Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2456
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: 193328
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:53 original size:2 final size:2
Alignment explanation
Indices: 46--85 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
36 TGGTTCTCGC
* *
46 AT AT AT AT -T AT AT AA AT AT AT AT AG AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
86 AACGCTTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:923 original size:2 final size:2
Alignment explanation
Indices: 916--952 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
906 AATTTTGTAG
* *
916 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
953 TGCACATTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:1388 original size:123 final size:124
Alignment explanation
Indices: 1259--1510 Score: 391
Period size: 124 Copynumber: 2.0 Consensus size: 124
1249 CACGTGTGTC
* * *
1259 AAATATTCTTCATTAGCATA-CTATGTGTTATAATTTTATTAGATTTG-TTTTAATTTATTAACA
1 AAATATTCTACATTAACAAATC-ATGTGTTATAATTTTATTAGATTTGTTTTTAATTTATTAACA
* * *
1322 ATGTTAATCTCATGTGAAATTGATGGATAAAAACAAATTAAAGTTAAAATGCAAATTATA
65 AAGTTAATCTCATGTGAAATTGATGAATAAAAACAAATTAAAATTAAAATGCAAATTATA
* *
1382 AAATATTCTACATTAACAAATCATGTGTTATAATTTTATTATATTTGTTTTTATTTTATTAACAA
1 AAATATTCTACATTAACAAATCATGTGTTATAATTTTATTAGATTTGTTTTTAATTTATTAACAA
* *
1447 AGTTAATCTCATGTGAAATTGATGAATAAACACAGATTAAAATTAAAATGCAAATTATA
66 AGTTAATCTCATGTGAAATTGATGAATAAAAACAAATTAAAATTAAAATGCAAATTATA
1506 AAATA
1 AAATA
1511 AAAAATACAA
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
123 41 0.35
124 76 0.65
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (124 bp):
AAATATTCTACATTAACAAATCATGTGTTATAATTTTATTAGATTTGTTTTTAATTTATTAACAA
AGTTAATCTCATGTGAAATTGATGAATAAAAACAAATTAAAATTAAAATGCAAATTATA
Found at i:2696 original size:20 final size:19
Alignment explanation
Indices: 2671--2741 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
2661 ACCATGAAAA
2671 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
2691 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
2710 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
2731 GTATCGATACA
1 GTATCGATACA
2742 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:2840 original size:53 final size:53
Alignment explanation
Indices: 2712--2847 Score: 200
Period size: 53 Copynumber: 2.5 Consensus size: 53
2702 GATTGCATAG
* *
2712 TATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTG
1 TATCGATACACA-AAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTTA
*** * *
2766 TATCGATACACATTGTGTGTATCGATACAGGTCACTGGCAGTAGCCAAATTTA
1 TATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTTA
2819 TATCGATACACAAAATATGTATCGATACA
1 TATCGATACACAAAATATGTATCGATACA
2848 TTGGTAGTAG
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 59 0.83
54 12 0.17
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
TATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTTA
Found at i:2890 original size:10 final size:10
Alignment explanation
Indices: 2871--2901 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2861 AATTTCATTT
2871 TCACTGTTCA
1 TCACTGTTCA
*
2881 TCACTATTCA
1 TCACTGTTCA
2891 TCACTGTTCA
1 TCACTGTTCA
2901 T
1 T
2902 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:2923 original size:21 final size:22
Alignment explanation
Indices: 2889--2944 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
2879 CATCACTATT
2889 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
2911 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
2932 CATCACTGTTCAT
1 CATCACTGTTCAT
