Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2225
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: 146236
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
File 1 of 2
Found at i:817 original size:27 final size:29
Alignment explanation
Indices: 771--836 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
761 TTAACATACA
771 ATATAATATAAATATATATT-TAAAAATTT
1 ATAT-ATATAAATATATATTATAAAAATTT
*
800 -TATATATAAAT-TATTATTATTAAAATTT
1 ATATATATAAATATA-TATTATAAAAATTT
828 ATATATATA
1 ATATATATA
837 TACATATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.06
27 12 0.36
28 11 0.33
29 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATATATAAATATATATTATAAAAATTT
Found at i:844 original size:27 final size:29
Alignment explanation
Indices: 771--844 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 29
761 TTAACATACA
771 ATATA-ATATAAATATATATTTAAAAATTTT
1 ATATATATAT-AATAT-TATTTAAAAATTTT
* *
801 ATATATA-A-ATTATTATTATTAAAA-TTT
1 ATATATATATAATATTATT-TAAAAATTTT
828 ATATATATATACATATT
1 ATATATATATA-ATATT
845 TGAAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
27 14 0.39
28 10 0.28
29 1 0.03
30 10 0.28
31 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
ATATATATATAATATTATTTAAAAATTTT
Found at i:3090 original size:24 final size:24
Alignment explanation
Indices: 3024--3099 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 24
3014 AAATATATAA
* *
3024 AAAAATATAATACG-TATATAATATT
1 AAAAATA-AATATGATATAAAATA-T
* * *
3049 AAAAATTAAT-TAAAATAAAATAT
1 AAAAATAAATATGATATAAAATAT
3072 AAAAATAAATATGATAT-AAATAT
1 AAAAATAAATATGATATAAAATAT
3095 AAAAA
1 AAAAA
3100 CATATAAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
23 21 0.51
24 14 0.34
25 6 0.15
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (24 bp):
AAAAATAAATATGATATAAAATAT
Found at i:4289 original size:3 final size:3
Alignment explanation
Indices: 4277--4364 Score: 81
Period size: 3 Copynumber: 27.7 Consensus size: 3
4267 ATATAGATAG
4277 ATA ATAA ATA ATA ATA ATA ATA A-A TATA GAT- ATA GATAA ATA GATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA -ATA -ATA ATA -AT-A ATA -ATA
* *
4323 ATAA AGA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA AT
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4365 GTAGGCTCAC
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
2 3 0.04
3 53 0.74
4 15 0.21
5 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4333 original size:43 final size:43
Alignment explanation
Indices: 4259--4342 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
4249 TACACATTAA
* * * *
4259 ATAGGTATATATAGATAGATAATAAATAATAATAATAATAAAT
1 ATAGATATAGATAAATAGATAATAAAGAATAATAATAATAAAT
*
4302 ATAGATATAGATAAATAGATAATAAAGAATAATAATTATAA
1 ATAGATATAGATAAATAGATAATAAAGAATAATAATAATAA
4343 TAATAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (43 bp):
ATAGATATAGATAAATAGATAATAAAGAATAATAATAATAAAT
Found at i:5388 original size:19 final size:19
Alignment explanation
Indices: 5364--5416 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 19
5354 TTTTTAAAAT
5364 ATAATATAGATTATATAAA
1 ATAATATAGATTATATAAA
5383 ATAATAT--A--ATATAAA
1 ATAATATAGATTATATAAA
5398 ATAAGTAATAGATTATATA
1 ATAA-T-ATAGATTATATA
5417 CCAGATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
15 11 0.39
16 1 0.04
17 3 0.11
19 8 0.29
21 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
ATAATATAGATTATATAAA
Found at i:7395 original size:16 final size:17
Alignment explanation
Indices: 7324--7396 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 17
7314 GACTTCTATT
*
7324 TTTTTTTCTGATTTTTC
1 TTTTTTTCTCATTTTTC
*
7341 TTTTATTTTTCATTTTT-
1 TTTT-TTTCTCATTTTTC
** *
7358 TGGGTTTT-TCATTTTTAA
1 T-TTTTTTCTCATTTTT-C
7376 TTTTTTTCT-ATTTTTC
1 TTTTTTTCTCATTTTTC
7392 TTTTT
1 TTTTT
7397 GAATCTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
16 13 0.30
17 18 0.41
18 13 0.30
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTCTCATTTTTC
Found at i:7396 original size:24 final size:24
Alignment explanation
Indices: 7362--7407 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7352 ATTTTTTGGG
* *
7362 TTTTTCATTTTTAATTTTTTTCTA
1 TTTTTCATTTTGAATCTTTTTCTA
*
7386 TTTTTCTTTTTGAATCTTTTTC
1 TTTTTCATTTTGAATCTTTTTC
7408 GATTATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTCATTTTGAATCTTTTTCTA
Found at i:9486 original size:30 final size:31
Alignment explanation
Indices: 9452--9514 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
9442 TATTCATAAG
*
9452 ATTTTGTTCTAAGTT-TTAATTCACTTTATT
1 ATTTTGTTCTAAGTTCTTAATTCACTTCATT
*
9482 ATTTTGTTTTAAGTTCTTAATTCACTTCATT
1 ATTTTGTTCTAAGTTCTTAATTCACTTCATT
9513 AT
1 AT
9515 CTGCGATCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (31 bp):
ATTTTGTTCTAAGTTCTTAATTCACTTCATT
Found at i:9937 original size:17 final size:17
Alignment explanation
Indices: 9912--9945 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9902 TCAGTCAATA
*
9912 AAATGTAAATTCAAATG
1 AAATATAAATTCAAATG
*
9929 AAATATAAATTTAAATG
1 AAATATAAATTCAAATG
9946 TAAAGAGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (17 bp):
AAATATAAATTCAAATG
Found at i:11921 original size:20 final size:20
Alignment explanation
Indices: 11877--11921 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11867 CTTTTTTTTG
* *
11877 AAAATTTAAAATACTGTTAA
1 AAAATTTAAAATACAGTGAA
*
11897 AAAATTTATAATACAGTGAA
1 AAAATTTAAAATACAGTGAA
*
11917 TAAAT
1 AAAAT
11922 AAGCTAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAATACAGTGAA
Found at i:12501 original size:12 final size:12
Alignment explanation
Indices: 12486--12511 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12476 CAAATGATGC
12486 TTCAAAGTTAAT
1 TTCAAAGTTAAT
12498 TTCAAAGTTAAT
1 TTCAAAGTTAAT
12510 TT
1 TT
12512 GAATGTTGAA
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTCAAAGTTAAT
Found at i:12878 original size:3 final size:3
Alignment explanation
Indices: 12870--12908 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
12860 ACATGAGTAG
12870 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12909 GATCTATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12955 original size:22 final size:21
Alignment explanation
Indices: 12930--12970 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
12920 TGTAAAAGTA
12930 AATTTATTT-TACATATTTATAT
1 AATTT-TTTATACA-ATTTATAT
12952 AATTTTTTATACAATTTAT
1 AATTTTTTATACAATTTAT
12971 GAATTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTTTTTATACAATTTATAT
Found at i:13999 original size:36 final size:36
Alignment explanation
Indices: 13959--14029 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
13949 AGCCACGCAA
*
13959 AAATTGATTTGAAT-TTGTGGGACAAATTTAAGTCCC
1 AAATTAATTTGAATCTT-TGGGACAAATTTAAGTCCC
*
13995 AAATTAATTTGAATCTTTGGTACAAATTTAAGTCC
1 AAATTAATTTGAATCTTTGGGACAAATTTAAGTCC
14030 ATGGCGGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (36 bp):
AAATTAATTTGAATCTTTGGGACAAATTTAAGTCCC
Found at i:14779 original size:21 final size:22
Alignment explanation
Indices: 14753--14793 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14743 CTTTTAATAT
14753 AAAAATAC-TTTATTTGTTAAA
1 AAAAATACTTTTATTTGTTAAA
14774 AAAAATACTTTTATTTGTTA
1 AAAAATACTTTTATTTGTTA
14794 TATATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (22 bp):
AAAAATACTTTTATTTGTTAAA
Found at i:14856 original size:22 final size:23
Alignment explanation
Indices: 14828--14872 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
14818 ATTGTTTGAC
*
14828 TAAAAAAGAAATAAAT-TATTTA
1 TAAAAAAGAAAAAAATATATTTA
*
14850 TAAAAAATAAAAAAATATATTTA
1 TAAAAAAGAAAAAAATATATTTA
14873 AATGTGATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
TAAAAAAGAAAAAAATATATTTA
Found at i:15374 original size:24 final size:26
Alignment explanation
Indices: 15323--15380 Score: 84
Period size: 24 Copynumber: 2.3 Consensus size: 26
15313 TGGGTGGCTA
*
15323 GTCAACAAAAACCACCCTTTGTGTTT
1 GTCAACAAAAACCACCCTATGTGTTT
*
15349 GTCAACAAAAGCCA-CC-ATGTGTTT
1 GTCAACAAAAACCACCCTATGTGTTT
15373 GTCAACAA
1 GTCAACAA
15381 TGGTGGTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 15 0.50
25 2 0.07
26 13 0.43
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (26 bp):
GTCAACAAAAACCACCCTATGTGTTT
Found at i:15409 original size:27 final size:27
Alignment explanation
Indices: 15370--15435 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
15360 CCACCATGTG
*
15370 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTGGTTACTTTGTA
* * *
15397 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTGTA
15424 TTTGTCAAAAAT
1 TTTGTCAAAAAT
15436 TATGGCTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTGTA
Found at i:15465 original size:24 final size:24
Alignment explanation
Indices: 15397--15466 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
15387 TTACTTTGTA
* *
15397 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTGTTG
*
15424 TTTGTCAAAAATT-ATGGCTTGTTG
1 TTTGTC-AAAATTGGTGGCTTGTTG
15448 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
15467 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
