Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold107
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: 2327068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 15
Found at i:187 original size:31 final size:32
Alignment explanation
Indices: 150--211 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
140 CATTTATCGC
150 TACAATGTATCGAT-TCCGAG-ATAATGTATCT
1 TACAATGTATCGATAT-CGAGTATAATGTATCT
*
181 TACAATGTATCGATATCGAGTATCATGTATC
1 TACAATGTATCGATATCGAGTATAATGTATC
212 GATACATCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
TACAATGTATCGATATCGAGTATAATGTATCT
Found at i:2871 original size:25 final size:25
Alignment explanation
Indices: 2814--2874 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
2804 GATTATATTG
*
2814 CTATTCATG-AT-CACTGTTCATCA
1 CTATTCATGTATCCACTCTTCATCA
* *
2837 TTGTTCATGTATCCACTCTTCATCA
1 CTATTCATGTATCCACTCTTCATCA
*
2862 CTATTTATGTATC
1 CTATTCATGTATC
2875 GATAACATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 7 0.23
24 2 0.07
25 21 0.70
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.44
Consensus pattern (25 bp):
CTATTCATGTATCCACTCTTCATCA
Found at i:6267 original size:20 final size:21
Alignment explanation
Indices: 6242--6295 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
6232 AAAGACTTTT
*
6242 GTATCGATACATTT-TTTCAA
1 GTATCGATACATTTAGTTCAA
*
6262 GTATCGATACATTTAGTTCAT
1 GTATCGATACATTTAGTTCAA
6283 GTATCGATACATT
1 GTATCGATACATT
6296 GTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
GTATCGATACATTTAGTTCAA
Found at i:6300 original size:13 final size:13
Alignment explanation
Indices: 6282--6318 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
6272 ATTTAGTTCA
6282 TGTATCGATACAT
1 TGTATCGATACAT
6295 TGTATCGATACAT
1 TGTATCGATACAT
6308 TGTATCGATAC
1 TGTATCGATAC
6319 TGTGCAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8865 original size:14 final size:13
Alignment explanation
Indices: 8846--8878 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
8836 CCTGGTATCG
8846 GATACAGGTGTAGC
1 GATACA-GTGTAGC
8860 GATACA-TGTAGC
1 GATACAGTGTAGC
8872 GATACAG
1 GATACAG
8879 AGATATGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.67
14 6 0.33
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.21
Consensus pattern (13 bp):
GATACAGTGTAGC
Found at i:15124 original size:33 final size:32
Alignment explanation
Indices: 15087--15154 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
15077 CGTTACAAGC
* *
15087 CAATGTATCGATAAATTTTATGATGTATTGATA
1 CAATGTATCGATAAATATTAT-ATGTATCGATA
* *
15120 CAATGTATCGATACATATTGTATGTATCGATA
1 CAATGTATCGATAAATATTATATGTATCGATA
15152 CAA
1 CAA
15155 ATTTAGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (32 bp):
CAATGTATCGATAAATATTATATGTATCGATA
Found at i:15212 original size:20 final size:20
Alignment explanation
Indices: 15187--15239 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
15177 CCAATGACTT
**
15187 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
15207 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
15227 GTATCGATACATT
1 GTATCGATACATT
15240 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:15666 original size:20 final size:19
Alignment explanation
Indices: 15642--15697 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
15632 ACATTATGCT
**
15642 TTGTATCGATACATGTTAA
1 TTGTATCGATACATGACAA
15661 TATGTATCGATACATGGACAA
1 T-TGTATCGATACAT-GACAA
15682 TTGTATCGATACATGA
1 TTGTATCGATACATGA
15698 GATTGGCAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.09
20 26 0.79
21 4 0.12
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:24492 original size:13 final size:13
Alignment explanation
Indices: 24474--24500 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24464 ACATTATGCT
24474 TTGTATCGATACA
1 TTGTATCGATACA
24487 TTGTATCGATACA
1 TTGTATCGATACA
24500 T
1 T
24501 GTTAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:24510 original size:19 final size:19
Alignment explanation
Indices: 24486--24541 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
24476 GTATCGATAC
**
24486 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
24505 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
24525 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
24542 GATTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:24529 original size:20 final size:20
Alignment explanation
Indices: 24486--24540 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
24476 GTATCGATAC
**
24486 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
24505 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
24525 ATTGTATCGATACATG
1 ATTGTATCGATACATG
24541 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:24611 original size:33 final size:33
Alignment explanation
Indices: 24569--24638 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
24559 CTACCACTGT
24569 TTGTATCGATACATG-GAACAATGTATCAATACA
1 TTGTATCGATACATGAGAA-AATGTATCAATACA
* *
24602 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGA-GAAAATGTATCAATACA
24636 TTG
1 TTG
24639 CTTGTAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 15 0.45
34 15 0.45
35 3 0.09
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGAGAAAATGTATCAATACA
Found at i:26523 original size:20 final size:21
Alignment explanation
Indices: 26498--26537 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
26488 ATTATTTTTC
26498 TATCAT-AATTTTATATAAAA
1 TATCATAAATTTTATATAAAA
26518 TATCATAAATTTTATATAAA
1 TATCATAAATTTTATATAAA
26538 TATTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TATCATAAATTTTATATAAAA
Found at i:26550 original size:8 final size:8
Alignment explanation
Indices: 26537--26600 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
26527 TTTTATATAA
26537 ATATTAAT
1 ATATTAAT
26545 ATATTAAT
1 ATATTAAT
*
26553 A-ATTTAT
1 ATATTAAT
26560 ATTATATAA-
1 A-TAT-TAAT
*
26569 ATTTTAAT
1 ATATTAAT
*
26577 ATATTTAT
1 ATATTAAT
*
26585 ATATTCAT
1 ATATTAAT
*
26593 ATAATAAT
1 ATATTAAT
26601 TATGTTTTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
7 9 0.20
8 30 0.68
9 3 0.07
10 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (8 bp):
ATATTAAT
Found at i:27008 original size:13 final size:13
Alignment explanation
Indices: 26973--27027 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
26963 ATTTTTTATA
*
26973 ATTTTAATTATATT
1 ATTTAAATTAT-TT
*
26987 ATATAAAATTATTT
1 AT-TTAAATTATTT
27001 ATTTAAA-TATTT
1 ATTTAAATTATTT
27013 A-TTAAATATATTT
1 ATTTAAAT-TATTT
27026 AT
1 AT
27028 ATATATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
11 5 0.15
12 6 0.18
13 10 0.29
14 6 0.18
15 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTAAATTATTT
Found at i:27013 original size:12 final size:13
Alignment explanation
Indices: 26976--27027 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
26966 TTTTATAATT
*
26976 TTAATTATATTATA
1 TTAAATATATT-TA
*
26990 TAAAAT-TATTTA
1 TTAAATATATTTA
*
27002 TTTAA-ATATTTA
1 TTAAATATATTTA
27014 TTAAATATATTTA
1 TTAAATATATTTA
27027 T
1 T
27028 ATATATTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 15 0.48
13 12 0.39
14 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATATATTTA
Found at i:27018 original size:25 final size:27
Alignment explanation
Indices: 26975--27027 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
26965 TTTTTATAAT
*
26975 TTTAATTATATTATATAAA-ATTATTTA
1 TTTAAATATATTATATAAATA-TATTTA
27002 TTTAAATAT-TTAT-TAAATATATTTA
1 TTTAAATATATTATATAAATATATTTA
27027 T
1 T
27028 ATATATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.46
26 5 0.21
27 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTAAATATATTATATAAATATATTTA
Found at i:27033 original size:10 final size:10
Alignment explanation
Indices: 27018--27055 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
27008 TATTTATTAA
27018 ATATATTTAT
1 ATATATTTAT
27028 ATATATTTAT
1 ATATATTTAT
*
27038 ATATAATTA-
1 ATATATTTAT
27047 ACTATATTT
1 A-TATATTT
27056 TTAATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 1 0.04
10 24 0.96
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATATTTAT
Found at i:27042 original size:12 final size:12
Alignment explanation
Indices: 26985--27040 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
26975 TTTAATTATA
26985 TTATATAAAATTAT
1 TTATAT-AAA-TAT
*
26999 TTATTTAAATAT
1 TTATATAAATAT
27011 TTAT-TAAATAT
1 TTATATAAATAT
*
27022 ATT-TATATATAT
1 -TTATATAAATAT
27034 TTATATA
1 TTATATA
27041 TAATTAACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 10 0.27
12 19 0.51
13 3 0.08
14 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATATAAATAT
Found at i:28202 original size:14 final size:14
Alignment explanation
Indices: 28185--28243 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
28175 TTTATAAATT
*
28185 TTAATTAATTATTA
1 TTAAATAATTATTA
*
28199 TTAAAAAATTAATT-
1 TTAAATAATT-ATTA
28213 TTAAATTAAATT-TTA
1 TTAAA-T-AATTATTA
*
28228 TTAAATAATAATTA
1 TTAAATAATTATTA
28242 TT
1 TT
28244 TATTTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.08
14 21 0.58
15 8 0.22
16 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAAATAATTATTA
Found at i:28213 original size:28 final size:28
Alignment explanation
Indices: 28181--28255 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
28171 TTTTTTTATA
28181 AATTTT-AATT-AATTATTATTAAAAAATT
1 AATTTTAAATTAAATT-TTATTAAAAAA-T
*
28209 AATTTTAAATTAAATTTTATTAAATAAT
1 AATTTTAAATTAAATTTTATTAAAAAAT
* *
28237 AATTATTTATTTAAATTTT
1 AATT-TTAAATTAAATTTT
28256 GTATATAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.27
29 26 0.63
30 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
AATTTTAAATTAAATTTTATTAAAAAAT
Found at i:29780 original size:22 final size:21
Alignment explanation
Indices: 29733--29776 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
29723 TATTTTATTT
29733 TATTTAAATTTAACTATAAAA
1 TATTTAAATTTAACTATAAAA
*
29754 TATTTAGATATTAA-TATAAAA
1 TATTTAAAT-TTAACTATAAAA
29775 TA
1 TA
29777 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TATTTAAATTTAACTATAAAA
Found at i:30903 original size:2 final size:2
Alignment explanation
Indices: 30896--30928 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30886 GACTGCCTAT
30896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30929 CTTGTCCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32130 original size:35 final size:34
Alignment explanation
Indices: 32051--32131 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 34
32041 TAAATTTGTT
* * *
32051 TTAAATAATTAAACATATATTGAAATTATTTTATA
1 TTAAATAA-TAAACATATATTAAAACTATTTCATA
32086 TTAAATAATAAA-AGTATATTAAAACTATATTCATA
1 TTAAATAATAAACA-TATATTAAAACTAT-TTCATA
32121 TTAAATAATAA
1 TTAAATAATAA
32132 TTAAAGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 1 0.02
34 16 0.39
35 24 0.59
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (34 bp):
TTAAATAATAAACATATATTAAAACTATTTCATA
