAAA-TATATAAATGT
1 TAATTAAAAATTATATAAATGT
7685 TAATATAAA
1 TAAT-TAAA
7694 CTAACTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 14 0.54
22 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAATTAAAAATTATATAAATGT
Found at i:8365 original size:16 final size:16
Alignment explanation
Indices: 8344--8380 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
8334 ACTCAAAAAT
8344 AATTTGAAATGA-TTTA
1 AATTTGAAAT-ACTTTA
8360 AATTTGAAATACTTTA
1 AATTTGAAATACTTTA
8376 AATTT
1 AATTT
8381 TAGAATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (16 bp):
AATTTGAAATACTTTA
Found at i:10421 original size:17 final size:19
Alignment explanation
Indices: 10381--10426 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
10371 TACATTACTC
*
10381 AAATTTAAATATAAGTATT
1 AAATATAAATATAAGTATT
10400 AAATATAAATAT-A-TATT
1 AAATATAAATATAAGTATT
*
10417 TAATATAAAT
1 AAATATAAAT
10427 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.52
18 1 0.04
19 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATATAAATATAAGTATT
Found at i:10454 original size:19 final size:22
Alignment explanation
Indices: 10413--10454 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 22
10403 TATAAATATA
*
10413 TATTTAATATAAATTTATTTTT
1 TATTTAATATAAATTTATATTT
10435 TATTTAA-A-AAA-TTATATTT
1 TATTTAATATAAATTTATATTT
10454 T
1 T
10455 TATATCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 1 0.05
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTAATATAAATTTATATTT
Found at i:10457 original size:20 final size:22
Alignment explanation
Indices: 10413--10455 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
10403 TATAAATATA
10413 TATTTAATATAAATTTATTTTT
1 TATTTAATATAAATTTATTTTT
10435 TATTTAA-A-AAATTATATTTTT
1 TATTTAATATAAATT-TATTTTT
10456 ATATCTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTAATATAAATTTATTTTT
Found at i:10856 original size:2 final size:2
Alignment explanation
Indices: 10849--10881 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10839 TTTTCTTTTC
*
10849 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10882 TTGTATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11822 original size:11 final size:11
Alignment explanation
Indices: 11803--11864 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
11793 AAATATTAAT
* *
11803 TATTGATATCA
1 TATTTATATTA
11814 TATTTATATTA
1 TATTTATATTA
*
11825 TTTTTATATTA
1 TATTTATATTA
*
11836 TAATTATATT-
1 TATTTATATTA
*
11846 T-TATATATTA
1 TATTTATATTA
*
11856 CATTTATAT
1 TATTTATAT
11865 AAATTTTGAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 6 0.15
10 1 0.03
11 33 0.82
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTTATATTA
Found at i:11833 original size:17 final size:19
Alignment explanation
Indices: 11813--11851 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
11803 TATTGATATC
11813 ATATTTAT-ATTAT-TTTT
1 ATATTTATAATTATATTTT
11830 ATA-TTATAATTATATTTT
1 ATATTTATAATTATATTTT
11848 ATAT
1 ATAT
11852 ATTACATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.21
17 8 0.42
18 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTTATAATTATATTTT
Found at i:11862 original size:20 final size:19
Alignment explanation
Indices: 11823--11864 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
11813 ATATTTATAT
*
11823 TATTTTTATATTATAATTA
1 TATTTTTATATTACAATTA
*
11842 TATTTTATATATTACATTTA
1 TATTTT-TATATTACAATTA
11862 TAT
1 TAT
11865 AAATTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTTATATTACAATTA
Found at i:12092 original size:24 final size:24
Alignment explanation
Indices: 12065--12132 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
12055 ATATAAATTT
*
12065 TAATAATTTTATTTATTTATATCA
1 TAATAATTTTATTTATTTATAACA
* * *
12089 TAATCATGTTATTTTTTTTATAACA
1 TAATAATTTTA-TTTATTTATAACA
* *
12114 TATTATATTTTAATTATTT
1 TAATA-ATTTTATTTATTT
12133 TTTAATATCA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
24 9 0.27
25 19 0.58
26 5 0.15
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (24 bp):
TAATAATTTTATTTATTTATAACA
Found at i:12766 original size:2 final size:2
Alignment explanation
Indices: 12759--12786 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12749 TCAAATACTA
12759 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
12787 GAGTATTGTA
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:12989 original size:28 final size:28
Alignment explanation
Indices: 12953--13030 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
12943 TTATCATTAC
12953 TTTA-TAAATTATTTATTAATTATTATT
1 TTTATTAAATTATTTATTAATTATTATT
*
12980 TTTATTAAATTATTTA-T-ATGATTATT
1 TTTATTAAATTATTTATTAATTATTATT
13006 TATTAATTATAATATATTT-TTAATT
1 T-TT-ATTA-AAT-TATTTATTAATT
13031 TAATATTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
26 9 0.21
27 7 0.17
28 15 0.36
29 3 0.07
30 6 0.14
31 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTATTAAATTATTTATTAATTATTATT
Found at i:12995 original size:12 final size:12
Alignment explanation
Indices: 12948--13015 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 12
12938 TAGCTTTATC
12948 ATTACTTTA-TAA
1 ATTA-TTTATTAA
12960 ATTATTTATTAA
1 ATTATTTATTAA
12972 TTATTATTTTTATTAA
1 --ATTA--TTTATTAA
*
12988 ATTATTTA-TATG
1 ATTATTTATTA-A
13000 ATTATTTATT-A
1 ATTATTTATTAA
13011 ATTAT
1 ATTAT
13016 AATATATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
11 11 0.23
12 19 0.40
13 1 0.02
14 8 0.17
16 8 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (12 bp):
ATTATTTATTAA
Found at i:13003 original size:17 final size:15
Alignment explanation
Indices: 12957--12996 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
12947 CATTACTTTA
12957 TAAATTATTTATTAAT
1 TAAATTATTTATT-AT
12973 T--ATTATTT-TTAT
1 TAAATTATTTATTAT
12985 TAAATTATTTAT
1 TAAATTATTTAT
12997 ATGATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
12 3 0.14
13 2 0.10
14 14 0.67
15 1 0.05
16 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAAATTATTTATTAT
Found at i:13036 original size:16 final size:18
Alignment explanation
Indices: 12962--13036 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 18
12952 CTTTATAAAT
12962 TATTTATTAATTAT--TA
1 TATTTATTAATTATAATA
*
12978 TTTTTATTAAATTATTTATATGA
1 TATTTATT-AATTA--TA-AT-A
13001 TTATTTATTAATTATAATA
1 -TATTTATTAATTATAATA
13020 TATTT-TTAATT-TAATA
1 TATTTATTAATTATAATA
13036 T
1 T
13037 TTGTAAATGT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
16 13 0.27
17 11 0.22
18 5 0.10
19 2 0.04
20 2 0.04
21 2 0.04
22 1 0.02
23 6 0.12
24 7 0.14
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (18 bp):
TATTTATTAATTATAATA
Found at i:13241 original size:21 final size:20
Alignment explanation
Indices: 13195--13241 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
13185 ATTATTTATT
*
13195 TTAATTTTACTATTATAATA
1 TTAATTTTACTAATATAATA
13215 TCTAATTTTA-TCAATATAATAA
1 T-TAATTTTACT-AATATAAT-A
13237 TTAAT
1 TTAAT
13242 GTCACCGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 2 0.09
21 19 0.83
22 2 0.09
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATTTTACTAATATAATA
Found at i:13457 original size:9 final size:9
Alignment explanation
Indices: 13443--13554 Score: 55
Period size: 9 Copynumber: 10.9 Consensus size: 9