27 9 0.24
28 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTGTTG
Found at i:18039 original size:21 final size:22
Alignment explanation
Indices: 18010--18055 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
18000 TGTTCAGACA
* *
18010 AGTAGTACTCCACAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
18032 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
18053 AGT
1 AGT
18056 TTCAACAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:19974 original size:24 final size:26
Alignment explanation
Indices: 19919--19976 Score: 84
Period size: 24 Copynumber: 2.3 Consensus size: 26
19909 TGGGTGGCTA
19919 GTCAACAAAAACCACCCATTGTGTTT
1 GTCAACAAAAACCACCCATTGTGTTT
* *
19945 GCCAACAAAAGCCA-CCA-TGTGTTT
1 GTCAACAAAAACCACCCATTGTGTTT
19969 GTCAACAA
1 GTCAACAA
19977 TGGTGGTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 14 0.48
25 3 0.10
26 12 0.41
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (26 bp):
GTCAACAAAAACCACCCATTGTGTTT
Found at i:19998 original size:27 final size:27
Alignment explanation
Indices: 19966--20031 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
19956 CCACCATGTG
*
19966 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTGGTTACTTTGTA
* * *
19993 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTGTA
20020 TTTGTCAAAAAT
1 TTTGTCAAAAAT
20032 TATGGCTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTGTA
Found at i:20061 original size:24 final size:24
Alignment explanation
Indices: 19993--20062 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
19983 TTACTTTGTA
* *
19993 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTGTTG
*
20020 TTTGTCAAAAATT-ATGGCTTGTTG
1 TTTGTC-AAAATTGGTGGCTTGTTG
20044 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
20063 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
27 9 0.24
28 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTGTTG
Found at i:22230 original size:21 final size:21
Alignment explanation
Indices: 22206--22245 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22196 TACAAAATAT
22206 AAATAAATATAAAATATTTTA
1 AAATAAATATAAAATATTTTA
* * *
22227 AAATTATTATAAATTATTT
1 AAATAAATATAAAATATTT
22246 AATTAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATAAATATAAAATATTTTA
Found at i:22521 original size:11 final size:11
Alignment explanation
Indices: 22505--22588 Score: 74
Period size: 11 Copynumber: 8.3 Consensus size: 11
22495 TGACATAGTT
22505 ATATAATATAA
1 ATATAATATAA
22516 ATATAATATAA
1 ATATAATATAA
*
22527 AAATAAT-TAA
1 ATATAATATAA
*
22537 A-AT-AT-TAC
1 ATATAATATAA
*
22545 ATAAAATATAA
1 ATATAATATAA
22556 A-ATAATA-AA
1 ATATAATATAA
22565 A-ATAATATAA
1 ATATAATATAA
* *
22575 ACATTATATAA
1 ATATAATATAA
22586 ATA
1 ATA
22589 GATAAATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
8 5 0.08
9 12 0.20
10 14 0.23
11 30 0.49
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATAATATAA
Found at i:22541 original size:28 final size:26
Alignment explanation
Indices: 22509--22574 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
22499 ATAGTTATAT
22509 AATATAAATATAATATAAAAATAATTAA
1 AATATAAATATAATAT-AAAATAA-TAA
* *
22537 AATATTACATAAAATATAAAATAATAA
1 AATA-TAAATATAATATAAAATAATAA
22564 AA-AT-AATATAA
1 AATATAAATATAA
22575 ACATTATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 5 0.15
25 1 0.03
26 1 0.03
27 5 0.15
28 11 0.33
29 10 0.30
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (26 bp):
AATATAAATATAATATAAAATAATAA
Found at i:22596 original size:37 final size:37
Alignment explanation
Indices: 22503--22596 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 37
22493 TATGACATAG
*
22503 TTATATAATATAAATATAAT-ATAAAAATAATTAAAATA
1 TTATATAA-ATAAATA-AATAATAAAAATAATTAAAACA
* *
22541 TTACATAAA-ATATAAAATAATAAAAATAA-TATAAACA
1 TTATATAAATAAAT-AAATAATAAAAATAATTA-AAACA
*
22578 TTATATAAATAGATAAATA
1 TTATATAAATAAATAAATA
22597 TTTTAAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
36 8 0.17
37 29 0.62
38 10 0.21
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (37 bp):
TTATATAAATAAATAAATAATAAAAATAATTAAAACA
Found at i:22636 original size:30 final size:29
Alignment explanation
Indices: 22570--22678 Score: 100
Period size: 30 Copynumber: 3.7 Consensus size: 29
22560 ATAAAAATAA
*
22570 TATAAACA-TTATATAAATAGATAAATATT
1 TATAAA-ATTTATATAAATAAATAAATATT
* *
22599 T-TAAAATTTATATAAATAAATTATTATT
1 TATAAAATTTATATAAATAAATAAATATT
* *
22627 GTATAAAATTTAAATAAATATA-AAATATT
1 -TATAAAATTTATATAAATAAATAAATATT
22656 T-TAAAATAATTATAATAAATAAA
1 TATAAAAT--TTAT-ATAAATAAA
22679 ATATATAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
27 7 0.11
28 23 0.35
29 10 0.15
30 25 0.38
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (29 bp):
TATAAAATTTATATAAATAAATAAATATT
Found at i:22692 original size:28 final size:28
Alignment explanation
Indices: 22646--22706 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
22636 TTAAATAAAT
*
22646 ATAAAATATTTTAAAATAATTATAA-TAA
1 ATAAAATATTATAAAATAA-TATAAGTAA
*
22674 ATAAAATA-TATAAATATAATATAAGTAT
1 ATAAAATATTATAAA-ATAATATAAGTAA
22702 ATAAA
1 ATAAA
22707 TGATTGCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAAAATATTATAAAATAATATAAGTAA
Found at i:24813 original size:24 final size:25
Alignment explanation
Indices: 24786--24832 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24776 TCAATGTATG
*
24786 AATATATATCCTAATAA-TATATAA
1 AATATAAATCCTAATAATTATATAA
*
24810 AATATAAATCTTAATAATTATAT
1 AATATAAATCCTAATAATTATAT
24833 TTCAAGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
AATATAAATCCTAATAATTATATAA
Found at i:26783 original size:14 final size:14
Alignment explanation
Indices: 26738--26785 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
26728 TTAAAACAAA
*
26738 ATAAATATATAAATA
1 ATAAATATA-AAATG
*
26753 ATATAATA-AAAAAG
1 ATA-AATATAAAATG
26767 ATAAATATAAAATG
1 ATAAATATAAAATG
26781 ATAAA
1 ATAAA
26786 AAATAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
14 16 0.57
15 4 0.14
16 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (14 bp):
ATAAATATAAAATG
Found at i:26791 original size:15 final size:13
Alignment explanation
Indices: 26762--26806 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
26752 AATATAATAA
*
26762 AAAAGATAAATAT
1 AAAAGATAAAAAT
26775 AAAATGATAAAAAAT
1 AAAA-GAT-AAAAAT
*
26790 AAAAGGTAAAAAT
1 AAAAGATAAAAAT
26803 AAAA
1 AAAA
26807 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 14 0.50
14 5 0.18
15 9 0.32
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAAGATAAAAAT
Found at i:26794 original size:28 final size:28
Alignment explanation
Indices: 26730--26806 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
26720 TAGAAAAATT
*
26730 AAAACAAA-ATAAATATATAAATAATATA
1 AAAAAAAAGATAAATATA-AAATAATATA
* *
26758 ATAAAAAAGATAAATATAAAATGATA-A
1 AAAAAAAAGATAAATATAAAATAATATA
* *
26785 AAAATAAAAGGTAAAAATAAAA
1 AAAA-AAAAGATAAATATAAAA
26807 AAAATTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.10
28 28 0.68
29 9 0.22
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (28 bp):
AAAAAAAAGATAAATATAAAATAATATA
Found at i:26861 original size:8 final size:7
Alignment explanation
Indices: 26757--26861 Score: 84
Period size: 7 Copynumber: 14.1 Consensus size: 7
26747 TAAATAATAT
26757 AATAAAA
1 AATAAAA
*
26764 AAGATAAA
1 AATA-AAA
*
26772 TATAAAA
1 AATAAAA
*
26779 TGATAAAA
1 -AATAAAA
26787 AATAAAA
1 AATAAAA
**
26794 GGTAAAA
1 AATAAAA
*
26801 ATAAAAAA
1 A-ATAAAA
26809 AATTAAAA
1 AA-TAAAA
26817 AATTAAAA
1 AA-TAAAA
26825 AATTAAAA
1 AA-TAAAA
*
26833 ATTAAAA
1 AATAAAA
*
26840 ATTAAAA
1 AATAAAA
26847 AATAAAA
1 AATAAAA
26854 AATAAAA
1 AATAAAA
26861 A
1 A
26862 TGTGGATTGA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
7 44 0.54
8 37 0.46
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (7 bp):
AATAAAA
Found at i:27220 original size:12 final size:12
Alignment explanation
Indices: 27203--27228 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27193 CAGTAGAATG
27203 TTAAATTTATAT
1 TTAAATTTATAT
27215 TTAAATTTATAT
1 TTAAATTTATAT
27227 TT
1 TT
27229 TGTCATTTTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:27361 original size:60 final size:66
Alignment explanation
Indices: 27271--27394 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 66
27261 AAAATATATT
*
27271 TTAATATTTAAATTAAAAATAATAATAATTAATT-TA-TT-TAAATTTAAT-AAA-TCAAATTAA
1 TTAATATTTAAATTAAAAATAATAATAATTAATTAAATTTATAAATTTAATCAAACTCAAATTAA
27331 A
66 A
*
27332 TTAA-ATTTAAA-TAAAAATTTTATAA-AATTAATTAAATTTATAAATTTAATCAAACTCAAATT
1 TTAATATTTAAATTAAAAA--TAATAATAATTAATTAAATTTATAAATTTAATCAAACTCAAATT
27394 A
64 A
27395 TATTTTAAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
59 6 0.11
60 15 0.28
61 10 0.19
62 2 0.04
63 10 0.19
64 3 0.06
65 8 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (66 bp):
TTAATATTTAAATTAAAAATAATAATAATTAATTAAATTTATAAATTTAATCAAACTCAAATTAA
A
Found at i:28102 original size:7 final size:7
Alignment explanation
Indices: 28092--28138 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