2945 AAGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:4410 original size:2 final size:2
Alignment explanation
Indices: 4403--4427 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4393 TTAGGCTTTC
4403 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 A
4428 AAGGTTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5747 original size:16 final size:16
Alignment explanation
Indices: 5726--5756 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5716 AGATTCTCTC
5726 TCTTCTTTCTCTTTTT
1 TCTTCTTTCTCTTTTT
5742 TCTTCTTTCTCTTTT
1 TCTTCTTTCTCTTTT
5757 CCCTCTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TCTTCTTTCTCTTTTT
Found at i:5913 original size:24 final size:24
Alignment explanation
Indices: 5876--5921 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
5866 ATTTTTCTTT
5876 TATGTATTAGTATTTG-TTTTGTAA
1 TATGTATTAGTA-TTGATTTTGTAA
**
5900 TATGTATTTTTATTGATTTTGT
1 TATGTATTAGTATTGATTTTGT
5922 TGTTTATGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (24 bp):
TATGTATTAGTATTGATTTTGTAA
Found at i:6039 original size:35 final size:35
Alignment explanation
Indices: 5999--6106 Score: 113
Period size: 35 Copynumber: 3.3 Consensus size: 35
5989 TGTATAATAA
5999 GTGTTTATTTTATATATGTTTATTGTGTGATTTAT
1 GTGTTTATTTTATATATGTTTATTGTGTGATTTAT
* *
6034 GTGTTTATTGTATAATATG--TATT-T-T--TAT-T
1 GTGTTTATTTTAT-ATATGTTTATTGTGTGATTTAT
* *
6063 GTGTTTATTTTATAAATATTTATTGTGTGATTTAT
1 GTGTTTATTTTATATATGTTTATTGTGTGATTTAT
*
6098 ATGTTTATT
1 GTGTTTATT
6107 ATTTAAAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
28 3 0.05
29 13 0.22
30 6 0.10
31 1 0.02
32 2 0.03
33 1 0.02
34 6 0.10
35 21 0.36
36 5 0.09
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (35 bp):
GTGTTTATTTTATATATGTTTATTGTGTGATTTAT
Found at i:6040 original size:20 final size:20
Alignment explanation
Indices: 6011--6106 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 20
6001 GTTTATTTTA
6011 TATATGTTTATTGTGTGATT
1 TATATGTTTATTGTGTGATT
* * * *
6031 TATGTGTTTATTGTATAATA
1 TATATGTTTATTGTGTGATT
* * *
6051 TGTATTTTTATTGTGTTTATTT
1 TATATGTTTATTGTG-TGA-TT
*
6073 TATAAATATTTATTGTGTGATT
1 TAT--ATGTTTATTGTGTGATT
6095 TATATGTTTATT
1 TATATGTTTATT
6107 ATTTAAAAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
20 35 0.60
21 2 0.03
22 8 0.14
23 2 0.03
24 11 0.19
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (20 bp):
TATATGTTTATTGTGTGATT
Found at i:6052 original size:18 final size:18
Alignment explanation
Indices: 5963--6053 Score: 62
Period size: 20 Copynumber: 4.9 Consensus size: 18
5953 TTTGTCAATA
*
5963 TTTATTATATAATATAGATG
1 TTTATTGTATAATAT-G-TG
* *
5983 ATTAATTGTATAATAAGTG
1 -TTTATTGTATAATATGTG
*
6002 TTTATT-T-T-ATATATG
1 TTTATTGTATAATATGTG
* *
6017 TTTATTGTGTGATTTATGTG
1 TTTATTGTAT-A-ATATGTG
6037 TTTATTGTATAATATGT
1 TTTATTGTATAATATGT
6054 ATTTTTATTG
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
15 11 0.20
16 2 0.04
17 2 0.04
18 10 0.18
19 3 0.05
20 15 0.27
21 12 0.22
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (18 bp):
TTTATTGTATAATATGTG
Found at i:6066 original size:29 final size:29
Alignment explanation
Indices: 6029--6086 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6019 TATTGTGTGA
6029 TTTATGTGTTTATTGTAT-AATATGTATT
1 TTTATGTGTTTATTGTATAAATATGTATT
* *
6057 TTTATTGTGTTTATTTTATAAATATTTATT
1 TTTA-TGTGTTTATTGTATAAATATGTATT
6087 GTGTGATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 13 0.50
30 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (29 bp):
TTTATGTGTTTATTGTATAAATATGTATT
Found at i:7058 original size:2 final size:2
Alignment explanation
Indices: 7040--7078 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
