Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold100
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: 904619
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 1 of 8
Found at i:4144 original size:2 final size:2
Alignment explanation
Indices: 4137--4171 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4127 CAGCTGCATA
4137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4172 CACACACGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4680 original size:3 final size:3
Alignment explanation
Indices: 4672--4700 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4662 AAAGGCTCTT
4672 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4701 TGGTTTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8458 original size:22 final size:21
Alignment explanation
Indices: 8428--8470 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8418 TATAAAATTC
*
8428 TTAATTTATAAATTTATATAAT
1 TTAAATTATAAATTTAT-TAAT
*
8450 TTAAATTATTAATTTATTAAT
1 TTAAATTATAAATTTATTAAT
8471 ATTTATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAATTATAAATTTATTAAT
Found at i:8462 original size:30 final size:32
Alignment explanation
Indices: 8422--8480 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
8412 ATATGATATA
*
8422 AAATTCTTAATTTA-TAA-ATTTATATAATTT
1 AAATTATTAATTTATTAATATTTATATAATTT
8452 AAATTATTAATTTATTAATATTTATATAA
1 AAATTATTAATTTATTAATATTTATATAA
8481 ATATAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 13 0.50
31 3 0.12
32 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
AAATTATTAATTTATTAATATTTATATAATTT
Found at i:8606 original size:15 final size:15
Alignment explanation
Indices: 8588--8625 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8578 TTTGATTAAA
8588 AAAATTTAATAATTT
1 AAAATTTAATAATTT
* *
8603 AAAATTGATTAATTT
1 AAAATTTAATAATTT
8618 -AAATTTAA
1 AAAATTTAA
8626 AATGATCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
AAAATTTAATAATTT
Found at i:8641 original size:16 final size:15
Alignment explanation
Indices: 8616--8651 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
8606 ATTGATTAAT
*
8616 TTAAATTTAAAATGA
1 TTAAACTTAAAATGA
8631 TCTAAACTTAAAATGA
1 T-TAAACTTAAAATGA
8647 TTAAA
1 TTAAA
8652 TACAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (15 bp):
TTAAACTTAAAATGA
Found at i:8673 original size:15 final size:15
Alignment explanation
Indices: 8614--8674 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
8604 AAATTGATTA
8614 ATTTAAATTTAAAATG
1 ATTTAAA-TTAAAATG
*
8630 ATCTAAACTTAAAATG
1 ATTTAAA-TTAAAATG
*
8646 A-TTAAATACAAAAT-
1 ATTTAAAT-TAAAATG
8660 ATTTAAATGTAAAAT
1 ATTTAAAT-TAAAAT
8675 TTGATTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
14 2 0.05
15 20 0.54
16 15 0.41
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (15 bp):
ATTTAAATTAAAATG
Found at i:8788 original size:17 final size:18
Alignment explanation
Indices: 8766--8805 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8756 ACTCGAATAC
*
8766 AAAATAA-TTTAAATTTT
1 AAAATAATTTTAAAATTT
8783 AAAATAATTTTAAAATTT
1 AAAATAATTTTAAAATTT
8801 AAAAT
1 AAAAT
8806 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATAATTTTAAAATTT
Found at i:8823 original size:5 final size:5
Alignment explanation
Indices: 8813--8872 Score: 57
Period size: 5 Copynumber: 11.4 Consensus size: 5
8803 AATTTAAAAT
* * *
8813 AATTA AATTA AATTA AATTA ATTTA AGATTTAA AAATA AATTA AAATA
1 AATTA AATTA AATTA AATTA AATTA A-A-TT-A AATTA AATTA AATTA
*
8861 ACTTA AATTA AA
1 AATTA AATTA AA
8873 AGTAATTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
5 38 0.86
6 1 0.02
7 3 0.07
8 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:8845 original size:43 final size:47
Alignment explanation
Indices: 8766--8909 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 47
8756 ACTCGAATAC
*
8766 AAAATAATTTAAATT---TTAAAATAATTTTAAAATTT-AAAAT-TT
1 AAAATAACTTAAATTAAATTAAAATAATTTTAAAATTTAAAAATATT
* *
8808 AAAATAA-TTAAATTAAATTAAATTAA-TTTAAGATTTAAAAATAAATT
1 AAAATAACTTAAATTAAATTAAAATAATTTTAAAATTTAAAAAT--ATT
* *
8855 AAAATAACTTAAATT--A--AAAGTAATTTTAAATTTTAAAAA-ATT
1 AAAATAACTTAAATTAAATTAAAATAATTTTAAAATTTAAAAATATT
*
8897 AAAAATAATTTAA
1 -AAAATAACTTAA
8910 CACTGATTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 19
0.77 0.05 0.17
Matches are distributed among these distances:
41 7 0.08
42 10 0.12
43 20 0.23
44 19 0.22
45 13 0.15
46 1 0.01
47 9 0.10
48 7 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (47 bp):
AAAATAACTTAAATTAAATTAAAATAATTTTAAAATTTAAAAATATT
Found at i:8866 original size:28 final size:26
Alignment explanation
Indices: 8813--8873 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
8803 AATTTAAAAT
* * *
8813 AATT-AAATTAAATTAAATTAATTTA
1 AATTAAAAATAAATTAAAATAACTTA
8838 AGATTTAAAAATAAATTAAAATAACTTA
1 A-A-TTAAAAATAAATTAAAATAACTTA
8866 AATTAAAA
1 AATTAAAA
8874 GTAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 3 0.10
28 19 0.63
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
AATTAAAAATAAATTAAAATAACTTA
Found at i:17221 original size:26 final size:25
Alignment explanation
Indices: 17191--17257 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
17181 TATTGGATCT
17191 TAAGTTGTAAATTTTGCAGAAATATG
1 TAAGTTGTAAATTTT-CAGAAATATG
*
17217 TAAGTTGTAGTATTTTCAGAAATATG
1 TAAGTTGTA-AATTTTCAGAAATATG
*
17243 TAATTTGT-AATTTTC
1 TAAGTTGTAAATTTTC
17258 CTCTGAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 6 0.16
26 26 0.70
27 5 0.14
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTGTAAATTTTCAGAAATATG
Found at i:17876 original size:35 final size:35
Alignment explanation
Indices: 17833--17909 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
17823 GTATCTTAAT
17833 CACA-ATTATAATATGGATAAACACACAAATATAA
1 CACAGATTATAATATGGATAAACACACAAATATAA
*
17867 CACAGATTATAATATGGATAAACACACGAATATAA
1 CACAGATTATAATATGGATAAACACACAAATATAA
17902 CACAGATT
1 CACAGATT
17910 CACGAATAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (35 bp):
CACAGATTATAATATGGATAAACACACAAATATAA
Found at i:19904 original size:6 final size:6
Alignment explanation
Indices: 19893--19923 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
19883 TTATGTCAGA
19893 TATATT TATATT TGATATT TATATT TATATT
1 TATATT TATATT T-ATATT TATATT TATATT
19924 AAAAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:19912 original size:13 final size:12
Alignment explanation
Indices: 19893--19923 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
19883 TTATGTCAGA
19893 TATATTTATATT
1 TATATTTATATT
19905 TGATATTTATATT
1 T-ATATTTATATT
19918 TATATT
1 TATATT
19924 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
TATATTTATATT
Found at i:23998 original size:18 final size:18
Alignment explanation
Indices: 23954--24002 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
23944 TATCTCAAAC
23954 TTTATA-AAATA-T-AAA
1 TTTATATAAATATTAAAA
23969 -TTAT-TAACATATTAAAA
1 TTTATATAA-ATATTAAAA
23986 TTTATATAAATATTAAA
1 TTTATATAAATATTAAA
24003 TATAACTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 1 0.04
17 3 0.11
18 12 0.43
19 3 0.11
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTATATAAATATTAAAA
Found at i:24276 original size:3 final size:3
Alignment explanation
Indices: 24270--24312 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
24260 TTTGTTGTGA
* *
24270 AAT AAT AAT AAT AAT AAT AAA AAT AA- AA- AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24313 TTATCTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:28053 original size:15 final size:15
Alignment explanation
Indices: 28033--28093 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
28023 TTTTAACTAG
28033 ATGTATCGATACATT
1 ATGTATCGATACATT
28048 ATGTATCGATACATCT
1 ATGTATCGATACAT-T
* *** * *
28064 AGGTAAAAAGACATA
1 ATGTATCGATACATT
28079 ATGTATCGATACATT
1 ATGTATCGATACATT
28094 GTAGAATATA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
15 23 0.70
16 10 0.30
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (15 bp):
ATGTATCGATACATT
Found at i:28125 original size:20 final size:20
Alignment explanation
Indices: 28078--28149 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
28068 AAAAAGACAT
*
28078 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
28097 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
28118 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
28138 AATGTATCGATA
1 AATGTATCGATA
28150 AATCAAGGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:30642 original size:2 final size:2
Alignment explanation
Indices: 30630--30659 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
30620 AAAAAGTAAA
*
30630 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30660 GCAATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31095 original size:23 final size:25
Alignment explanation
Indices: 31069--31122 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
31059 TGAATTAATC
31069 TTAATATGTAAAA-ATAA-AATAT-A
1 TTAATATG-AAAATATAAGAATATAA
* *
31092 TTAAAATGAAAATTTAAGAATATAA
1 TTAATATGAAAATATAAGAATATAA
31117 TTAATA
1 TTAATA
31123 ATCATATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 5 0.20
25 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (25 bp):
TTAATATGAAAATATAAGAATATAA
Found at i:34528 original size:16 final size:16
Alignment explanation
Indices: 34516--34549 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34506 AAAATAATTA
34516 AAATATAATATAATAT
1 AAATATAATATAATAT
34532 AAATATAATATAAATAT
1 AAATATAATAT-AATAT
34549 A
1 A
34550 TAAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAATATAATAT
Found at i:34536 original size:11 final size:11
Alignment explanation
Indices: 34517--34549 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
34507 AAATAATTAA
34517 AATAT-AATAT
1 AATATAAATAT
34527 AATATAAATAT
1 AATATAAATAT
34538 AATATAAATAT
1 AATATAAATAT
34549 A
1 A
34550 TAAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATAAATAT
Found at i:35594 original size:19 final size:19
Alignment explanation
Indices: 35558--35593 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
35548 GAAAATTAAA
35558 TATATTTAATAATTTATAT
1 TATATTTAATAATTTATAT
35577 TATATTT-AT-ATTTATAT
1 TATATTTAATAATTTATAT
35594 AATTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTTAATAATTTATAT
Found at i:35927 original size:25 final size:24
Alignment explanation
Indices: 35858--35967 Score: 68
Period size: 25 Copynumber: 4.4 Consensus size: 24
35848 TTTTTTAAAA
35858 ATTTTTATTTAA-ATTTAATAAT-TT
1 ATTTTTATTTAATA-TTAA-AATATT
35882 ATTTTATTATTTAAAAATATTAAAATATT
1 A-TTT-TTATTT---AATATTAAAATATT
* *
35911 ATTTTTATGTTAATATTAATATTTT
1 ATTTTTAT-TTAATATTAAAATATT
*
35936 ATAATTATATTTAA-A-TAAAA-ATT
1 AT--TTTTATTTAATATTAAAATATT
35959 ATTTTTATT
1 ATTTTTATT
35968 AAAAAATAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
21 6 0.09
23 4 0.06
24 5 0.07
25 18 0.26
26 10 0.14
27 9 0.13
28 8 0.11
29 9 0.13
30 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTAATATTAAAATATT
Found at i:37066 original size:10 final size:10
Alignment explanation
Indices: 37051--37086 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
37041 CTAAGTTAAG
37051 ATATATACAT
1 ATATATACAT
*
37061 ATATATTCAT
1 ATATATACAT
*
37071 ATATATATAT
1 ATATATACAT
37081 ATATAT
1 ATATAT
37087 GTATGTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (10 bp):
ATATATACAT
Found at i:37439 original size:14 final size:14
Alignment explanation
Indices: 37415--37449 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
37405 AAATATTAAA
37415 AAATATTTTATATTT
1 AAAT-TTTTATATTT
*
37430 ATATTTTTATATTT
1 AAATTTTTATATTT
37444 AAATTT
1 AAATTT
37450 AAATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATTTTTATATTT
Found at i:39351 original size:21 final size:21
Alignment explanation
Indices: 39319--39434 Score: 76
Period size: 21 Copynumber: 5.4 Consensus size: 21
39309 AATACGTGTT
39319 TTATATAAATATGACTTT-AATA
1 TTATA-AAATAT-ACTTTAAATA
*
39341 TTATAAAATATATTTTAAATA
1 TTATAAAATATACTTTAAATA
* ***
39362 TTAAAAAATATATCAAAACAATAA
1 TTATAAAATATA-CTTTA-AAT-A
** *
39386 AAATAAAATACTA-TTTTAATA
1 TTATAAAATA-TACTTTAAATA
*
39407 TTATAAAATATATTTTAAATA
1 TTATAAAATATACTTTAAATA
39428 TTA-AAAA
1 TTATAAAA
39435 CTACATCAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
20 10 0.14
21 40 0.56
22 9 0.12
23 3 0.04
24 8 0.11
25 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (21 bp):
TTATAAAATATACTTTAAATA
Found at i:39404 original size:66 final size:66
Alignment explanation
Indices: 39334--39460 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
39324 TAAATATGAC
*
39334 TTTAATATTATAAAATATATTTTAAATATTAAAAAATATATCAAAACAATAAAAATAAAATACTA
1 TTTAATATTATAAAATATATTTTAAATATTAAAAAATACATCAAAACAATAAAAATAAAATACTA
39399 T
66 T
*
39400 TTTAATATTATAAAATATATTTTAAATATTAAAAACTACATCAAAACAATAAAAATAAAAT
1 TTTAATATTATAAAATATATTTTAAATATTAAAAAATACATCAAAACAATAAAAATAAAAT
39461 TAAGTACGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (66 bp):
TTTAATATTATAAAATATATTTTAAATATTAAAAAATACATCAAAACAATAAAAATAAAATACTA
T
Found at i:40562 original size:35 final size:37
Alignment explanation
Indices: 40490--40561 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
40480 ATTTAAATCG
*
40490 ATTTAAATTATTATTTATTAATAAAAATAATATTTTT
1 ATTTAAATTATTAATTATTAATAAAAATAATATTTTT
40527 ATTTAAA-T-TTAATTATTAATATAAAATAATATTTT
1 ATTTAAATTATTAATTATTAATA-AAAATAATATTTT
40562 AATAATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 12 0.36
36 14 0.42
37 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
ATTTAAATTATTAATTATTAATAAAAATAATATTTTT
Found at i:41218 original size:13 final size:14
Alignment explanation
Indices: 41194--41222 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41184 AAAGATATTA
41194 TAAATATTTAAATT
1 TAAATATTTAAATT
41208 TAAAT-TTTAAATT
1 TAAATATTTAAATT
41221 TA
1 TA
41223 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATATTTAAATT
Found at i:41578 original size:13 final size:14
Alignment explanation
Indices: 41562--41590 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41552 TTATTTTTAT
41562 TTAAT-TAAAAATA
1 TTAATATAAAAATA
41575 TTAATATAAAAATA
1 TTAATATAAAAATA
41589 TT
1 TT
41591 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATATAAAAATA
Found at i:43066 original size:24 final size:26
Alignment explanation
Indices: 43042--43112 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 26
43032 GCCACCTATT
43042 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTA-TTTG
*
43069 TGTTTGTCAAAAATGGTGGTTTCCTTTG
1 TGTTTGTCAAAAATGGTGG-TT-ATTTG
* *
43097 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
43113 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 19 0.49
28 20 0.51
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (26 bp):
TGTTTGTCAAAAATGGTGGTTATTTG
Found at i:43097 original size:28 final size:27
Alignment explanation
Indices: 43042--43112 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
43032 GCCACCTATT
43042 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
43069 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
43097 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
43113 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:47330 original size:40 final size:42
Alignment explanation
Indices: 47286--47388 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 42
47276 ACAAAATAAA
47286 AAAAATGTCAAACAAATTATATA-T-TATGAGAAATTCAAAG
1 AAAAATGTCAAACAAATTATATATTATATGAGAAATTCAAAG
* *
47326 AAAAA-GTCAAACAAATTACATATTATATGGGAAATTCAAAG
1 AAAAATGTCAAACAAATTATATATTATATGAGAAATTCAAAG
47367 -AAAAT-TCAAACATATATTATAT
1 AAAAATGTCAAACA-A-ATTATAT
47389 CATAATGTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
39 16 0.29
40 17 0.31
41 16 0.29
42 6 0.11
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (42 bp):
AAAAATGTCAAACAAATTATATATTATATGAGAAATTCAAAG
Found at i:47330 original size:41 final size:42
Alignment explanation
Indices: 47285--47370 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 42
47275 AACAAAATAA
*
47285 AAAAAATGTCAAACAAATTATATA-T-TATGAGAAATTCAAAG
1 AAAAAA-GTCAAACAAATTACATATTATATGAGAAATTCAAAG
*
47326 -AAAAAGTCAAACAAATTACATATTATATGGGAAATTCAAAG
1 AAAAAAGTCAAACAAATTACATATTATATGAGAAATTCAAAG
47367 AAAA
1 AAAA
47371 TTCAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 16 0.40
40 6 0.15
41 15 0.38
42 3 0.08
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.24
Consensus pattern (42 bp):
AAAAAAGTCAAACAAATTACATATTATATGAGAAATTCAAAG
Found at i:47862 original size:20 final size:20
Alignment explanation
Indices: 47824--47862 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47814 ATTAAGTTTA
*
47824 ATAGTAAATAAATATTAAAT
1 ATAGTAAATAAATAATAAAT
* *
47844 ATAGTTAATAATTAATAAA
1 ATAGTAAATAAATAATAAA
47863 AATATCTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAGTAAATAAATAATAAAT
Found at i:47993 original size:21 final size:22
Alignment explanation
Indices: 47968--48019 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
47958 AAAACATATA
*
47968 TAATTTTTTATTA-ATTCAATT
1 TAATTTTTTAATATATTCAATT
* *
47989 TAA-TTTTTAATATGTTGAATT
1 TAATTTTTTAATATATTCAATT
48010 TAATTTTTTA
1 TAATTTTTTA
48020 CCAATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 12 0.46
22 6 0.23
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TAATTTTTTAATATATTCAATT
Found at i:48246 original size:3 final size:3
Alignment explanation
Indices: 48238--48274 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48228 TCTTATACTG
48238 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48275 ATGTAATCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:49560 original size:2 final size:2
Alignment explanation
Indices: 49553--49583 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49543 GTTAAAATAA
49553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49584 AAAATTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50015 original size:2 final size:2
Alignment explanation
Indices: 50008--50033 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49998 AAAGAGAATG
50008 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
50034 GATGAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56001 original size:33 final size:33
Alignment explanation
Indices: 55937--56026 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 33
55927 ATACATTATA
* *
55937 AATACAATATGTTTAATAAATATAAAAATAATAT
1 AATACAATATGATAAATAAATATAAAAATAAT-T
* *
55971 AATA-AATATGATAAATAAATTTAAATATAATT
1 AATACAATATGATAAATAAATATAAAAATAATT
* *
56003 AATACGATAT-ATTTAATAAATATA
1 AATACAATATGA-TAAATAAATATA
56027 TCATATTCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
32 6 0.13
33 37 0.79
34 4 0.09
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (33 bp):
AATACAATATGATAAATAAATATAAAAATAATT
Found at i:56082 original size:17 final size:19
Alignment explanation
Indices: 56010--56086 Score: 63
Period size: 17 Copynumber: 4.0 Consensus size: 19
56000 ATTAATACGA
56010 TATATTTAATAAATATATCATAT
1 TATATTTAAT-AAT-T-T-ATAT
*
56033 TCATATTTAA-AATTT-TAA
1 T-ATATTTAATAATTTATAT
*
56051 CATATTTAATAATTTATAT
1 TATATTTAATAATTTATAT
56070 TATATTT-AT-ATTTATAT
1 TATATTTAATAATTTATAT
56087 AATAATACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
17 16 0.34
18 9 0.19
19 8 0.17
20 1 0.02
21 1 0.02
22 3 0.06
23 1 0.02
24 8 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTTAATAATTTATAT
Found at i:56443 original size:48 final size:47
Alignment explanation
Indices: 56383--56485 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 47
56373 TAATTTAAAT
*
56383 TTAATAATTTATTTTATTATTTAAA-AT-ATTAAAATATTATTTTTATG
1 TTAATAATTTATTTTATTA-TTAAATATAAATAAAA-ATTATTTTTATG
* *
56430 TTAATATTATTATTTTATTATTAAATTTAAATAAAAATTATTTTTAT-
1 TTAATAAT-TTATTTTATTATTAAATATAAATAAAAATTATTTTTATG
*
56477 TAAATAATT
1 TTAATAATT
56486 ATTCGTATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
46 1 0.02
47 18 0.38
48 23 0.48
49 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (47 bp):
TTAATAATTTATTTTATTATTAAATATAAATAAAAATTATTTTTATG
Found at i:57889 original size:285 final size:280
Alignment explanation
Indices: 57338--57891 Score: 615
Period size: 285 Copynumber: 2.0 Consensus size: 280
57328 GCTCGAATTA
* *
57338 CTATTTATAAAATAATAAAATATTAAAATTCAATATTTACATTTTTATATTTAAATTTAAATAAT
1 CTATTTATAAAATAATAAAATATTAAAAATCAATATTTACATTTTTATATTTAAATTTAAAAAAT
* * * * *
57403 TTTTTATTATTAAATAATAATTCAGATCGAATTAAACTAAATTAAAAAAAATCATATCCAAGGCT
66 ATTTTATTATTAAATAATAATTCAGATCGAATCAAACTAAATTAAAAAAAAGCACATCCAAAGCT
* * * * * *
57468 ATTCCCTTGAACAAATTAGCTCATACTAGGTTTGGTATTTTTGCACAAAATGTAAAAATATGTCA