28082 AACTGTAATT
28092 AAATATA
1 AAATATA
28099 AAATATA
1 AAATATA
*
28106 ATATATAA
1 AAATAT-A
28114 AAATATA
1 AAATATA
*
28121 ATATAATA
1 AAAT-ATA
28129 AAATATA
1 AAATATA
28136 AAA
1 AAA
28139 ATTATTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
7 22 0.65
8 12 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATATA
Found at i:28118 original size:15 final size:15
Alignment explanation
Indices: 28094--28136 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
28084 CTGTAATTAA
28094 ATAT-AAAATATAAT
1 ATATAAAAATATAAT
28108 ATATAAAAATATAAT
1 ATATAAAAATATAAT
28123 ATA-ATAAAATATAA
1 ATATA-AAAATATAA
28137 AAATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAAATATAAT
Found at i:28133 original size:25 final size:25
Alignment explanation
Indices: 28100--28157 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
28090 TTAAATATAA
*
28100 AATATAATATATAAAAATA-TAATAT
1 AATAAAATATA-AAAAATATTAATAT
*
28125 AATAAAATATAAAAATTATTAATAT
1 AATAAAATATAAAAAATATTAATAT
*
28150 ATTAAAAT
1 AATAAAAT
28158 TTATTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AATAAAATATAAAAAATATTAATAT
Found at i:28523 original size:33 final size:34
Alignment explanation
Indices: 28486--28562 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
28476 GTAAAGAGTG
*
28486 TTGATTAAATG-GTGATTTGGTAGCTTATTATTA
1 TTGATTAAATGAGTGATTTGGTAGCTTATCATTA
* *
28519 TTGATTAAATGAGTGATTTGGTGGCTTATCATTG
1 TTGATTAAATGAGTGATTTGGTAGCTTATCATTA
*
28553 TTGACTAAAT
1 TTGATTAAAT
28563 ATTAGATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 11 0.28
34 28 0.72
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.45
Consensus pattern (34 bp):
TTGATTAAATGAGTGATTTGGTAGCTTATCATTA
Found at i:33054 original size:34 final size:33
Alignment explanation
Indices: 32997--33119 Score: 192
Period size: 34 Copynumber: 3.7 Consensus size: 33
32987 AAGTGGGAGA
32997 ATTGTTGATTAAATGGTGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACC
* *
33030 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACC
* *
33064 ATTGTTGACTAAATGGTAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGT-GATTTGGTAGCTTACC
33098 ATTGTTGATTAAATGGTGATTT
1 ATTGTTGATTAAATGGTGATTT
33120 TTACCAAACC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
33 21 0.26
34 60 0.74
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (33 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACC
Found at i:34724 original size:77 final size:76
Alignment explanation
Indices: 34630--34844 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 76
34620 TATTTTGTTA
* *
34630 TATTTAAATTTGTATTTTAATTAATATGAAAATATTTTTCTGTTAACTTACTTTATTCCAA-TAT
1 TATTTAAATTTATATTTTAATTAATATGAAAATATTTTTCTTTTAACTTACTTTATTCCAATTA-
* *
34694 TAATTG-TTAGAT
65 TAACTGCTAAG-T
* * *
34706 TATTGTAAATTTACATTTTGATTAATATGAAAATAATTTTTTCTTTTAACTTACTTGATTCCAAT
1 TATT-TAAATTTATATTTTAATTAATATGAAAAT-A-TTTTTCTTTTAACTTACTTTATTCCAAT
34771 TATAACTGCTAAGT
63 TATAACTGCTAAGT
* * * *
34785 TATACTTAAATTTATATTTTAAATGAT-TCAAAAATGTTTTTCTTTTAACTTACTTTATTC
1 TAT--TTAAATTTATATTTTAATTAATAT-GAAAATATTTTTCTTTTAACTTACTTTATTC
34845 TAAACTTAAC
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
76 4 0.03
77 26 0.22
78 24 0.21
79 35 0.30
80 27 0.23
81 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (76 bp):
TATTTAAATTTATATTTTAATTAATATGAAAATATTTTTCTTTTAACTTACTTTATTCCAATTAT
AACTGCTAAGT
Found at i:36492 original size:19 final size:19
Alignment explanation
Indices: 36468--36525 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
36458 ATATATTATT
*
36468 TATATTTAAAATTATAATA
1 TATATTTAAAATTATAAAA
*
36487 TATA-TTAATATTAATATAAAA
1 TATATTTAA-A--ATTATAAAA
*
36508 TATATTTAATATTATAAA
1 TATATTTAAAATTATAAA
36526 CAATAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
18 4 0.13
19 12 0.39
21 11 0.35
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATTTAAAATTATAAAA
Found at i:36530 original size:21 final size:23
Alignment explanation
Indices: 36448--36521 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
36438 TTACTATTTA
*
36448 ATTAATA-AAAATATATTATTTAT
1 ATTAATATAAAATATA-TATTAAT
* *
36471 ATTTAAAATTATAATATATATTAAT
1 A-TTAATA-TAAAATATATATTAAT
36496 ATTAATATAAAATATAT-TTAAT
1 ATTAATATAAAATATATATTAAT
36518 ATTA
1 ATTA
36522 TAAACAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 9 0.21
23 10 0.23
24 10 0.23
25 7 0.16
26 7 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAATATAAAATATATATTAAT
Found at i:38402 original size:25 final size:25
Alignment explanation
Indices: 38345--38403 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
38335 CGAAAACTTA
* *
38345 AAAAATTTTATAGTAATATTTATAT
1 AAAAATTTTATACTAATATTTAAAT
* *
38370 ATATATTTTATGACTAA-ATTTAAAT
1 AAAAATTTTAT-ACTAATATTTAAAT
38395 AAAAATTTT
1 AAAAATTTT
38404 TATTATTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (25 bp):
AAAAATTTTATACTAATATTTAAAT
Found at i:42403 original size:3 final size:3
Alignment explanation
Indices: 42395--42422 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
42385 AGAAAAACCC
42395 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
42423 GTTATAAATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42949 original size:28 final size:28
Alignment explanation
Indices: 42918--42992 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
42908 AGGTATTTTG
*
42918 AAAAATTAAAAAGAAATAAAGA-TATAAT
1 AAAAATTAAAAAGAAA-AAAGATTAAAAT
* * *
42946 AAAAAATAAAGAGTAAAAAGATTAAAAT
1 AAAAATTAAAAAGAAAAAAGATTAAAAT
*
42974 ATTAAATTAAAAATGAAAA
1 A-AAAATTAAAAA-GAAAA
42993 TATGAGCTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 5 0.14
28 19 0.53
29 8 0.22
30 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (28 bp):
AAAAATTAAAAAGAAAAAAGATTAAAAT
Found at i:45270 original size:24 final size:23
Alignment explanation
Indices: 45238--45284 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
45228 ATTTTACATA
*
45238 TTAATTATTAATTTATTTATATT
1 TTAATTATTAATATATTTATATT
**
45261 TTAATATATTCGTATATTTATATT
1 TTAAT-TATTAATATATTTATATT
45285 ATATTCATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTAATTATTAATATATTTATATT
Found at i:45289 original size:19 final size:18
Alignment explanation
Indices: 45255--45300 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
45245 TTAATTTATT
45255 TATATTTTAATATATTCG
1 TATATTTTAATATATTCG
* *
45273 TATATTTATATTATATTCA
1 TATATTT-TAATATATTCG
45292 TATTATTTT
1 TA-TATTTT
45301 TCATGTTACG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.29
19 12 0.50
20 5 0.21
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATTTTAATATATTCG
Found at i:45588 original size:18 final size:17
Alignment explanation
Indices: 45567--45627 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
45557 TTATATTGTA
*
45567 TTATATTTTAATTATTTT
1 TTATATTTTAATT-TATT
* *
45585 TTATATTGT-ATTTATG
1 TTATATTTTAATTTATT
*
45601 TCATATTTTAATTTATT
1 TTATATTTTAATTTATT
45618 TTATATTTTA
1 TTATATTTTA
45628 TATAATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
16 9 0.26
17 18 0.51
18 8 0.23
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATATTTTAATTTATT
Found at i:45625 original size:11 final size:12
Alignment explanation
Indices: 45565--45624 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 12
45555 TTTTATATTG
45565 TATTATATTTTA
1 TATTATATTTTA
*
45577 -ATTATTTTTTA
1 TATTATATTTTA
*
45588 TATTGTA-TTTA
1 TATTATATTTTA
* *
45599 TGTCATATTTTA
1 TATTATATTTTA
45611 -ATT-TATTTTA
1 TATTATATTTTA
45621 TATT
1 TATT
45625 TTATATAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
10 7 0.19
11 22 0.59
12 8 0.22
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:45675 original size:13 final size:14
Alignment explanation
Indices: 45645--45719 Score: 66
Period size: 13 Copynumber: 5.4 Consensus size: 14
45635 TTTTTATATG
**
45645 ATTAAATTTTAACT
1 ATTAAATTTTATTT
45659 -TTAAA-TTTATTT
1 ATTAAATTTTATTT
*
45671 ATTAAATATT-TTT
1 ATTAAATTTTATTT
* *
45684 AATAAATTTTATTA
1 ATTAAATTTTATTT
45698 ATTATAATTTTATTT
1 ATTA-AATTTTATTT
45713 AATTAAA
1 -ATTAAA
45720 AAATTTATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
12 5 0.10
13 21 0.44
14 7 0.15
15 11 0.23
16 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTAAATTTTATTT
Found at i:45689 original size:26 final size:29
Alignment explanation
Indices: 45660--45715 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
45650 ATTTTAACTT
*
45660 TAAA-TTTATTTATTA-AATATT-TTTAA
1 TAAATTTTATTAATTATAATATTATTTAA
*
45686 TAAATTTTATTAATTATAATTTTATTTAA
1 TAAATTTTATTAATTATAATATTATTTAA
45715 T
1 T
45716 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 10 0.40
28 5 0.20
29 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TAAATTTTATTAATTATAATATTATTTAA
Found at i:45704 original size:16 final size:16
Alignment explanation
Indices: 45685--45727 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
45675 AATATTTTTA
45685 ATAAATTTTATTAATT
1 ATAAATTTTATTAATT
45701 AT-AATTTTATTTAATT
1 ATAAATTTTA-TTAATT
* *
45717 AAAAAATTTAT
1 ATAAATTTTAT
45728 AAATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.30