Found at i:32597 original size:14 final size:15
Alignment explanation
Indices: 32574--32605 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
32564 ACTGTTTGAT
32574 AATTATTTTTTTATA
1 AATTATTTTTTTATA
32589 AATTA-TTTTTTATA
1 AATTATTTTTTTATA
32603 AAT
1 AAT
32606 ATCGAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTATTTTTTTATA
Found at i:33459 original size:15 final size:15
Alignment explanation
Indices: 33439--33491 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
33429 TTTAATTTTT
33439 TTATAAATTTAATTA
1 TTATAAATTTAATTA
33454 TTATAAATTTAGATAATA
1 TTATAAATTTA-AT--TA
*
33472 TT-TAAATTTAAATA
1 TTATAAATTTAATTA
33486 TTATAA
1 TTATAA
33492 TTATGATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 4 0.12
15 14 0.42
16 3 0.09
17 8 0.24
18 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTATAAATTTAATTA
Found at i:34161 original size:67 final size:64
Alignment explanation
Indices: 34023--34145 Score: 201
Period size: 67 Copynumber: 1.9 Consensus size: 64
34013 AAATTTTTTT
34023 ATGTATTTATGGTTTTATTTGTATTTTTTTATTATTTAAAGTATTATAAATTTATAAAAAAATA
1 ATGTATTTATGGTTTTATTTGTATTTTTTTATTATTTAAAGTATTATAAATTTATAAAAAAATA
* *
34087 ATGTATTTATGTTTTTATTTGTGTTATTTTTTTGTTATTTAAAGTATTATAAATTTATA
1 ATGTATTTATGGTTTTA-TT-TG-TATTTTTTTATTATTTAAAGTATTATAAATTTATA
34146 TATAATATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 16 0.30
65 2 0.04
66 2 0.04
67 34 0.63
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (64 bp):
ATGTATTTATGGTTTTATTTGTATTTTTTTATTATTTAAAGTATTATAAATTTATAAAAAAATA
Found at i:35681 original size:20 final size:21
Alignment explanation
Indices: 35637--35687 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
35627 ACGAATGACT
35637 TGTATCGATACATTTACATAA
1 TGTATCGATACATTTACATAA
*
35658 TGTATCGATACA-TTACCAT-G
1 TGTATCGATACATTTA-CATAA
35678 TGTATCGATA
1 TGTATCGATA
35688 GAATTGAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTTACATAA
Found at i:39280 original size:52 final size:51
Alignment explanation
Indices: 39156--39289 Score: 142
Period size: 52 Copynumber: 2.6 Consensus size: 51
39146 TAACTAGATA
* * * *
39156 TATCGATACATTAAAAAATATATTGATACATCTAGATAAAAACACAGAATG
1 TATCGATACATTAAAAAATGTATCGATACATCTAGATAAAAAAACAGAAGG
** * * *
39207 TATTAATATATTGAAAAATGTATCGATACATCTAGGTAAAAAAAACAGAAGG
1 TATCGATACATTAAAAAATGTATCGATACATCTAGAT-AAAAAAACAGAAGG
* * * *
39259 TATCGATACATTCACACATGTATCAATACAT
1 TATCGATACATTAAAAAATGTATCGATACAT
39290 TTACTGTTCA
Statistics
Matches: 66, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
51 30 0.45
52 36 0.55
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (51 bp):
TATCGATACATTAAAAAATGTATCGATACATCTAGATAAAAAAACAGAAGG
Found at i:39373 original size:21 final size:21
Alignment explanation
Indices: 39349--39403 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
39339 TGGGACCTTG
39349 TATCGATATATTTGAGAAATA
1 TATCGATATATTTGAGAAATA
*
39370 TATCGATATATTTGAGAAATG
1 TATCGATATATTTGAGAAATA
39391 TATCGATATATTT
1 TATCGATATATTT
39404 AGATAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (21 bp):
TATCGATATATTTGAGAAATA
Found at i:40163 original size:52 final size:51
Alignment explanation
Indices: 40080--40285 Score: 178
Period size: 52 Copynumber: 3.9 Consensus size: 51
40070 GATAAAGCTA
* * * * * *
40080 CCAATATACTAATTTAAGGCTAGCGATATTGGGCTTAACGATGAAAAAGGTG
1 CCAATATGCTGATTCAAGGCTAACGACATTGGACTTAA-GATGAAAAAGGTG
* * * **
40132 CTAATATGTTGATTCAAGGCTAACGACATTGGACTTCAAGATGACAAAGGCA
1 CCAATATGCTGATTCAAGGCTAACGACATTGGACTT-AAGATGAAAAAGGTG
* * * * * **
40184 CCAATATGCTGATTCAAAGCCAATGATATTAGACTTAAGAAAAAAAAAAGGTG
1 CCAATATGCTGATTCAAGGCTAACGACATTGGACTTAAG--ATGAAAAAGGTG
* * *
40237 CCAATGTGCTGATTCAAGGCTAACGACATTGAACTTAAAGATGATAAAG
1 CCAATATGCTGATTCAAGGCTAACGACATTGGACTT-AAGATGAAAAAG
40286 ATAAAAAGAA
Statistics
Matches: 117, Mismatches: 33, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
51 3 0.03
52 73 0.62
53 38 0.32
54 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (51 bp):
CCAATATGCTGATTCAAGGCTAACGACATTGGACTTAAGATGAAAAAGGTG
Found at i:40273 original size:53 final size:51
Alignment explanation
Indices: 40123--40274 Score: 144
Period size: 53 Copynumber: 2.9 Consensus size: 51
40113 CTTAACGATG
* * * **
40123 AAAAAGGTGCTAATATGTTGATTCAAGGCTAACGACATTGGACTTCAAGATG
1 AAAAAGGTGCCAATATGCTGATTCAAGGCTAACGACATTGAACTT-AAGAAA
* ** * * * *
40175 ACAAAGGCACCAATATGCTGATTCAAAGCCAATGATATT-AGACTTAAGAAAAA
1 AAAAAGGTGCCAATATGCTGATTCAAGGCTAACGACATTGA-ACTTAAG--AAA
*
40228 AAAAAGGTGCCAATGTGCTGATTCAAGGCTAACGACATTGAACTTAA
1 AAAAAGGTGCCAATATGCTGATTCAAGGCTAACGACATTGAACTTAA
40275 AGATGATAAA
Statistics
Matches: 76, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
51 3 0.04
52 34 0.45
53 38 0.50
54 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (51 bp):
AAAAAGGTGCCAATATGCTGATTCAAGGCTAACGACATTGAACTTAAGAAA
Found at i:40677 original size:97 final size:95
Alignment explanation
Indices: 40406--40846 Score: 412
Period size: 97 Copynumber: 4.6 Consensus size: 95
40396 GAAGGAGATG
* * *
40406 CCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACC-ACTTTGTGTGGGCTTT-GAAATGGGT
1 CCACCAGCTTGTGTGGGCTTT--AAAAGGGTTGCCACCAAC-TTGTGTGGGCTTTAGAAA-AGGT
* ** * *
40469 TGCCATCGGCTTGTGTGGGCTTTAGAAGAGGTTA
62 TGCCACCAACTTATATGGGCTTTAGAAGAGGTTA
* * * * *
40503 CCACCAGCTTG-GTGGGCTTTAACAGGGGTGTCACCAACTTGTGAGGGCTTTAGAAGAGGTTGCC
1 CCACCAGCTTGTGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAGGTTGCC
* * *
40567 ACCAGCTTGTATGGGCTTTAGAAGAGGTTG
66 ACCAACTTATATGGGCTTTAGAAGAGGTTA
* * ** *
40597 CCACC-GACTTGTATGGGCTTTAAAAAAGGGTTGCCACTAACTTGTGTGCACTTTATAAAAGGTT
1 CCACCAG-CTTGTGTGGGCTTT--AAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAGGTT
* * *
40661 GTCACCAACTTATATGGGTTTTAGAA-AGGGTTG
63 GCCACCAACTTATATGGGCTTTAGAAGA-GGTTA
* * * * *
40694 CCACC-GACTTGTGTAGGCTTTAGAGAAGGGTTGCCACCAGCTTGTGTGGGTTTTAGAGAATG-T
1 CCACCAG-CTTGTGTGGGCTTTA-A-AAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAGGTT
* * *
40757 GCCACCGACTTATGTGGGCTTTAGAAGGGGTTA
63 GCCACCAACTTATATGGGCTTTAGAAGAGGTTA
* *
40790 CCACCAGCTTGTGTGGGCTTTAGAAGGGATTGCCACCGACTTGTGTGGGCTTT-GAAA
1 CCACCAGCTTGTGTGGGCTTTAAAAGGG-TTGCCACCAACTTGTGTGGGCTTTAGAAA
40847 GGGTGCTACT
Statistics
Matches: 284, Mismatches: 48, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
93 1 0.00
94 73 0.26
95 35 0.12
96 57 0.20
97 118 0.42
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (95 bp):
CCACCAGCTTGTGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAGGTTGCC
ACCAACTTATATGGGCTTTAGAAGAGGTTA
Found at i:40849 original size:32 final size:31
Alignment explanation
Indices: 40404--41033 Score: 325
Period size: 32 Copynumber: 20.5 Consensus size: 31
40394 TAGAAGGAGA
* *
40404 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTT-G-AAAGGGT
40437 TGCCACC-ACTTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCGAC-TTGTGTGGGCTTTGAAA-GGGT
* *
40469 TGCCATCGGCTTGTGTGGGCTTT-AGAAGAGGT
1 TGCCACCGACTTGTGTGGGCTTTGA-AAG-GGT
* *
40501 TACCACC-AGCTTG-GTGGGCTTT-AACAGGGG
1 TGCCACCGA-CTTGTGTGGGCTTTGAA-AGGGT
* * *
40531 TGTCACCAACTTGTGAGGGCTTT-AGAAGAGGT
1 TGCCACCGACTTGTGTGGGCTTTGA-AAG-GGT
*
40563 TGCCACC-AGCTTGTATGGGCTTT-AGAAGAGGT
1 TGCCACCGA-CTTGTGTGGGCTTTGA-AAG-GGT
* *
40595 TGCCACCGACTTGTATGGGCTTTAAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT--GAAAGGGT
** ** * *
40628 TGCCACTAACTTGTGTGCACTTTATAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAGGGT
* * * * *
40660 TGTCACCAACTTATATGGGTTTTAGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAGGGT
*
40692 TGCCACCGACTTGTGTAGGCTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT-GA-AAGGGT
* *
40725 TGCCACC-AGCTTGTGTGGGTTTTAGAGAA-TG-
1 TGCCACCGA-CTTGTGTGGGCTTT-GA-AAGGGT
* *
40756 TGCCACCGACTTATGTGGGCTTTAGAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAGGGT
*
40788 TACCACC-AGCTTGTGTGGGCTTT-AGAAGGGAT
1 TGCCACCGA-CTTGTGTGGGCTTTGA-AAGGG-T
40820 TGCCACCGACTTGTGTGGGCTTTGAAAGGG-
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
* * * *
40850 TGCTACTGACTTGTCT--GCTTTGAAA-GGA
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
** * * *
40878 TGCCATTGAC-T-TGTGAGCTTTAAAAAGG-
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
** * * *
40906 TGCCACTAAC-T-TGTGGGTTTTGAAA-AGA
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
**
40934 TGCCATTGAC-T-TGTGGGCTTTGAAAAGGG-
1 TGCCACCGACTTGTGTGGGCTTTG-AAAGGGT
* *
40963 TGCCACTGAC-T-TGTGGGCTTTGAAA-GGA
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
** * *
40991 TGCCACTAAC-T-TGTGGGCTTT-AAAAGGA
1 TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
*
41019 TGCCACTGACTTGTG
1 TGCCACCGACTTGTG
41034 AGCTTTAAAA
Statistics
Matches: 493, Mismatches: 67, Indels: 77
0.77 0.11 0.12
Matches are distributed among these distances:
26 2 0.00
27 9 0.02
28 99 0.20
29 27 0.05
30 30 0.06
31 58 0.12
32 188 0.38
33 76 0.15
34 3 0.01
35 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (31 bp):
TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
Found at i:40872 original size:28 final size:28
Alignment explanation
Indices: 40801--42186 Score: 1386
Period size: 28 Copynumber: 49.4 Consensus size: 28
40791 CACCAGCTTG
* *
40801 TGTGGGCTTTAGAAGGGATTGCCACCGACTT
1 TGTGGGCTTT-GAAAGGA-TGCCACTGAC-T
* *
40832 GTGTGGGCTTTGAAAGGGTGCTACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
** *
40861 TGTCTGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
40889 TGTGAGCTTTAAAAAGG-TGCCACTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
40917 TGTGGGTTTTGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
40945 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
40974 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
41002 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
41030 TGTGAGCTTTAAAAAGG-TGCCATTGACA
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * * *
41058 TATGGGCTTTGAAAGGATACTACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* **
41086 TGTGGGCTTTAAAAGGACACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41114 TGTGGGTTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41142 TGTGAGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
41170 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
41198 TGTGGGTTTTGAAAAGG-TGTCATTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
41226 TGTGGGCTTTAAAAGGA-GACCACTGACT
1 TGTGGGCTTTGAAAGGATG-CCACTGACT
* *
41254 TGTGGGCTTTGAAAAGATGTCA-T-A-T
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41279 TGTGGGCTTTGAAACGATGTCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41307 TGTAGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41335 TGTGAGCTTTGAAAAAGG-TACCATTGACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
* * *
41364 TATGGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41392 TGTGGGTTTTGAAA-GATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41419 TATAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41447 TATGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41475 TGTAGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