131 ATACCCTTGAACAAAGTAACTCATACTAGATTGGGTATTTTTGAACAAAA-GTAAAAATATGTCA
* * * * * * *
57533 TGAATATTACCATTTAATAAATATAAAAACAGTGTAATAAATACGACACGATAAGTTTAAACACG
195 TGAAAATTACCATTTAATAAATATAAAAACAGTATAACAAATACAAAACAATAAATTTAAACACG
57598 TTTAACACACGTAATGTATTG
260 TTTAACACACGTAATGTATTG
57619 CTATTTATAAAATAATAAAATATTTAAAAAT-ATATATTATA-A-TTTTATATTTAAATTTTAAT
1 CTATTTATAAAATAATAAAATA-TTAAAAATCA-ATATT-TACATTTTTATATTTAAA-TTT-A-
* * *
57681 AAAAATAATTTTATTATTAAATAATAACTTGA-AT-TAAGTCGAACTAAATTAAAAAAAAGCACA
60 AAAAAT-ATTTTATTATTAAATAATAA-TTCAGATCGAA-TCAAACTAAATTAAAAAAAAGCACA
* *
57744 TCCAAAGCT-TAACCCTTGAACAAACGTAATTCATACTAGATTGGGTA-TTTTGAACACAA-TAC
122 TCCAAAGCTAT-ACCCTTGAACAAA-GTAACTCATACTAGATTGGGTATTTTTGAACAAAAGTA-
* * ** *
57806 AAAAT-TGTTATGAAAATTACATATTTAATAAATACT-AAAATGGTATCACAAATACAAAACAAT
184 AAAATATGTCATGAAAATTAC-CATTTAATAAATA-TAAAAACAGTATAACAAATACAAAACAAT
*
57869 AAATTTAAACATCTTTTAACACA
247 AAATTTAAACA-CGTTTAACACA
57892 TCTAACATGC
Statistics
Matches: 227, Mismatches: 31, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
281 36 0.16
282 16 0.07
283 18 0.08
284 54 0.24
285 83 0.37
286 20 0.09
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (280 bp):
CTATTTATAAAATAATAAAATATTAAAAATCAATATTTACATTTTTATATTTAAATTTAAAAAAT
ATTTTATTATTAAATAATAATTCAGATCGAATCAAACTAAATTAAAAAAAAGCACATCCAAAGCT
ATACCCTTGAACAAAGTAACTCATACTAGATTGGGTATTTTTGAACAAAAGTAAAAATATGTCAT
GAAAATTACCATTTAATAAATATAAAAACAGTATAACAAATACAAAACAATAAATTTAAACACGT
TTAACACACGTAATGTATTG
Found at i:58696 original size:21 final size:20
Alignment explanation
Indices: 58670--58751 Score: 60
Period size: 25 Copynumber: 3.8 Consensus size: 20
58660 AACCCAACTC
58670 AAATTATTATGTAATAATAAA
1 AAATTATTAT-TAATAATAAA
58691 AAATTATTTAAATTTAATTAATAAA
1 AAATTA-TT--A-TTAA-TAATAAA
58716 AAATATAATTATTAAT-AT-AA
1 AAAT-T-ATTATTAATAATAAA
*
58736 AAATATATTTTTAATA
1 AAAT-TATTATTAATA
58752 TTATCAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 17
0.74 0.01 0.24
Matches are distributed among these distances:
19 8 0.15
20 8 0.15
21 8 0.15
22 3 0.06
23 4 0.08
24 5 0.10
25 12 0.23
26 3 0.06
27 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (20 bp):
AAATTATTATTAATAATAAA
Found at i:58762 original size:22 final size:20
Alignment explanation
Indices: 58707--58752 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
58697 TTTAAATTTA
58707 ATTAATA-AAAAATATAATT
1 ATTAATATAAAAATATAATT
58726 ATTAATATAAAAATAT-ATT
1 ATTAATATAAAAATATAATT
*
58745 TTTAATAT
1 ATTAATAT
58753 TATCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAATATAAAAATATAATT
Found at i:59021 original size:19 final size:18
Alignment explanation
Indices: 58997--59036 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
58987 TAAGAAATAT
58997 ATATATATATATATAAGAA
1 ATATATATATATATAA-AA
*
59016 ATATATATATATTTAAAA
1 ATATATATATATATAAAA
59034 ATA
1 ATA
59037 GCTGACTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATATATATATATATAAAA
Found at i:59316 original size:20 final size:20
Alignment explanation
Indices: 59274--59321 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
59264 TCGTCAATTT
* * *
59274 AATATAATTTTAATATTATAA
1 AATAT-ATTTTAAAAATAAAA
59295 AATATATTTTAAAAATAAAA
1 AATATATTTTAAAAATAAAA
59315 AAT-TATT
1 AATATATT
59322 AAAATAGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATATTTTAAAAATAAAA
Found at i:60186 original size:19 final size:20
Alignment explanation
Indices: 60162--60202 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
60152 ATTTAAATTT
60162 AATAATAAAAAAT-ATTTTA
1 AATAATAAAAAATAATTTTA
60181 AATAATAAAAAATAATTTTA
1 AATAATAAAAAATAATTTTA
60201 AA
1 AA
60203 ATTAACGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAATAAAAAATAATTTTA
Found at i:61399 original size:14 final size:13
Alignment explanation
Indices: 61375--61409 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
61365 TTATTTTCAT
61375 TTAATTAAAAATA
1 TTAATTAAAAATA
61388 TTAATATAAAAATA
1 TTAAT-TAAAAATA
*
61402 TTATTTAA
1 TTAATTAA
61410 TTTTTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAATTAAAAATA
Found at i:61797 original size:20 final size:20
Alignment explanation
Indices: 61769--61843 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
61759 TCATACCCTG
61769 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
61789 ATATATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
* * *
61809 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
61829 ATGTATCGATACATT
1 ATGTATCGATACATT
61844 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:61836 original size:40 final size:39
Alignment explanation
Indices: 61769--61846 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
61759 TCATACCCTG
* *
61769 ATGTATCGATACATTTTTCAATATATCGATACATATATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
61809 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
61847 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:69478 original size:13 final size:13
Alignment explanation
Indices: 69460--69484 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69450 ATATTAAAAA
69460 ATATTTTATATTT
1 ATATTTTATATTT
69473 ATATTTTATATT
1 ATATTTTATATT
69485 AAAATTTAAA
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:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTTATATTT
Found at i:70807 original size:21 final size:22
Alignment explanation
Indices: 70773--70816 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
70763 ATATTTTATT
70773 TAAATTTAATTATAAAAA-ATA
1 TAAATTTAATTATAAAAATATA
70794 TAAATATTAA-TATAAAAATATA
1 TAAAT-TTAATTATAAAAATATA
70816 T
1 T
70817 TTTTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:70822 original size:19 final size:21
Alignment explanation
Indices: 70773--70825 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
70763 ATATTTTATT
70773 TAAA-TTTAATTATAAAAAATA
1 TAAATTTTAA-TATAAAAAATA
*
70794 TAAATATTAATAT-AAAAATA
1 TAAATTTTAATATAAAAAATA
*
70814 T-ATTTTTAATAT
1 TAAATTTTAATAT
70826 TATCAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 9 0.32
20 8 0.29
21 7 0.25
22 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTTAATATAAAAAATA
Found at i:71113 original size:2 final size:2
Alignment explanation
Indices: 71106--71144 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
71096 GGAAATGAGA
*
71106 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71145 AATGGCTGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:74403 original size:2 final size:2
Alignment explanation
Indices: 74396--74427 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
74386 TCATTCATTC
*
74396 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74428 GAAAAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:78528 original size:14 final size:14
Alignment explanation
Indices: 78509--78560 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
78499 GACAATAGGA
*
78509 ATATATATACATAT
1 ATATATATAGATAT
78523 ATATATATAGATAT
1 ATATATATAGATAT
78537 ATAGATATATAGATAT
1 AT--ATATATAGATAT
*
78553 AGATATAT
1 ATATATAT
78561 GGCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 21 0.62
16 13 0.38
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (14 bp):
ATATATATAGATAT
Found at i:78530 original size:6 final size:6
Alignment explanation
Indices: 78509--78560 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
78499 GACAATAGGA
* * * * *
78509 ATATAT ATACAT ATATAT ATATAG ATATAT AGATAT ATAGAT ATAGAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
78557 ATAT
1 ATAT
78561 GGCAAAACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (6 bp):
ATATAT
Found at i:78560 original size:8 final size:8
Alignment explanation
Indices: 78509--78553 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
78499 GACAATAGGA
*
78509 ATATATAT
1 ATATATAG
* *
78517 ACATATAT
1 ATATATAG
78525 ATATATAG
1 ATATATAG
78533 ATATATAG
1 ATATATAG
78541 ATATATAG
1 ATATATAG
78549 ATATA
1 ATATA
78554 GATATATGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (8 bp):
ATATATAG
Found at i:81118 original size:18 final size:17
Alignment explanation
Indices: 81056--81118 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
81046 ATAAATATTT
81056 TAAAATTTATT-T-AATA
1 TAAAATTT-TTATAAATA
*
81072 T-AAATTTTTAT-CATA
1 TAAAATTTTTATAAATA
*
81087 TTAAAATTTATATAAATA
1 -TAAAATTTTTATAAATA
81105 TAAAATATTTTATA
1 TAAAAT-TTTTATA
81119 TAATTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 2 0.05
17 15 0.39
18 9 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAAATTTTTATAAATA
Found at i:81691 original size:9 final size:10
Alignment explanation
Indices: 81670--81704 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
81660 GTTTGGAAAG
81670 TTTATTACTT
1 TTTATTACTT
81680 TTTATTACTT
1 TTTATTACTT
* *
81690 TTTTTTAATT
1 TTTATTACTT
81700 TTTAT
1 TTTAT
81705 ATCATATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTACTT
Found at i:82340 original size:26 final size:25
Alignment explanation
Indices: 82281--82345 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 25
82271 TATTTTTTAA
*
82281 ATTTTTATTT-AAATTTAATAATAT
1 ATTTTTATTTAAAATTCAATAATAT
82305 ATTTTATTATTTAAAATATCAA-AATATT
1 A-TTT-TTATTTAAAAT-TCAATAATA-T
82333 ATTTTTATGTTAA
1 ATTTTTAT-TTAA
82346 TATTATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
24 1 0.03
25 3 0.09
26 10 0.29
27 15 0.44
28 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
ATTTTTATTTAAAATTCAATAATAT
Found at i:82445 original size:19 final size:19
Alignment explanation
Indices: 82421--82462 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
82411 TTTTATTGTG
82421 AAGTATTTTGAACAGGTCT
1 AAGTATTTTGAACAGGTCT
82440 AAGTATTTTGAACAGGTCT
1 AAGTATTTTGAACAGGTCT
82459 AAGT
1 AAGT
82463 TTCCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (19 bp):
AAGTATTTTGAACAGGTCT
Found at i:83332 original size:23 final size:23
Alignment explanation
Indices: 83306--83355 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
83296 AATATCAACT
83306 AATTATATAAACTAATTGAATTA
1 AATTATATAAACTAATTGAATTA
*
83329 AATTATATAAACTAATTGAATTG
1 AATTATATAAACTAATTGAATTA
83352 AATT
1 AATT
83356 GAATTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (23 bp):
AATTATATAAACTAATTGAATTA
Found at i:84459 original size:86 final size:86
Alignment explanation