16 10 0.43
17 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAAATTTTATTAATT
Found at i:47244 original size:16 final size:17
Alignment explanation
Indices: 47213--47245 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47203 TATTAATATA
*
47213 TTAAAATTTATATAAAT
1 TTAAAATATATATAAAT
47230 TTAAAATAT-TATAAAT
1 TTAAAATATATATAAAT
47246 ATATTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAAATATATATAAAT
Found at i:47272 original size:14 final size:15
Alignment explanation
Indices: 47242--47280 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
47232 AAAATATTAT
47242 AAATATATTT-ATAAA
1 AAATAT-TTTAATAAA
47257 AAATATTTTAATAAA
1 AAATATTTTAATAAA
47272 AAA-ATTTTA
1 AAATATTTTA
47281 TTTTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATTTTAATAAA
Found at i:47528 original size:11 final size:11
Alignment explanation
Indices: 47509--47689 Score: 68
Period size: 10 Copynumber: 18.3 Consensus size: 11
47499 ATATAATTAC
*
47509 ATAACATAAAT
1 ATAATATAAAT
*
47520 ATAATATAAAAA
1 ATAATAT-AAAT
47532 ATAAT-TAAA-
1 ATAATATAAAT
*
47541 ATATTATAAAT
1 ATAATATAAAT
47552 AT-A-A-AAA-
1 ATAATATAAAT
47559 AT-ATATAAAT
1 ATAATATAAAT
47569 ATAATAT-AA-
1 ATAATATAAAT
47578 ATAA-ATAAAT
1 ATAATATAAAT
**
47588 ATTTTA-AAAT
1 ATAATATAAAT
* *
47598 CT-ACATAAAT
1 ATAATATAAAT
*
47608 A-AAT-T-ATT
1 ATAATATAAAT
*
47616 ATCATATAAA-
1 ATAATATAAAT
47626 ATAAATATAAA-
1 AT-AATATAAAT
*
47637 AT-ATCTTAAA-
1 ATAAT-ATAAAT
47647 ATAAT-TATAAT
1 ATAATATA-AAT
47658 ATAATA-AAAT
1 ATAATATAAAT
47668 AT-AT-TAAA-
1 ATAATATAAAT
47676 ATAATATAAAT
1 ATAATATAAAT
47687 ATA
1 ATA
47690 TAAATTATTA
Statistics
Matches: 129, Mismatches: 16, Indels: 50
0.66 0.08 0.26
Matches are distributed among these distances:
7 3 0.02
8 11 0.09
9 29 0.22
10 43 0.33
11 35 0.27
12 8 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:47565 original size:17 final size:18
Alignment explanation
Indices: 47517--47694 Score: 104
Period size: 19 Copynumber: 9.9 Consensus size: 18
47507 ACATAACATA
* *
47517 AATATAATATA-AAAAAT
1 AATAAAATATATAAATAT
47534 AATTAAAATATTATAAATAT
1 AA-TAAAATA-TATAAATAT
47554 AA-AAAATATATAAATAT
1 AATAAAATATATAAATAT
*
47571 AATATAAATAAATAAATAT
1 AATA-AAATATATAAATAT
* * * *
47590 -TTTAAA-ATCTACATA-
1 AATAAAATATATAAATAT
* *
47605 AATAAATTAT-TATCATAT
1 AATAAAATATATA-AATAT
*
47623 AAAATAAATATA-AAATAT
1 AATA-AAATATATAAATAT
**
47641 CTTAAAATA-ATTATAATAT
1 AATAAAATATA-TA-AATAT
47660 AATAAAATATATTAAA-AT
1 AATAAAATATA-TAAATAT
47678 AATATAAATATATAAAT
1 AATA-AAATATATAAAT
47695 TATTAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
16 12 0.10
17 27 0.22
18 33 0.26
19 42 0.34
20 11 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAAATATATAAATAT
Found at i:47648 original size:10 final size:10
Alignment explanation
Indices: 47622--47701 Score: 64
Period size: 10 Copynumber: 8.4 Consensus size: 10
47612 TATTATCATA
*
47622 TAAAATAAAT
1 TAAAATATAT
*
47632 ATAAAATATCT
1 -TAAAATATAT
47643 TAAAATA-AT
1 TAAAATATAT
* *
47652 TATAATATAA
1 TAAAATATAT
47662 TAAAATATAT
1 TAAAATATAT
47672 TAAAATA-A-
1 TAAAATATAT
47680 TATAAATATA-
1 TA-AAATATAT
47690 T-AAAT-TAT
1 TAAAATATAT
47698 TAAA
1 TAAA
47702 TTTATCGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
7 2 0.04
8 7 0.12
9 15 0.26
10 25 0.44
11 8 0.14
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAATATAT
Found at i:47666 original size:70 final size:70
Alignment explanation
Indices: 47499--47667 Score: 154
Period size: 70 Copynumber: 2.4 Consensus size: 70
47489 TTTAGATACG
* * *
47499 ATATAAT-TACATAACATAAATATAATATAAA---AAATAATTAAAATATTATAAATATAAAAAA
1 ATATAATATAAATAA-ATAAATATAATA-AAATCTACATAAATAAAATATTATAAATATAAAAAA
47560 TATATAA
64 TATATAA
** * *
47567 ATATAATATAAATAAATAAATATTTTAAAATCTACATAAATAAATTATTAT-CATATAAAATAA-
1 ATATAATATAAATAAATAAATATAATAAAATCTACATAAATAAAATATTATAAATATAAAA-AAT
47630 ATATAAA
65 ATAT-AA
** *
47637 ATATCTTA-AAATAATTATAATATAATAAAAT
1 ATATAATATAAATAAATA-AATATAATAAAAT
47668 ATATTAAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
67 3 0.04
68 17 0.21
69 26 0.32
70 36 0.44
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (70 bp):
ATATAATATAAATAAATAAATATAATAAAATCTACATAAATAAAATATTATAAATATAAAAAATA
TATAA
Found at i:47674 original size:29 final size:26
Alignment explanation
Indices: 47517--47701 Score: 139
Period size: 27 Copynumber: 6.9 Consensus size: 26
47507 ACATAACATA
*
47517 AATAT-AATATAAAAAATAATTAAAAT
1 AATATAAATATAAAATAT-ATTAAAAT
* *
47543 ATTATAAATATAAAAAATATATAAATAT
1 AATATAAATATAAAATATAT-TAAA-AT
* *
47571 AATATAAATAAATAAATATTTTAAAAT
1 AATATAAATATA-AAATATATTAAAAT
* * *
47598 -CTACATAA-AT-AAAT-TATTATCATAT
1 AATATA-AATATAAAATATATTA--AAAT
* *
47623 AAAATAAATATAAAATATCTTAAAAT
1 AATATAAATATAAAATATATTAAAAT
47649 AATTATAATATAATAAAATATATTAAAAT
1 AA-TATAA-AT-ATAAAATATATTAAAAT
47678 AATATAAATATATAAAT-TATTAAA
1 AATATAAATATA-AAATATATTAAA
47702 TTTATCGATA
Statistics
Matches: 127, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
23 4 0.03
24 4 0.03
25 5 0.04
26 29 0.23
27 34 0.27
28 27 0.21
29 24 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AATATAAATATAAAATATATTAAAAT
Found at i:47697 original size:80 final size:80
Alignment explanation
Indices: 47546--47697 Score: 177
Period size: 80 Copynumber: 1.9 Consensus size: 80
47536 TTAAAATATT
* *
47546 ATAAATATAAAAAATATATAAATATAATATAAATAAATAAATATTTTAAAATCTACATAAATAAA
1 ATAAATATAAAAAATATATAAATATAATATAAATAAATAAATATATTAAAATCAACATAAATAAA
*
47611 TTATTATCATATAAA
66 TAATTATCATATAAA
* * *
47626 ATAAATATAAAATATCT-TAAA-ATAAT-TATAATATAATAAAATATATTAAAAT-AATATAAAT
1 ATAAATATAAAAAATATATAAATATAATATA-AATA-AAT-AAATATATTAAAATCAACATAAAT
*
47687 ATATAAATTAT
63 AAAT-AATTAT
47698 TAAATTTATC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
77 2 0.03
78 9 0.15
79 17 0.28
80 33 0.54
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (80 bp):
ATAAATATAAAAAATATATAAATATAATATAAATAAATAAATATATTAAAATCAACATAAATAAA
TAATTATCATATAAA
Found at i:53331 original size:34 final size:34
Alignment explanation
Indices: 53285--53502 Score: 282
Period size: 34 Copynumber: 6.5 Consensus size: 34
53275 GTAAAAACCA
*
53285 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
53319 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
53353 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
53387 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
53420 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
53454 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
53487 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
53503 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 45 0.28
34 115 0.71
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:53399 original size:68 final size:67
Alignment explanation
Indices: 53283--53502 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
53273 TGGTAAAAAC
* * *
53283 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
53348 AT
66 AT
* * *
53350 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
53415 AAT
65 AAT
* * * * * *
53418 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
53483 AT
66 AT
53485 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
53503 TCTCCCACTT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:57959 original size:34 final size:34
Alignment explanation
Indices: 57913--58128 Score: 260
Period size: 34 Copynumber: 6.4 Consensus size: 34
57903 GTAAAAACCA
*
57913 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
57947 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
57981 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
58015 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* ** *
58048 CCATTTAGTCAACAATGACAAACC-ACCAAATCAC
1 CCATTTAATCAACAATG-GTAACCTACCAAATCTC
* * * *
58082 CCATTTAATCAACAATGATAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
58115 CCATTTAATCAACA
1 CCATTTAATCAACA
58129 CTTACATTAT
Statistics
Matches: 158, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
33 42 0.27
34 114 0.72
35 2 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:58027 original size:68 final size:67
Alignment explanation
Indices: 57911--58128 Score: 301
Period size: 67 Copynumber: 3.2 Consensus size: 67
57901 TGGTAAAAAC
* * *
57911 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
57976 AT
66 AT
* * *
57978 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
58043 AAT
65 AAT
* * * * * * * *
58046 CTCCATTTAGTCAACAATGACAAACCACCAAATCACCCATTTAATCAACAATGATAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
58111 AT
66 AT
58113 CACCATTTAATCAACA
1 CACCATTTAATCAACA
58129 CTTACATTAT
Statistics
Matches: 132, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
67 71 0.54
68 61 0.46
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:58462 original size:17 final size:17
Alignment explanation
Indices: 58436--58475 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
58426 CTTACGTCAG
*
58436 CAAATAAAATGTAAATT
1 CAAATGAAATGTAAATT
58453 CAAATGAAATGTAAATT
1 CAAATGAAATGTAAATT
58470 CAAATG
1 CAAATG