13433 ATTTATATTT
13443 AAAATTATC
1 AAAATTATC
*
13452 AAAATTATATTA
1 AAAA-T-TA-TC
13464 AAAATTAAT-
1 AAAATT-ATC
13473 AAAATTATC
1 AAAATTATC
13482 AAAATTATTAC
1 AAAATTA-T-C
*
13493 AAAGTTATATC
1 AAA-AT-TATC
*
13504 AATAATTACC
1 AA-AATTATC
13514 AAAATTATC
1 AAAATTATC
13523 TAAAAAATTATTC
1 ---AAAATTA-TC
13536 AAAAAATTATC
1 --AAAATTATC
13547 AAAATTAT
1 AAAATTAT
13555 ATTAAGGTTA
Statistics
Matches: 84, Mismatches: 5, Indels: 28
0.72 0.04 0.24
Matches are distributed among these distances:
8 2 0.02
9 31 0.37
10 9 0.11
11 14 0.17
12 24 0.29
13 4 0.05
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATTATC
Found at i:13459 original size:21 final size:21
Alignment explanation
Indices: 13429--13480 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13419 TTTTTTTTGT
* *
13429 ATAAATTTATATTTAAAATT-
1 ATAAAATTATATTAAAAATTA
13449 ATCAAAATTATATTAAAAATTA
1 AT-AAAATTATATTAAAAATTA
13471 ATAAAATTAT
1 ATAAAATTAT
13481 CAAAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAAATTATATTAAAAATTA
Found at i:13491 original size:21 final size:21
Alignment explanation
Indices: 13467--13554 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
13457 TATATTAAAA
*
13467 ATTAATAAAATTATCAAAATT
1 ATTAACAAAATTATCAAAATT
* * *
13488 ATT-ACAAAGTTAT-ATCAATA
1 ATTAACAAAATTATCA-AAATT
*
13508 ATTACCAAAATTATCTAAAAAATT
1 ATTAACAAAATTATC---AAAATT
13532 ATTCAA-AAAATTATCAAAATT
1 ATT-AACAAAATTATCAAAATT
13553 AT
1 AT
13555 ATTAAGGTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.02
20 14 0.27
21 19 0.37
24 15 0.29
25 2 0.04
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (21 bp):
ATTAACAAAATTATCAAAATT
Found at i:13511 original size:41 final size:40
Alignment explanation
Indices: 13442--13527 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
13432 AATTTATATT
* *
13442 TAAAATTATCAAAATTATATTAAAAATTAATAAAATTATC
1 TAAAATTATCAAAATTATATCAAAAATTAACAAAATTATC
* * *
13482 -AAAATTATTACAAAGTTATATCAATAATTACCAAAATTATC
1 TAAAATTA-T-CAAAATTATATCAAAAATTAACAAAATTATC
13523 TAAAA
1 TAAAA
13528 AATTATTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 7 0.18
40 1 0.03
41 26 0.68
42 4 0.11
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (40 bp):
TAAAATTATCAAAATTATATCAAAAATTAACAAAATTATC
Found at i:13531 original size:12 final size:12
Alignment explanation
Indices: 13514--13550 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13504 AATAATTACC
13514 AAAATTATCTAA
1 AAAATTATCTAA
13526 AAAATTAT-TCAA
1 AAAATTATCT-AA
13538 AAAATTATC-AA
1 AAAATTATCTAA
13549 AA
1 AA
13551 TTATATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTATCTAA
Found at i:13632 original size:42 final size:41
Alignment explanation
Indices: 13526--13635 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 41
13516 AATTATCTAA
* * *
13526 AAAATTATTCAAAAAATTATCAAAATTATATTAAGGTTAGT
1 AAAATTATACCAAATATTATCAAAATTATATTAAGGTTAGT
** *
13567 AAAATTATATTAAATATTGTCAAAATTATATTAAGTGTTA-T
1 AAAATTATACCAAATATTATCAAAATTATATTAAG-GTTAGT
* *
13608 CAAAATTATACCAATTGTTATCAAAATT
1 -AAAATTATACCAAATATTATCAAAATT
13636 GTATCAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 31 0.54
42 26 0.46
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (41 bp):
AAAATTATACCAAATATTATCAAAATTATATTAAGGTTAGT
Found at i:13710 original size:24 final size:22
Alignment explanation
Indices: 13664--13717 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
13654 AAAAATTTAC
13664 AAAATTATATCAAAGTGGTTAAA
1 AAAATTATATCAAAGTGGTT-AA
* *
13687 TAAAATTATATCATA-TGTTATAA
1 -AAAATTATATCAAAGTGGT-TAA
13710 AAAATTAT
1 AAAATTAT
13718 TAAAGTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.30
23 5 0.19
24 14 0.52
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (22 bp):
AAAATTATATCAAAGTGGTTAA
Found at i:13771 original size:21 final size:21
Alignment explanation
Indices: 13731--13771 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
13721 AGTTATACAA
13731 AAATTTACCAAAAATCATATT
1 AAATTTACCAAAAATCATATT
*
13752 AAATATTATCAAAAAT-ATAT
1 AAAT-TTACCAAAAATCATAT
13772 CAGAAGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATTTACCAAAAATCATATT
Found at i:13894 original size:20 final size:20
Alignment explanation
Indices: 13542--13896 Score: 87
Period size: 21 Copynumber: 17.9 Consensus size: 20
13532 ATTCAAAAAA
* *
13542 TTATCAAAATTATATTAAGG
1 TTATCAAAATTATATAAATG
*
13562 TTAGT-AAAATTATATTAAATA
1 TTA-TCAAAATTATA-TAAATG
* *
13583 TTGTCAAAATTATATTAAGTG
1 TTATCAAAATTATA-TAAATG
* *
13604 TTATCAAAATTATACCAATTG
1 TTATCAAAATTATA-TAAATG
* *
13625 TTATCAAAATTGTATCAAATA
1 TTATCAAAATTATAT-AAATG
13646 TTGA-C-AAA--A-A-AAAT-
1 TT-ATCAAAATTATATAAATG
13660 TTA-CAAAATTATATCAAAGTGG
1 TTATCAAAATTATAT-AAA-T-G
*
13682 TTAAAT-AAAATTATATCATATG
1 TT--ATCAAAATTATAT-AAATG
*
13704 TTATAAAAAATTAT-TAAA-G
1 TTAT-CAAAATTATATAAATG
*
13723 TTAT----A-CA-A-AAAT-
1 TTATCAAAATTATATAAATG
* * *
13735 TTACCAAAAATCATATTAAATA
1 TTATC-AAAATTATA-TAAATG
*
13757 TTATCAAAAATATATCAGAA-G
1 TTATCAAAATTATAT-A-AATG
* * *
13778 TTACCAATATTATATCAAAAG
1 TTATCAAAATTATAT-AAATG
*
13799 TCTAT-AAAACTAT-TAAA-G
1 T-TATCAAAATTATATAAATG
** *
13817 TGGTC-AAATTGATTACAAATG
1 TTATCAAAATT-A-TATAAATG
* *
13838 TTATCAAAATTATTACAAATA
1 TTATCAAAATTA-TATAAATG
13859 TTATCAAAATCT-TATAAATG
1 TTATCAAAAT-TATATAAATG
*
13879 TTATCCAAATTATATAAA
1 TTATCAAAATTATATAAA
13897 ATTTCACTAA
Statistics
Matches: 253, Mismatches: 39, Indels: 86
0.67 0.10 0.23
Matches are distributed among these distances:
12 6 0.02
13 3 0.01
14 6 0.02
15 4 0.02
16 1 0.00
17 8 0.03
18 5 0.02
19 14 0.06
20 49 0.19
21 114 0.45
22 28 0.11
23 1 0.00
24 14 0.06
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (20 bp):
TTATCAAAATTATATAAATG
Found at i:15213 original size:21 final size:20
Alignment explanation
Indices: 15179--15221 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
15169 TTATTATAAA
*
15179 AATATATAAAATAATATTTT
1 AATATATAAAATAATAATTT
*
15199 AATATTTATAAATAATAATTT
1 AATATATA-AAATAATAATTT
15220 AA
1 AA
15222 GTTTCAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATATAAAATAATAATTT
Found at i:18817 original size:2 final size:2
Alignment explanation
Indices: 18810--18845 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
18800 TTTTTGCAAT
18810 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18846 ACTCACACAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18854 original size:2 final size:2
Alignment explanation
Indices: 18849--18878 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18839 CTCTCTCACT
18849 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
18879 TTTTTGGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:27789 original size:2 final size:2
Alignment explanation
Indices: 27782--27815 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
27772 AGCGGTACTG
27782 GA GA GA GA GA GA GA GA GA GA GA GA -A G- GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27816 CATGGCATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27912 original size:23 final size:23
Alignment explanation
Indices: 27885--27933 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
27875 TTTTCTTCAT
*
27885 TGCTGACTATTCTACTCTTT-CTA
1 TGCTGACTATCCTACT-TTTCCTA
27908 TGCTGACTATCCTACTTTTCCTA