Indices: 84314--84483 Score: 304
Period size: 86 Copynumber: 2.0 Consensus size: 86
84304 AATACAAAAT
*
84314 TGTTATGAAAATTACATATTTAATAAATACCAAAATGGTATAATAAATCCAAAACAATAAATTTA
1 TGTTATGAAAATTACATATTTAATAAATACCAAAATGGTATAATAAATACAAAACAATAAATTTA
* *
84379 AACTTCTTTAATACATGTAGC
66 AACATCTTTAACACATGTAGC
*
84400 TGTTATGAAAATTACATATTTAATAAATACCAAAATGGTATAATAAATACGAAACAATAAATTTA
1 TGTTATGAAAATTACATATTTAATAAATACCAAAATGGTATAATAAATACAAAACAATAAATTTA
84465 AACATCTTTAACACATGTA
66 AACATCTTTAACACATGTA
84484 ACGTGCTTGT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (86 bp):
TGTTATGAAAATTACATATTTAATAAATACCAAAATGGTATAATAAATACAAAACAATAAATTTA
AACATCTTTAACACATGTAGC
Found at i:85307 original size:20 final size:20
Alignment explanation
Indices: 85274--85315 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
85264 AAAATTTATT
85274 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
85294 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
85314 TA
1 TA
85316 TTTTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:85397 original size:4 final size:4
Alignment explanation
Indices: 85388--85413 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
85378 AACTTAAGTA
85388 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
85414 TATACCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:85547 original size:2 final size:2
Alignment explanation
Indices: 85535--85577 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
85525 GGAAATGAGA
85535 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85576 AT
1 AT
85578 TTAAATGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85878 original size:18 final size:19
Alignment explanation
Indices: 85837--85879 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
85827 TTTATTATTA
* *
85837 TAAAATATATGTTAAATA-
1 TAAAATATATGTAAAAAAT
*
85855 TAAAAAATATGTAAAAAAT
1 TAAAATATATGTAAAAAAT
85874 TAAAAT
1 TAAAAT
85880 TAAATACGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAATATATGTAAAAAAT
Found at i:86104 original size:13 final size:13
Alignment explanation
Indices: 86086--86131 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
86076 TTAATTATTA
86086 ATTATATATTTTT
1 ATTATATATTTTT
86099 ATTATATATTATTGT
1 ATTATATATT-TT-T
*
86114 ATAATATATTTTTT
1 ATTATATA-TTTTT
86128 ATTA
1 ATTA
86132 CCGTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 10 0.36
14 6 0.21
15 10 0.36
16 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
ATTATATATTTTT
Found at i:86722 original size:31 final size:31
Alignment explanation
Indices: 86652--86731 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
86642 TCATATTATT
* *
86652 ATTTAATAAATAAAAAA-ATATTTTTATTTAA
1 ATTTAAT-AATAAAAAATATATTTTAATATAA
86683 ATTTAATAATAAAAAATATATTTTAATAT-A
1 ATTTAATAATAAAAAATATATTTTAATATAA
*
86713 TTTTAAATAATAAAAAATA
1 ATTT-AATAATAAAAAATA
86732 CTTTTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 13 0.30
31 31 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
ATTTAATAATAAAAAATATATTTTAATATAA
Found at i:87565 original size:13 final size:14
Alignment explanation
Indices: 87542--87570 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
87532 AAAGATATTA
87542 TAAATATTTAAATT
1 TAAATATTTAAATT
87556 TAAA-ATTTAAATT
1 TAAATATTTAAATT
87569 TA
1 TA
87571 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATATTTAAATT
Found at i:91398 original size:3 final size:3
Alignment explanation
Indices: 91392--91436 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
91382 TTTGTTGTGA
91392 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
91437 GTATTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:92067 original size:20 final size:19
Alignment explanation
Indices: 92039--92113 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
92029 TCATACCCTG
*
92039 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTAT-A
* *
92059 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTAT-A
*
92079 ATGTATCGATATATTCTATA
1 ATGTATCGATACATT-TATA
92099 ATGTATCGATACATT
1 ATGTATCGATACATT
92114 ATGTCTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTATA
Found at i:92106 original size:40 final size:39
Alignment explanation
Indices: 92039--92116 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
92029 TCATACCCTG
*
92039 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTTATCAATATATCGATACAT-TATGA
* *
92079 ATGTATCGATATATTCTAT-AATGTATCGATACATTATG
1 ATGTATCGATACATT-TATCAATATATCGATACATTATG
92117 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 28 0.82
41 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTTATCAATATATCGATACATTATGA
Found at i:100067 original size:12 final size:12
Alignment explanation
Indices: 100050--100076 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
100040 TAAAAATTAA
100050 AAATTCAAATTC
1 AAATTCAAATTC
100062 AAATTCAAATTC
1 AAATTCAAATTC
100074 AAA
1 AAA
100077 AAAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:100345 original size:50 final size:50
Alignment explanation
Indices: 100202--100364 Score: 274
Period size: 50 Copynumber: 3.3 Consensus size: 50
100192 AATAGAAAAT
*
100202 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * *
100252 GCATGCATGGGAAAACA-CAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
100301 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
100351 ACATGCATGGGAAA
1 GCATGCATGGGAAA
100365 TGAAAAAAGC
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 45 0.43
50 59 0.57
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:100904 original size:47 final size:43
Alignment explanation
Indices: 100853--100947 Score: 100
Period size: 47 Copynumber: 2.1 Consensus size: 43
100843 AAAGAATGAG
*
100853 CAGCAAAAAACAACAGCAACAGCTCCAGTAGCCAACGACTGCAACTC
1 CAGCAAAAAACAACAGCAACAACTCC---AG-CAACGACTGCAACTC
*** * *
100900 CAGCACGCAACAACAGCAGCAACTCCAGCAACGACTGCACCTC
1 CAGCAAAAAACAACAGCAACAACTCCAGCAACGACTGCAACTC
100943 CAGCA
1 CAGCA
100948 CGCAACAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 19 0.45
44 2 0.05
47 21 0.50
ACGTcount: A:0.39, C:0.38, G:0.16, T:0.07
Consensus pattern (43 bp):
CAGCAAAAAACAACAGCAACAACTCCAGCAACGACTGCAACTC
Found at i:102018 original size:53 final size:50
Alignment explanation
Indices: 101910--102035 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 50
101900 AATTGCTCGT
*
101910 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
101961 AATCGAAGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATCG--GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
*
102014 AATCGGGGGTACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
102036 TTATTTTCGA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
51 23 0.35
52 4 0.06
53 38 0.58
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:102098 original size:78 final size:79
Alignment explanation
Indices: 101963--102262 Score: 433
Period size: 79 Copynumber: 3.8 Consensus size: 79
101953 TTTCCTTTAA
* * * *
101963 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
102028 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* * ** * *
102042 TCGAGGGGATACTCCAA-CCTGGTTCTATCCCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
102106 CAACCCCGTTA-TT
66 CAACCCCGTTATTT
* *
102119 TCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACT
1 TC-GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACT
102184 CCAACCCCGTTATTT
65 CCAACCCCGTTATTT
* ** *
102199 CCGAGGGGATACTCCAACCTTGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACT
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACT
102263 TTAATCCCGA
Statistics
Matches: 200, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
77 4 0.02
78 68 0.34
79 125 0.62
80 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:102187 original size:157 final size:158
Alignment explanation
Indices: 101968--102262 Score: 475
Period size: 157 Copynumber: 1.9 Consensus size: 158
101958 TTTAATCGAA
* ** *
101968 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
* * *
102033 CCGTTATTTTCGAGGGGATACTCCAACC-TGGTTCTATCCCTAAAATATTAATTTTTCACAATCG
66 CCGTTATTTCCGAGGGGATACTCCAACCTTGGTTCTATCCCTAAAACATCAATTTTTCACAATCG
102097 GGGATACTCCAACCCCGTTATTTCTGAG
131 GGGATACTCCAACCCCGTTATTTCTGAG
*
102125 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
* ** *
102190 CCGTTATTTCCGAGGGGATACTCCAACCTTGGTTTTATTTCTAAAACATCAATTTTTCATAATCG
66 CCGTTATTTCCGAGGGGATACTCCAACCTTGGTTCTATCCCTAAAACATCAATTTTTCACAATCG
102255 GGGATACT
131 GGGATACT
102263 TTAATCCCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
157 87 0.70
158 38 0.30
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (158 bp):
GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTCCGAGGGGATACTCCAACCTTGGTTCTATCCCTAAAACATCAATTTTTCACAATCG
GGGATACTCCAACCCCGTTATTTCTGAG
Found at i:108518 original size:59 final size:59
Alignment explanation
Indices: 108414--109206 Score: 809
Period size: 60 Copynumber: 13.4 Consensus size: 59
108404 CTCTTTTAGC
* * *
108414 CCTTCAAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCA
1 CCTTC-AGTCCTCAAAGAGCAGGAC-GCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
*
108475 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
108534 CCTTCAGTCCTCAAAGAGCAGGATGC-TTTTTTTCCAAAGCCCACACAAGCTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
108592 CCTTTCAGTCCTCAAAGAGCAGGACGC-----CTTCCAAAGCCCACACAAGTTAGCGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * * *
108647 TTTTCCAGTCTTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTT-CAGTCCTCAAAGAGCAGGACGC--TTTTT-TTTTCAAAGCCCACACAAGTTGGTGGCA
* * **
108710 CCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGC-T-TTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
108770 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTT-TTTTTTCAAAGCCCACACAAGTTGGTGGCA
*
108830 CCTTTCAGTCCTCAAAGAGCAGGACGC------CTTCAAAGCCCACACAAGTTGGTGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
108884 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTCCAAAGCCCACACAAGCTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
108943 CCTTTTAGTCCTCAAAGAGCAGGACGC-----CTTCCAAAGCCCACACAAGTTAGCGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * *
108998 TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTT-CAGTCCTCAAAGAGCAGGACGC--TTTTT-TTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** *