41504 TGTGGGCTTTGAAAGGATGCCACT-ACCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
*
41532 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
41560 TGTGAGCTTTAAAAAGG-TGCCATTGACA
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * * * *
41588 TATGGGCTTTGATAGGATACTACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41616 TGTGGGCTTTAAAAGGACGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41644 TGTGGGTTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41672 TGTGAGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
41700 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41728 TGTGGGTTTTGAAAAGG-TGTCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
41756 TGTGGGCTTTAAAAGGA-GACCACTGACT
1 TGTGGGCTTTGAAAGGATG-CCACTGACT
*
41784 TGTGGGCTTTGAAAGGATGTCA-T-A-T
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
41809 TGTGGGCTTTGAAACGATGTCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
41837 TGTAGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
41865 TGTGAGTTTTGAAAAAGG-TACCATTGACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
* * *
41894 TATGGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41922 TGTGGGTTTTGAAAGGATGCTACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
41950 TATAGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
41978 AATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
42006 TGTGAGCTTTAAAAAGGGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
*
42035 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
42063 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
42091 TGTGGGCTTTGAAAAGGAAGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
42120 TGTGGGCTTTTG-AAGGGTGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* ** *
42148 TTTGGTTTTTGAGAGGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
42177 TGTGGGCTTT
1 TGTGGGCTTT
42187 AGAAGGGTGG
Statistics
Matches: 1116, Mismatches: 202, Indels: 75
0.80 0.15 0.05
Matches are distributed among these distances:
25 44 0.04
26 4 0.00
27 64 0.06
28 787 0.71
29 180 0.16
30 22 0.02
31 5 0.00
32 10 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:41878 original size:530 final size:528
Alignment explanation
Indices: 40835--42192 Score: 2200
Period size: 530 Copynumber: 2.6 Consensus size: 528
40825 CCGACTTGTG
* * ** * * * *
40835 TGGGCTTTGAAAGGGTGCTACTGACTTGTCTGCTTTGAAAGGATGCCATTGACTTGT-GAGCTTT
1 TGGGCTTTGGAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTGATTTATAG-GCTTT
* * * * *
40899 AAAAAGGTGCCACTAACTTGTGGGTTTTGAAAAGATGCCATTGACTTGTGGGCTTTGAAAAGGGT
65 GAAAGGGTGCCACTAACTTATGGGCTTTGAAAGGATGCCATTGACTTGT-GGCTTTGAAAAGGGT
40964 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGAC
129 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACT-ACTTGTGGGCTTTAAAAGGATGCCACTGAC
41029 TTGTGAGCTTTAAAAAGGTGCCATTGACATATGGGCTTTGAAAGGATACTACTAACTTGTGGGCT
193 TTGTGAGCTTTAAAAAGGTGCCATTGACATATGGGCTTTG-AAGGATACTACTAACTTGTGGGCT
*
41094 TTAAAAGGACACCACTGACTTGTGGGTTTTAAAAGGATGCCACTAACTTGTGAGCTTTAAAAGGA
257 TTAAAAGGACGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTAACTTGTGAGCTTTAAAAGGA
*
41159 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGTTTTGAAAAGGTGTCATTAA
322 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGTTTTGAAAAGGTGTCACTAA
41224 CTTGTGGGCTTTAAAAGGAGACCACTGACTTGTGGGCTTTGAAAAGATGTCATATTGTGGGCTTT
387 CTTGTGGGCTTTAAAAGGAGACCACTGACTTGTGGGCTTTGAAAAGATGTCATATTGTGGGCTTT
*
41289 GAAACGATGTCATTGACTTGTAGGCTTTAAAAGGATGCCACTGACTTGTGAGCTTTGAAAAAGGT
452 GAAACGATGTCATTAACTTGTAGGCTTTAAAAGGATGCCACTGACTTGTGAGCTTTGAAAAAGGT
41354 ACCATTGACTTA
517 ACCATTGACTTA
41366 TGGGCTTTGGAAGGGTGCCACTGACTTGTGGGTTTTGAAA-GATGCCACTGATTTATAGGCTTTG
1 TGGGCTTTGGAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTGATTTATAGGCTTTG
*
41430 AAAGGGTGCCACTGACTTATGGGCTTTGAAAGGATGCCATTGACTTGTAGGCTTTGAAAAGGGTG
66 AAAGGGTGCCACTAACTTATGGGCTTTGAAAGGATGCCATTGACTTGT-GGCTTTGAAAAGGGTG
41495 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTACCTTGTGGGCTTTAAAAGGATGCCACTGACT
130 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTA-CTTGTGGGCTTTAAAAGGATGCCACTGACT
41560 TGTGAGCTTTAAAAAGGTGCCATTGACATATGGGCTTTGATAGGATACTACTAACTTGTGGGCTT
194 TGTGAGCTTTAAAAAGGTGCCATTGACATATGGGCTTTGA-AGGATACTACTAACTTGTGGGCTT
41625 TAAAAGGACGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTAACTTGTGAGCTTTAAAAGGAT
258 TAAAAGGACGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTAACTTGTGAGCTTTAAAAGGAT
41690 GCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGTTTTGAAAAGGTGTCACTAAC
323 GCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGTTTTGAAAAGGTGTCACTAAC
*
41755 TTGTGGGCTTTAAAAGGAGACCACTGACTTGTGGGCTTTGAAAGGATGTCATATTGTGGGCTTTG
388 TTGTGGGCTTTAAAAGGAGACCACTGACTTGTGGGCTTTGAAAAGATGTCATATTGTGGGCTTTG
*
41820 AAACGATGTCATTAACTTGTAGGCTTTAAAAGGATGCCACTGACTTGTGAGTTTTGAAAAAGGTA
453 AAACGATGTCATTAACTTGTAGGCTTTAAAAGGATGCCACTGACTTGTGAGCTTTGAAAAAGGTA
41885 CCATTGACTTA
518 CCATTGACTTA
*
41896 TGGGCTTTGGAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCTACTGATTTATAGGCTTTG
1 TGGGCTTTGGAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTGATTTATAGGCTTTG
* * * *
41961 AAAGGGTGCCACTAACTAATGGGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTAAAAAGGGTG
66 AAAGGGTGCCACTAACTTATGGGCTTTGAAAGGATGCCATTGACTTGTG-GCTTTGAAAAGGGTG
*
42026 CCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAA-GATGCCACTGAC
130 CCACTGACTTGTGGGCTTTGAAAGGATGCCACT-ACTTGTGGGCTTT-AAAAGGATGCCACTGAC
* * * * * * * * * * **
42090 TTGTGGGCTTTGAAAAGGAAGCCACTGACTTGTGGGCTTTTGAAGGGTGCCACTAACTTTTGGTT
193 TTGTGAGCTTTAAAAAGG-TGCCATTGACATATGGGC-TTTGAAGGATACTACTAACTTGTGGGC
* * * * *
42155 TTTGAGAGGGATGCCACTGACTTGTGGGCTTTAGAAGG
256 TTT-AAAAGGACGCCACTGACTTGTGGGTTTTAAAAGG
42193 GTGGCTTTGA
Statistics
Matches: 773, Mismatches: 44, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
529 2 0.00
530 510 0.66
531 189 0.24
532 38 0.05
533 34 0.04
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (528 bp):
TGGGCTTTGGAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGATGCCACTGATTTATAGGCTTTG
AAAGGGTGCCACTAACTTATGGGCTTTGAAAGGATGCCATTGACTTGTGGCTTTGAAAAGGGTGC
CACTGACTTGTGGGCTTTGAAAGGATGCCACTACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
TGAGCTTTAAAAAGGTGCCATTGACATATGGGCTTTGAAGGATACTACTAACTTGTGGGCTTTAA
AAGGACGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTAACTTGTGAGCTTTAAAAGGATGCC
ACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGTTTTGAAAAGGTGTCACTAACTTG
TGGGCTTTAAAAGGAGACCACTGACTTGTGGGCTTTGAAAAGATGTCATATTGTGGGCTTTGAAA
CGATGTCATTAACTTGTAGGCTTTAAAAGGATGCCACTGACTTGTGAGCTTTGAAAAAGGTACCA
TTGACTTA
Found at i:45489 original size:32 final size:33
Alignment explanation
Indices: 45439--45880 Score: 438
Period size: 32 Copynumber: 13.8 Consensus size: 33
45429 AAGAAGATAT
* *
45439 CACCAACTTGAGTGGGCTTTAGAAAAGGGTTGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
*
45472 CA-CTACTT-TGTGTGGCTTT-GAAAAGGGTTGC
1 CACCGACTTGTGTG-GGCTTTAGAAAAGGGTTGC
* *
45503 CACCAACTTGTGTGGGCTTT--AAAAGAGGTTAC
1 CACCGACTTGTGTGGGCTTTAGAAAAG-GGTTGC
* *
45535 CACC-AGCTTG-ATGGGCTTT--AAAAGGGATGC
1 CACCGA-CTTGTGTGGGCTTTAGAAAAGGGTTGC
*
45565 CACCGACTTGTGTGGGCTTTAG-AAGGGGTTGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
* *
45597 CACCCACTTGTGTGGGCTTTAGAGAAGGGTTGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
* * * *
45630 CACCGGCTTGTATGGGTTTTAGAAAA-GGTAGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
* * *
45662 CACCGGCTTGTGTGGGTTTTAGAAAA-GGTAGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
* *
45694 CACCGGCTTGTGTGGGCTTTAGAAGA-GGTTGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
* * *
45726 CATCGACTTGTGTGGGCTTTAGAGAAGGGTTAC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
*
45759 CACC-AGCTTGTGTGGGCTTTA-AAGAA-GG-TGT
1 CACCGA-CTTGTGTGGGCTTTAGAA-AAGGGTTGC
* *
45790 CACCGACTTGTATGGGCTTTAG-AAGGGGTTGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
** *
45822 CACTAACTTGTGTGGGCTTTAG-AATGGGTTGC
1 CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
*
45854 CACCGACTTGTGTAGGCTTT-GAAAAGG
1 CACCGACTTGTGTGGGCTTTAGAAAAGG
45881 CGCCACTGAC
Statistics
Matches: 348, Mismatches: 43, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
30 13 0.04
31 68 0.20
32 207 0.59
33 60 0.17
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (33 bp):
CACCGACTTGTGTGGGCTTTAGAAAAGGGTTGC
Found at i:45710 original size:129 final size:128
Alignment explanation
Indices: 45439--45873 Score: 508
Period size: 129 Copynumber: 3.4 Consensus size: 128
45429 AAGAAGATAT
* * * * *
45439 CACCAACTTGAGTGGGCTTTAGAAAAGGGTTGCCA-CTACTT-TGTGTGGCTTT-GAAAAGGGTT
1 CACCGACTTGTGTGGGCTTTAG-AAGGGGTTGCCACCGACTTGTGTG-GGCTTTAGAGAAGGGTT
* * *
45501 GCCACCAACTTGTGTGGGCTTTAAAAGAGGTTA-CCACCAGCTTG-ATGGGCTTT--AAAAGGGA
64 GCCACCAGCTTGTGTGGGCTTTAAAA-AGG-TAGCCACCGGCTTGTATGGGCTTTAGAAAAGGTA
45562 TGC
127 -GC
*
45565 CACCGACTTGTGTGGGCTTTAGAAGGGGTTGCCACCCACTTGTGTGGGCTTTAGAGAAGGGTTGC
1 CACCGACTTGTGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGC
* * * * *
45630 CACCGGCTTGTATGGGTTTTAGAAAAGGTAGCCACCGGCTTGTGTGGGTTTTAGAAAAGGTAGC
66 CACCAGCTTGTGTGGGCTTTA-AAAAGGTAGCCACCGGCTTGTATGGGCTTTAGAAAAGGTAGC
* * * *
45694 CACCGGCTTGTGTGGGCTTTAGAAGAGGTTGCCATCGACTTGTGTGGGCTTTAGAGAAGGGTTAC
1 CACCGACTTGTGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGC
* * ** *
45759 CACCAGCTTGTGTGGGCTTTAAAGAAGGT-GTCACCGACTTGTATGGGCTTTAGAAGGGGTTGC
66 CACCAGCTTGTGTGGGCTTTAAA-AAGGTAGCCACCGGCTTGTATGGGCTTTAGAAAAGGTAGC
** * *
45822 CACTAACTTGTGTGGGCTTTAGAATGGGTTGCCACCGACTTGTGTAGGCTTT
1 CACCGACTTGTGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTT
45874 GAAAAGGCGC
Statistics
Matches: 265, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
125 11 0.04
126 33 0.12
127 45 0.17
128 84 0.32
129 85 0.32
130 7 0.03
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (128 bp):
CACCGACTTGTGTGGGCTTTAGAAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGC
CACCAGCTTGTGTGGGCTTTAAAAAGGTAGCCACCGGCTTGTATGGGCTTTAGAAAAGGTAGC
Found at i:45913 original size:28 final size:28
Alignment explanation
Indices: 45832--46679 Score: 807
Period size: 28 Copynumber: 30.0 Consensus size: 28
45822 CACTAACTTG
* * *
45832 TGTGGGCTTTAGAATGGGTTGCCACCGACT
1 TGTGGGCTTT-GAA-AGGATGCCACTGACT
*
45862 TGTGTAGGCTTTGAAAAGG-CGCCACTGACT
1 TGTG--GGCTTTG-AAAGGATGCCACTGACT
* *
45892 TGTGGGCTTTGAAAGGATGCCAATAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
45920 TATGGGCTTT-AGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * *
45948 CGTGGGCTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
45977 TGTGAGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
46005 TCT-GGCTTTGGAAGGATACTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * **
46032 TATGGGCTTTAAAAAGATGCCACCAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
46060 TGTGAGCTTTAAAAGGGTACCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
46088 TGTGGGCTTTGAAAGGATGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
46116 TGTGGGCTTTGAAAAAGG-TGCCACTAACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
* * * * *
46145 TGTAGGCTTTGGAAGGGTGCTACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
46173 TATGGGCTTTGGAAGGATACCATTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
46201 TGTGAGCTTTAAAAGGATGTCACTGTCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
46229 TGTGGGCTTTGAAAGGATGCCACT-ACCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* * *
46257 TATGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
46285 TGTGGGCTTTGAAAGGATGCTACAGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
46313 TATAGGTTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
46341 TGTGGGCTTTGAAAGGA-GACCACTGACT
1 TGTGGGCTTTGAAAGGATG-CCACTGACT
*
46369 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
46397 TGTGGGCTTTGAAAAGGATGTTATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
46426 GGTGGGCTTTAGAAAGG-TGCCATTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
46454 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
46482 TATGGGCTTTGAAATGG-TGCTATTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
46510 TGTAGGCTTTGAAAGGATGCAACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
46538 TGTGGGCTTTGAAAAAGATGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
46567 TATGGGCTTTGGAAAGG-TGCCACCGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* *
46595 TGTGGACTTTGAGAGGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
46624 TGTGGGCTTTTG-AAGGGTGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
46652 TATGGACTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
46680 AATGTGGTTG
Statistics
Matches: 671, Mismatches: 121, Indels: 54
0.79 0.14 0.06
Matches are distributed among these distances:
27 45 0.07
28 470 0.70
29 116 0.17
30 29 0.04
31 3 0.00
32 8 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:46690 original size:27 final size:27
Alignment explanation
Indices: 46636--46692 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
46626 TGGGCTTTTG
* *
46636 AAGGGTGCCACTGACTTATGGACTTTGA
1 AAGGGTGCCACTGACTAATGGA-GTTGA
46664 AAGGGTGCCACTGACTAATGTG-GTTGA
1 AAGGGTGCCACTGACTAATG-GAGTTGA
46691 AA
1 AA
46693 ATATGGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 6 0.23
28 19 0.73
29 1 0.04
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (27 bp):
AAGGGTGCCACTGACTAATGGAGTTGA
Found at i:47153 original size:51 final size:51
Alignment explanation
Indices: 47086--47221 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
47076 AATTAACTAG
* * * * * *
47086 ATGTATTGATATATTGAAAAATGTGTCGATACATCTAG-GTAAAAACACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCT-GCATAAAAAAACAAA
*
47137 ATGTATCGATACATTGAAAAATGTATCGATGCATCTGCATAAAAAAACAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGCATAAAAAAACAAA
* * * * *
47188 AGGTATCGATACATTCACACATGTATCGACACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACAT
47222 TTACTGTTCA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 1 0.01
51 70 0.99
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGCATAAAAAAACAAA
Found at i:49317 original size:33 final size:33
Alignment explanation
Indices: 49280--49346 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49270 TTCAACGATT
49280 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
49313 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
49346 T
1 T
49347 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:49318 original size:13 final size:13
Alignment explanation
Indices: 49300--49324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49290 CATAAAATGT
49300 TGTATCGATACAA
1 TGTATCGATACAA
49313 TGTATCGATACA
1 TGTATCGATACA
49325 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:49405 original size:13 final size:13
Alignment explanation
Indices: 49387--49411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49377 ATTACTCAAA
49387 TGTATCGATACAT
1 TGTATCGATACAT
49400 TGTATCGATACA
1 TGTATCGATACA
49412 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:53238 original size:15 final size:15
Alignment explanation
Indices: 53218--53248 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53208 CGATACATTA
53218 ATATTGTATCGATAC
1 ATATTGTATCGATAC
53233 ATATTGTATCGATAC
1 ATATTGTATCGATAC
53248 A
1 A
53249 ATCTGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (15 bp):
ATATTGTATCGATAC
Found at i:55452 original size:22 final size:21
Alignment explanation
Indices: 55405--55448 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
55395 TATTTTATTT
55405 TATTTAAATTTAATTATAAAA
1 TATTTAAATTTAATTATAAAA
*
55426 TATTTAGATATTAA-TATAAAA
1 TATTTAAAT-TTAATTATAAAA
55447 TA
1 TA
55449 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATTTAAATTTAATTATAAAA
Found at i:56576 original size:2 final size:2
Alignment explanation
Indices: 56569--56593 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56559 ACTGCCTTTT
56569 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
56594 CTTTCCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58859 original size:26 final size:28
Alignment explanation
Indices: 58823--58878 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
58813 CTCATCCTAG
58823 TACGGAGAAC-TTT-TATATAATTTCGT
1 TACGGAGAACTTTTATATATAATTTCGT
58849 TACGGAGAACTTTTATATATAATTTCGT
1 TACGGAGAACTTTTATATATAATTTCGT
58877 TA
1 TA
58879 TCTGAAAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 10 0.36
27 3 0.11
28 15 0.54
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (28 bp):
TACGGAGAACTTTTATATATAATTTCGT
Found at i:59114 original size:15 final size:15
Alignment explanation
Indices: 59091--59143 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
59081 TTTAATTTTT
*
59091 TTATCAATTTAAATA
1 TTATAAATTTAAATA
59106 TTATAAATTTAAATAA
1 TTATAAATTTAAAT-A
*
59122 TATTTAAATTTAAATA
1 T-TATAAATTTAAATA
59138 TTATAA
1 TTATAA
59144 TTATAGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 17 0.52
16 4 0.12
17 12 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATAAATTTAAATA
Found at i:59131 original size:17 final size:18
Alignment explanation
Indices: 59102--59137 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
59092 TATCAATTTA
59102 AATATTATAAATTTAAAT
1 AATATTATAAATTTAAAT
59120 AATATT-TAAATTTAAAT
1 AATATTATAAATTTAAAT
59137 A
1 A
59138 TTATAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTATAAATTTAAAT
Found at i:59206 original size:15 final size:14
Alignment explanation
Indices: 59174--59207 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59164 AAAATAAATA
59174 TAAATATTAATTTT
1 TAAATATTAATTTT
*
59188 TAAATATTTATTATT
1 TAAATATTAATT-TT
59203 TAAAT
1 TAAAT
59208 TTATAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAAATATTAATTTT
Found at i:59461 original size:13 final size:13
Alignment explanation
Indices: 59418--59461 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
59408 TTATTTAATT
*
59418 TAAATTTAAATAA
1 TAAATATAAATAA
*
59431 T-AATATAAAAAA
1 TAAATATAAATAA
*
59443 TTAATATAAATAA
1 TAAATATAAATAA
59456 TAAATA
1 TAAATA
59462 AATTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATATAAATAA
Found at i:59476 original size:17 final size:18
Alignment explanation
Indices: 59456--59497 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
59446 ATATAAATAA
*
59456 TAAATAAATTT-TAATTT
1 TAAATAAATTTATAAATT
*
59473 TAAAATAATTTTATAAATT
1 T-AAATAAATTTATAAATT
59492 TAAATA
1 TAAATA
59498 TTACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.67
19 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATAAATTTATAAATT
Found at i:63358 original size:3 final size:3
Alignment explanation
Indices: 63350--63376 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
63340 TTCTAATATC
63350 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
63377 TCCGATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:64330 original size:21 final size:20
Alignment explanation
Indices: 64289--64326 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
64279 TCCTACATAT
*
64289 ATTTATTAAAAAGTTAAATA
1 ATTTATTAAAAAATTAAATA
64309 ATTTATTAAAAAATTAAA
1 ATTTATTAAAAAATTAAA
64327 ATAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTATTAAAAAATTAAATA
Found at i:64335 original size:20 final size:20
Alignment explanation
Indices: 64292--64335 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64282 TACATATATT
* *
64292 TATTAAAAAGTTAAATAATT
1 TATTAAAAAATTAAATAATA
64312 TATTAAAAAATTAAAATAA-A
1 TATTAAAAAATT-AAATAATA
64332 TATT
1 TATT
64336 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TATTAAAAAATTAAATAATA
Found at i:66174 original size:31 final size:31
Alignment explanation
Indices: 66136--66203 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
66126 TTGATTTGGA
* *
66136 AATTTGCTAGCTG-CTAGCCAAATCCAAATTG
1 AATTTGCTAGCCGCCT-GCCAAATCAAAATTG
*
66167 AATTTGCTAGCCGCCTGCTAAATCAAAATTG
1 AATTTGCTAGCCGCCTGCCAAATCAAAATTG
66198 AATTTG
1 AATTTG
66204 ATTTGGCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (31 bp):
AATTTGCTAGCCGCCTGCCAAATCAAAATTG
Found at i:70741 original size:31 final size:31
Alignment explanation
Indices: 70706--70804 Score: 164
Period size: 31 Copynumber: 3.2 Consensus size: 31
70696 TTGATTTGAA
70706 AATTTGCTAGCCGTCAGCCAAATCCAAATTG
1 AATTTGCTAGCCGTCAGCCAAATCCAAATTG
*
70737 AATTTGTTAGCCGTCAGCCAAATCCAAATTG
1 AATTTGCTAGCCGTCAGCCAAATCCAAATTG
*
70768 AATTTGCTAGCCG-CTAGCCAAATCAAAATTG
1 AATTTGCTAGCCGTC-AGCCAAATCCAAATTG
70799 AATTTG
1 AATTTG
70805 ATTTAGCTCA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
30 1 0.02
31 63 0.98
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (31 bp):
AATTTGCTAGCCGTCAGCCAAATCCAAATTG
Found at i:70956 original size:21 final size:21
Alignment explanation
Indices: 70932--70973 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
70922 GGTGTCAATT
70932 CGTGTGTTCACAATAGTACTA
1 CGTGTGTTCACAATAGTACTA
70953 CGTGTGTTCACAATAGTACTA
1 CGTGTGTTCACAATAGTACTA
70974 GGATTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
CGTGTGTTCACAATAGTACTA
Found at i:73427 original size:32 final size:32
Alignment explanation
Indices: 73346--73433 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 32
73336 ATTATTTACC
* *
73346 TTTAAGGCTAAGGTATAACCTTACACCCCTATCT
1 TTTAAGGCTAAGATAGAACCTTACA--CCTATCT
73380 TTTACAAAGGCTAAGATAGAACCTCTACA-CTATCT
1 TTT---AAGGCTAAGATAGAACCT-TACACCTATCT
73415 TTTAAGGCTAAGATAGAAC
1 TTTAAGGCTAAGATAGAAC
73434 TTCTCAATCA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
32 16 0.33
34 3 0.06
35 9 0.19
37 16 0.33
38 4 0.08
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (32 bp):
TTTAAGGCTAAGATAGAACCTTACACCTATCT