1 TGCTGACTATCCTACTTTTCCTA
27931 TGC
1 TGC
27934 AGTGACAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.16, C:0.29, G:0.10, T:0.45
Consensus pattern (23 bp):
TGCTGACTATCCTACTTTTCCTA
Found at i:29343 original size:18 final size:19
Alignment explanation
Indices: 29316--29361 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
29306 AAATATATAA
* *
29316 TATATTTATTTTTAT-ATT
1 TATATATATTTATATAATT
29334 TATATATA-TTATATAATT
1 TATATATATTTATATAATT
29352 TATATTATAT
1 TATA-TATAT
29362 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 5 0.22
18 14 0.61
19 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATATATTTATATAATT
Found at i:31460 original size:13 final size:14
Alignment explanation
Indices: 31442--31546 Score: 67
Period size: 13 Copynumber: 7.6 Consensus size: 14
31432 ATTTGATAAT
31442 TTATATATTAAA-A
1 TTATATATTAAATA
31455 TTATAT-TTAAATA
1 TTATATATTAAATA
*
31468 TTATATATT-TATA
1 TTATATATTAAATA
* *
31481 -TAAATTTTAAATA
1 TTATATATTAAATA
31494 TTTATATATTTAAA-A
1 -TTATATA-TTAAATA
* *
31509 TATATTTATATAATTA
1 T-TATATAT-TAAATA
* *
31525 TTTTATATTATATA
1 TTATATATTAAATA
*
31539 ATATATAT
1 TTATATAT
31547 AGTTTTAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
12 11 0.16
13 19 0.28
14 14 0.20
15 18 0.26
16 7 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATATATTAAATA
Found at i:31479 original size:8 final size:8
Alignment explanation
Indices: 31423--31525 Score: 59
Period size: 8 Copynumber: 12.1 Consensus size: 8
31413 ACTTTTAATT
31423 TATATTTA
1 TATATTTA
*
31431 TAT-TTGA
1 TATATTTA
31438 TA-ATTTA
1 TATATTTA
*
31445 TATATTAAAA
1 TATATT--TA
31455 TTATATTTA
1 -TATATTTA
*
31464 AATA-TTA
1 TATATTTA
31471 TATATTTA
1 TATATTTA
31479 TATAAATTTTA
1 TAT--A-TTTA
*
31490 AATATTTA
1 TATATTTA
31498 TATATTTAAAA
1 TATATTT---A
31509 TATATTTA
1 TATATTTA
*
31517 TATAATTA
1 TATATTTA
31525 T
1 T
31526 TTTATATTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
7 16 0.22
8 34 0.46
9 2 0.03
10 2 0.03
11 20 0.27
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (8 bp):
TATATTTA
Found at i:31484 original size:19 final size:19
Alignment explanation
Indices: 31462--31547 Score: 79
Period size: 19 Copynumber: 4.7 Consensus size: 19
31452 AAATTATATT
31462 TAAATATTATATATTTATA
1 TAAATATTATATATTTATA
* *
31481 TAAATTTTAAATATTTATA
1 TAAATATTATATATTTATA
** **
31500 TATTTAAAATATATTTATA
1 TAAATATTATATATTTATA
* *
31519 TAATTATTTTATA-TTATA
1 TAAATATTATATATTTATA
31537 T-AATA-TATATA
1 TAAATATTATATA
31548 GTTTTAAATT
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
16 5 0.09
17 3 0.06
18 6 0.11
19 39 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATATTATATATTTATA
Found at i:31500 original size:6 final size:6
Alignment explanation
Indices: 31416--31481 Score: 53
Period size: 6 Copynumber: 10.2 Consensus size: 6
31406 TTAATTAACT
* *
31416 TTTA-A TTTATA TTTATA TTTGATAA TTTATA TATTAAA ATTATA TTTAAATA
1 TTTATA TTTATA TTTATA TTT-AT-A TTTATA T-TTATA TTTATA TTT--ATA
31468 TTATATA TTTATA T
1 TT-TATA TTTATA T
31482 AAATTTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
5 4 0.08
6 23 0.46
7 13 0.26
8 9 0.18
9 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (6 bp):
TTTATA
Found at i:31525 original size:27 final size:27
Alignment explanation
Indices: 31429--31525 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
31419 AATTTATATT
*
31429 TATATTT-GATAATT-TATATATTAAAA
1 TATATTTAAATAATTATATAT-TTAAAA
31455 TTATATTTAAAT-ATTATATATTTATATAA
1 -TATATTTAAATAATTATATATTTA-A-AA
*
31484 -AT-TTTAAATATTTATATATTTAAAA
1 TATATTTAAATAATTATATATTTAAAA
*
31509 TATATTTATATAATTAT
1 TATATTTAAATAATTAT
31526 TTTATATTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
25 2 0.03
26 10 0.17
27 37 0.63
28 8 0.14
29 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
TATATTTAAATAATTATATATTTAAAA
Found at i:32485 original size:30 final size:32
Alignment explanation
Indices: 32449--32509 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
32439 ACAGAAATTT
32449 TTTTAATT-TAAAAATTAG-AAAAAAATAAAA
1 TTTTAATTCTAAAAATTAGTAAAAAAATAAAA
* * *
32479 TTTTAATTCTACAATTTAGTAAAGAAATAAA
1 TTTTAATTCTAAAAATTAGTAAAAAAATAAA
32510 TCAATTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
31 8 0.31
32 10 0.38
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (32 bp):
TTTTAATTCTAAAAATTAGTAAAAAAATAAAA
Found at i:33624 original size:11 final size:11
Alignment explanation
Indices: 33608--33632 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33598 TCCACCTCTA
33608 TTTTATTTTAT
1 TTTTATTTTAT
33619 TTTTATTTTAT
1 TTTTATTTTAT
33630 TTT
1 TTT
33633 ATATATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:34668 original size:5 final size:5
Alignment explanation
Indices: 34658--34700 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
34648 TTATTAAAAA
* * *
34658 TAATT TAATT TAATT TAAAT AAAAT TAATT TAATT TAAATT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT T-AATT TA
34701 TAAAAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (5 bp):
TAATT
Found at i:34686 original size:25 final size:26
Alignment explanation
Indices: 34652--34726 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 26
34642 TTTTTATTAT
*
34652 TAAAAATAATTTAATTT-AATTTAAA
1 TAAAATTAATTTAATTTAAATTTAAA
34677 TAAAATTAATTTAATTTAAATTTATAA
1 TAAAATTAATTTAATTTAAATTTA-AA
* *
34704 -AAATTTTATTTAAAATTTAAATT
1 TAAAATTAATTT--AATTTAAATT
34727 ATTAAGTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 16 0.37
26 15 0.35
27 2 0.05
28 10 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAAATTAATTTAATTTAAATTTAAA
Found at i:34687 original size:20 final size:20
Alignment explanation
Indices: 34621--34697 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
34611 ATATATTTTA
*
34621 TAATTAAATTTAAATAAAA-
1 TAATTTAATTTAAATAAAAT
* *
34640 TATTTTTATTATTAAA-AATAATT
1 TA-ATTTAAT-TTAAATAA-AA-T
34663 TAATTTAATTTAAATAAAAT
1 TAATTTAATTTAAATAAAAT
34683 TAATTTAATTTAAAT
1 TAATTTAATTTAAAT
34698 TTATAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.04
20 22 0.47
21 14 0.30
22 7 0.15
23 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATTTAATTTAAATAAAAT
Found at i:37311 original size:32 final size:31
Alignment explanation
Indices: 37265--37329 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
37255 TTTTTATGAA
*
37265 ATATGAGTAGCATATTTATGTATATTATTTGT
1 ATATGAGTAGCATATTTATAT-TATTATTTGT
* * *
37297 ATATGTGTATCATATTTATATTATTTTTTGT
1 ATATGAGTAGCATATTTATATTATTATTTGT
37328 AT
1 AT
37330 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.55
Consensus pattern (31 bp):
ATATGAGTAGCATATTTATATTATTATTTGT
Found at i:37344 original size:12 final size:12
Alignment explanation
Indices: 37311--37344 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37301 GTGTATCATA
37311 TTTATATTATTT
1 TTTATATTATTT
*
37323 TTTGTATTATTT
1 TTTATATTATTT
*
37335 TTTATGTTAT
1 TTTATATTAT
37345 GACTGTGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:37946 original size:9 final size:9
Alignment explanation
Indices: 37932--37956 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37922 TGATTGAAAA
37932 TTTTTATAT
1 TTTTTATAT
37941 TTTTTATAT
1 TTTTTATAT
37950 TTTTTAT
1 TTTTTAT