7030 ATTAACACTA
*
7040 AT AT AT AA AT AT A- 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
7079 TGTAACAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7647 original size:6 final size:6
Alignment explanation
Indices: 7638--7684 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
7628 ATTATTTTTA
7638 TATAAT TATAAT TATAATT TATAAAAT TAT--T TATAAT TATAAT TATA
1 TATAAT TATAAT TATAA-T TAT--AAT TATAAT TATAAT TATAAT TATA
7685 TAAAAGGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.11
6 22 0.61
7 4 0.11
8 4 0.11
9 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATAAT
Found at i:8369 original size:18 final size:18
Alignment explanation
Indices: 8346--8386 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8336 TATTTTTTTG
8346 ATATAAATTATAAAAT-AT
1 ATATAAA-TATAAAATAAT
8364 ATATAAATATAAAATAAT
1 ATATAAATATAAAATAAT
8382 ATATA
1 ATATA
8387 TCATATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATATAAAATAAT
Found at i:9095 original size:2 final size:2
Alignment explanation
Indices: 9088--9114 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9078 CCCCTTTTAC
9088 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 A
9115 ACATTTCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9393 original size:2 final size:2
Alignment explanation
Indices: 9386--9421 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9376 TCAAACTAGC
9386 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9422 TGGGATTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11072 original size:23 final size:23
Alignment explanation
Indices: 11042--11088 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
11032 TTCATCCCTT
11042 AAAAAAAAAGCC-AAAAAGGTAG
1 AAAAAAAAAGCCAAAAAAGGTAG
11064 AAAAAAAAAGCCAAAAAAGGTAG
1 AAAAAAAAAGCCAAAAAAGGTAG
11087 AA
1 AA
11089 GTATGACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.70, C:0.09, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAGCCAAAAAAGGTAG
Found at i:13312 original size:13 final size:13
Alignment explanation
Indices: 13294--13320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13284 ACATGCTGCC
13294 TTGTATCGATACA
1 TTGTATCGATACA
13307 TTGTATCGATACA
1 TTGTATCGATACA
13320 T
1 T
13321 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:13332 original size:19 final size:21
Alignment explanation
Indices: 13306--13361 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
13296 GTATCGATAC
**
13306 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
13326 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
13346 ATTGTATCGATACATG
1 ATTGTATCGATACATG
13362 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:15190 original size:13 final size:13
Alignment explanation
Indices: 15172--15197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15162 CAATTTTTTG
15172 TGTATCGATACAT
1 TGTATCGATACAT
15185 TGTATCGATACAT
1 TGTATCGATACAT
15198 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15916 original size:21 final size:21
Alignment explanation
Indices: 15875--15918 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15865 CTCTCCTTTA
* *
15875 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
15896 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
15917 TC
1 TC
15919 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:21002 original size:21 final size:21
Alignment explanation
Indices: 20969--21009 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20959 CTAAGTAAAA
20969 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
20990 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