58476 TAAGGTGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (17 bp):
CAAATGAAATGTAAATT
Found at i:60295 original size:23 final size:23
Alignment explanation
Indices: 60244--60295 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
60234 ATACCATTAG
* *
60244 TATATGAATATATACCTTGATAA
1 TATATGAATATAAACCTTAATAA
*
60267 TATATGAAATATAAATCTTAATAA
1 TATATG-AATATAAACCTTAATAA
60291 T-TATG
1 TATATG
60296 CTTCAAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (23 bp):
TATATGAATATAAACCTTAATAA
Found at i:61211 original size:16 final size:15
Alignment explanation
Indices: 61190--61221 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
61180 AAACAGTAAT
61190 TATGATTAGGCCTAAG
1 TATGATTAGGCC-AAG
61206 TATGATTAGGCCAAG
1 TATGATTAGGCCAAG
61221 T
1 T
61222 GGCCAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (15 bp):
TATGATTAGGCCAAG
Found at i:62208 original size:21 final size:20
Alignment explanation
Indices: 62182--62246 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
62172 ATATAAGGTG
* *
62182 ATAAAAAACTAAAAGGTAAAA
1 ATAAAAAAATAAAA-ATAAAA
*
62203 ATAAAAAAATTAAAATTAAAA
1 ATAAAAAAA-TAAAAATAAAA
62224 ATAAAAAAATAAAAAATAAAA
1 ATAAAAAAAT-AAAAATAAAA
62245 AT
1 AT
62247 TTGGGTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.85
22 5 0.13
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (20 bp):
ATAAAAAAATAAAAATAAAA
Found at i:62209 original size:7 final size:7
Alignment explanation
Indices: 62199--62245 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
62189 ACTAAAAGGT
62199 AAAAATA
1 AAAAATA
62206 AAAAA-A
1 AAAAATA
* *
62212 TTAAAATT
1 -AAAAATA
62220 AAAAATAA
1 AAAAAT-A
62228 AAAAATA
1 AAAAATA
62235 AAAAATA
1 AAAAATA
62242 AAAA
1 AAAA
62246 TTTGGGTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 1 0.03
7 26 0.79
8 6 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:62240 original size:15 final size:15
Alignment explanation
Indices: 62199--62245 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
62189 ACTAAAAGGT
*
62199 AAAAATAAAAAA-AT
1 AAAAATAAAAAATAA
* *
62213 TAAAATTAAAAATAA
1 AAAAATAAAAAATAA
62228 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
62243 AAA
1 AAA
62246 TTTGGGTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:62672 original size:23 final size:24
Alignment explanation
Indices: 62636--62697 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
62626 ATTTTTTTAT
62636 AATATATATAAATA-TTAATATAA
1 AATATATATAAATATTTAATATAA
* *
62659 AATATATTTTAATATTTAATATTATA
1 AATATATATAAATATTTAATA-TA-A
*
62685 AATA-ATAAAAATA
1 AATATATATAAATA
62698 AATTTATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 12 0.39
24 6 0.19
25 8 0.26
26 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATATATATAAATATTTAATATAA
Found at i:64294 original size:60 final size:61
Alignment explanation
Indices: 64127--64304 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 61
64117 TAAATAAAAC
* * *
64127 TGTTTTGATATATAAAATTATATTTGTTAAGATATCAATTATAATAATAGAGATAAGATTAAAAA
1 TGTTTTAATATATAAAATTATAATTATTAAGATATCAATTATAATAATA-A-ATAA-A-TAAAAA
* * * * *
64192 TGTATATAATAATATAAAATAATAAATATCGTGAG-TGT-AATTATAAT-ATAAATAAATAAAAA
1 TGT-TTTAAT-ATATAAAATTATAATTAT--TAAGATATCAATTATAATAATAAATAAATAAAAA
* *
64254 TATTTTAATACATAAAATTATAATTATTAAGATATCAATTATAATAATAAA
1 TGTTTTAATATATAAAATTATAATTATTAAGATATCAATTATAATAATAAA
64305 AATAAGATTA
Statistics
Matches: 91, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
58 3 0.03
59 2 0.02
60 24 0.26
61 10 0.11
62 8 0.09
63 1 0.01
64 4 0.04
65 4 0.04
66 7 0.08
67 23 0.25
68 2 0.02
69 3 0.03
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (61 bp):
TGTTTTAATATATAAAATTATAATTATTAAGATATCAATTATAATAATAAATAAATAAAAA
Found at i:64716 original size:104 final size:104
Alignment explanation
Indices: 64442--64857 Score: 565
Period size: 104 Copynumber: 4.0 Consensus size: 104
64432 TGTTTTTATT
* * * *
64442 TTTGTCGTTTTTTGTTCTTACTCTTAGGTTGGTTGTCAGGTTTGGTTTTATTGGACCTAGATTTG
1 TTTGTCG-CTTTTGTTCTTACTCTTAGGTTGGTTGTCAGGTTTGTTTTTATTGGACCTGGACTTG
* * * *
64507 GTCAAGTTATTGCTGCGGGCAAAATTATGAGTGGTACTTA
65 GTCAAGTTACTGCTGCGGGCCAAGTTATGAGTGGTACATA
* *
64547 TTTGTCGCTTTTGTTCTTACTC-T---TTGGTTGTCAAGTTTGTTTTTATTGGACCTGGACTTGA
1 TTTGTCGCTTTTGTTCTTACTCTTAGGTTGGTTGTCAGGTTTGTTTTTATTGGACCTGGACTTGG
**
64608 TCAAGTTACTATTGCGGGCCAAGTTATGAGTGGTATC-TA
66 TCAAGTTACTGCTGCGGGCCAAGTTATGAGTGGTA-CATA
* * *
64647 TTTGTC-ATTTTCGTTCTTACTCGTAGGTTAGTTGTCAGGTTTGTTTTTATTGGACCTGGACTTG
1 TTTGTCGCTTTT-GTTCTTACTCTTAGGTTGGTTGTCAGGTTTGTTTTTATTGGACCTGGACTTG
*
64711 GTCAAGTTACTGCTGCGGGCCAAGTTATGAGTGATACATA
65 GTCAAGTTACTGCTGCGGGCCAAGTTATGAGTGGTACATA
* * *
64751 TTTGTCGCTTTTGTTCTTACTCTTAGGTTGGTCGTTAGGTTTGTTTTTATTGGACGTGGACTTGG
1 TTTGTCGCTTTTGTTCTTACTCTTAGGTTGGTTGTCAGGTTTGTTTTTATTGGACCTGGACTTGG
* * *
64816 TCAAGTTACTGCTACAGGCCAAGTTATGAGTGGTACCTA
66 TCAAGTTACTGCTGCGGGCCAAGTTATGAGTGGTACATA
64855 TTT
1 TTT
64858 TTTGTTTTAT
Statistics
Matches: 275, Mismatches: 28, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
99 4 0.01
100 81 0.29
101 2 0.01
103 2 0.01
104 175 0.64
105 11 0.04
ACGTcount: A:0.17, C:0.14, G:0.25, T:0.44
Consensus pattern (104 bp):
TTTGTCGCTTTTGTTCTTACTCTTAGGTTGGTTGTCAGGTTTGTTTTTATTGGACCTGGACTTGG
TCAAGTTACTGCTGCGGGCCAAGTTATGAGTGGTACATA
Found at i:64899 original size:67 final size:67
Alignment explanation
Indices: 64790--64922 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
64780 GGTCGTTAGG
* * *
64790 TTTGTTTTTATTGGACGTGGACTTGGTCAAGTTACTGCTACAGGCCAAGTTATGAGTGGTACCTA
1 TTTGTTTTTATTGGACCTGGACTTGGTCAAGTTACTGCTACAGGCCAAATTATGAGTGATA-CTA
64855 TTT
65 TTT
* *
64858 TTTG-TTTTATTGGACCTGGACTTGGTCAAGTTATTGCTACAGGTCAAATTATGAGTGATACTAT
1 TTTGTTTTTATTGGACCTGGACTTGGTCAAGTTACTGCTACAGGCCAAATTATGAGTGATACTAT
64922 T
66 T
64923 AGGTTGGTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 5 0.08
67 51 0.85
68 4 0.07
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.41
Consensus pattern (67 bp):
TTTGTTTTTATTGGACCTGGACTTGGTCAAGTTACTGCTACAGGCCAAATTATGAGTGATACTAT
TT
Found at i:65109 original size:104 final size:104
Alignment explanation
Indices: 64916--65117 Score: 316
Period size: 104 Copynumber: 1.9 Consensus size: 104
64906 TTATGAGTGA
* *
64916 TACTATTAGGTTGGTTGTCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTATTGCTGCGG
1 TACTATTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTATTGCTACGG
*
64981 GCTAAGTTATGAATGATACGTATTTATCGTTTTTGTTCT
66 GCTAAGTTATGAATGATACATATTTATCGTTTTTGTTCT
* *
65020 TACTCTTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGGACTTGGTCAAGTTATTGCTAC-G
1 TACTATTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTATTGCTACGG
* * *
65084 GATCAAGTTATGAGTGGTACATATTTATCGTTTT
66 GCT-AAGTTATGAATGATACATATTTATCGTTTT
65118 ATTGGACCTG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 3 0.03
104 86 0.97
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.44
Consensus pattern (104 bp):
TACTATTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTATTGCTACGG
GCTAAGTTATGAATGATACATATTTATCGTTTTTGTTCT
Found at i:65122 original size:252 final size:253
Alignment explanation
Indices: 64670--65175 Score: 791
Period size: 252 Copynumber: 2.0 Consensus size: 253
64660 TTCTTACTCG
*
64670 TAGGTTAGTTGTCAGGTTTGTTTTTATTGGACCTGGACTTGGTCAAGTTACTGCTGCGGGCCAAG
1 TAGGTTAGTTGTCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTACTGCTGCGGGCCAAG
* * **
64735 TTATGAGTGATACATATTTGTCGCTTTTGTTCTTACTCTTAGGTTGGTCGTTAGGTTTGTTTTTA
66 TTATGAATGATACATATTTATCGCTTTTGTTCTTACTCTTAGGTTGGTCGCCAGGTTTGTTTTTA
* * * *
64800 TTGGACGTGGACTTGGTCAAGTTACTGCTACAGGCCAAGTTATGAGTGGTACCTATTTTTTGTTT
131 TTGGACCTGGACTTGGTCAAGTTACTGCTACAGGCCAAGTTATGAGTGGTACATATTTATCGTTT
* *
64865 TATTGGACCTGGACTTGGTCAAGTTATTGCTACAGGTCAAATTATGAGTGATAC-TAT
196 TATTGGACCTGGACTTGGTCAAATTATTGCTACAGGCCAAATTATGAGTGATACGTAT
* * *
64922 TAGGTTGGTTGTCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTATTGCTGCGGGCTAAG
1 TAGGTTAGTTGTCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTACTGCTGCGGGCCAAG
* * *
64987 TTATGAATGATACGTATTTATCGTTTTTGTTCTTACTCTTAGGTTGGTTGCCAGGTTTGTTTTTA
66 TTATGAATGATACATATTTATCGCTTTTGTTCTTACTCTTAGGTTGGTCGCCAGGTTTGTTTTTA
* *
65052 TTGGACCTGGACTTGGTCAAGTTATTGCTAC-GGATCAAGTTATGAGTGGTACATATTTATCGTT
131 TTGGACCTGGACTTGGTCAAGTTACTGCTACAGG-CCAAGTTATGAGTGGTACATATTTATCGTT
* * *
65116 TTATTGGACCTGGACTTGGTCAAATTATTGCTGCGGGCCAAGTTATGAGTGATACGTAT
195 TTATTGGACCTGGACTTGGTCAAATTATTGCTACAGGCCAAATTATGAGTGATACGTAT
65175 T
1 T
65176 TGTCGCTTTT
Statistics
Matches: 230, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
251 2 0.01
252 224 0.97
253 4 0.02
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.41
Consensus pattern (253 bp):
TAGGTTAGTTGTCAGGTTTGTTTTTATTGGACCTGAACTTGGTCAAGTTACTGCTGCGGGCCAAG
TTATGAATGATACATATTTATCGCTTTTGTTCTTACTCTTAGGTTGGTCGCCAGGTTTGTTTTTA
TTGGACCTGGACTTGGTCAAGTTACTGCTACAGGCCAAGTTATGAGTGGTACATATTTATCGTTT
TATTGGACCTGGACTTGGTCAAATTATTGCTACAGGCCAAATTATGAGTGATACGTAT
Found at i:65158 original size:67 final size:68
Alignment explanation
Indices: 65047--65188 Score: 214