Found at i:73930 original size:10 final size:10
Alignment explanation
Indices: 73909--73949 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
73899 GTATTGATAC
*
73909 ATGAATAGTG
1 ATGAACAGTG
*
73919 ATGAACATTG
1 ATGAACAGTG
*
73929 ATGAATAGTG
1 ATGAACAGTG
73939 ATGAACAGTG
1 ATGAACAGTG
73949 A
1 A
73950 AAATGAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:74497 original size:20 final size:20
Alignment explanation
Indices: 74472--74510 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
74462 ATACCACTGT
74472 TTGTATCGATACATGGTATA
1 TTGTATCGATACATGGTATA
*
74492 TTGTATCGATACATTGTAT
1 TTGTATCGATACATGGTAT
74511 CGATACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATGGTATA
Found at i:74507 original size:13 final size:13
Alignment explanation
Indices: 74491--74541 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
74481 TACATGGTAT
74491 ATTGTATCGATAC
1 ATTGTATCGATAC
74504 ATTGTATCGATAC
1 ATTGTATCGATAC
74517 A-TG-AT-G--A-
1 ATTGTATCGATAC
74524 ATTGTATCGATAC
1 ATTGTATCGATAC
74537 ATTGT
1 ATTGT
74542 TTATAATGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 19 0.59
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:74514 original size:33 final size:33
Alignment explanation
Indices: 74472--74541 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
74462 ATACCACTGT
*
74472 TTGTATCGATACATGGT-ATATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
74505 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
74538 TTGT
1 TTGT
74542 TTATAATGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:76800 original size:20 final size:21
Alignment explanation
Indices: 76752--76801 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
76742 AAGATGATAT
*
76752 TAAAAAATTAGCTAATGAAAA
1 TAAAGAATTAGCTAATGAAAA
*
76773 TAATGAATTAGCTAA-GAAAA
1 TAAAGAATTAGCTAATGAAAA
76793 -ACAAGAATT
1 TA-AAGAATT
76802 TGCATGATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 11 0.44
21 13 0.52
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (21 bp):
TAAAGAATTAGCTAATGAAAA
Found at i:82583 original size:22 final size:22
Alignment explanation
Indices: 82558--82599 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
82548 TTTTTAAAAA
82558 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
82580 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
82600 ATGTTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:83232 original size:20 final size:19
Alignment explanation
Indices: 83189--83242 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
83179 GCATTATGCT
***
83189 TTGTATCGATACATATTCA
1 TTGTATCGATACATGGACA
83208 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
*
83228 TTGTATCAATACATG
1 TTGTATCGATACATG
83243 AAACTGGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:83296 original size:20 final size:20
Alignment explanation
Indices: 83271--83324 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
83261 CTACCACTAT
*
83271 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
83291 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
83311 TTGTATTGATACAT
1 TTGTATCGATACAT
83325 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:85671 original size:13 final size:13
Alignment explanation
Indices: 85653--85678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85643 ACATTAAAAT
85653 TATATCGATATAA
1 TATATCGATATAA
85666 TATATCGATATAA
1 TATATCGATATAA
85679 ATTTGATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TATATCGATATAA
Found at i:86301 original size:23 final size:24
Alignment explanation
Indices: 86256--86302 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
86246 CAAAGGATTG
*
86256 AACACAAATTCAATTAAGCATAAA
1 AACACAAATTCAATTAAGAATAAA
86280 AACACAAA-TCAATTGAA-AATAAA
1 AACACAAATTCAATT-AAGAATAAA
86303 TTTTCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.15, G:0.04, T:0.19
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAATAAA
Found at i:88047 original size:33 final size:32
Alignment explanation
Indices: 88005--88067 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
87995 CGCCCAGATG
* *
88005 TATCGATACATGCTGCTTTGTATTGATACATTA
1 TATCGATACATG-TGCATTGTATCGATACATTA
*
88038 TATCGATACATGTTCATTGTATCGATACAT
1 TATCGATACATGTGCATTGTATCGATACAT
88068 GGAAAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TATCGATACATGTGCATTGTATCGATACATTA
Found at i:88155 original size:13 final size:13
Alignment explanation
Indices: 88134--88164 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
88124 CGATATATGG
*
88134 TACAATGTATCGA
1 TACATTGTATCGA
88147 TACATTGTATCGA
1 TACATTGTATCGA
88160 TACAT
1 TACAT
88165 GGTACAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:88160 original size:33 final size:33
Alignment explanation
Indices: 88118--88189 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
88108 CTATCACTAT
*
88118 TTGTATCGATATATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
88151 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
88184 TTGTAT
1 TTGTAT
88190 TGTATCGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCGATACA
Found at i:88175 original size:20 final size:19
Alignment explanation
Indices: 88152--88222 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
88142 ATCGATACAT
88152 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTA-AA
* *
88172 TGTATCGATACATTGT-AT
1 TGTATCGATACATGGTAAA
88190 TGTATCGATACATGAAG-AAA
1 TGTATCGATACATG--GTAAA
88210 TGTATCGATACAT
1 TGTATCGATACAT
88223 AGCTTGTAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 14 0.32
20 30 0.68
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (19 bp):
TGTATCGATACATGGTAAA
Found at i:88183 original size:13 final size:13
Alignment explanation
Indices: 88134--88189 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
88124 CGATATATGG
88134 TACAATGTATCGA
1 TACAATGTATCGA
*
88147 TACATTGTATCGA
1 TACAATGTATCGA
88160 TAC-ATG----G-
1 TACAATGTATCGA
88167 TACAATGTATCGA
1 TACAATGTATCGA
*
88180 TACATTGTAT
1 TACAATGTAT
88190 TGTATCGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
7 3 0.09
8 4 0.12
12 3 0.09
13 24 0.71
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:88201 original size:38 final size:35
Alignment explanation
Indices: 88118--88223 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 35
88108 CTATCACTAT
*
88118 TTGTATCGATATATGGTACAATGTATCGATAC--A
1 TTGTATCGATACATGGTACAATGTATCGATACATA
88151 TTGTATCGATACATGGTACAATGTATCGATACATTGTA
1 TTGTATCGATACATGGTACAATGTATCGATACA---TA
88189 TTGTATCGATACATGAAG-A-AATGTATCGATACATA
1 TTGTATCGATACATG--GTACAATGTATCGATACATA
88224 GCTTGTAACG
Statistics
Matches: 65, Mismatches: 1, Indels: 12
0.83 0.01 0.15
Matches are distributed among these distances:
33 31 0.48
35 2 0.03
38 30 0.46
39 1 0.02
40 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (35 bp):
TTGTATCGATACATGGTACAATGTATCGATACATA
Found at i:96992 original size:13 final size:13
Alignment explanation
Indices: 96971--97001 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
96961 CGATACATGG
*
96971 TACAATGTATCGA
1 TACATTGTATCGA
96984 TACATTGTATCGA
1 TACATTGTATCGA
96997 TACAT
1 TACAT
97002 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:101600 original size:13 final size:13
Alignment explanation
Indices: 101582--101606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101572 CATTTTATGG
101582 TGTATCGATACAA
1 TGTATCGATACAA
101595 TGTATCGATACA
1 TGTATCGATACA
101607 TACTGTGTGT
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:101708 original size:20 final size:21
Alignment explanation
Indices: 101658--101710 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
101648 GCCAATGACC
**
101658 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
* *
101679 AGTCTCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
101699 TGTATCGATACA
1 TGTATCGATACA
101711 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:101716 original size:13 final size:13
Alignment explanation
Indices: 101698--101722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101688 ACATTTGGTC
101698 ATGTATCGATACA
1 ATGTATCGATACA
101711 ATGTATCGATAC
1 ATGTATCGATAC
101723 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:103853 original size:114 final size:114
Alignment explanation
Indices: 103734--103953 Score: 379
Period size: 114 Copynumber: 1.9 Consensus size: 114
103724 AACTACCTCC
*
103734 AGAAAACTTCCAAAAACTCATCATTCCTCACATCTTCACCTTCCAACAACCTCTCCCTCAACTAT
1 AGAAAACTTCCAAAAACTCATCATTCCTCACATCTTCACCCTCCAACAACCTCTCCCTCAACTAT
*
103799 ACTACCAAAATGTTACC-TTTTTGAATCCTTTTCTTGCTAAACCACCACT
66 ACTACCAAAATGCTACCTTTTTTG-ATCCTTTTCTTGCTAAACCACCACT
* * *
103848 AGAAAACTTCCAAAAACTCATCATTCCTCACATTTTCACCCTCCAACAACTTTTCCCTCAACTAT
1 AGAAAACTTCCAAAAACTCATCATTCCTCACATCTTCACCCTCCAACAACCTCTCCCTCAACTAT
103913 ACTACCAAAATGCTACCTTTTTTGATCCTTTTCTTGCTAAA
66 ACTACCAAAATGCTACCTTTTTTGATCCTTTTCTTGCTAAA
103954 TACTAGCAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 94 0.94
115 6 0.06
ACGTcount: A:0.31, C:0.33, G:0.04, T:0.32
Consensus pattern (114 bp):
AGAAAACTTCCAAAAACTCATCATTCCTCACATCTTCACCCTCCAACAACCTCTCCCTCAACTAT
ACTACCAAAATGCTACCTTTTTTGATCCTTTTCTTGCTAAACCACCACT
Found at i:105777 original size:76 final size:76
Alignment explanation
Indices: 105648--105910 Score: 359
Period size: 76 Copynumber: 3.5 Consensus size: 76
105638 TTTTTATTTA
* * * *
105648 TTTATTAGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACTCCGTTTTTACTTCTCA
1 TTTATTAGGGATACTCCAACCCCATTATTTTCGAAGGGATACTTCAACCCCGTTTTTACTTCTAA
*
105713 AAATGTTAATT
66 AAATGTCAATT
* *
105724 TTTATTAGGGATACTCCAAGCCCATTATATTCGAAGGGATACTTCAACCCCGTTTTTACTTCTAA
1 TTTATTAGGGATACTCCAACCCCATTATTTTCGAAGGGATACTTCAACCCCGTTTTTACTTCTAA
105789 AAATGTCAATT
66 AAATGTCAATT
* * * * *
105800 TTTA-TCGGGCATAATCTAACCCCATTATTTTCGAGGGGATAC-TCAAACCCCGTTTTTACTTCA
1 TTTATTAGGG-ATACTCCAACCCCATTATTTTCGAAGGGATACTTC-AACCCCGTTTTTACTTCT
*
105863 AAAAATGTCGATT
64 AAAAATGTCAATT
* *
105876 TTTATTGGGGATACTCCAACCTCATTATTTTCGAA
1 TTTATTAGGGATACTCCAACCCCATTATTTTCGAA
105911 ATGATACTCC
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
75 6 0.04
76 154 0.94
77 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (76 bp):
TTTATTAGGGATACTCCAACCCCATTATTTTCGAAGGGATACTTCAACCCCGTTTTTACTTCTAA
AAATGTCAATT
Found at i:105916 original size:28 final size:28
Alignment explanation
Indices: 105884--105952 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
105874 TTTTTATTGG
105884 GGATACTCCAACCTCATTATTTTCGAAA
1 GGATACTCCAACCTCATTATTTTCGAAA
* * **
105912 TGATACTCCAATCTCATTATTTTCGAGG
1 GGATACTCCAACCTCATTATTTTCGAAA
105940 GGATACTCCAACC
1 GGATACTCCAACC
105953 CTAGTTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (28 bp):
GGATACTCCAACCTCATTATTTTCGAAA
Found at i:116456 original size:61 final size:60
Alignment explanation
Indices: 116358--117099 Score: 627
Period size: 61 Copynumber: 12.4 Consensus size: 60
116348 AACCTTTTAT
* * * * * *