109061 CCTTTAGTCCTCATAGAGCAGGACACATCTTCCTTTT-AAAACCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGC-T-TTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
*
109121 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTT-TTTTT-TCAAAGCCCACACAAGTTGGTGGCA
*
109181 -CTTCCTAGTCCTCAAAGAGCAAGACG
1 CCTT-C-AGTCCTCAAAGAGCAGGACG
109207 TTCTTTCCTT
Statistics
Matches: 619, Mismatches: 78, Indels: 70
0.81 0.10 0.09
Matches are distributed among these distances:
53 23 0.04
54 30 0.05
55 88 0.14
58 36 0.06
59 118 0.19
60 174 0.28
61 56 0.09
62 44 0.07
63 50 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (59 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:109067 original size:351 final size:351
Alignment explanation
Indices: 108414--109211 Score: 1354
Period size: 351 Copynumber: 2.3 Consensus size: 351
108404 CTCTTTTAGC
**
108414 CCTTCAAGTCCTCAAAGAGCAGGACACCTTT-TCTTTT-CAAAGCCCACACAAGCTGGTGGCACC
1 CCTTC-AGTCCTCAAAGAGCAGGA-TGCTTTCT-TTTTGCAAAGCCCACACAAGCTGGTGGCACC
* *
108477 -TTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
63 TTTCAGTCCTCAAAGAGCAGGACGC-----TCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
108541 TCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCA
123 TCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCA
*
108606 AAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCTTCAAAGAGCAGGA
188 AAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGA
108671 CACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACAC
253 CACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACAC
*
108736 ATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
318 ATCTTCCTTTTAAAACCCACACAAGTTGGTGGCA
108770 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
108835 CAGTCCTCAAAGAGCAGGACGC-CTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
66 CAGTCCTCAAAGAGCAGGACGCTCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
*
108899 GAGCAGGATGCTTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCA
131 GAGCAGGATGC-TTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCA
108964 GGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGACACTTTT
195 GGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGACACTTTT
*
109029 TTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCATAGAGCAGGACACATCTTCC
260 TTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCC
109094 TTTTAAAACCCACACAAGTTGGTGGCA
325 TTTTAAAACCCACACAAGTTGGTGGCA
* * *
109121 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCA-CTTC
1 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
* *
109185 CTAGTCCTCAAAGAGCAAGACGTTCTT
66 C-AGTCCTCAAAGAGCAGGACGCTCTT
109212 TCCTTTTCTT
Statistics
Matches: 423, Mismatches: 13, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
350 56 0.13
351 283 0.67
352 3 0.01
354 8 0.02
355 45 0.11
356 28 0.07
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (351 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
CAGTCCTCAAAGAGCAGGACGCTCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
GAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAG
GACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGACACTTTTT
TTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCT
TTTAAAACCCACACAAGTTGGTGGCA
Found at i:109304 original size:103 final size:99
Alignment explanation
Indices: 109125--109398 Score: 362
Period size: 103 Copynumber: 2.8 Consensus size: 99
109115 GTGGCACCTT
* *
109125 CAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
1 CAGTCCTCAAAGAGCAGGACGCTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
*
109190 CCTCAAAGAGCAAGACGTTCTTTCCTTTTCTTCCTTTC
64 CCTCAAAGAGCAAGACGTTCTTTCC-TTTCGT-CTTTC
109228 CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
1 CAGTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
* *
109293 CCTCAAAGAGCAGGACGTTCTTTCCTTTCGTCTTTT
64 CCTCAAAGAGCAAGACGTTCTTTCCTTTCGTCTTTC
* * * *
109329 TA-TCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCAATC
1 CAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTC
109388 CTCAAAGAGCA
65 CTCAAAGAGCA
109399 GGATGCTTTC
Statistics
Matches: 159, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
93 1 0.01
94 44 0.28
95 1 0.01
99 1 0.01
100 17 0.11
101 5 0.03
102 5 0.03
103 76 0.48
104 5 0.03
105 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (99 bp):
CAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
TCAAAGAGCAAGACGTTCTTTCCTTTCGTCTTTC
Found at i:109494 original size:61 final size:59
Alignment explanation
Indices: 109331--109520 Score: 214
Period size: 57 Copynumber: 3.3 Consensus size: 59
109321 CGTCTTTTTA
* *
109331 TCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAA
1 TCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
* * * * *
109386 TCCTCAAAGAGCAGGATGCTTTCTTTT--TATCCCACACTAGTTGGTGGCA-TCTTCCAG
1 TCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACT-TTTCAG
* *
109443 TCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTCAG
1 TCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
*
109504 TCCTTAAAGAGCAGGAC
1 TCCTCAAAGAGCAGGAC
109521 ACACTTCTTT
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
55 17 0.15
56 1 0.01
57 40 0.36
58 2 0.02
59 11 0.10
61 39 0.35
62 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAG
Found at i:109559 original size:42 final size:40
Alignment explanation
Indices: 109503--109640 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 40
109493 GCACTTTTCA
* * *
109503 GTCCTTAAAGAGCAGGACACACTTCTTTCTCTTTTTCACTTT
1 GTCCTCAAAAAGCAGGACACATTTCTTTCT-TTTTTC-CTTT
109545 GTCCTCAAAAAGCAGGACAC-TTTCCTTGTCTTCTTTTCCTTT
1 GTCCTCAAAAAGCAGGACACATTT-CTT-TCTT-TTTTCCTTT
** *
109587 GTCCTCAAGGAGCAGGAC-CTATTTCATTCTTTTTTCTTCTTT
1 GTCCTCAAAAAGCAGGACAC-ATTTCTTTCTTTTTTC--CTTT
109629 GTCCTCAAAAAG
1 GTCCTCAAAAAG
109641 TGGGATACCC
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
40 5 0.06
41 7 0.09
42 58 0.72
43 11 0.14
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (40 bp):
GTCCTCAAAAAGCAGGACACATTTCTTTCTTTTTTCCTTT
Found at i:110167 original size:12 final size:12
Alignment explanation
Indices: 110150--110176 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
110140 TAAAAATTAA
110150 AAATTCAAATTC
1 AAATTCAAATTC
110162 AAATTCAAATTC
1 AAATTCAAATTC
110174 AAA
1 AAA
110177 AAAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:110442 original size:50 final size:50
Alignment explanation
Indices: 110299--110461 Score: 265
Period size: 50 Copynumber: 3.3 Consensus size: 50
110289 AATAGAAAAT
*
110299 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * * *
110349 GCATGCATGGGAAAACA-CAAAATTGTAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
110398 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
110448 ACATGCATGGGAAA
1 GCATGCATGGGAAA
110462 TGAAAAAAGC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 44 0.43
50 58 0.57
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.16
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:112116 original size:53 final size:50
Alignment explanation
Indices: 112008--112133 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 50
111998 AATTGCTCGT
*
112008 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
112059 AATCGAAGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATCG--GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
*
112112 AATCGGGGGTACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
112134 TTATTTTCGA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
51 23 0.35
52 4 0.06
53 38 0.58
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:112196 original size:78 final size:79
Alignment explanation
Indices: 112061--112360 Score: 433
Period size: 79 Copynumber: 3.8 Consensus size: 79
112051 TTTCCTTTAA
* * * *
112061 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
112126 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* ** * *
112140 TCGAGGGGATACTCCAA-CCCGGTTCTATCCCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
112204 CAACCCCGTTA-TT
66 CAACCCCGTTATTT
* *
112217 TCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACT
1 TC-GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACT
112282 CCAACCCCGTTATTT
65 CCAACCCCGTTATTT
* * * * *
112297 CCGAGGAGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGAGATACT
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACT
112361 TTAATCCCGA
Statistics
Matches: 201, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
77 4 0.02
78 69 0.34
79 125 0.62
80 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:118611 original size:59 final size:59
Alignment explanation
Indices: 118507--119299 Score: 836
Period size: 60 Copynumber: 13.4 Consensus size: 59
118497 CTCTTTTAGC
* * *
118507 CCTTCAAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCA
1 CCTTC-AGTCCTCAAAGAGCAGGAC-GCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
*
118568 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
118627 CCTTCAGTCCTCAAAGAGCAGGATGC-TTTTTTTCCAAAGCCCACACAAGCTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
118685 CCTTTCAGTCCTCAAAGAGCAGGACGC-----CTTCCAAAGCCCACACAAGTTAGCGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * *
118740 TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTT-CAGTCCTCAAAGAGCAGGACGC--TTTTT-TTTTCAAAGCCCACACAAGTTGGTGGCA
* * **
118803 CCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGC-T-TTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
118863 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTT-TTTTTTCAAAGCCCACACAAGTTGGTGGCA
*
118923 CCTTTCAGTCCTCAAAGAGCAGGACGC------CTTCAAAGCCCACACAAGTTGGTGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
118977 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTCCAAAGCCCACACAAGCTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
119036 CCTTTTAGTCCTCAAAGAGCAGGACGC-----CTTCCAAAGCCCACACAAGTTAGCGGCA
1 CC-TTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
** * * *
119091 TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACAAGTTAGTGGCA
1 CCTT-CAGTCCTCAAAGAGCAGGACGC--TTTTT-TTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** *