21010 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:21074 original size:20 final size:21
Alignment explanation
Indices: 21043--21101 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
21033 GTCAAAGCCC
* *
21043 TGAAAAGTATCGATACACATT
1 TGAATAGTATCGATACACAAT
21064 TGAAT-GTATCGATACA-AAT
1 TGAATAGTATCGATACACAAT
*
21083 TGCATAGTATCGATACACA
1 TGAATAGTATCGATACACA
21102 CAAATATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.18
20 22 0.67
21 5 0.15
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
TGAATAGTATCGATACACAAT
Found at i:21251 original size:21 final size:22
Alignment explanation
Indices: 21214--21268 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
21204 TATCACTATT
*
21214 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCAAGTATCGATA
21236 CATCACT-TTCAAGTATCGATA
1 CATCACTGTTCAAGTATCGATA
21257 CATCACTGTTCA
1 CATCACTGTTCA
21269 CACTGTTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (22 bp):
CATCACTGTTCAAGTATCGATA
Found at i:21363 original size:13 final size:13
Alignment explanation
Indices: 21345--21370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21335 ACATATTTGT
21345 GTGTATCGATACA
1 GTGTATCGATACA
21358 GTGTATCGATACA
1 GTGTATCGATACA
21371 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:25320 original size:13 final size:13
Alignment explanation
Indices: 25302--25327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25292 CAATTTTTTG
25302 TGTATCGATACAT
1 TGTATCGATACAT
25315 TGTATCGATACAT
1 TGTATCGATACAT
25328 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:39778 original size:40 final size:39
Alignment explanation
Indices: 39606--39880 Score: 144
Period size: 40 Copynumber: 6.9 Consensus size: 39
39596 TCAATAGATG
* * **
39606 AAAAGGGGTTGACCAAGTCAAATCAACAAGTCAACAAAT
1 AAAAAGGGTTGACCAAGACAAATTGACAAGTCAACAAAT
* * * * * *
39645 GAAAAGGGTTAACCCAGACAAATATCAACAAGTCAATAAAAG
1 AAAAAGGGTTGACCAAGACAAAT-T-GACAAGTCAA-CAAAT
* *** * * *
39687 AAAAAGTGTTGATTGAGACAAACTTGGCAAGTTAA-TAAT
1 AAAAAGGGTTGACCAAGACAAA-TTGACAAGTCAACAAAT
*
39726 AAGTAAA-AGTTGACCAAGACAAAGTTGACAAGTCAACAAAT
1 AA--AAAGGGTTGACCAAGACAAA-TTGACAAGTCAACAAAT
** * *
39767 AAAAAGGGTTGACTGAGACAAAATCGACAAGTCAACAGAT
1 AAAAAGGGTTGACCAAGAC-AAATTGACAAGTCAACAAAT
* *** * ** * *
39807 GAAAAGGGTTGATGGAGATGAAACCGATAAGTCAAC-TAT
1 AAAAAGGGTTGACCAAGA-CAAATTGACAAGTCAACAAAT
39846 AAGAAA-GGTTGACCAAGACAAAATTGACAAGTCAA
1 AA-AAAGGGTTGACCAAGAC-AAATTGACAAGTCAA
39881 TAGATGAAAA
Statistics
Matches: 177, Mismatches: 47, Indels: 24
0.71 0.19 0.10
Matches are distributed among these distances:
39 49 0.28
40 79 0.45
41 28 0.16
42 20 0.11
43 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (39 bp):
AAAAAGGGTTGACCAAGACAAATTGACAAGTCAACAAAT
Found at i:39905 original size:79 final size:80
Alignment explanation
Indices: 39755--39937 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 80
39745 CAAAGTTGAC
** *
39755 AAGTCAACAAATAAAAAGGGTTGACTGAGACAAAATCGACAAGTCAACAGATGAAAAGGGTTGAT
1 AAGTCAACAAATAAAAAGGGTTGACCAAGACAAAATCGACAAGTCAACAGATGAAAAGGGTTGAA
**
39820 GGAGATGAAACCGAT
66 CCAGATGAAACCGAT
* * *
39835 AAGTCAAC-TATAAGAAA-GGTTGACCAAGACAAAATTGACAAGTCAATAGATGAAAAGGAGTT-
1 AAGTCAACAAATAA-AAAGGGTTGACCAAGACAAAATCGACAAGTCAACAGATGAAAAGG-GTTG
* *
39897 AACCAGATGAAACCAAG
64 AACCAGATGAAACCGAT
*
39914 AAGTTAACAAATAAAAAGGGTTGA
1 AAGTCAACAAATAAAAAGGGTTGA
39938 TTAGGGCAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
79 63 0.72
80 24 0.28
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (80 bp):
AAGTCAACAAATAAAAAGGGTTGACCAAGACAAAATCGACAAGTCAACAGATGAAAAGGGTTGAA
CCAGATGAAACCGAT
Found at i:40237 original size:40 final size:39