Period size: 67 Copynumber: 2.1 Consensus size: 68
65037 CCAGGTTTGT
* * *
65047 TTTTATTGGACCTGGACTTGGTCAAGTTATTGCTACGGATCAAGTTATGAGTGGTACATATTTAT
1 TTTTATTGGACCTGGACTTGGTCAAATTATTGCTACGGACCAAGTTATGAGTGATACATATTTAT
65112 CG-
66 CGC
* * * *
65114 TTTTATTGGACCTGGACTTGGTCAAATTATTGCTGCGGGCCAAGTTATGAGTGATACGTATTTGT
1 TTTTATTGGACCTGGACTTGGTCAAATTATTGCTACGGACCAAGTTATGAGTGATACATATTTAT
65179 CGC
66 CGC
65182 TTTTATT
1 TTTTATT
65189 CTTAATCTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
67 60 0.90
68 7 0.10
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (68 bp):
TTTTATTGGACCTGGACTTGGTCAAATTATTGCTACGGACCAAGTTATGAGTGATACATATTTAT
CGC
Found at i:65235 original size:171 final size:171
Alignment explanation
Indices: 64943--65273 Score: 536
Period size: 171 Copynumber: 1.9 Consensus size: 171
64933 TCAGGTTTGT
* *
64943 TTTTATTGGACCTGAACTTGGTCAAGTTATTGCTGCGGGCTAAGTTATGAATGATACGTATTTAT
1 TTTTATTGGACCTGAACTTGGTCAAATTATTGCTGCGGGCCAAGTTATGAATGATACGTATTTAT
* * *
65008 CGTTTTTGTTCTTACTCTTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGGACTTGGTCAAG
66 CGCTTTTATTCTTAATCTTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGGACTTGGTCAAG
* *
65073 TTATTGCTACGGATCAAGTTATGAGTGGTACATATTTATCG
131 TTACTGCTACGGACCAAGTTATGAGTGGTACATATTTATCG
* * *
65114 TTTTATTGGACCTGGACTTGGTCAAATTATTGCTGCGGGCCAAGTTATGAGTGATACGTATTTGT
1 TTTTATTGGACCTGAACTTGGTCAAATTATTGCTGCGGGCCAAGTTATGAATGATACGTATTTAT
* *
65179 CGCTTTTATTCTTAATCTTAGGTTGGTTGTCAGGTTTGTTTTTATTGGATCTGGACTTGGTCAAG
66 CGCTTTTATTCTTAATCTTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGGACTTGGTCAAG
* *
65244 TTACTGCTGCGGGCCAAGTTATGAGTGGTA
131 TTACTGCTACGGACCAAGTTATGAGTGGTA
65274 GCGATGAATC
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
171 146 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (171 bp):
TTTTATTGGACCTGAACTTGGTCAAATTATTGCTGCGGGCCAAGTTATGAATGATACGTATTTAT
CGCTTTTATTCTTAATCTTAGGTTGGTTGCCAGGTTTGTTTTTATTGGACCTGGACTTGGTCAAG
TTACTGCTACGGACCAAGTTATGAGTGGTACATATTTATCG
Found at i:67302 original size:77 final size:80
Alignment explanation
Indices: 67221--67376 Score: 194
Period size: 77 Copynumber: 2.0 Consensus size: 80
67211 ATTTTATTTT
* * * * ** *
67221 AATCTCAATTGTTTGGTTATATTTAAATTTGTATTTTGGTTAGTAT-TAAATA-TTTT-CTTGTT
1 AATCTCAATTGTTAGATTATATCTAAATTTGCATTTTAATTAGTATGAAAATAGTTTTCCTT-TT
*
67283 AACTT-ACTTTATTCC
65 AACTTAACTTGATTCC
*
67298 AATCTTAATTGTTAGATTATATCTAAATTTGCATTTTAATTAGTATGAAAATAGTTTTCCTTTTA
1 AATCTCAATTGTTAGATTATATCTAAATTTGCATTTTAATTAGTATGAAAATAGTTTTCCTTTTA
67363 ACTTAACTTGATTC
66 ACTTAACTTGATTC
67377 TAATTATAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
77 39 0.59
78 5 0.08
79 11 0.17
80 11 0.17
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (80 bp):
AATCTCAATTGTTAGATTATATCTAAATTTGCATTTTAATTAGTATGAAAATAGTTTTCCTTTTA
ACTTAACTTGATTCC
Found at i:67406 original size:80 final size:77
Alignment explanation
Indices: 67245--67407 Score: 177
Period size: 80 Copynumber: 2.1 Consensus size: 77
67235 GGTTATATTT
* ** * * * *
67245 AAATTTGTATTTTGGTTAGTATTAAATATTTTCTTGTTAACTTACTTTATTCCAATCTTAATTGT
1 AAATTTGCATTTTAATTAGTATAAAATATTTTCTTGTTAACTTACTTGATTCCAATCTTAACTAT
* *
67310 TAGATTATATCT
66 TAGATTATACCA
*
67322 AAATTTGCATTTTAATTAGTATGAAAATAGTTTTCCTT-TTAACTTAACTTGATTCTAAT-TATA
1 AAATTTGCATTTTAATTAGTAT-AAAATA-TTTT-CTTGTTAACTT-ACTTGATTCCAATCT-TA
67385 ACTATTAGATTATACCA
61 ACTATTAGATTATACCA
67402 AAATTT
1 AAATTT
67408 ACAGTTTGGA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
77 19 0.27
78 5 0.07
79 12 0.17
80 35 0.49
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (77 bp):
AAATTTGCATTTTAATTAGTATAAAATATTTTCTTGTTAACTTACTTGATTCCAATCTTAACTAT
TAGATTATACCA
Found at i:70386 original size:3 final size:3
Alignment explanation
Indices: 70378--70414 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
70368 AACATAAGTA
70378 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
70415 GAAGATTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:70798 original size:3 final size:3
Alignment explanation
Indices: 70790--70819 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
70780 AACTAAATTT
70790 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
70820 GTTATAAATA
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):
ATA
Found at i:71176 original size:8 final size:8
Alignment explanation
Indices: 71165--71193 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
71155 TTCCTTTTTC
71165 TTTTTATT
1 TTTTTATT
71173 TTTTTATT
1 TTTTTATT
71181 TTTTTATT
1 TTTTTATT
71189 TTTTT
1 TTTTT
71194 CTTCTTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTATT
Found at i:71201 original size:16 final size:16
Alignment explanation
Indices: 71166--71201 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
71156 TCCTTTTTCT
*
71166 TTTTATTTTTTTATTT
1 TTTTATTTTTTTATTC
*
71182 TTTTATTTTTTTCTTC
1 TTTTATTTTTTTATTC
71198 TTTT
1 TTTT
71202 CGGATCCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTATTTTTTTATTC
Found at i:71287 original size:7 final size:7
Alignment explanation
Indices: 71272--71322 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
71262 AAATAAATAT
*
71272 AATAAAA
1 AATATAA
71279 AATATAA
1 AATATAA
71286 AATATAAA
1 AATAT-AA
*
71294 AAAATTAA
1 AATA-TAA
71302 AATATAA
1 AATATAA
71309 AA-ATAA
1 AATATAA
71315 AA-ATAA
1 AATATAA
71321 AA
1 AA
71323 ATATGGGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
6 12 0.31
7 16 0.41
8 10 0.26
9 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AATATAA
Found at i:71289 original size:23 final size:23
Alignment explanation
Indices: 71262--71320 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
71252 AATTAAAACG
*
71262 AAATAAATATAATAAAAAATATAA
1 AAATAAAAATAAT-AAAAATATAA
*
71286 AATATAAAAA-AATTAAAATATAA
1 AA-ATAAAAATAATAAAAATATAA
71309 AAATAAAAATAA
1 AAATAAAAATAA
71321 AAATATGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 13 0.42
24 5 0.16
25 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (23 bp):
AAATAAAAATAATAAAAATATAA
Found at i:71292 original size:16 final size:16
Alignment explanation
Indices: 71273--71323 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
71263 AATAAATATA
71273 ATAAAAAATATAAAAT
1 ATAAAAAATATAAAAT
71289 ATAAAAAA-ATTAAAAT
1 ATAAAAAATA-TAAAAT
71305 AT-AAAAATA-AAAAT
1 ATAAAAAATATAAAAT
71319 A-AAAA
1 ATAAAA
71324 TATGGGCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.28
15 6 0.19
16 17 0.53
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
ATAAAAAATATAAAAT
Found at i:71294 original size:14 final size:13
Alignment explanation
Indices: 71262--71325 Score: 59
Period size: 12 Copynumber: 5.4 Consensus size: 13
71252 AATTAAAACG
71262 AAAT-AAATATAA
1 AAATAAAATATAA
*
71274 TAA-AAAATAT-A
1 AAATAAAATATAA
*
71285 AAATATAA-A-AA
1 AAATAAAATATAA
*
71296 AATTAAAATATAA
1 AAATAAAATATAA
71309 AAATAAAA-ATAA
1 AAATAAAATATAA
71321 AAATA
1 AAATA
71326 TGGGCTGATC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
11 11 0.27
12 21 0.51
13 9 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAAATATAA
Found at i:71322 original size:6 final size:6
Alignment explanation
Indices: 71276--71325 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
71266 AAATATAATA
* *
71276 AAAAAT ATAAAAT ATAAA- AAAATT AAAATAT AAAAAT AAAAAT AAAAAT
1 AAAAAT A-AAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT
71325 A
1 A
71326 TGGGCTGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 3 0.08
6 23 0.62
7 11 0.30
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:73215 original size:2 final size:2
Alignment explanation
Indices: 73208--73251 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
73198 AGCTAAATGT
73208 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73249 TA T
1 TA T
73252 TAATTACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73934 original size:11 final size:12
Alignment explanation
Indices: 73914--73990 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
73904 TTTGTATCGC
73914 ATTATATTTTA-
1 ATTATATTTTAT
*
73925 ATTATTTTTTAT
1 ATTATATTTTAT
73937 ATTATATTTATAT
1 ATTATATTT-TAT
* *
73950 CATGTTTCAATTTAT
1 -AT-TAT-ATTTTAT
*
73965 TTTATATTTTAT
1 ATTATATTTTAT
* *
73977 ATAATTTTTTAT
1 ATTATATTTTAT
73989 AT
1 AT
73991 GATTAAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
11 10 0.20
12 25 0.49
13 5 0.10
14 3 0.06
15 5 0.10
16 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (12 bp):
ATTATATTTTAT
Found at i:74063 original size:16 final size:15
Alignment explanation
Indices: 74006--74066 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 15
73996 AATTTTAACT
74006 TTAAA-TTTATTT-A
1 TTAAATTTTATTTAA
*
74019 TTAAATATT-TTTAA
1 TTAAATTTTATTTAA
*
74033 -TAAATTTTA-TAAA
1 TTAAATTTTATTTAA
74046 TTATAATTTTATTTAA
1 TTA-AATTTTATTTAA
74062 TTAAA
1 TTAAA
74067 AAATTTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 18 0.47
14 5 0.13
15 9 0.24
16 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAATTTTATTTAA
Found at i:75595 original size:16 final size:17
Alignment explanation