37957 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATAT
Found at i:38027 original size:22 final size:24
Alignment explanation
Indices: 37982--38026 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
37972 TTGCAAGATA
37982 ATTTTATTATTTTTATATTAAAAT
1 ATTTTATTATTTTTATATTAAAAT
38006 ATTTTA-TA-TTTTATAATTAAA
1 ATTTTATTATTTTTAT-ATTAAA
38027 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTTATTATTTTTATATTAAAAT
Found at i:38202 original size:34 final size:34
Alignment explanation
Indices: 38149--38214 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
38139 TATTTAAAAT
* *
38149 TTAAATAAATAAATATATTTTTATTTTAATTAAA
1 TTAAATAAATAAATATATTTTTAATGTAATTAAA
*
38183 TTAAATAAAT-ATTATTATTTTTAATGTAATTA
1 TTAAATAAATAAATA-TATTTTTAATGTAATTA
38215 TTTTATCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (34 bp):
TTAAATAAATAAATATATTTTTAATGTAATTAAA
Found at i:38214 original size:29 final size:29
Alignment explanation
Indices: 38123--38214 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 29
38113 AATTGAGTTT
* **
38123 ATTAAATTAA-ATTATTTATTTAAAATTTA
1 ATTAAATAAATATTATTTATTTTTAA-TTA
* *
38152 AATAAATAAATA-TATTTTTATTTTAATTAA
1 ATTAAATAAATATTATTTAT-TTTTAATT-A
38182 ATTAAATAAATATTA-TTATTTTTAATGTA
1 ATTAAATAAATATTATTTATTTTTAAT-TA
38211 ATTA
1 ATTA
38215 TTTTATCATG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
29 28 0.55
30 21 0.41
31 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTAAATAAATATTATTTATTTTTAATTA
Found at i:38625 original size:16 final size:17
Alignment explanation
Indices: 38601--38667 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 17
38591 TGATAATGTA
38601 AATAT-AATATAAAATT
1 AATATAAATATAAAATT
* *
38617 AAT-TAAATATTATA-T
1 AATATAAATATAAAATT
38632 AATATAAATATTTTAAAATT
1 AATATAAATA---TAAAATT
*
38652 TATATAAATATAAAAT
1 AATATAAATATAAAAT
38668 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 5 0.12
16 16 0.40
17 6 0.15
19 3 0.08
20 10 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAAATATAAAATT
Found at i:38667 original size:27 final size:26
Alignment explanation
Indices: 38602--38696 Score: 124
Period size: 26 Copynumber: 3.7 Consensus size: 26
38592 GATAATGTAA
*
38602 ATATAATATAAAAT-TAATT-AAATATT
1 ATATAATATAAAATAT-TTTAAAAT-TT
38628 ATATAATAT-AAATATTTTAAAATTT
1 ATATAATATAAAATATTTTAAAATTT
38653 ATATAAATATAAAATATTTTAAAATTT
1 ATAT-AATATAAAATATTTTAAAATTT
*
38680 ATATAATATAAATTATT
1 ATATAATATAAAATATT
38697 ATTATAATAA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
25 12 0.19
26 31 0.49
27 20 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATAATATAAAATATTTTAAAATTT
Found at i:38991 original size:19 final size:18
Alignment explanation
Indices: 38967--39007 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
38957 ATTTAAAAAT
*
38967 TTTAAATTTAATTTATTTA
1 TTTAAATTTAAATTA-TTA
38986 TTTAAATTTAAATTATTA
1 TTTAAATTTAAATTATTA
39004 TTTA
1 TTTA
39008 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAAATTTAAATTATTA
Found at i:39081 original size:29 final size:30
Alignment explanation
Indices: 38987--39103 Score: 85
Period size: 29 Copynumber: 4.2 Consensus size: 30
38977 ATTTATTTAT
*
38987 TTAAAT-TTAAAT-TATTATTTATTTTATTAA
1 TTAAATATTAAATAT-TTATATATTTTA-TAA
39017 --AAATATTAAA-A-TT-T-TATTTT-TAA
1 TTAAATATTAAATATTTATATATTTTATAA
*
39040 TTATATATT-AATATTTATATATTTTATAA
1 TTAAATATTAAATATTTATATATTTTATAA
** *
39069 TTAAAT-TTAAATATAAATATATTATTTTAA
1 TTAAATATTAAATATTTATATATT-TTATAA
39099 TTAAA
1 TTAAA
39104 AAAAATATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 22
0.72 0.05 0.22
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 13 0.18
26 3 0.04
27 3 0.04
28 12 0.17
29 25 0.35
30 10 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TTAAATATTAAATATTTATATATTTTATAA
Found at i:39083 original size:23 final size:23
Alignment explanation
Indices: 39040--39082 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
39030 TTATTTTTAA
39040 TTATATATTAATATTTATATATT
1 TTATATATTAATATTTATATATT
*
39063 TTATA-ATTAA-ATTTAAATAT
1 TTATATATTAATATTTATATAT
39083 AAATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATATATTAATATTTATATATT
Found at i:39088 original size:27 final size:29
Alignment explanation
Indices: 39031--39093 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 29
39021 ATTAAAATTT
* * *
39031 TATTTT-TAATTATATATTAATATTTATA
1 TATTTTATAATTAAATATTAATATATAAA
39059 TATTTTATAATTAAAT-TTAA-ATATAAA
1 TATTTTATAATTAAATATTAATATATAAA
*
39086 TATATTAT
1 TATTTTAT
39094 TTTAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 12 0.40
28 10 0.33
29 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TATTTTATAATTAAATATTAATATATAAA
Found at i:39092 original size:21 final size:21
Alignment explanation
Indices: 39042--39092 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
39032 ATTTTTAATT
* *
39042 ATATATTAATATTTATATATT
1 ATATATTAATATTTAAATATA
*
39063 TTATAATTAA-ATTTAAATATAA
1 ATAT-ATTAATATTTAAATAT-A
39085 ATATATTA
1 ATATATTA
39093 TTTTAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATATTAATATTTAAATATA
Found at i:39460 original size:21 final size:22
Alignment explanation
Indices: 39434--39489 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
39424 AATATATTTT
**
39434 TATATAAATTTTATTATAA-AA
1 TATATAAATAATATTATAATAA
*
39455 TATATAAATAATATTTTAATAA
1 TATATAAATAATATTATAATAA
39477 TATAATAAATAAT
1 TAT-ATAAATAAT
39490 GAAATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 16 0.53
22 5 0.17
23 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATAAATAATATTATAATAA
Found at i:39483 original size:19 final size:18
Alignment explanation
Indices: 39414--39484 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
39404 TAAGTTATTA
39414 TTTAATAATAAAT-ATAT
1 TTTAATAATAAATAATAT
* **
39431 TTTTAT-ATAAATTTTAT
1 TTTAATAATAAATAATAT
*
39448 TATAAAATATATAAATAATAT
1 T-T-TAATA-ATAAATAATAT
39469 TTTAATAATATAATAA
1 TTTAATAATA-AATAA
39485 ATAATGAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
18 4 0.10
19 11 0.27
20 1 0.02
21 10 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTAATAATAAATAATAT
Found at i:39483 original size:27 final size:25
Alignment explanation
Indices: 39437--39488 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
39427 ATATTTTTAT
* *
39437 ATAAATTTTATTATAAAATATATAA
1 ATAAATTTTATAATAAAATAAATAA
*
39462 ATAATATTTTAATAATATAATAAATAA
1 ATAA-ATTTT-ATAATAAAATAAATAA
39489 TGAAATAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 5 0.23
27 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAAATTTTATAATAAAATAAATAA
Found at i:40486 original size:3 final size:3
Alignment explanation
Indices: 40480--40515 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
40470 AGTTGTTGCT
40480 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
40516 CATAACCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:41130 original size:13 final size:13
Alignment explanation
Indices: 41114--41148 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
41104 TTAAAATCTA
41114 TTTTT-ATTTAAT
1 TTTTTAATTTAAT
41126 TTTTTAATTTAAT
1 TTTTTAATTTAAT
41139 TTTTTAATTT
1 TTTTTAATTT
41149 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTAATTTAAT
Found at i:41469 original size:22 final size:21