119154 CCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTT-AAAACCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGC-T-TTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
*
119214 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGCAGGACGCTTT-TTTTT-TCAAAGCCCACACAAGTTGGTGGCA
*
119274 -CTTCCTAGTCCTCAAAGAGCAAGACG
1 CCTT-C-AGTCCTCAAAGAGCAGGACG
119300 TTCTTTCCTT
Statistics
Matches: 625, Mismatches: 72, Indels: 70
0.81 0.09 0.09
Matches are distributed among these distances:
53 23 0.04
54 30 0.05
55 89 0.14
58 36 0.06
59 118 0.19
60 176 0.28
61 56 0.09
62 46 0.07
63 51 0.08
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (59 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:119160 original size:351 final size:351
Alignment explanation
Indices: 118507--119304 Score: 1363
Period size: 351 Copynumber: 2.3 Consensus size: 351
118497 CTCTTTTAGC
**
118507 CCTTCAAGTCCTCAAAGAGCAGGACACCTTT-TCTTTT-CAAAGCCCACACAAGCTGGTGGCACC
1 CCTTC-AGTCCTCAAAGAGCAGGA-TGCTTTCT-TTTTGCAAAGCCCACACAAGCTGGTGGCACC
* *
118570 -TTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
63 TTTCAGTCCTCAAAGAGCAGGACGC-----TCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAG
118634 TCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCA
123 TCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCA
118699 AAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGA
188 AAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGA
*
118764 CACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACAC
253 CACTTTTTTTCTTTTTAAAGCCCACACAAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACAC
*
118829 ATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
318 ATCTTCCTTTTAAAACCCACACAAGTTGGTGGCA
118863 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
118928 CAGTCCTCAAAGAGCAGGACGC-CTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
66 CAGTCCTCAAAGAGCAGGACGCTCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
*
118992 GAGCAGGATGCTTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCA
131 GAGCAGGATGC-TTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCA
119057 GGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGACACTTTT
195 GGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGACACTTTT
119122 TTTCTTTTTAAAGCCCACACAAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCC
260 TTTCTTTTTAAAGCCCACACAAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCC
119187 TTTTAAAACCCACACAAGTTGGTGGCA
325 TTTTAAAACCCACACAAGTTGGTGGCA
* * *
119214 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCA-CTTC
1 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
* *
119278 CTAGTCCTCAAAGAGCAAGACGTTCTT
66 C-AGTCCTCAAAGAGCAGGACGCTCTT
119305 TCCTTTTCTT
Statistics
Matches: 424, Mismatches: 12, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
350 56 0.13
351 284 0.67
352 3 0.01
354 8 0.02
355 45 0.11
356 28 0.07
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (351 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTTT
CAGTCCTCAAAGAGCAGGACGCTCTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
GAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAG
GACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAGGACACTTTTT
TTCTTTTTAAAGCCCACACAAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCT
TTTAAAACCCACACAAGTTGGTGGCA
Found at i:119397 original size:103 final size:98
Alignment explanation
Indices: 119216--119491 Score: 364
Period size: 103 Copynumber: 2.8 Consensus size: 98
119206 TGGTGGCACC
* *
119216 TTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 TTCAGTCCTCAAAGAGCAGGACGCTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTCCTA
*
119281 GTCCTCAAAGAGCAAGACGTTCTTTCCTTTTCTTCCT
64 GTCCTCAAAGAGCAAGACGTTCTTTCC-TTTCGT-CT
119318 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TT-CAGTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
*
119383 AGTCCTCAAAGAGCAGGACGTTCTTTCCTTTCGTCT
63 AGTCCTCAAAGAGCAAGACGTTCTTTCCTTTCGTCT
** * * *
119419 TTTTGTCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCAA
1 TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT-AG
119479 TCCTCAAAGAGCA
65 TCCTCAAAGAGCA
119492 GGATGCTTTC
Statistics
Matches: 161, Mismatches: 9, Indels: 16
0.87 0.05 0.09
Matches are distributed among these distances:
93 1 0.01
94 44 0.27
95 1 0.01
99 1 0.01
100 18 0.11
101 4 0.02
102 7 0.04
103 76 0.47
104 5 0.03
105 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (98 bp):
TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
CCTCAAAGAGCAAGACGTTCTTTCCTTTCGTCT
Found at i:119587 original size:61 final size:59
Alignment explanation
Indices: 119423--119613 Score: 216
Period size: 57 Copynumber: 3.3 Consensus size: 59
119413 TCGTCTTTTT
*
119423 GTCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * * * *
119478 ATCCTCAAAGAGCAGGATGCTTTCTTTT--TATCCCACACTAGTTGGTGGCA-TCTTCCA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACT-TTTCA
* *
119535 GTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
*
119596 GTCCTTAAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
119614 ACACTTCTTT
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
55 17 0.15
56 1 0.01
57 40 0.36
58 2 0.02
59 11 0.10
61 39 0.35
62 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:119652 original size:42 final size:40
Alignment explanation
Indices: 119596--119733 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 40
119586 GCACTTTTCA
* * *
119596 GTCCTTAAAGAGCAGGACACACTTCTTTCTCTTTTTCACTTT
1 GTCCTCAAAAAGCAGGACACATTTCTTTCT-TTTTTC-CTTT
119638 GTCCTCAAAAAGCAGGACAC-TTTCCTTGTCTTCTTTTCCTTT
1 GTCCTCAAAAAGCAGGACACATTT-CTT-TCTT-TTTTCCTTT
** *
119680 GTCCTCAAGGAGCAGGAC-CTATTTCATTCTTTTTTCTTCTTT
1 GTCCTCAAAAAGCAGGACAC-ATTTCTTTCTTTTTTC--CTTT
119722 GTCCTCAAAAAG
1 GTCCTCAAAAAG
119734 TGGGATACCC
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
40 5 0.06
41 7 0.09
42 58 0.72
43 11 0.14
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (40 bp):
GTCCTCAAAAAGCAGGACACATTTCTTTCTTTTTTCCTTT
Found at i:120260 original size:12 final size:12
Alignment explanation
Indices: 120243--120269 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
120233 TAAAAATTAA
120243 AAATTCAAATTC
1 AAATTCAAATTC
120255 AAATTCAAATTC
1 AAATTCAAATTC
120267 AAA
1 AAA
120270 AAAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:120535 original size:50 final size:50
Alignment explanation
Indices: 120392--120554 Score: 274
Period size: 50 Copynumber: 3.3 Consensus size: 50
120382 AATAGAAAAT
*
120392 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * *
120442 GCATGCATGGGAAAACA-CAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
120491 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
120541 ACATGCATGGGAAA
1 GCATGCATGGGAAA
120555 TGAAAAAAGC
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 45 0.43
50 59 0.57
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:121094 original size:47 final size:43
Alignment explanation
Indices: 121043--121137 Score: 100
Period size: 47 Copynumber: 2.1 Consensus size: 43
121033 AAAGAATGAG
*
121043 CAGCAAAAAACAACAGCAACAGCTCCAGTAGCCAACGACTGCAACTC
1 CAGCAAAAAACAACAGCAACAACTCC---AG-CAACGACTGCAACTC
*** * *
121090 CAGCACGCAACAACAGCAGCAACTCCAGCAACGACTGCACCTC
1 CAGCAAAAAACAACAGCAACAACTCCAGCAACGACTGCAACTC
121133 CAGCA
1 CAGCA
121138 CGCAACAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 19 0.45
44 2 0.05
47 21 0.50
ACGTcount: A:0.39, C:0.38, G:0.16, T:0.07
Consensus pattern (43 bp):
CAGCAAAAAACAACAGCAACAACTCCAGCAACGACTGCAACTC
Found at i:122209 original size:53 final size:50
Alignment explanation
Indices: 122101--122226 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 50
122091 AATTGCTCGT
*
122101 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
122152 AATCGAAGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATCG--GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
*
122205 AATCGGGGGTACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
122227 TTATTTTCGA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
51 23 0.35
52 4 0.06
53 38 0.58
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:122378 original size:79 final size:79
Alignment explanation
Indices: 122154--122453 Score: 458
Period size: 79 Copynumber: 3.8 Consensus size: 79
122144 TTTCCTTTAA
* * * *
122154 TCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGGTACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
122219 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* ** * *
122233 TCGAGGGGATACTCCAA-CCCGGTTCTATCCCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
122297 CAACCCCGTTATTT
66 CAACCCCGTTATTT
* *
122311 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
*
122376 CAACCCTGTTATTT
66 CAACCCCGTTATTT
* * *
122390 CCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACT
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACT
122454 TTAATCCCGA
Statistics
Matches: 204, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 74 0.36
79 130 0.64
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (79 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTT
Found at i:129697 original size:22 final size:21
Alignment explanation
Indices: 129673--129743 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 21
129663 CTTTACACCC
129673 AAAAACAAAAAAATAAAAAAACA
1 AAAAAC-AAAAAA-AAAAAAACA
129696 AAAAA-AAACAAAACAAAAAACA
1 AAAAACAAA-AAAA-AAAAAACA
* *
129718 AAAAA-AAAAGAAAAAATAGCA
1 AAAAACAAAA-AAAAAAAAACA
129739 AAAAA
1 AAAAA
129744 TAGAAGGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 16 0.37
22 22 0.51
23 5 0.12
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (21 bp):
AAAAACAAAAAAAAAAAAACA
Found at i:129700 original size:10 final size:10
Alignment explanation
Indices: 129672--129743 Score: 65
Period size: 10 Copynumber: 6.7 Consensus size: 10
129662 CCTTTACACC
129672 CAAAAACAAAA
1 CAAAAA-AAAA
*
129683 AAATAAAAAAA
1 CAA-AAAAAAA
129694 CAAAAAAAAA
1 CAAAAAAAAA
129704 CAAAACAAAAAA
1 C-AAA-AAAAAA
129716 CAAAAAAAAA
1 CAAAAAAAAA
*
129726 -AGAAAAAATAG
1 CA-AAAAAA-AA
129737 CAAAAAA
1 CAAAAAA
129744 TAGAAGGGTC
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
9 1 0.02
10 20 0.38
11 20 0.38
12 11 0.21
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:129709 original size:31 final size:30