Indices: 75564--75596 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
75554 TATTAATGTA
*
75564 TTAAAATTTATATAAAT
1 TTAAAATATATATAAAT
75581 TTAAAATAT-TATAAAT
1 TTAAAATATATATAAAT
75597 ATATTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAAATATATATAAAT
Found at i:75613 original size:15 final size:15
Alignment explanation
Indices: 75593--75630 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
75583 AAAATATTAT
75593 AAATATATTT-ATAAA
1 AAATAT-TTTAATAAA
75608 AAATATTTTAATAAA
1 AAATATTTTAATAAA
75623 AAA-ATTTT
1 AAATATTTT
75631 TATTTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATTTTAATAAA
Found at i:76002 original size:10 final size:10
Alignment explanation
Indices: 75976--76055 Score: 64
Period size: 10 Copynumber: 8.4 Consensus size: 10
75966 TATTATCATA
*
75976 TAAAATAAAT
1 TAAAATATAT
*
75986 ATAAAATATTT
1 -TAAAATATAT
75997 TAAAATA-AT
1 TAAAATATAT
* *
76006 TATAATATAA
1 TAAAATATAT
76016 TAAAATATAT
1 TAAAATATAT
76026 TAAAATA-A-
1 TAAAATATAT
76034 TATAAATATA-
1 TA-AAATATAT
76044 T-AAAT-TAT
1 TAAAATATAT
76052 TAAA
1 TAAA
76056 TTTATCGACA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
7 2 0.04
8 7 0.12
9 15 0.26
10 25 0.44
11 8 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATATAT
Found at i:76050 original size:23 final size:23
Alignment explanation
Indices: 75853--76038 Score: 58
Period size: 24 Copynumber: 8.3 Consensus size: 23
75843 TTTAGATATG
* * *
75853 ATATAATTACATAAAATAAACATA
1 ATATAATAAAATAAATTAAA-ATA
75877 ATATAA-AAAAT-AATTAAAATA
1 ATATAATAAAATAAATTAAAATA
* *
75898 TTATAGATATAAA-AAA-T-ATATGA
1 ATATA-ATA-AAATAAATTAAAAT-A
*
75921 ATATAATATAAATAAA-TAAATATT
1 ATATAATA-AAATAAATTAAA-ATA
* * * * *
75945 TTAAAATCTATATAAA-TAAATTA
1 ATATAAT-AAAATAAATTAAAATA
*
75968 TTATCATATAAAATAAATATAAAAT-
1 ATAT-A-ATAAAATAAAT-TAAAATA
*
75993 AT-T-TTAAAAT-AATT---ATA
1 ATATAATAAAATAAATTAAAATA
*
76010 ATATAATAAAATATATTAAAATA
1 ATATAATAAAATAAATTAAAATA
76033 ATATAA
1 ATATAA
76039 ATATATAAAT
Statistics
Matches: 120, Mismatches: 22, Indels: 41
0.66 0.12 0.22
Matches are distributed among these distances:
16 2 0.02
17 2 0.02
18 1 0.01
19 7 0.06
20 6 0.05
21 13 0.11
22 17 0.14
23 27 0.22
24 35 0.29
25 5 0.04
26 5 0.04
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (23 bp):
ATATAATAAAATAAATTAAAATA
Found at i:79528 original size:17 final size:16
Alignment explanation
Indices: 79508--79552 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
79498 TTAGGTAAAA
79508 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAAGA-G
79525 AAG-AAGAAAGAA-AG
1 AAGAAAGAAAGAAGAG
*
79539 AA-AAAGAAAAAAGA
1 AAGAAAGAAAGAAGA
79553 AAAAATATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 9 0.36
17 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (16 bp):
AAGAAAGAAAGAAGAG
Found at i:79557 original size:14 final size:14
Alignment explanation
Indices: 79511--79556 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
79501 GGTAAAAAAG
79511 AAAGAAAGAAGATGAA
1 AAAGAAAGAA-A-GAA
*
79527 GAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
79541 AAAGAAA-AAAGAA
1 AAAGAAAGAAAGAA
79554 AAA
1 AAA
79557 ATATGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 9 0.32
14 9 0.32
15 1 0.04
16 9 0.32
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:79564 original size:17 final size:17
Alignment explanation
Indices: 79505--79554 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
79495 AAGTTAGGTA
79505 AAAAAGAAAGAAAG-AAG
1 AAAAAGAAA-AAAGAAAG
** *
79522 ATGAAGAAGAAAGAAAG
1 AAAAAGAAAAAAGAAAG
79539 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
79555 AAATATGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAG
Found at i:79936 original size:2 final size:2
Alignment explanation
Indices: 79919--79977 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
79909 TTATTTTATT
* * *
79919 TA TA TG TA TG TA TA TA TA TA TA TA TA TG 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
*
79961 TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
79978 TTTGAAAATC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79950 original size:16 final size:16
Alignment explanation
Indices: 79931--79977 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
79921 TATGTATGTA
79931 TATATATATATATATG
1 TATATATATATATATG
79947 TATATATATATATATG
1 TATATATATATATATG
79963 TATATATATATATAT
1 TATATATATATATAT
79978 TTTGAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
TATATATATATATATG
Found at i:86015 original size:13 final size:13
Alignment explanation
Indices: 85979--86016 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
85969 CCTTTAAATG
85979 ACAAAAAAAAAGT
1 ACAAAAAAAAAGT
*
85992 -CAAAAGCAAAAGT
1 ACAAAA-AAAAAGT
86005 ACAAAAAAAAAG
1 ACAAAAAAAAAG
86017 AAAAAAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 5 0.24
13 11 0.52
14 5 0.24
ACGTcount: A:0.74, C:0.11, G:0.11, T:0.05
Consensus pattern (13 bp):
ACAAAAAAAAAGT
Found at i:86312 original size:1 final size:1
Alignment explanation
Indices: 86306--86336 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
86296 ACCTAATCCT
86306 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
86337 CCTTTTCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:87392 original size:27 final size:27
Alignment explanation
Indices: 87358--87944 Score: 828
Period size: 27 Copynumber: 21.5 Consensus size: 27
87348 TACTGTGACC
87358 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87385 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87412 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87439 TTTTAAGTCCACAACTCCGTGGCA-TT
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87465 CTTTTAAGTCCACAACTCTGTGGCACCCT
1 -TTTTAAGTCCACAACTCCGTGGCA-CCT
*
87494 TTTAAAGTCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
87522 TTTT-AGTCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
*
87549 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87576 TTTTAAGTCCACAACTCCGTGGCA-TT
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87602 CTTTTAAGTCCACAACTCTGTGGCACCCT
1 -TTTTAAGTCCACAACTCCGTGGCA-CCT
* *
87631 TTTAAAGTCCACAACTCCGTGGCA-TT
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87657 CTTTTAAGTCCACAACTCCGTGGCACCC
1 -TTTTAAGTCCACAACTCCGTGGCACCT
87685 TTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* *
87713 TTTT-AGTCCACAACTTCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
* *
87739 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
87766 TTTTAAGTCCACAACTCCGTGGCATCC-
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
87793 TTTTAAGTCCACAACTCCGTGGCATCC-
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
*
87820 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
*
87848 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCT
*
87875 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
* *
87903 TTTTAAGTTCACAACTTCGTGGCACCCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCT
87931 TTTTAAGTCCACAA
1 TTTTAAGTCCACAA
87945 GGCGGTGGCA
Statistics
Matches: 516, Mismatches: 30, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
26 7 0.01
27 365 0.71
28 142 0.28
29 2 0.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCT
Found at i:87530 original size:55 final size:54
Alignment explanation
Indices: 87356--87944 Score: 971
Period size: 54 Copynumber: 10.8 Consensus size: 54
87346 AGTACTGTGA
*
87356 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
*
87410 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* *
87464 TCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
*
87519 CCTTTTTAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCAC
** *
87574 CCTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
**
87628 CCTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* *
87683 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* *
87737 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
*
87791 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-C
87846 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-C
* *
87901 CCTTTTAAGTTCACAACTTCGTGGCACCCTTTTTAAGTCCACAA
1 CCTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAA
87945 GGCGGTGGCA
Statistics
Matches: 503, Mismatches: 27, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
54 258 0.51
55 227 0.45
56 18 0.04
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:88298 original size:32 final size:32
Alignment explanation
Indices: 88045--89943 Score: 2583
Period size: 32 Copynumber: 61.2 Consensus size: 32
88035 AGTGGCATCT
* *
88045 TTTCAAAG-CC-CACAAGTCGGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
88073 TTTCAAAGTCCACACAAGTTGGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
88103 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
88130 TTTCCAAAGTCCACACAAGTTGGTGGC-ATCC-
1 TTT-CAAAGCCCACACAAGTCGGTGGCAACCCA
* *
88161 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88189 TTTCAAAG-CC-CACAAGTCGGTGGCAATCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