Alignment explanation
Indices: 41442--41482 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41432 AATATTAAAA
41442 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
41462 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
41483 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:42097 original size:16 final size:16
Alignment explanation
Indices: 42076--42126 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
42066 TGTGTTTTAA
42076 TTATTT-TTCTTATATT
1 TTATTTATT-TTATATT
42092 TTATTTATTTTATATCT
1 TTATTTATTTTATAT-T
* * *
42109 TAATTTAATCTATATT
1 TTATTTATTTTATATT
42125 TT
1 TT
42127 GTATAGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATTTTATATT
Found at i:42405 original size:12 final size:12
Alignment explanation
Indices: 42383--42415 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
42373 TCACATCTTA
42383 TTTTA-ATTATT
1 TTTTATATTATT
42394 TTTTATATTA-T
1 TTTTATATTATT
42405 TTTTATATTAT
1 TTTTATATTAT
42416 ATCTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATATTATT
Found at i:42420 original size:39 final size:41
Alignment explanation
Indices: 42351--42446 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 41
42341 TATATCGTGT
* *
42351 TTTTTTCATATTATTTTTTGTGTCACATCTTATTTTAATT-A
1 TTTTTT-ATATTATTTTTTATGTCACATCTTAATTTAATTAA
* *
42392 TTTTTTATATTATTTTTATAT-T-ATATCTTAATTTATTTAA
1 TTTTTTATATTATTTTT-TATGTCACATCTTAATTTAATTAA
* *
42432 TATTTTATATAATTT
1 TTTTTTATATTATTT
42447 ATTACGGTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
39 13 0.28
40 26 0.55
41 8 0.17
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (41 bp):
TTTTTTATATTATTTTTTATGTCACATCTTAATTTAATTAA
Found at i:45757 original size:26 final size:25
Alignment explanation
Indices: 45724--45773 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
45714 AAATCCTAAT
45724 AAAAGATTCT-TTCTCAATAAAAAAG
1 AAAAGATT-TATTCTCAATAAAAAAG
*
45749 AAAATGATTTATTCTCGATAAAAAA
1 AAAA-GATTTATTCTCAATAAAAAA
45774 TTCGAGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (25 bp):
AAAAGATTTATTCTCAATAAAAAAG
Found at i:48797 original size:15 final size:15
Alignment explanation
Indices: 48779--48813 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48769 ATCTATAATC
*
48779 ATAATAAATATATAT
1 ATAATAAATACATAT
*
48794 ATAAAAAATACATAT
1 ATAATAAATACATAT
48809 ATAAT
1 ATAAT
48814 CCTAATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAAATACATAT
Found at i:49527 original size:37 final size:37
Alignment explanation
Indices: 49477--49561 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
49467 ATGTATGATA
*
49477 ATTAAAT-TTAAATATGAGTGTCGGATAATTTTAAAT
1 ATTAAATATTAAATATGAGTGTCAGATAATTTTAAAT
49513 ATTAAATATTAAATATGAGTGTCAGATAATTTTAAAT
1 ATTAAATATTAAATATGAGTGTCAGATAATTTTAAAT
*
49550 ATTGAATATTAA
1 ATTAAATATTAA
49562 TTTTTTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 7 0.15
37 39 0.85
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (37 bp):
ATTAAATATTAAATATGAGTGTCAGATAATTTTAAAT
Found at i:51475 original size:15 final size:15
Alignment explanation
Indices: 51455--51486 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51445 ATAGCTTAAG
51455 ATTTATTTTATACCA
1 ATTTATTTTATACCA
51470 ATTTATTTTATACCA
1 ATTTATTTTATACCA
51485 AT
1 AT
51487 GCAACAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTATTTTATACCA
Found at i:53016 original size:30 final size:27
Alignment explanation
Indices: 52982--53039 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
52972 TTTTATTTAT
52982 TTTAATTTAAATATATAAAATATAAAAATA
1 TTTAA-TTAAATA-ATAAAA-ATAAAAATA
* *
53012 TTTAATTCAATAATAAAAATTAAAATA
1 TTTAATTAAATAATAAAAATAAAAATA
53039 T
1 T
53040 ATTTTGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 6 0.23
29 6 0.23
30 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTAATTAAATAATAAAAATAAAAATA
Found at i:53275 original size:60 final size:60
Alignment explanation
Indices: 53182--53301 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
53172 ACGATGACAC
* * *
53182 GGCTACTATTAATTAAAAAGTGAAAATCTTGATAAGATTATTGCGGTCGTAAAAATATAT
1 GGCTACTATTAATTAAAAAGTGAAAATCTTGATAAAATTATTACGATCGTAAAAATATAT
*
53242 GGCTACTATTAATTAAAAAGTGAAAATCTTGATAAAATTATTACGATTGTAAAAATATAT
1 GGCTACTATTAATTAAAAAGTGAAAATCTTGATAAAATTATTACGATCGTAAAAATATAT
53302 ATACTTACGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.34
Consensus pattern (60 bp):
GGCTACTATTAATTAAAAAGTGAAAATCTTGATAAAATTATTACGATCGTAAAAATATAT
Found at i:53370 original size:13 final size:13
Alignment explanation
Indices: 53354--53387 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53344 ACGATTAATT
* *
53354 ATAATAAATTTTG
1 ATAATAAATATCG
53367 ATAATAAATATCG
1 ATAATAAATATCG
53380 ATAATAAA
1 ATAATAAA
53388 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (13 bp):
ATAATAAATATCG
Found at i:54543 original size:15 final size:15
Alignment explanation
Indices: 54525--54564 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
54515 TATAACTCTT
54525 TTTTTTAAATTATAA
1 TTTTTTAAATTATAA
*
54540 TTTTTTATCATTATAA
1 TTTTTTA-AATTATAA
54556 TTTTATTAA
1 TTTT-TTAA
54565 TGTAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 11 0.52
17 3 0.14
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTTAAATTATAA
Found at i:55430 original size:19 final size:20
Alignment explanation
Indices: 55403--55444 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
55393 TATTTTTAAA
55403 TTATCATT-ATAAATATTT-T
1 TTATCATTAATAAA-ATTTAT
*
55422 TTATTATTAATAAAATTTAT
1 TTATCATTAATAAAATTTAT
55442 TTA
1 TTA
55445 AAATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATCATTAATAAAATTTAT
Found at i:56264 original size:25 final size:27
Alignment explanation
Indices: 56208--56264 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
56198 AATAAAATAG
*
56208 TATTTTATCCATTTAAAATTTTATAAA
1 TATTTTATCCATTTAAAATTATATAAA
* *
56235 T-TTTTAT-CATTTTAAATTAT-TAAT
1 TATTTTATCCATTTAAAATTATATAAA
56259 TATTTT
1 TATTTT
56265 GGGTTTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.15
25 15 0.58
26 6 0.23
27 1 0.04
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTTTATCCATTTAAAATTATATAAA
Found at i:57252 original size:15 final size:17
Alignment explanation
Indices: 57220--57257 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
57210 ATACTTCATA
57220 TGATTTTAATAATGATT
1 TGATTTTAATAATGATT
*
57237 T-ATTTTAA-ATTGATT
1 TGATTTTAATAATGATT
57252 TGATTT
1 TGATTT
57258 AATTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (17 bp):
TGATTTTAATAATGATT
Found at i:57312 original size:24 final size:25
Alignment explanation
Indices: 57254--57314 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
57244 AATTGATTTG
57254 ATTTAATT-T-AAATTATTATTAAA
1 ATTTAATTATAAAATTATTATTAAA
* ** *
57277 ATATAAAAATAAAATT-TTATTTAA
1 ATTTAATTATAAAATTATTATTAAA
57301 ATTTAATTATAAAA
1 ATTTAATTATAAAA
57315 ATATATAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 5 0.17
24 19 0.66
25 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTAATTATAAAATTATTATTAAA
Found at i:57318 original size:38 final size:36
Alignment explanation
Indices: 57254--57325 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 36
57244 AATTGATTTG
*
57254 ATTTAATTTAAATTATTATTAAAATATAAAAATAAA