116358 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTCAAAACCCACACAAGTAAGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGT-AGTGGCA
* *
116419 CCTTTTAGTCCTCAAAGGGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGTTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTAG-TGGCA
* * *
116480 CCTTTTAGTCC-CTAAAGAGCATGACGCTTTCTCCTTTCAAAGCCCACACAAGTTGTTGGCA
1 CCTTTTAGTCCTC-AAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTAG-TGGCA
* * * * * *
116541 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGTCCACACAAGTTGGGGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAG-TAGTGGCA
* * * *
116602 CTTTTTAATCCTCAAAGAGTAGGACGCCTTCTCTTTTCAAAGCCCACACAAGT--T----
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTAGTGGCA
* * *
116656 -CTTTCAGTCCTCAAAGAGCAGGACGTCTT-TCCCTTTCAAAGCCCACACAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCT-CCTTTCAAAGCCCACACAAGTAG-TGGCA
* * * * * * *
116716 CCTTTTAGTCCTCAAAGAGCAGAATGCTTTTTCTTTTCAAAGCCCACACAAATTAGTCGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACAC-AAGTAGTGGCA
* * * *
116777 CCTTTCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCTCACACAAGTTTA-TGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAG--TAGTGGCA
* * * * *
116838 CATTCTAGTACTCAAAGAGCAGGAC-ACTT-TCCTTTAAAAGCCCACACAAGCTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAG-TAGTGGCA
* * * * * * * * * * * *
116897 CCTTTCAATCCTCAAATAGTAAGATGTCTTTTCTTTTTAAACCCCACACAAGTCGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGT-AGTGGCA
* * * * * * * *
116958 CCTTTTAGTCTTCAAAAAGTAAGAC-ACTT-TCCTTTAAAAGCCTACATAAGCTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAG-TAGTGGCA
* * * * * *
117017 CCTTTTATTCCTTAAAGAGTAGGACGCCTTGT--TTTTAAAGCCCACACAACCTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAA-GTAGTGGCA
* *
117076 CATTTTAGTCCTCAAAAAG-AGGAC
1 CCTTTTAGTCCTCAAAGAGCAGGAC
117100 ACCTATTTTT
Statistics
Matches: 555, Mismatches: 101, Indels: 53
0.78 0.14 0.07
Matches are distributed among these distances:
52 1 0.00
53 44 0.08
56 1 0.00
58 7 0.01
59 119 0.21
60 19 0.03
61 354 0.64
62 10 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (60 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTAGTGGCA
Found at i:116703 original size:236 final size:234
Alignment explanation
Indices: 116420--116887 Score: 606
Period size: 236 Copynumber: 2.0 Consensus size: 234
116410 TAAGTGGTAC
* * *
116420 CTTTTAGTCCTCAAAGGGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGTTGGCACCTTT
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGATGGCACCTTT
* * *
116485 TAGTCC-CTAAAGAGCATG-ACGCTTTCTCCTTTCAAAGCCCACACAAGTT-GTTGGCACCTTTT
66 TAGTCCTC-AAAGAGCA-GAACGCTTTCTCCTTTCAAAGCCCACACAAATTAG-TCGCACCTTTC
* * * * * *
116547 AGTCCTCAAAGAGCAGGATGCCTT-TTCTTTTCAAAG-TCCACACAAGTTGGGGGCACTTTTTAA
128 AGTCCTCAAAGAGCAAGACGCCTTCTCCTTTT-AAAGCT-CACACAAGTTGAGGGCACATTCTAA
* * * * *
116610 TCCTCAAAGAGTAGGACGCCTTCTCTTTTCAAAGCCCACACAAGTT
191 TACTCAAAGAGCAGGAC-ACTT-TCCTTTAAAAGCCCACACAAGTT
*
116656 CTTTCAGTCCTCAAAGAGCAGGACGTCTT-TCCCTTTCAAAGCCCACACAAGTTGATGGCACCTT
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTCT-CCTTTCAAAGCCCACACAAGTTGATGGCACCTT
* * *
116720 TTAGTCCTCAAAGAGCAGAATGCTTTTTCTTTTCAAAGCCCACACAAATTAGTCGCACCTTTCAG
65 TTAGTCCTCAAAGAGCAGAACGCTTTCTCCTTTCAAAGCCCACACAAATTAGTCGCACCTTTCAG
* * *
116785 TCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCTCACACAAGTTTATGGCACATTCTAGTACT
130 TCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCTCACACAAGTTGAGGGCACATTCTAATACT
116850 CAAAGAGCAGGACACTTTCCTTTAAAAGCCCACACAAG
195 CAAAGAGCAGGACACTTTCCTTTAAAAGCCCACACAAG
116888 CTAGTGGCAC
Statistics
Matches: 202, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
234 19 0.09
235 5 0.02
236 169 0.84
237 9 0.04
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (234 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGATGGCACCTTT
TAGTCCTCAAAGAGCAGAACGCTTTCTCCTTTCAAAGCCCACACAAATTAGTCGCACCTTTCAGT
CCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCTCACACAAGTTGAGGGCACATTCTAATACTC
AAAGAGCAGGACACTTTCCTTTAAAAGCCCACACAAGTT
Found at i:118545 original size:18 final size:18
Alignment explanation
Indices: 118522--118556 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
118512 GTTTTGGAGT
118522 GAAGAAGAACGAAAAAAG
1 GAAGAAGAACGAAAAAAG
*
118540 GAAGAAGAAGGAAAAAA
1 GAAGAAGAACGAAAAAA
118557 AACAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAGAAGAACGAAAAAAG
Found at i:124902 original size:32 final size:31
Alignment explanation
Indices: 124856--125178 Score: 279
Period size: 31 Copynumber: 10.6 Consensus size: 31
124846 TCAAATCTTT
*
124856 TTTTAAAAGCCCACACAAGTTGGTGTCAACCC
1 TTTT-AAAGCCCACACAAGTTGGTGGCAACCC
* * * **
124888 TTCTCAAAGCCCACATAAGCTGGTAACAACCC
1 TT-TTAAAGCCCACACAAGTTGGTGGCAACCC
**
124920 TTTTAAAGCCCACACAAGGCGGTGGC-ACCC
1 TTTTAAAGCCCACACAAGTTGGTGGCAACCC
* *
124950 TTTTAAAGCCTACACAAGCTGGTGGCAACCC
1 TTTTAAAGCCCACACAAGTTGGTGGCAACCC
** * *
124981 TTTTAAAG-CCACACAAGTCAGTAGC-ACCT
1 TTTTAAAGCCCACACAAGTTGGTGGCAACCC
* * * *
125010 TTTTAAAGCCCACATAAGCTGGTAGCAACCT
1 TTTTAAAGCCCACACAAGTTGGTGGCAACCC
* *
125041 TTTTAAAACCCACACAAGTTGGTGGAAACCC
1 TTTTAAAGCCCACACAAGTTGGTGGCAACCC
***
125072 TTTTAAAGCCCACACAAGTCATTGGCAACCC
1 TTTTAAAGCCCACACAAGTTGGTGGCAACCC
* * * *
125103 TTCTCAAAGCCCACACAAGTCGATGGC-A-TC
1 TT-TTAAAGCCCACACAAGTTGGTGGCAACCC
* *
125133 TTTTCAAAG-CC-CATAAGTTAGTGGC-ACCC
1 TTTT-AAAGCCCACACAAGTTGGTGGCAACCC
125162 TTTTAAAG-CCA-ACAAGT
1 TTTTAAAGCCCACACAAGT
125179 CAGTGGCATC
Statistics
Matches: 237, Mismatches: 46, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
28 22 0.09
29 19 0.08
30 59 0.25
31 88 0.37
32 48 0.20
33 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (31 bp):
TTTTAAAGCCCACACAAGTTGGTGGCAACCC
Found at i:124952 original size:30 final size:30
Alignment explanation
Indices: 124856--125231 Score: 254
Period size: 31 Copynumber: 12.4 Consensus size: 30
124846 TCAAATCTTT
* *
124856 TTTTAAAAGCCCACACAAGTTGGTGTCAACCC
1 TTTT-AAAGCCCACACAAGTCGGTGGC-ACCC
* * **
124888 TTCTCAAAGCCCACATAAG-CTGGTAACAACCC
1 TT-TTAAAGCCCACACAAGTC-GGTGGC-ACCC
*
124920 TTTTAAAGCCCACACAAGGCGGTGGCACCC
1 TTTTAAAGCCCACACAAGTCGGTGGCACCC
*
124950 TTTTAAAGCCTACACAAG-CTGGTGGCAACCC
1 TTTTAAAGCCCACACAAGTC-GGTGGC-ACCC
* * *
124981 TTTTAAAG-CCACACAAGTCAGTAGCACCT
1 TTTTAAAGCCCACACAAGTCGGTGGCACCC
* * *
125010 TTTTAAAGCCCACATAAG-CTGGTAGCAACCT
1 TTTTAAAGCCCACACAAGTC-GGTGGC-ACCC
* * *
125041 TTTTAAAACCCACACAAGTTGGTGGAAACCC
1 TTTTAAAGCCCACACAAGTCGGTGG-CACCC
**
125072 TTTTAAAGCCCACACAAGTCATTGGCAACCC
1 TTTTAAAGCCCACACAAGTCGGTGGC-ACCC
* * *
125103 TTCTCAAAGCCCACACAAGTCGATGGCA-TC
1 TT-TTAAAGCCCACACAAGTCGGTGGCACCC
* **
125133 TTTTCAAAG-CC-CATAAGTTAGTGGCACCC
1 TTTT-AAAGCCCACACAAGTCGGTGGCACCC
* *
125162 TTTTAAAG-CCA-ACAAGTCAGTGGCA-TC
1 TTTTAAAGCCCACACAAGTCGGTGGCACCC
** *
125189 TTTTCAAAAG-CC-CACAAGTTAGTGGCATCC
1 TTTT--AAAGCCCACACAAGTCGGTGGCACCC
*
125219 TTTCAAAGCCCAC
1 TTTTAAAGCCCAC
125232 GAGTTAGTGG
Statistics
Matches: 279, Mismatches: 43, Indels: 46
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.02
28 33 0.12
29 42 0.15
30 64 0.23
31 86 0.31
32 48 0.17
33 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (30 bp):
TTTTAAAGCCCACACAAGTCGGTGGCACCC
Found at i:125221 original size:57 final size:56
Alignment explanation
Indices: 125087--125691 Score: 400
Period size: 57 Copynumber: 10.5 Consensus size: 56
125077 AAGCCCACAC
* *
125087 AAGTCATTGGCAACCCTTCTCAAAGCCCACACAAGTC-GATGGCATCTTTTCAAAGCCCAT
1 AAGTCAGTGGC-ATCCTT-TCAAAG-CC-CACAAGTCAG-TGGCATCTTTTCAAAGCCCAT
* * * * *
125147 AAGTTAGTGGCACCCTTTTAAAGCCAACAAGTCAGTGGCATCTTTTCAAAAGCCCAC
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCAT
* * * * *
125204 AAGTTAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCATC-CTTCAAAACCCAT
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAT
* * * * * * *
125259 GAGTCA-TAGCACCCTCTCAAAACCCATAAG-CTAGTGGCACCCTTTT-AAAGCCCAT
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC-AGTGGCA-TCTTTTCAAAGCCCAT
* * * ** * * *
125314 GAGTCAGTGGCACCCTTTCAAAGCTCATGAGTCAATGGCA-CACTTTCGAAGCCCAT
1 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCAT
* * * * * **
125370 AAGCCAGTGGCA-CCTTTTCGAAGCCCATAAGTTAGTGGAATCTTTTCAAAAGCCCCC
1 AAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCAT
* ** * *
125427 AAGGT-AGTAGCATCCTTTCAAAGCCCATGAGTTAGTGGCATCCTTTTCAAAGCCCAC
1 AA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCAT
* * * *
125484 AAGTCAATGGCATCCTTTTCAAAGCCCACAAATCAGTGGCATCTCTTTTAAAGCCTAT
1 AAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAGCCCAT
* * * * *
125542 GAGTAAGTGGCATCCTTTCAAAAGCCC-CTAAGTCAGTGCCATCCTTTCAAAGCCCAC
1 AAGTCAGTGGCATCCTTTC-AAAGCCCAC-AAGTCAGTGGCATCTTTTCAAAGCCCAT
* * * ** * *
125599 AAGTCAGTTGCATCTTTTCAATGCCTACACAAGTTGGTGGCAACACTTCTCAAAGCCCACAT
1 AAGTCAGTGGCATCCTTTCAAAGCC--CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CAT
** *
125661 AAGTTGGTGGCATCTTCTTCTAAAGCCCACA
1 AAGTCAGTGGCATCCT-TTC-AAAGCCCACA
125692 CAAGTTGGTG
Statistics
Matches: 431, Mismatches: 85, Indels: 56
0.75 0.15 0.10
Matches are distributed among these distances:
54 26 0.06
55 31 0.07
56 97 0.23
57 137 0.32
58 86 0.20
59 8 0.02
60 17 0.04
61 2 0.00
62 19 0.04
63 3 0.01
64 5 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (56 bp):
AAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAT
Found at i:125236 original size:28 final size:28
Alignment explanation
Indices: 125070--125691 Score: 414
Period size: 28 Copynumber: 21.6 Consensus size: 28
125060 TGGTGGAAAC
* * *
125070 CCTTTTAAAGCCCACACAAGTCATTGGCAAC
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-AT
125101 CCTTCTCAAAGCCCACACAAGTC-GATGGCAT
1 CCTT-TCAAAG-CC-CACAAGTCAG-TGGCAT
* * * *
125132 CTTTTCAAAGCCCATAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
125160 CCTTTTAAAGCCAACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
125188 CTTTTCAAAAGCCCACAAGTTAGTGGCAT
1 CCTTTC-AAAGCCCACAAGTCAGTGGCAT
* *
125217 CCTTTCAAAGCCCACGAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* ** * *
125245 CC-TTCAAAACCCATGAGTCA-TAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
125271 CCTCTCAAAACCCATAAG-CTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTC-AGTGGCAT
* ** *
125299 CCTTTTAAAGCCCATGAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
125327 CCTTTCAAAGCTCATGAGTCAATGGCA-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
125354 CACTTTCGAAGCCCATAAGCCAGTGGCA-
1 C-CTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
125382 CCTTTTCGAAGCCCATAAGTTAGTGGAAT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAT
* * *
125411 CTTTTCAAAAGCCCCCAAGGT-AGTAGCAT
1 CCTTTC-AAAGCCCACAA-GTCAGTGGCAT
** *
125440 CCTTTCAAAGCCCATGAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
125468 CCTTTTCAAAGCCCACAAGTCAATGGCAT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAT
*