** * *
88219 TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88247 TTTCAAAG-CC-CACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88277 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88309 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88341 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88373 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88405 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88437 TTTCAAAGCCCACACAAGCCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88469 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88501 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88533 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
88565 TTCCAAAGCCCACACAAATCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88597 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88629 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88661 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
88693 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
88720 TTTCCAAAGTCCACACAAGTTGGTGGC-ATCC-
1 TTT-CAAAGCCCACACAAGTCGGTGGCAACCCA
* *
88751 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88779 TTTCAAAG-CC-CACAAGTCGGTGGCAATCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
** * *
88809 TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88837 TTTCAAAG-CC-CACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88867 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88899 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88931 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
88963 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
88995 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89027 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
89059 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89091 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89123 TTCCAAAGCCCACACAAATCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89155 TTTCAAAGCCCACACAAGTCGGTGGCAACACA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89187 TTTCAAAGCCTACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89219 TTTCAAAGCCCACACAAGTCGGTGACAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89251 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
89278 TTTCCAAAGTCCACACAAGTTGGTGGC-ATCC-
1 TTT-CAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89309 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89337 TTTCAAAG-CC-CACAAGTCGATGGCAATCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
** * *
89367 TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
89395 TTTCAAAG-CC-CACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89425 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
89457 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89489 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
89521 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89553 TTTCAAAGCCCACACAAGCCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89585 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
89617 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89649 TTTCAAAGCCAACACAAGTCGGTGACAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89681 TTTCAAAGCCCACACAAGTCGATGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
89713 TTTCAAAGCCCACACAAGTCGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89745 TTTCAAAGCCCTCACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89777 TTTCAAAGCCCACACACGTCAGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
89809 TTCCAAAGCCCACATAAGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
89841 TTTCAAAGCCCACACAAGTCGGTGGCGACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
89873 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* ** * *
89905 TTTAAAAGCCCATGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
89937 TTTCAAA
1 TTTCAAA
89944 TCACCATTTT
Statistics
Matches: 1715, Mismatches: 124, Indels: 60
0.90 0.07 0.03
Matches are distributed among these distances:
27 9 0.01
28 225 0.13
29 36 0.02
30 192 0.11
31 22 0.01
32 1231 0.72
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:91202 original size:17 final size:15
Alignment explanation
Indices: 91182--91231 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
91172 TTAGGTAAAA
91182 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
91199 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
*
91213 AA-AAAGAAA-AAAA
1 AAGAAAGAAAGAAAG
91226 AAGAAA
1 AAGAAA
91232 AAATATGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:91228 original size:20 final size:20
Alignment explanation
Indices: 91178--91231 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
91168 AAAGTTAGGT
* *
91178 AAAAAAGAAAGAAAGAAGATG
1 AAAAAA-AAAGAAAGAAAAAG
* *
91199 AAGAAGAAAGAAAGAAAAAG
1 AAAAAAAAAGAAAGAAAAAG
91219 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
91232 AAATATGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAAAAG
Found at i:91241 original size:10 final size:10
Alignment explanation
Indices: 91205--91234 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
91195 GATGAAGAAG
*
91205 AAAGAAAGAA
1 AAAGAAAAAA
91215 AAAGAAAAAA
1 AAAGAAAAAA
91225 AAAGAAAAAA
1 AAAGAAAAAA
91235 TATGAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:91241 original size:20 final size:19
Alignment explanation
Indices: 91178--91241 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
91168 AAAGTTAGGT
*
91178 AAAAAAGAAAGAAAGAAGATG
1 AAAAAA-AAAGAAA-AAAATG
* * *
91199 AAGAAGAAAGAAAGAAAAAG
1 AAAAAAAAAGAAA-AAAATG
91219 AAAAAAAAAGAAAAAATATG
1 AAAAAAAAAGAAAAAA-ATG
91239 AAA
1 AAA
91242 TGGAGTGGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 3 0.09
20 28 0.80
21 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAATG
Found at i:91628 original size:14 final size:14
Alignment explanation
Indices: 91605--91641 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
91595 TTATTTTATT
*
91605 TATATGTATGTATA
1 TATATATATGTATA
91619 TATATATATGTATA
1 TATATATATGTATA
91633 TATATATAT
1 TATATATAT
91642 TTTGAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (14 bp):
TATATATATGTATA
Found at i:95779 original size:27 final size:27
Alignment explanation
Indices: 95724--95797 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
95714 AAACAACATG
* *
95724 CCACCATTTTTGACAAATAAAAAAAAA
1 CCACCATTTTTGAAAAACAAAAAAAAA
* **
95751 CCACCATTTTTGAAAAACACAAAGTAA
1 CCACCATTTTTGAAAAACAAAAAAAAA
*
95778 CCACAATTTTT-AACAAACAA
1 CCACCATTTTTGAA-AAACAA
95798 TGGGTGATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.23
Consensus pattern (27 bp):
CCACCATTTTTGAAAAACAAAAAAAAA
Found at i:98503 original size:27 final size:27
Alignment explanation
Indices: 98465--98538 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
98455 AAACAACATG
*
98465 CCACCATTTTTGACAAATAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAGAAA
* *
98492 CCACCATTTTTGACAAACACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGAAA
* *
98519 CCACAATTTTTAACAAACAA
1 CCACCATTTTTGACAAACAA
98539 TGGGTGATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGAAA
Found at i:99359 original size:24 final size:24
Alignment explanation
Indices: 99309--99361 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
99299 GCTTCTATTT
* *
99309 TTTTTTCTGATTTTCCTTTTTTTA
1 TTTTTTCTCATTTTCCTTTTTTAA
*
99333 TTTTTTCTC-TTTTTCTCTTTTTAA
1 TTTTTTCTCATTTTCCT-TTTTTAA
99357 TTTTT
1 TTTTT
99362 AATTTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.08, C:0.13, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTCTCATTTTCCTTTTTTAA
Found at i:99535 original size:13 final size:13
Alignment explanation
Indices: 99484--99535 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
99474 ATAAATATGT
99484 AAAAATAAAAA-A
1 AAAAATAAAAATA
*
99496 GAAAAATTAAAATTA
1 -AAAAA-TAAAAATA
**
99511 AAATTTAAAAATA
1 AAAAATAAAAATA
99524 AAAAATAAAAAT
1 AAAAATAAAAAT
99536 GTGGGATGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
13 22 0.71
14 8 0.26
15 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:99951 original size:6 final size:6
Alignment explanation
Indices: 99904--99949 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
99894 AGACCATTAA
* *
99904 ATTTAT ATTTAA ATTTAT ATTTAT ATTTAT ATTTAT ATTTTT ATTT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTT
99950 TTTTAACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:100003 original size:39 final size:37
Alignment explanation
Indices: 99951--100041 Score: 105
Period size: 39 Copynumber: 2.4 Consensus size: 37
99941 TTTTTATTTT
* * *
99951 TTTAACATATATAAATATTAATATAAAATATATTTTAATA
1 TTTAATATATATAAATAATAATAAAAAAT-TA-TTTAA-A
99991 TTTAATAT-TATAAATAATAATAAAAAATTATTTAAA
1 TTTAATATATATAAATAATAATAAAAAATTATTTAAA
*
100027 TTTAATAAAT-TAAAT
1 TTTAATATATATAAAT
100042 TAAATTAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
36 13 0.28
37 6 0.13
38 2 0.04
39 18 0.39
40 7 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TTTAATATATATAAATAATAATAAAAAATTATTTAAA
Done.