1 ATTTAATTTAAATTATTATAAAAATATAAAAATAAA
* *
57290 ATTTTATTTAAATTTAATTATAAAAATATATAAATA
1 ATTTAATTTAAA-TT-ATTATAAAAATATAAAAATA
57326 TTTATTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 11 0.35
37 2 0.06
38 18 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (36 bp):
ATTTAATTTAAATTATTATAAAAATATAAAAATAAA
Found at i:58151 original size:26 final size:26
Alignment explanation
Indices: 58097--58152 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
58087 TAAATGATTT
* *
58097 AAATTTAATAAATAAATAATTAATTA
1 AAATTTAATAAATAAATAATAAATAA
58123 AAATTTAA-ATAATAAA-AATAAAATAA
1 AAATTTAATA-AATAAATAAT-AAATAA
58149 AAAT
1 AAAT
58153 ATTTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATTTAATAAATAAATAATAAATAA
Found at i:59206 original size:17 final size:17
Alignment explanation
Indices: 59174--59220 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
59164 TTATAAATTT
*
59174 TATTTAAAAT-ATTTTA
1 TATTTATAATAATTTTA
59190 TATTTATAATAATTTTA
1 TATTTATAATAATTTTA
*
59207 -ATATATTAATAATT
1 TATTTA-TAATAATT
59221 AATATTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTATAATAATTTTA
Found at i:59262 original size:8 final size:7
Alignment explanation
Indices: 59242--59297 Score: 51
Period size: 8 Copynumber: 7.6 Consensus size: 7
59232 AATTTTAAAA
59242 ATATATTT
1 ATAT-TTT
*
59250 ATATTAT
1 ATATTTT
59257 ATTATTTT
1 A-TATTTT
59265 ATATTTTT
1 ATA-TTTT
59273 ATAATTTT
1 AT-ATTTT
*
59281 ATATATT
1 ATATTTT
59288 ATA-TTT
1 ATATTTT
59294 ATAT
1 ATAT
59298 AATTACATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
6 5 0.12
7 12 0.30
8 22 0.55
9 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
ATATTTT
Found at i:59273 original size:23 final size:24
Alignment explanation
Indices: 59242--59307 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
59232 AATTTTAAAA
* *
59242 ATATATTTAT-ATTATATTATTTT
1 ATATTTTTATAATTATATTATATT
*
59265 ATATTTTTATAATTTTA-TATATT
1 ATATTTTTATAATTATATTATATT
* *
59288 ATATTTATATAATTACATTA
1 ATATTTTTATAATTATATTA
59308 AATATTATCG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 28 0.80
24 7 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATTTTTATAATTATATTATATT
Found at i:59281 original size:16 final size:16
Alignment explanation
Indices: 59164--59291 Score: 62
Period size: 16 Copynumber: 8.4 Consensus size: 16
59154 ATTTATGATA
59164 TTATA-AATTTTAT-T
1 TTATATAATTTTATAT
* *
59178 TAAAAT-ATTTTATAT
1 TTATATAATTTTATAT
59193 TTATAATAATTTTAATAT
1 TTAT-ATAATTTT-ATAT
*
59211 ATTA-ATAA-TTAATA-
1 -TTATATAATTTTATAT
*
59225 TTACATAAATTTTA-A-
1 TTATAT-AATTTTATAT
**
59240 AAATAT-A-TTTATA-
1 TTATATAATTTTATAT
*
59253 TTATATTATTTTATAT
1 TTATATAATTTTATAT
*
59269 TTTTATAATTTTATAT
1 TTATATAATTTTATAT
59285 ATTATAT
1 -TTATAT
59292 TTATATAATT
Statistics
Matches: 86, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
12 4 0.05
13 9 0.10
14 13 0.15
15 18 0.21
16 21 0.24
17 14 0.16
18 4 0.05
19 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATAATTTTATAT
Found at i:66798 original size:20 final size:20
Alignment explanation
Indices: 66773--66810 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66763 ATTATTTAAC
* *
66773 ATAATTTAAATTTTTATTTA
1 ATAATTAAAAATTTTATTTA
66793 ATAATTAAAAATTTTATT
1 ATAATTAAAAATTTTATT
66811 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTAAAAATTTTATTTA
Found at i:70266 original size:25 final size:26
Alignment explanation
Indices: 70223--70274 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
70213 TTTTGATTTT
70223 TTTTTCAATTTTTTAATATGTAAAATA
1 TTTTTCAATTTTTTAATAT-TAAAATA
*
70250 TTTTT-AA-TTTTTAATATTAAGATA
1 TTTTTCAATTTTTTAATATTAAAATA
70274 T
1 T
70275 AATTAAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 2 0.08
27 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTCAATTTTTTAATATTAAAATA
Found at i:70280 original size:24 final size:25
Alignment explanation
Indices: 70232--70280 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
70222 TTTTTTCAAT
**
70232 TTTTTAATATGTAAAATATTTTTAA
1 TTTTTAATATGTAAAATATAATTAA
*
70257 TTTTTAATAT-TAAGATATAATTAA
1 TTTTTAATATGTAAAATATAATTAA
70281 ACTGACGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTTAATATGTAAAATATAATTAA
Found at i:72611 original size:19 final size:19
Alignment explanation
Indices: 72589--72636 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
72579 TAAACTATAT
72589 ATGT-TTATGGCATATGGGC
1 ATGTCTTATGGC-TATGGGC
* * *
72608 ATGTGTTACGTCTATGGGC
1 ATGTCTTATGGCTATGGGC
72627 ATGTCTTATG
1 ATGTCTTATG
72637 TCTCATTCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.19, C:0.12, G:0.29, T:0.40
Consensus pattern (19 bp):
ATGTCTTATGGCTATGGGC
Found at i:72639 original size:19 final size:19
Alignment explanation
Indices: 72601--72639 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
72591 GTTTATGGCA
*
72601 TATGGGCATGTGTTACGTC
1 TATGGGCATGTCTTACGTC
*
72620 TATGGGCATGTCTTATGTC
1 TATGGGCATGTCTTACGTC
72639 T
1 T
72640 CATTCGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.41
Consensus pattern (19 bp):
TATGGGCATGTCTTACGTC
Found at i:74572 original size:59 final size:59
Alignment explanation
Indices: 74495--74616 Score: 217
Period size: 59 Copynumber: 2.1 Consensus size: 59
74485 CAAAACAACA
* *
74495 TCAAATTTTAGTTTCATTCACATAATCACAATAACAAATGAAGGAATTTCGGCATTTAT
1 TCAAATTTTAGTTTCATTCACATAATCACAATAACAAACGAAGGAATTTCGACATTTAT
*
74554 TCAAATTTTAGTTTCATTCACATAATCACAATAACAAACGAGGGAATTTCGACATTTAT
1 TCAAATTTTAGTTTCATTCACATAATCACAATAACAAACGAAGGAATTTCGACATTTAT
74613 TCAA
1 TCAA
74617 GAAAAAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (59 bp):
TCAAATTTTAGTTTCATTCACATAATCACAATAACAAACGAAGGAATTTCGACATTTAT
Found at i:75578 original size:24 final size:24
Alignment explanation
Indices: 75551--75598 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
75541 ATTTTTAAAT
75551 ATTTTTTTATTTAAACTTGATTTG
1 ATTTTTTTATTTAAACTTGATTTG
*
75575 ATTTTTTTATTTAAATTTGATTTG
1 ATTTTTTTATTTAAACTTGATTTG
75599 GTTCATAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (24 bp):
ATTTTTTTATTTAAACTTGATTTG
Found at i:75831 original size:77 final size:76
Alignment explanation
Indices: 75735--75894 Score: 252
Period size: 77 Copynumber: 2.1 Consensus size: 76
75725 AATATAATAA
*
75735 AAATGATAAAAAGGCATATATATTATAAAATTTTATTTATTCAAATAT-AAT-TTGTTTGTGAGA
1 AAAT-ATAAAAAGGCATATATATTATAAAATTTTAATTATTCAAATATAAATGTTGTTTGTGAGA
75798 TTTTATATTTTATTC
65 -TTT-TA-TTTATTC
*
75813 AAATATAAAAAGGCATATATATTATAAAATTTTAATTATTCAAATATAAATGTTGTTTGTGATAT
1 AAATATAAAAAGGCATATATATTATAAAATTTTAATTATTCAAATATAAATGTTGTTTGTGAGAT
75878 TTTATTTATTC
66 TTTATTTATTC
75889 AAATAT
1 AAATAT
75895 TTTATTTTAT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
76 13 0.17
77 44 0.56
78 10 0.13
79 11 0.14
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (76 bp):
AAATATAAAAAGGCATATATATTATAAAATTTTAATTATTCAAATATAAATGTTGTTTGTGAGAT
TTTATTTATTC
Found at i:75896 original size:17 final size:18
Alignment explanation
Indices: 75874--75912 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
75864 GTTGTTTGTG
75874 ATATTTTA-TTTATTCAA
1 ATATTTTATTTTATTCAA
75891 ATATTTTATTTTATTCAA
1 ATATTTTATTTTATTCAA
75909 ATAT
1 ATAT