125497 CCTTTTCAAAGCCCACAAATCAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAT
* * ** *
125526 CTCTTTTAAAGCCTATGAGTAAGTGGCAT
1 C-CTTTCAAAGCCCACAAGTCAGTGGCAT
*
125555 CCTTTCAAAAGCCC-CTAAGTCAGTGCCAT
1 CCTTTC-AAAGCCCAC-AAGTCAGTGGCAT
*
125584 CCTTTCAAAGCCCACAAGTCAGTTGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* * ** *
125612 CTTTTCAATGCCTACACAAGTTGGTGGCAA
1 CCTTTCAAAGCC--CACAAGTCAGTGGCAT
**
125642 CACTTCTCAAAGCCCACATAAGTTGGTGGCAT
1 C-CTT-TCAAAGCCCAC--AAGTCAGTGGCAT
*
125674 CTTCTTCTAAAGCCCACA
1 CCT-TTC-AAAGCCCACA
125692 CAAGTTGGTG
Statistics
Matches: 481, Mismatches: 83, Indels: 55
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.01
27 33 0.07
28 208 0.43
29 143 0.30
30 26 0.05
31 13 0.03
32 51 0.11
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:125639 original size:87 final size:87
Alignment explanation
Indices: 125126--125659 Score: 287
Period size: 86 Copynumber: 6.3 Consensus size: 87
125116 CACAAGTCGA
* * * * * * *
125126 TGGCAT-CTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTT-AAAGCCAACAAGTCAGTGGCATC
1 TGGCATCCTTTTCAAAGCCCACAAGTCAATGCCATCCTTTTCAAAGCCCACAAATCAGTGGCATC
*
125189 T-TTTCAAAAGCCCACAAGTTAG
66 TCTTTC-AAAGCCTACAAGTTAG
* * * * * ** * *
125211 TGGCATCC-TTTCAAAGCCCACGAGTTAGTGGCATCC--TTCAAAACCCATGAGTCA-TAGCA-C
1 TGGCATCCTTTTCAAAGCCCACAAGTCAATGCCATCCTTTTCAAAGCCCACAAATCAGTGGCATC
* * * * * *
125271 CCTCTCAAAACCCATAAGCTAG
66 TCTTTCAAAGCCTACAAGTTAG
* ** * * * * ** * *
125293 TGGCACCCTTTT-AAAGCCCATGAGTCAGTGGCA-CCCTTTCAAAGCTCATGAGTCAATGGCA-C
1 TGGCATCCTTTTCAAAGCCCACAAGTCAATGCCATCCTTTTCAAAGCCCACAAATCAGTGGCATC
* * * * **
125355 ACTTTCGAAGCCCATAAGCCAG
66 TCTTTCAAAGCCTACAAGTTAG
* * * * ** * * *
125377 TGGCA-CCTTTTCGAAGCCCATAAGTTAGTGGAAT-CTTTTCAAAAGCCCCCAAGGT-AGTAGCA
1 TGGCATCCTTTTCAAAGCCCACAAGTCAATGCCATCCTTTTC-AAAGCCCACAA-ATCAGTGGCA
* **
125439 TC-CTTTCAAAGCCCATGAGTTAG
64 TCTCTTTCAAAGCCTACAAGTTAG
*
125462 TGGCATCCTTTTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAATCAGTGGCATC
1 TGGCATCCTTTTCAAAGCCCACAAGTCAATGCCATCCTTTTCAAAGCCCACAAATCAGTGGCATC
* ** *
125527 TCTTTTAAAGCCTATGAGTAAG
66 TCTTTCAAAGCCTACAAGTTAG
* * *
125549 TGGCATCC-TTTCAAAAGCCC-CTAAGTCAGTGCCATCC-TTTCAAAGCCCACAAGTCAGTTGCA
1 TGGCATCCTTTTC-AAAGCCCAC-AAGTCAATGCCATCCTTTTCAAAGCCCACAAATCAGTGGCA
* *
125611 TCT-TTTCAATGCCTACACAAGTTGG
64 TCTCTTTCAAAGCCT--ACAAGTTAG
* *
125636 TGGCAACACTTCTCAAAGCCCACA
1 TGGCATC-CTTTTCAAAGCCCACA
125660 TAAGTTGGTG
Statistics
Matches: 364, Mismatches: 62, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
81 2 0.01
82 40 0.11
83 34 0.09
84 60 0.16
85 75 0.21
86 77 0.21
87 63 0.17
88 9 0.02
89 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (87 bp):
TGGCATCCTTTTCAAAGCCCACAAGTCAATGCCATCCTTTTCAAAGCCCACAAATCAGTGGCATC
TCTTTCAAAGCCTACAAGTTAG
Found at i:125715 original size:31 final size:31
Alignment explanation
Indices: 125625--125782 Score: 194
Period size: 32 Copynumber: 5.0 Consensus size: 31
125615 TTCAATGCCT
*
125625 ACACAAGTTGGTGGCAACACTTCTCAAAGCCC
1 ACACAAGTTGGTGGCAACCCTTCT-AAAGCCC
* * *
125657 ACATAAGTTGGTGGCATCTTCTTCTAAAGCCC
1 ACACAAGTTGGTGGCAAC-CCTTCTAAAGCCC
125689 ACACAAGTTGGTGGCAACCCTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCTTCTAAAGCCC
*
125720 ATACAAGTTGGTGGCAA-CCTTCCCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCTT--CTAAAGCCC
* **
125752 ATACAAGTCAGTGGCAACCCTTCTAAA-CCC
1 ACACAAGTTGGTGGCAACCCTTCTAAAGCCC
125782 A
1 A
125783 ATGTTGGCCT
Statistics
Matches: 113, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
30 8 0.07
31 33 0.29
32 63 0.56
33 9 0.08
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (31 bp):
ACACAAGTTGGTGGCAACCCTTCTAAAGCCC
Found at i:125747 original size:63 final size:63
Alignment explanation
Indices: 125625--125782 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
125615 TTCAATGCCT
* * * *
125625 ACACAAGTTGGTGGCAACACTTCTCAAAGCCCACATAAGTTGGTGGCATCTTCTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCTTCT-AAAGCCCACACAAGTTGGTGGCACCTTCTCCTAAAGCCC
*
125689 ACACAAGTTGGTGGCAACCCTTCTAAAGCCCATACAAGTTGGTGGCAACCTTC-CCTAAAGCCC
1 ACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAGTTGGTGGC-ACCTTCTCCTAAAGCCC
* **
125752 ATACAAGTCAGTGGCAACCCTTCTAAA-CCCA
1 ACACAAGTTGGTGGCAACCCTTCTAAAGCCCA
125783 ATGTTGGCCT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
62 4 0.05
63 53 0.62
64 28 0.33
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (63 bp):
ACACAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTCTCCTAAAGCCC
Found at i:126256 original size:61 final size:61
Alignment explanation
Indices: 125881--126252 Score: 256
Period size: 61 Copynumber: 6.1 Consensus size: 61
125871 CTTTAACATT
* * * *
125881 TTTAAGCCTAATGTCGCTAGCCTTGAATCAGCACATTGGTA-TTCTTCTCATCCTTATCATC
1 TTTAAGCCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACTT-TTATCATCCTTCTCATC
* * * * **
125942 TTTAAGTCCTATAT-T-GCTGGCC-TGAAATTAGTATATTGGCACCTTTATCATTTTTCTCATC
1 TTTAAG-CCTA-ATGTCGCTGGCCTTG-AATCAGCACATTGGCACTTTTATCATCCTTCTCATC
* * * * * * * *
126003 TTCAAGCCTGATGTCACTGGCCTTAAATCAACACATTGGCA--TTTGTCAAACCTTCT-TTC
1 TTTAAGCCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTATC-ATCCTTCTCATC
* * * * * * * *
126062 TTTCATGCCCAATATTGGTGGCCTTGAATCAGCATATTGGCACTTTTATCGTTCTTCTCATC
1 TTT-AAGCCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTATCATCCTTCTCATC
** * * * * * ** *
126124 TTTCAAGCCCGATATCGATGGTCATGAATCAGCATATCAGCACTTTTATCATTCTT-TACATC
1 TTT-AAGCCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTATCATCCTTCT-CATC
* * * *
126186 TTTAAGTCTAATGTCGCTGACCTTGAATCAGCACATTGGCACTTTTCTCATCCTTATCATC
1 TTTAAGCCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTATCATCCTTCTCATC
126247 TTTAAG
1 TTTAAG
126253 TCTAGTGTTG
Statistics
Matches: 236, Mismatches: 61, Indels: 28
0.73 0.19 0.09
Matches are distributed among these distances:
59 11 0.05
60 39 0.17
61 115 0.49
62 69 0.29
63 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (61 bp):
TTTAAGCCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTATCATCCTTCTCATC
Found at i:126271 original size:61 final size:61
Alignment explanation
Indices: 126148--126288 Score: 153
Period size: 61 Copynumber: 2.3 Consensus size: 61
126138 TCGATGGTCA
* ** * *
126148 TGAATCAGCATATCAGCACTTTTATCATTCTTTACATCTTTAAGTCTAATGTCGCTGACCT
1 TGAATCAGCACATTGGCACTTTTATCATCCTTTACATCTTTAAGTCTAATGTCGCTAACCT
* * *
126209 TGAATCAGCACATTGGCACTTTTCTCATCC-TTATCATCTTTAAGTCTAGTGTTG-TAAGCCT
1 TGAATCAGCACATTGGCACTTTTATCATCCTTTA-CATCTTTAAGTCTAATGTCGCTAA-CCT
*
126270 TGAATCTA-CACACTGGCAC
1 TGAATC-AGCACATTGGCAC
126289 ATCGAAACAC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
60 5 0.07
61 62 0.91
62 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (61 bp):
TGAATCAGCACATTGGCACTTTTATCATCCTTTACATCTTTAAGTCTAATGTCGCTAACCT
Found at i:131336 original size:22 final size:22
Alignment explanation
Indices: 131281--131336 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
131271 AGAGTGGCCT
131281 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
131303 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
131324 ATGAACAGTGATG
1 ATGAACAGTGATG
131337 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:131442 original size:53 final size:53
Alignment explanation
Indices: 131378--131514 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
131368 CTACTACCAA
*
131378 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
131431 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
131484 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
131515 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:131600 original size:21 final size:21
Alignment explanation
Indices: 131574--131614 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
131564 GTCAACCTTG
131574 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
131595 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
131615 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:137829 original size:10 final size:10
Alignment explanation
Indices: 137814--137849 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
137804 CTCAAACTTC
137814 AATCCTCTCA
1 AATCCTCTCA
137824 AATCCTCTCA
1 AATCCTCTCA
*
137834 AATCC-CCCA
1 AATCCTCTCA
137843 AATCCTC
1 AATCCTC
137850 ACTCAAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (10 bp):
AATCCTCTCA
Found at i:137902 original size:47 final size:47
Alignment explanation
Indices: 137801--137903 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 47
137791 TAGTCGAGCC
* * *
137801 TCACTCAAACTTCAATCCTCTCAAATCCTCTCAAATCCCCCAAATCC
1 TCACTCAAACTACAATCCTCTCAAATCCTCTCAAATCCCACAAATCA
*
137848 TCACTCAAACTACAATACC-C-CAAATCCTCTCAAATCCCAACAATTCAA
1 TCACTCAAACTACAAT-CCTCTCAAATCCTCTCAAATCCC-ACAAATC-A
137896 TC-CTCAAA
1 TCACTCAAA
137904 TTTGGCAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 18 0.37
47 27 0.55
48 4 0.08
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (47 bp):
TCACTCAAACTACAATCCTCTCAAATCCTCTCAAATCCCACAAATCA
Found at i:140301 original size:20 final size:21
Alignment explanation
Indices: 140255--140308 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
140245 AAACCCTTGT
140255 ATGTATCAATACA-TATCCAG
1 ATGTATCAATACATTATCCAG
* *
140275 ATATATCAATACATTATGC-G
1 ATGTATCAATACATTATCCAG
* *
140295 TTGTATCGATACAT
1 ATGTATCAATACAT
140309 GCACAATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (21 bp):
ATGTATCAATACATTATCCAG
Found at i:140414 original size:33 final size:33
Alignment explanation
Indices: 140359--140423 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
140349 TACCACTGTT
**
140359 TGTATCGATACATGGCACATTGTAACGATACAA
1 TGTATCGATACATAACACATTGTAACGATACAA
*
140392 TGTATCGATACATAACGA-ATTGTATCGATACA
1 TGTATCGATACATAAC-ACATTGTAACGATACA
140424 TTGTCCCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (33 bp):
TGTATCGATACATAACACATTGTAACGATACAA
Found at i:142329 original size:19 final size:20
Alignment explanation
Indices: 142305--142358 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
142295 ACATTATGCT
**
142305 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
142324 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
142344 TTGTATCGATACATG
1 TTGTATCGATACATG
142359 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:144773 original size:19 final size:20
Alignment explanation
Indices: 144746--144799 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
144736 ACATTATGCT
**
144746 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
*
144765 TTTTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
144785 TTGTATCGATACATG
1 TTGTATCGATACATG
144800 AAACTCGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:144884 original size:33 final size:33
Alignment explanation
Indices: 144829--144893 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
144819 TACCACTGTT
**
144829 TGTATCGATACATGGCACATTGTAACGATACAA
1 TGTATCGATACATAACACATTGTAACGATACAA