Alignment explanation
Indices: 129674--129733 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
129664 TTTACACCCA
129674 AAAACAAAAAA-ATAAAAAAACAAAAAAAAAC
1 AAAACAAAAAACA-AAAAAAA-AAAAAAAAAC
*
129705 AAAACAAAAAACAAAAAAAAAAGAAAAAA
1 AAAACAAAAAACAAAAAAAAAAAAAAAAA
129734 TAGCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (30 bp):
AAAACAAAAAACAAAAAAAAAAAAAAAAAC
Found at i:129743 original size:1 final size:1
Alignment explanation
Indices: 129673--129733 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
129663 CTTTACACCC
* * * * * * *
129673 AAAAACAAAAAAATAAAAAAACAAAAAAAAACAAAACAAAAAACAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
129734 TAGCAAAAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.89, C:0.08, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:131010 original size:29 final size:29
Alignment explanation
Indices: 130968--132797 Score: 2500
Period size: 29 Copynumber: 63.9 Consensus size: 29
130958 GTTCATCTCT
*
130968 TTTCAAAGCCCACAAGTCATTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
130997 TTTCAAAGCCCACAAATCAGTGGCACGCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131026 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131055 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
131083 TTTCAAAGCCCACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131112 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131140 TTTCAAAGCCTACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131169 TTTCAAAGCCCATAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131198 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
131227 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131255 TTTCAAAGCCCACAACTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131283 TTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131312 TTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131341 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * * *
131370 TTTCAAATCCCATAAATCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131399 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
131427 TTTCAAAGCCCACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
131456 CTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131485 TTTCAAAGCCCACAAATCAGTGGCACT-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131513 TTTCTAAAGCCCGCAAGTCAGTGGCAC-CC
1 TTTC-AAAGCCCACAAGTCAGTGGCACTCC
*
131542 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * *
131570 TTTCAGAGCCCAGAAATTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131598 TTTCGAAGCCCACAAGTCAGTGGCAC-CA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
131626 TTGCGAAGCCCACAATTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
131654 TTTCAAAAGCCCACAAGTCAGTGGCACT-C
1 TTTC-AAAGCCCACAAGTCAGTGGCACTCC
* **
131683 TATTCAAAGCCCACAAATCAGTGGCACTTT
1 T-TTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131713 TTTCAAAGCCCACAATTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131741 TTTCAAAGCCCACAAGTCAGTGGCACTCA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
131770 TTTCAAAGCCCACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131799 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
131828 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131856 TTTCAAAGCCCACAACTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131884 TTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131913 TTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131942 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
131971 TTTCAAAGCCCATAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132000 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132028 TTTCAAAGCCCACAAGTCAATGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132057 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132086 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132115 TTTTAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132143 TTTCAAAGCCCACAAGTTAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132171 TTTCAGAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
132199 TTTCGAAGCCCACAAGTTAGTGGCAC-CA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
132227 TTGCGAAGCCCACAATTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132255 TTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132284 TTTCAAAGCCCACAAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132313 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132342 TTTCAAAGCCCATAAATCAGTGGCACT-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132370 TTTGCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTT-CAAAGCCCACAAGTCAGTGGCACTCC
*
132399 TTTCAAAGACCACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132428 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132457 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132486 TTTTAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132514 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132542 TTTCAGAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132570 TTTCGAAGCCCACAAGTCAGTGGCAC-CA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
132598 TTGCGAAGCCCACAATTCAGTGGCACT-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
132626 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
*
132654 TTTTAAAGCCCACACAAGTCAGTGGCACTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCC
132685 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
** * *
132713 TTTCAAAGCCCATGAGTTAGTGGCA-TTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCC
132741 TTTCAAAGCCCACGCAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCC
* *
132771 TTTTAAAGCCCATGCAAGTCAATGGCA
1 TTTCAAAGCCCA--CAAGTCAGTGGCA
132798 ACCCTTTTCA
Statistics
Matches: 1618, Mismatches: 158, Indels: 49
0.89 0.09 0.03
Matches are distributed among these distances:
28 651 0.40
29 901 0.56
30 57 0.04
31 9 0.01
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCC
Found at i:131202 original size:115 final size:114
Alignment explanation
Indices: 130968--132797 Score: 2466
Period size: 115 Copynumber: 16.0 Consensus size: 114
130958 GTTCATCTCT
* * *
130968 TTTCAAAGCCCACAAGTCATTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACGCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* *
131033 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
65 GCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
*
131083 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
131148 CCTACAAGTCAGTGGCACTCCTTTCAAAGCCCATAAGTCAGTGGCACTCC
66 CCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131198 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
131263 CCCACAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCC
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131312 TTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * * * * *
131377 TCCCATAAATCAATGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CC
65 GCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
131427 TTTCAAAGCCCACAAGTCAGTGGCACTCCCTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * *
131492 GCCCACAAATCAGTGGCACTCTTTCTAAAGCCCGCAAGTCAGTGGCAC-CC
65 GCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCACTCC
* * * * * *
131542 TTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAGAGCCCAGAAATTAGTGGCACCCTTTCGAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
131606 CCCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* **
131654 TTTCAAAAGCCCACAAGTCAGTGGCACT-CTATTCAAAGCCCACAAATCAGTGGCACTTTTTTCA
1 TTTC-AAAGCCCACAAGTCAGTGGCACTCCT-TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
* * *
131718 AAGCCCACAATTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCA
63 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131770 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
131835 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCAC-CC
65 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
131884 TTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAA
* * * *
131949 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* *
132000 TTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAATGGCACTCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * * *
132064 GCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCT
65 GCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * *
132115 TTTTAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAGAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
132179 CCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTTAGTGGCAC-CA
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * *
132227 TTGCGAAGCCCACAATTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAA
* * *
132291 GCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTTAGTGGCACTCT
65 GCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
132342 TTTCAAAGCCCATAAATCAGTGGCACT-CTTTGCAAAGCCCACAAGTTAGTGGCACCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
132406 GACCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCT
65 GCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * *
132457 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
132522 CCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCAC-CC
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
* * * * * *
132570 TTTCGAAGCCCACAAGTCAGTGGCAC-CATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
132634 CCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACTCC
66 CCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCACTCC
** * **
132685 TTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCATGAGTTAGTGGCATTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
132749 CCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCATGCAAGTCAATGGCA
66 CCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCA
132798 ACCCTTTTCA
Statistics
Matches: 1542, Mismatches: 144, Indels: 56
0.89 0.08 0.03
Matches are distributed among these distances:
112 131 0.08
113 127 0.08
114 358 0.23
115 807 0.52
116 83 0.05
117 36 0.02
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (114 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC
Found at i:132144 original size:601 final size:598