75913 AAAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTTATTTTATTCAA
Found at i:75919 original size:18 final size:18
Alignment explanation
Indices: 75882--75922 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
75872 TGATATTTTA
***
75882 TTTATTCAAATATTTTAT
1 TTTATTCAAATATAAAAT
75900 TTTATTCAAATATAAAAT
1 TTTATTCAAATATAAAAT
75918 TTTAT
1 TTTAT
75923 GAAATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATTCAAATATAAAAT
Found at i:78291 original size:12 final size:12
Alignment explanation
Indices: 78274--78299 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78264 TATGTTTAGG
78274 TTATTATCTCAA
1 TTATTATCTCAA
78286 TTATTATCTCAA
1 TTATTATCTCAA
78298 TT
1 TT
78300 TTCAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATTATCTCAA
Found at i:79587 original size:18 final size:18
Alignment explanation
Indices: 79564--79605 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
79554 TATCAACCCC
79564 AAATGTATCCTCTACCAT
1 AAATGTATCCTCTACCAT
* *
79582 AAATGTATCCTTTACCTT
1 AAATGTATCCTCTACCAT
79600 AAATGT
1 AAATGT
79606 GTCATCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.38
Consensus pattern (18 bp):
AAATGTATCCTCTACCAT
Found at i:80092 original size:20 final size:20
Alignment explanation
Indices: 80063--80134 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
80053 TACCCAGATG
80063 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * * *
80083 TATTGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* * *
80103 TATCGATATATTCTTCAATT
1 TATCGATACATTTTTCAATA
80123 TATCGATACATT
1 TATCGATACATT
80135 ATGTCTTTTT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:80120 original size:40 final size:39
Alignment explanation
Indices: 80060--80137 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
80050 TTTTACCCAG
* *
80060 ATGTATCGATACATTTTTCAATATATTGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
80100 ATGTATCGATATATTCTTCAATTTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
80138 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:81077 original size:20 final size:19
Alignment explanation
Indices: 81045--81090 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
81035 TGCCTTTGAC
*
81045 CATGCATTTTTTATTATGTTT
1 CATGCA-TTTTTAATAT-TTT
81066 CATGCATTTTTAATATTTT
1 CATGCATTTTTAATATTTT
81085 CA-GCAT
1 CATGCAT
81091 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 9 0.38
21 6 0.25
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (19 bp):
CATGCATTTTTAATATTTT
Found at i:86985 original size:33 final size:33
Alignment explanation
Indices: 86948--87014 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
86938 TTCAACGATT
86948 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
86981 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
87014 T
1 T
87015 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:86986 original size:13 final size:13
Alignment explanation
Indices: 86968--86992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86958 CATAAAATGT
86968 TGTATCGATACAA
1 TGTATCGATACAA
86981 TGTATCGATACA
1 TGTATCGATACA
86993 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:87075 original size:13 final size:13
Alignment explanation
Indices: 87057--87081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87047 ATTACTCACA
87057 TGTATCGATACAT
1 TGTATCGATACAT
87070 TGTATCGATACA
1 TGTATCGATACA
87082 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:87218 original size:52 final size:52
Alignment explanation
Indices: 87090--87210 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
87080 CACTGATCTT
*
87090 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
87142 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
87194 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
87211 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:97782 original size:9 final size:9
Alignment explanation
Indices: 97768--97836 Score: 57
Period size: 9 Copynumber: 7.1 Consensus size: 9
97758 TTAAACCCAA
97768 AAAAAAAAT
1 AAAAAAAAT
*
97777 AAAAAAAAC
1 AAAAAAAAT
*
97786 AAAAAAAAC
1 AAAAAAAAT
*
97795 AAAACAAAAA
1 AAAA-AAAAT
*
97805 AACAAAAAAA
1 AA-AAAAAAT
97815 AAGAAAAAAT
1 AA-AAAAAAT
97825 AGCAAAAAAAT
1 A--AAAAAAAT
97836 A
1 A
97837 GAAGGGTCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
9 21 0.40
10 20 0.38
11 10 0.19
12 1 0.02
ACGTcount: A:0.86, C:0.07, G:0.03, T:0.04
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:97785 original size:22 final size:20
Alignment explanation
Indices: 97765--97834 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 20
97755 CCTTTAAACC
97765 CAAAAAAAAAATAA-AAAAAA
1 CAAAAAAAAAA-AACAAAAAA
97785 CAAAAAAAACAAAACAAAAAAA
1 CAAAAAAAA-AAAAC-AAAAAA
* *
97807 CAAAAAAAAAGAAA-AAATAG
1 CAAAAAAAAA-AAACAAAAAA
97827 CAAAAAAA
1 CAAAAAAA
97835 TAGAAGGGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 23 0.52
21 3 0.07
22 18 0.41
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.03
Consensus pattern (20 bp):
CAAAAAAAAAAAACAAAAAA
Found at i:97834 original size:1 final size:1
Alignment explanation
Indices: 97766--97823 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
97756 CTTTAAACCC
* * * * * *
97766 AAAAAAAAAATAAAAAAAACAAAAAAAACAAAACAAAAAAACAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
97824 TAGCAAAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.90, C:0.07, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:99247 original size:29 final size:29
Alignment explanation
Indices: 99059--99746 Score: 793
Period size: 29 Copynumber: 23.4 Consensus size: 29
99049 GTTCAAACCC
99059 TTTCAAAGCCCACAAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
99087 TTTCAAAGCCCACAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
99116 TTTCAAAGCCCATGCAAGTCAGTGGCACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
* * *
99147 TTT-AAAGCCCACAAGTTAGTGACACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
99175 TTTCAAAGCCCATGCAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
99205 TTTTAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
99234 TTTCAAAGCTCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
99262 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
99291 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
99320 TTTCAAAGCCCACACAAGTCGGTGGTAAGTCT
1 TTTCAAAG-CC-CACAAGTCAGTGG-CACTCT
* *
99352 TTTCAATGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
99380 TTTCAAAGCCCACGCAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
99410 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
99439 TTTCAAAGCCCACAAGAT-AGTGGCACCCC
1 TTTCAAAGCCCACAAG-TCAGTGGCACTCT
* * *
99468 TTTAAAAGCCCACAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
99497 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
99525 TTTCAAAACCCACAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
99554 TTCCAAAGTCCACAAGTCAGTGGAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
99583 TTTCAAAGCCCACACAAGTCGGTAGCAACTCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT
* * * *
99615 TTTCAAAGCCCACACAAATTAGTGACAC-CC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
* *
99645 TTCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
99674 TTT-AAAGCCCACAAGCCAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTCAGTGG-CACTCT
*
99703 TTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
*
99735 TTTCAAGGCCCA
1 TTTCAAAGCCCA
99747 TATAAGTTAG
Statistics
Matches: 575, Mismatches: 59, Indels: 48
0.84 0.09 0.07
Matches are distributed among these distances:
28 167 0.29
29 207 0.36
30 83 0.14
31 58 0.10
32 60 0.10
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:99539 original size:263 final size:260
Alignment explanation
Indices: 99059--99716 Score: 939
Period size: 263 Copynumber: 2.5 Consensus size: 260
99049 GTTCAAACCC
* *
99059 TTTCAAAG-CC-CACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCA
1 TTTCAAAGCCCACACAAGTCGGTGGAACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCA
* *
99121 AAGCCCATGCAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGACACCCTTTTCAAAGCCC
65 AAGCCCA-GCAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCC
* * * * *
99186 ATGCAAGTCAGTGGCACCTTTTTAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAGT
129 A--CAAGTCAGTGGCACCCTTTAAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGT
* * *
99251 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
192 CAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCACTCTTTCCAAAGCCCACAAGTCAGTGGAA
99316 CTCT
257 CTCT
* *
99320 TTTCAAAGCCCACACAAGTCGGTGGTAAGTCTTTTCAATGCCCACAAGTCAGTGGCACCCTTTCA
1 TTTCAAAGCCCACACAAGTCGGTGG-AACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
*
99385 AAGCCCACGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCC
65 AAGCCCA-GCAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCC
99450 ACAAGAT-AGTGGCACCCCTTTAAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGT
129 ACAAG-TCAGTGGCA-CCCTTTAAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGT
* * *
99514 CAGTGGCACCTTTTCAAAACCCACAAGTCAGTGGCATTCTTTCCAAAGTCCACAAGTCAGTGGAA
192 CAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCACTCTTTCCAAAGCCCACAAGTCAGTGGAA
99579 CTCT
257 CTCT
* * * * *
99583 TTTCAAAGCCCACACAAGTCGGTAGCAACTCTTTTCAAAGCCCACACAAATTAGTGACACCCTTC
1 TTTCAAAGCCCACACAAGTCGGT-GGAACTCTTTTCAAAG-CC-CACAAGTCAGTGGCACCCTTT
** *
99648 CAAAGCCCA-CAAGTCAGTGGCACCCTTTTAAAGCCCACAAGCCAGTGGTAACTCTTTTCAAAGC
63 CAAAGCCCAGCAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGG-CACTCTTTTCAAAGC
99712 CCACA
127 CCACA
99717 CGAGTCGGTG
Statistics
Matches: 357, Mismatches: 30, Indels: 17
0.88 0.07 0.04
Matches are distributed among these distances:
261 8 0.02
262 13 0.04
263 191 0.54
264 95 0.27
265 50 0.14
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (260 bp):
TTTCAAAGCCCACACAAGTCGGTGGAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
AGCCCAGCAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCAC
AAGTCAGTGGCACCCTTTAAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGT
GGCACCCTTTCAAAACCCACAAGTCAGTGGCACTCTTTCCAAAGCCCACAAGTCAGTGGAACTCT
Found at i:100355 original size:20 final size:20
Alignment explanation
Indices: 100330--100401 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
100320 TACCCATATG
100330 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
100350 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* * *
100370 TATCGATATATTCTTCAATT
1 TATCGATACATTTTTCAATA
100390 TATCGATACATT
1 TATCGATACATT
100402 ATGTCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:100387 original size:40 final size:39
Alignment explanation
Indices: 100327--100404 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
100317 TTTTACCCAT
*
100327 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
100367 ATGTATCGATATATTCTTCAATTTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
100405 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:101342 original size:20 final size:19
Alignment explanation
Indices: 101310--101355 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
101300 TGCCTTTGAC
*
101310 CATGCATTTTTTATTATGTTT
1 CATGCA-TTTTTAATAT-TTT
101331 CATGCATTTTTAATATTTT
1 CATGCATTTTTAATATTTT
101350 CA-GCAT
1 CATGCAT
101356 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 9 0.38
21 6 0.25
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (19 bp):
CATGCATTTTTAATATTTT
Found at i:105805 original size:136 final size:136
Alignment explanation
Indices: 105561--105832 Score: 526
Period size: 136 Copynumber: 2.0 Consensus size: 136
105551 AAAAAGTTGG
105561 ACAAGTTCGATTTTTTCAAACTGAAGAGCAAAGGCAATTATAGGGGAGTCAAAGATCAAAATGCC
1 ACAAGTTCGATTTTTTCAAACTGAAGAGCAAAGGCAATTATAGGGGAGTCAAAGATCAAAATGCC
* *
105626 AAAATTAGTAATGGAAAACCACAAATCGGGAAGCGAAAGTCTTACAGGCTATGGGAGAAAAAGAA
66 AAAATTAGTAATGGAAAACCACAAATCGGGAAGCCAAAGTCTTACAGGCTATGAGAGAAAAAGAA
105691 AGATAA
131 AGATAA
105697 ACAAGTTCGATTTTTTCAAACTGAAGAGCAAAGGCAATTATAGGGGAGTCAAAGATCAAAATGCC
1 ACAAGTTCGATTTTTTCAAACTGAAGAGCAAAGGCAATTATAGGGGAGTCAAAGATCAAAATGCC
105762 AAAATTAGTAATGGAAAACCACAAATCGGGAAGCCAAAGTCTTACAGGCTATGAGAGAAAAAGAA
66 AAAATTAGTAATGGAAAACCACAAATCGGGAAGCCAAAGTCTTACAGGCTATGAGAGAAAAAGAA
105827 AGATAA
131 AGATAA
105833 GGAGTCGGTG
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 134 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (136 bp):
ACAAGTTCGATTTTTTCAAACTGAAGAGCAAAGGCAATTATAGGGGAGTCAAAGATCAAAATGCC
AAAATTAGTAATGGAAAACCACAAATCGGGAAGCCAAAGTCTTACAGGCTATGAGAGAAAAAGAA
AGATAA
Found at i:107896 original size:44 final size:44
Alignment explanation
Indices: 107833--107944 Score: 197
Period size: 44 Copynumber: 2.5 Consensus size: 44
107823 TCCTAATTAA
* *
107833 TAGCCTAAATTGTAAGATCTGATTATACAGTTGTAGTTGACTTT
1 TAGCCTAAATTGTAAGATCTGATTATACAGCTGTAGTTGACTTC
*
107877 TAGCCTAAATTGTAAGATCTGATTATACAGCTGTATTTGACTTC
1 TAGCCTAAATTGTAAGATCTGATTATACAGCTGTAGTTGACTTC
107921 TAGCCTAAATTGTAAGATCTGATT
1 TAGCCTAAATTGTAAGATCTGATT
107945 TTTCAATGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (44 bp):
TAGCCTAAATTGTAAGATCTGATTATACAGCTGTAGTTGACTTC
Found at i:112519 original size:42 final size:42
Alignment explanation
Indices: 112460--112589 Score: 154
Period size: 46 Copynumber: 3.0 Consensus size: 42
112450 AAGTAGAGAT
* *
112460 AAAATTCTAGCAATGAAGGCTAAATGAAATAGATTCTG-GAAA
1 AAAATTTTAGCAATGAAGGCTGAAT-AAATAGATTCTGAGAAA
*
112502 AAAATTTTAGCAATGAAGGCTGAATAACATAGATTTTGGACAGAAA
1 AAAATTTTAGCAATGAAGGCTGAATAA-ATAGATTCT-G--AGAAA
* *
112548 AAAATTTCAGCAATGAAGGCTGAATAAAACAGATTCTGAGAA
1 AAAATTTTAGCAATGAAGGCTGAAT-AAATAGATTCTGAGAA
112590 GGTGTTTTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
41 2 0.03
42 31 0.41
43 5 0.07
45 1 0.01
46 35 0.46
47 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.24
Consensus pattern (42 bp):
AAAATTTTAGCAATGAAGGCTGAATAAATAGATTCTGAGAAA
Found at i:112873 original size:44 final size:44
Alignment explanation
Indices: 112810--112921 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
112800 TTCTAATTAA
* * * *
112810 TAGCCTAAATTATATGATCTGATTATACAACTGTAGTTGACTTT
1 TAGCCTAAATTGTAAGATCTGATTATACAACTGTAGTTAACTTC
* * *
112854 TAGCCTAAATTGTAAGATCTGATTATATAGCTGTATTTAACTTC
1 TAGCCTAAATTGTAAGATCTGATTATACAACTGTAGTTAACTTC
* *
112898 TAGCTTAAATTGTAGGATCTGATT
1 TAGCCTAAATTGTAAGATCTGATT
112922 TTTTAATGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (44 bp):
TAGCCTAAATTGTAAGATCTGATTATACAACTGTAGTTAACTTC
Done.