*
144862 TGTATCGATACATAACGA-ATTGTATCGATACA
1 TGTATCGATACATAAC-ACATTGTAACGATACA
144894 TTGTCCCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (33 bp):
TGTATCGATACATAACACATTGTAACGATACAA
Found at i:147608 original size:79 final size:79
Alignment explanation
Indices: 147459--147614 Score: 206
Period size: 79 Copynumber: 2.0 Consensus size: 79
147449 GTTTTATTGC
* * * *
147459 TAAAAGGAATAAAGATAATGTTTATTTACTAAAGAAAACCTTGTATAGATTGAAACAAGCTCCGA
1 TAAAAGGAATAAAGAAAATGTTTATTTACTAAAGAAAACCTTATACAGATTGAAACAAGCTCCAA
* *
147524 GAGCTTGTTATTAT
66 AAGCTTGGTATTAT
* * * *
147538 TAAAAGGAATGAAGAAAATGTTTATTTACTAAAGAAAGCCTTATACCA-ATTGAAACATGTTCCA
1 TAAAAGGAATAAAGAAAATGTTTATTTACTAAAGAAAACCTTATA-CAGATTGAAACAAGCTCCA
147602 AAAGCTTGGTATT
65 AAAGCTTGGTATT
147615 CTAGAACTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 65 0.98
80 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (79 bp):
TAAAAGGAATAAAGAAAATGTTTATTTACTAAAGAAAACCTTATACAGATTGAAACAAGCTCCAA
AAGCTTGGTATTAT
Found at i:151095 original size:53 final size:53
Alignment explanation
Indices: 151028--151128 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
151018 AAAATAATGG
* *
151028 GGTTGGAGCATCCCCGATTATGGAAAAATCGATGTTTTAG-AAATAAAAATCGA
1 GGTTGAAGCATCCCCGATTATGG-AAAATCAATGTTTTAGAAAATAAAAATCGA
151081 GGTTGAAGCATCCCCGATTATGGAAAATCAATGTTTTAGAAAATAAAA
1 GGTTGAAGCATCCCCGATTATGGAAAATCAATGTTTTAGAAAATAAAA
151129 TTGGGGTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 15 0.33
53 30 0.67
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (53 bp):
GGTTGAAGCATCCCCGATTATGGAAAATCAATGTTTTAGAAAATAAAAATCGA
Found at i:151146 original size:52 final size:52
Alignment explanation
Indices: 151025--151147 Score: 160
Period size: 52 Copynumber: 2.3 Consensus size: 52
151015 TCAAAAATAA
*
151025 TGGGGTTGGAGCATCCCCGATTATGGAAAAATCGATGTTTTAGAAATAAAAAT
1 TGGGGTT-GAGCATCCCCGATTATGGAAAAATCAATGTTTTAGAAATAAAAAT
* *
151078 CGAGGTTGAAGCATCCCCGATTATGG-AAAATCAATGTTTTAGAAA-ATAAAAT
1 TGGGGTTG-AGCATCCCCGATTATGGAAAAATCAATGTTTTAGAAATA-AAAAT
*
151130 TGGGGTTAGAGTATCCCC
1 TGGGGTT-GAGCATCCCC
151148 TCGAAAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
51 1 0.02
52 37 0.61
53 23 0.38
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (52 bp):
TGGGGTTGAGCATCCCCGATTATGGAAAAATCAATGTTTTAGAAATAAAAAT
Found at i:151174 original size:133 final size:132
Alignment explanation
Indices: 151000--151291 Score: 331
Period size: 133 Copynumber: 2.2 Consensus size: 132
150990 ATAAAAACAA
* * * * * *
151000 GGTTGGAGTGTCCCCTCAAAAATAATGGGGTTGGAGCATCCCCGATTATGGAAAAATC-GATGTT
1 GGTTGGAGTATCCCCTC-AAAATAACGGGATTGGAACATCCCCAATGAT-GAAAAATCAG-TGTT
* *
151064 TTAGAAATAAAAATCGAGGTTGAAGCAT-CCC-CGATTATGGAAAATCAATGTTTTAGAAA-ATA
63 TTAAAAAT-AAAACCGAGGTTGAAGCATCCCCTCGATTATGGAAAATCAATGTTTTAGAAATA-A
*
151126 AAATTGG
126 AAATCGG
* * * *
151133 GGTTAGAGTATCCCCTCGAAAATAACGTGATTGGAATATCCCCAATGGTGAAAAATCAGTGTTTT
1 GGTTGGAGTATCCCCTC-AAAATAACGGGATTGGAACATCCCCAATGATGAAAAATCAGTGTTTT
* * * *
151198 AAAAATAAAACCGGGGTTGGAGTATCCCCTCGATTATGGAAAGTCAATGTTTTAGAAATAAAAAT
65 AAAAATAAAACCGAGGTTGAAGCATCCCCTCGATTATGGAAAATCAATGTTTTAGAAATAAAAAT
151263 CGG
130 CGG
*
151266 GGTTGGAGTATCTCCTCAGAAATAAC
1 GGTTGGAGTATCCCCTCA-AAATAAC
151292 AAGGTTTGAG
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
131 15 0.11
132 23 0.17
133 95 0.71
134 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (132 bp):
GGTTGGAGTATCCCCTCAAAATAACGGGATTGGAACATCCCCAATGATGAAAAATCAGTGTTTTA
AAAATAAAACCGAGGTTGAAGCATCCCCTCGATTATGGAAAATCAATGTTTTAGAAATAAAAATC
GG
Found at i:151325 original size:28 final size:28
Alignment explanation
Indices: 151263--151333 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
151253 AAATAAAAAT
151263 CGGGGTTGGAGTATCTCCTCAGAAATAA
1 CGGGGTTGGAGTATCTCCTCAGAAATAA
** * * *
151291 CAAGGTTTGAGTATCTCCTCGGAGATAA
1 CGGGGTTGGAGTATCTCCTCAGAAATAA
*
151319 TGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
151334 CTTGATGGTG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
CGGGGTTGGAGTATCTCCTCAGAAATAA
Found at i:151399 original size:107 final size:109
Alignment explanation
Indices: 151210--151412 Score: 293
Period size: 107 Copynumber: 1.9 Consensus size: 109
151200 AAATAAAACC
* * *
151210 GGGGTTGGAGTATCCCCTCGATTATGGAAAGTCAATGTTTTAGAAATAAAAATCGGGGTTGGAGT
1 GGGGTTGGAGTAT-CCCTCGATGATGGAAAATCAATGTTTTAGAAATAAAAATCGGGCTTGGAGT
* *
151275 ATCTCCTCAGAAATAACAAGGTTTGAGTATCTCCTCGGAGATAAT
65 ATCCCCTCAGAAATAACAAGGTTGGAGTATCTCCTCGGAGATAAT
* * *
151320 GGGGTTGGAGTAT-CCTTGATGGTGGAAAATCAGTGTTTTAGAAAT-AAAATCGGGCTTGGAGTA
1 GGGGTTGGAGTATCCCTCGATGATGGAAAATCAATGTTTTAGAAATAAAAATCGGGCTTGGAGTA
* *
151383 TCCCCTTAGAAATAACAGGGTTGGAGTATC
66 TCCCCTCAGAAATAACAAGGTTGGAGTATC
151413 CCTGATAATG
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
107 43 0.52
108 27 0.33
110 13 0.16
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (109 bp):
GGGGTTGGAGTATCCCTCGATGATGGAAAATCAATGTTTTAGAAATAAAAATCGGGCTTGGAGTA
TCCCCTCAGAAATAACAAGGTTGGAGTATCTCCTCGGAGATAAT
Found at i:151412 original size:28 final size:30
Alignment explanation
Indices: 151357--151414 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
151347 AATCAGTGTT
151357 TTAGAAATAAAATCGGGCTTGGAGTATCCCC
1 TTAGAAATAAAA-CGGGCTTGGAGTATCCCC
*
151388 TTAGAAATAACA-GGG-TTGGAGTATCCC
1 TTAGAAATAAAACGGGCTTGGAGTATCCC
151415 TGATAATGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
29 3 0.12
31 11 0.42
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (30 bp):
TTAGAAATAAAACGGGCTTGGAGTATCCCC
Found at i:151412 original size:79 final size:79
Alignment explanation
Indices: 151321--151664 Score: 315
Period size: 79 Copynumber: 4.4 Consensus size: 79
151311 GGAGATAATG
* * *
151321 GGGTTGGAGTATCCTTGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGCTTGGAGTATCC
1 GGGTTGGAGTATCCTCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACCGGG-TTGGAGTATCC
151386 CCTTAG-AAATAACA
65 CCTTAGAAAATAACA
** * * *
151400 GGGTTGGAGTATCC-CTGATAATGG-AAATTGGTGTTTTGGAAATAAAACCGGGTTTGGAGTATT
1 GGGTTGGAGTATCCTC-GATGGTGGAAAATTAGTGTTTTAGAAATAAAACCGGG-TTGGAGTATC
* *
151463 TCC-TCGAAAATAACA
64 CCCTTAGAAAATAACA
* * ** * *
151478 TGGTTGGAGTATCCTCGATTGTCAAAAATTAGTGTTTTGGAAATAAAATCGTGGTTGGAGTAT-C
1 GGGTTGGAGTATCCTCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACCG-GGTTGGAGTATCC
* * *
151542 TCGTCGAAAATAACA
65 CCTTAGAAAATAACA
* * * ** * *
151557 GGGTTAGAGGATTCTCGATTATGGAAAATTAATGTTTTAGAAATAAAACCAAGGTTGGAGTATCC
1 GGGTTGGAGTATCCTCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACC-GGGTTGGAGTATCC
* *
151622 CCTCAG-AAATAA-G
65 CCTTAGAAAATAACA
* *
151635 GGAGTTGGAGTATCCCCGATGGTGAAAAAT
1 GG-GTTGGAGTATCCTCGATGGTGGAAAAT
151665 CGATATTTTT
Statistics
Matches: 213, Mismatches: 43, Indels: 18
0.78 0.16 0.07
Matches are distributed among these distances:
77 2 0.01
78 63 0.30
79 143 0.67
80 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (79 bp):
GGGTTGGAGTATCCTCGATGGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGTTGGAGTATCCC
CTTAGAAAATAACA
Found at i:151513 original size:157 final size:158
Alignment explanation
Indices: 151322--151684 Score: 382
Period size: 157 Copynumber: 2.3 Consensus size: 158
151312 GAGATAATGG
* **
151322 GGTTGGAGTATCCTTGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCG-GGCTTGGAGTATCC
1 GGTTGGAGTATCCTCGATGGTCAAAAATCAGTGTTTTAGAAATAAAATCGTGG-TTGGAGTAT-C
* * * ** *
151386 CCTTAG-AAATAACAGGGTTGGAGTATCC-CTGATAATGG-AAATTGGTGTTTTGGAAATAAAAC
64 CCGTAGAAAATAACAGGGTTAGAGGATCCTC-GATAATGGAAAATTAATGTTTTAGAAATAAAAC
*
151448 C-GGGTTTGGAGTATTTCCTCGAAAATAACAT
128 CAAGG-TTGGAGTATTTCCTCGAAAATAACAT
* * * *
151479 GGTTGGAGTATCCTCGATTGTCAAAAATTAGTGTTTTGGAAATAAAATCGTGGTTGGAGTATCTC
1 GGTTGGAGTATCCTCGATGGTCAAAAATCAGTGTTTTAGAAATAAAATCGTGGTTGGAGTATCCC
* * *
151544 GTCGAAAATAACAGGGTTAGAGGATTCTCGATTATGGAAAATTAATGTTTTAGAAATAAAACCAA
66 GTAGAAAATAACAGGGTTAGAGGATCCTCGATAATGGAAAATTAATGTTTTAGAAATAAAACCAA
** **
151609 GGTTGGAGTATCCCCTC-AGAAATAA-GG
131 GGTTGGAGTATTTCCTCGA-AAATAACAT
* * *
151636 GAGTTGGAGTATCCCCGATGGTGAAAAATC-GATATTTTTAGAAATAAAA
1 G-GTTGGAGTATCCTCGATGGTCAAAAATCAG-T-GTTTTAGAAATAAAA
151685 ACATGAATGA
Statistics
Matches: 170, Mismatches: 27, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
156 4 0.02
157 82 0.48
158 69 0.41
159 15 0.09
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (158 bp):
GGTTGGAGTATCCTCGATGGTCAAAAATCAGTGTTTTAGAAATAAAATCGTGGTTGGAGTATCCC
GTAGAAAATAACAGGGTTAGAGGATCCTCGATAATGGAAAATTAATGTTTTAGAAATAAAACCAA
GGTTGGAGTATTTCCTCGAAAATAACAT
Found at i:152504 original size:32 final size:30
Alignment explanation
Indices: 152468--152526 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
152458 GAAATCAAAT
152468 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
152500 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
152527 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:152826 original size:13 final size:13
Alignment explanation
Indices: 152808--152832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152798 ATTTTTTTGA
152808 GTATCGATACATT
1 GTATCGATACATT
152821 GTATCGATACAT
1 GTATCGATACAT
152833 ATTTTGTGTA
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):
GTATCGATACATT
Found at i:152844 original size:32 final size:34
Alignment explanation
Indices: 152786--152850 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
152776 TACAAGCCAA
*
152786 TGTATCGATACAATTTTTTTGAGTATCGATACAT
1 TGTATCGATACAATTATTTTGAGTATCGATACAT
*
152820 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGAGTATCGATACA
152851 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 17 0.59
33 1 0.03
34 11 0.38
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGAGTATCGATACAT
Found at i:152927 original size:20 final size:20
Alignment explanation
Indices: 152881--152954 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
152871 ATCCCAATGA
***
152881 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
152902 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
152922 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
152942 TATGTATCGATAC
1 CATGTATCGATAC
152955 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:154944 original size:21 final size:20
Alignment explanation
Indices: 154915--154957 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
154905 GACTAGTGTG
* *
154915 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
154936 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
154956 GG
1 GG
154958 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:155426 original size:13 final size:13
Alignment explanation
Indices: 155390--155428 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
155380 AATCCCCCTA
*
155390 TATCGATACAGTG
1 TATCGATACATTG
155403 TATCGATACATTG
1 TATCGATACATTG
155416 TATCGATACATTG
1 TATCGATACATTG
155429 AATTTCCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TATCGATACATTG
Done.