Alignment explanation
Indices: 131031--132782 Score: 2759
Period size: 601 Copynumber: 2.9 Consensus size: 598
131021 ACGCTTTTCA
* *
131031 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCA
1 AAGCCCACAATTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCA
* *
131095 CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTCAG
64 CAAGTCAGTGGCACTTCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAG
*
131160 TGGCACTCCTTTCAAAGCCCATAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACT
129 TGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACT
131225 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAA
193 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAA
131290 GCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACA
258 GCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACA
* *
131355 AGTCAGTGGCACTCTTTTCAAATCCCATAAATCAATGGCACTCTTTTCAAAGCCCACAAGTTAGT
323 AGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGT
*
131420 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCCTTCAAAGCCCACAAGTTAGTGGCACTCT
388 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCT
* *
131485 TTTCAAAGCCCACAAATCAGTGGCACTCTTTCTAAAGCCCGCAAGTCAGTGGCACCCTTTCAAAG
453 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
131550 CCCACAAGTTAGTGGCACCCTTTCAGAGCCCAGAAATTAGTGGCACCCTTTCGAAGCCCACAAGT
518 CCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAATCAGTGGCACCCTTTCGAAGCCCACAAGT
131615 CAGTGGCACCATTGCG
583 CAGTGGCACCATTGCG
131631 AAGCCCACAATTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCACTCTATTCAAAGCCCA
1 AAGCCCACAATTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCACTCT-TTCAAAGCCCA
* * *
131696 CAAATCAGTGGCACTTTTTTCAAAGCCCACAATTTAGTGGCACCCTTTCAAAGCCCACAAGTCAG
64 CAAGTCAGTGGCACTTCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAG
131761 TGGCACTCATTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACT
129 TGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACT
131826 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAA
193 CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAA
131891 GCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACA
258 GCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACA
131956 AGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGT
323 AGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGT
*
132021 GGCACCCTTTCAAAGCCCACAAGTCAATGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCT
388 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCT
132086 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
453 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
132151 CCCACAAGTTAGTGGCACCTTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGT
518 CCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAATCAGTGGCACCCTTTCGAAGCCCACAAGT
*
132216 TAGTGGCACCATTGCG
583 CAGTGGCACCATTGCG
*
132232 AAGCCCACAATTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCAC
1 AAGCCCACAATTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCAC
* * *
132297 AAGTCAGTGGCA-TTCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCATAAATCA
65 AAGTCAGTGGCACTT-CTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCA
* * *
132361 GTGGCACTCTTTGCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGACCACAAGTCAGTGGCAC
128 GTGGCACTCTTT-CAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCAC
* * * * * *
132425 TCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTT
192 TCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAACTCAGTGGCAC-CCTTTC
* * * *
132490 AAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTTAGTGGCA-CCCTTTCAGAGCCC
255 AAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCC
* * * * * * *
132553 ACAAGTCAGTGGCAC-CCTTTCGAAGCCCACAAGTCAGTGGCAC-CATTGCGAAGCCCACAA-TT
320 ACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTT
* * *
132615 CAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTAAAGCCCACACAAGTCAGTGG
385 -AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACAAGTTAGTGG
* * * * ** * **
132679 CACTCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCATGAGTTAGTGGCATTCTT
447 CACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCCTT
* * *
132743 TCAAAGCCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCA
512 TCAAAGCCCA--CAAGTTAGTGGCACCCTTTCAGAGCCCA
132783 TGCAAGTCAA
Statistics
Matches: 1074, Mismatches: 63, Indels: 30
0.92 0.05 0.03
Matches are distributed among these distances:
597 11 0.01
598 86 0.08
599 72 0.07
600 221 0.21
601 659 0.61
602 25 0.02
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (598 bp):
AAGCCCACAATTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACA
AGTCAGTGGCACTTCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
GCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTT
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGT
CAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGC
ACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTT
CAAAGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
ACAAGTTAGTGGCACCCTTTCAGAGCCCACAAATCAGTGGCACCCTTTCGAAGCCCACAAGTCAG
TGGCACCATTGCG
Found at i:133351 original size:20 final size:19
Alignment explanation
Indices: 133323--133397 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
133313 TCATACCCTG
*
133323 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTAT-A
* *
133343 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTAT-A
*
133363 ATGTATCGATATATTCTATA
1 ATGTATCGATACATT-TATA
133383 ATGTATCGATACATT
1 ATGTATCGATACATT
133398 ATGTCTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTATA
Found at i:133390 original size:40 final size:39
Alignment explanation
Indices: 133323--133400 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
133313 TCATACCCTG
*
133323 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTTATCAATATATCGATACAT-TATGA
* *
133363 ATGTATCGATATATTCTAT-AATGTATCGATACATTATG
1 ATGTATCGATACATT-TATCAATATATCGATACATTATG
133401 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 28 0.82
41 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTTATCAATATATCGATACATTATGA
Found at i:137395 original size:2 final size:2
Alignment explanation
Indices: 137388--137422 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
137378 TTGAATGTCG
*
137388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
137423 GATTAGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:138303 original size:2 final size:2
Alignment explanation
Indices: 138296--138338 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
138286 GGTCTTTTTC
138296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
138338 A
1 A
138339 AAATAAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:139952 original size:10 final size:10
Alignment explanation
Indices: 139934--139975 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
139924 GCATCGATTG
*
139934 TATCAATTTA
1 TATCGATTTA
139944 TATCGATTTA
1 TATCGATTTA
*
139954 TATTGATTTA
1 TATCGATTTA
*
139964 TATCGATATA
1 TATCGATTTA
139974 TA
1 TA
139976 ATAATCCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (10 bp):
TATCGATTTA
Found at i:145083 original size:27 final size:27
Alignment explanation
Indices: 145041--145104 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
145031 GCCTTATGCG
145041 AAAT-TTTAATATATTAAAAT-TGATA
1 AAATATTTAATATATTAAAATATGATA
*
145066 TAAATATTT-ATATAATTATAATATGATA
1 -AAATATTTAATAT-ATTAAAATATGATA
*
145094 AAATATATAAT
1 AAATATTTAAT
145105 TACAAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 8 0.25
27 17 0.53
28 7 0.22
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
AAATATTTAATATATTAAAATATGATA
Found at i:145957 original size:6 final size:6
Alignment explanation
Indices: 145946--146003 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
145936 TAAACATATC
* *
145946 ATATTT ATATTT AAAATTT -TA-AT ATATTT AATAATTT ATA-TT ATATTT
1 ATATTT ATATTT -ATATTT ATATTT ATATTT -AT-ATTT ATATTT ATATTT
145994 ATATTT ATAT
1 ATATTT ATAT
146004 AATAATACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
4 1 0.02
5 8 0.19
6 20 0.48
7 9 0.21
8 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
ATATTT
Found at i:146004 original size:19 final size:19
Alignment explanation
Indices: 145950--146003 Score: 71
Period size: 17 Copynumber: 3.1 Consensus size: 19
145940 CATATCATAT
145950 TTATATTTAA-AATTT-TA
1 TTATATTTAATAATTTATA
*
145967 ATATATTTAATAATTTATA
1 TTATATTTAATAATTTATA
145986 TTATATTT-AT-ATTTATA
1 TTATATTTAATAATTTATA
146003 T
1 T
146004 AATAATACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 17 0.52
18 7 0.21
19 9 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATTTAATAATTTATA
Found at i:148683 original size:21 final size:19
Alignment explanation
Indices: 148657--148738 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 19
148647 AACCCAACTC
148657 AAATTATTATGTAATAATAAA
1 AAATTATTAT-TAAT-ATAAA
148678 AAATTATTTAAATTTAATTATAAA
1 AAATTA-TT--A-TTAA-TATAAA
148702 AAATATAATTATTAATAT-AA
1 AAAT-T-ATTATTAATATAAA
*
148722 AAATATATTTTTAATAT
1 AAAT-TATTATTAATAT
148739 TATCAAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
19 10 0.19
20 8 0.15
21 9 0.17
22 6 0.11
23 1 0.02
24 13 0.25
25 5 0.09
26 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (19 bp):
AAATTATTATTAATATAAA
Found at i:148716 original size:22 final size:20
Alignment explanation
Indices: 148691--148736 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
148681 TTATTTAAAT
148691 TTAATTATAAAAAATATAATTA
1 TTAATTAT-AAAAATAT-ATTA
*
148713 TTAA-TATAAAAATATATTT
1 TTAATTATAAAAATATATTA
148732 TTAAT
1 TTAAT
148737 ATTATCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 8 0.36
21 3 0.14
22 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATTATAAAAATATATTA
Found at i:148735 original size:19 final size:21
Alignment explanation
Indices: 148690--148738 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
148680 ATTATTTAAA
148690 TTTAATTATAAAAAATATAATT
1 TTTAA-TATAAAAAATATAATT
*
148712 ATTAATAT-AAAAATAT-ATT
1 TTTAATATAAAAAATATAATT
148731 TTTAATAT
1 TTTAATAT
148739 TATCAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 8 0.32
21 3 0.12
22 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAATATAAAAAATATAATT
Done.