Alignment explanation
Indices: 40071--40239 Score: 114
Period size: 40 Copynumber: 4.2 Consensus size: 39
40061 CAAAATCGAT
* *
40071 AAGTCAACAAATGAAAAAAGGTTGATCGGAATGAAA-CTGAG
1 AAGTCAACAAATG-AAAAAGGTTGACCGG-ATGAAATC-AAG
* * * *
40112 AAGTCAACAAACGAGAAAA-GTTGACTAAGG-GGAGAAT-AAT
1 AAGTCAACAAATGA-AAAAGGTTGAC--CGGATGA-AATCAAG
* * * *
40152 TAGTCAACAAATGAAAAAGGTTGACTGG-TGCGAAATCGAC
1 AAGTCAACAAATGAAAAAGGTTGACCGGAT--GAAATCAAG
*
40192 TAGTCAACAAATGAAAAAGGTTGACCGAGATGAAATCAAG
1 AAGTCAACAAATGAAAAAGGTTGACCG-GATGAAATCAAG
40232 AAGTCAAC
1 AAGTCAAC
40240 TATAAGTAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 23
0.72 0.11 0.16
Matches are distributed among these distances:
38 2 0.02
39 7 0.07
40 70 0.69
41 19 0.19
42 3 0.03
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.17
Consensus pattern (39 bp):
AAGTCAACAAATGAAAAAGGTTGACCGGATGAAATCAAG
Found at i:41773 original size:78 final size:79
Alignment explanation
Indices: 41683--41863 Score: 242
Period size: 79 Copynumber: 2.3 Consensus size: 79
41673 TATTTTGGAG
*
41683 ATAAAGATGGGGTTGGAGTATCCCT-TCAGAAATAACG-GGGCGGAGTATCTCCGATTGTGGAAA
1 ATAAA-ATGGGGTTGGAGTATCCCTCTCAGAAATAACGAGGGCGGAGTATCCCCGATTGTGGAAA
*
41746 ATCGGTGTTCTAGAA
65 ATCAGTGTTCTAGAA
* * **
41761 ATAAAATCGGGGTTAGAGTAT-TCTCTCAGAAATAACGAGGTTGGAGTATCCCCGATTGTGGAAA
1 ATAAAAT-GGGGTTGGAGTATCCCTCTCAGAAATAACGAGGGCGGAGTATCCCCGATTGTGGAAA
*
41825 ATCATTGTTCTAGAA
65 ATCAGTGTTCTAGAA
*
41840 ATAAAATTAGGGTTGGAGTATCCC
1 ATAAAA-TGGGGTTGGAGTATCCC
41864 CGATGGTAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
77 4 0.05
78 29 0.33
79 53 0.60
80 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (79 bp):
ATAAAATGGGGTTGGAGTATCCCTCTCAGAAATAACGAGGGCGGAGTATCCCCGATTGTGGAAAA
TCAGTGTTCTAGAA
Found at i:41861 original size:51 final size:51
Alignment explanation
Indices: 41799--41915 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
41789 GAAATAACGA
* * * *
41799 GGTTGGAGTATCCCCGATTGTGGAAAATCATTGTTCTAG-AAATAAAATTAG
1 GGTTGGAGTATCCCCGATGGTAGAAAATCACTGTT-TAGAAAATAAAACTAG
** *
41850 GGTTGGAGTATCCCCGATGGTAGAAAATTGCTGTTTTGAAAATAAAACTAG
1 GGTTGGAGTATCCCCGATGGTAGAAAATCACTGTTTAGAAAATAAAACTAG
*
41901 GCTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
41916 TCAGAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 2 0.04
51 55 0.96
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATGGTAGAAAATCACTGTTTAGAAAATAAAACTAG
Found at i:41938 original size:79 final size:81
Alignment explanation
Indices: 41848--42318 Score: 418
Period size: 79 Copynumber: 6.0 Consensus size: 81
41838 AAATAAAATT
* * *
41848 AGGGTTGGAGTATCCCCGATGGTAG-AAAATTGCTGTTTT-GAAAATAAAA-CTAGGCTTGGAGT
1 AGGGTTGGAGTATCCCCGATTGTAGAAAAATTGATGTTTTAG-AAATAAAATCTAGGGTTGGAGT
41910 ATCCCCTCAGAAATAAC
65 ATCCCCTCAGAAATAAC
* * * * *
41927 -GGAGTTGGAGTATCCCCGATTGT-GGAAAATCGATATTTTAGATATAAAATC--GTGGTTAGAG
1 AGG-GTTGGAGTATCCCCGATTGTAGAAAAATTGATGTTTTAGAAATAAAATCTAG-GGTTGGAG
* *
41988 TATCCTCT-TGAAAATAAC
64 TATCCCCTCAG-AAATAAC
* * * * *
42006 AGGGTTAGAGTATCCCCGATTATGGAAAAATTGATGTTTTGGAAATAAAATC-GGGGTTGGAGTA
1 AGGGTTGGAGTATCCCCGATTGTAGAAAAATTGATGTTTTAGAAATAAAATCTAGGGTTGGAGTA
* * *
42070 TCCCTTAAGAAATAAT
66 TCCCCTCAGAAATAAC
* * *
42086 AGGGTTGGAGTATCCTCAATTGT-GAAAAATTGATGTTTTAGAAATAAAA-C-CGGAGTTGGAGT
1 AGGGTTGGAGTATCCCCGATTGTAGAAAAATTGATGTTTTAGAAATAAAATCTAGG-GTTGGAGT
*
42148 ATCCCCTCATAAATAAC
65 ATCCCCTCAGAAATAAC
* * * * * ** *
42165 AGGGTTGGAGTATCCTCAATTAT-GAAAATTTGGTGTTTT-GAAAATAAAATCGGGGGTTAGAGT
1 AGGGTTGGAGTATCCCCGATTGTAGAAAAATTGATGTTTTAG-AAATAAAATCTAGGGTTGGAGT
* *
42228 ATTCCCTTAGAAATAAC
65 ATCCCCTCAGAAATAAC
* * * * * * *
42245 AGGGCTCGAGTATCCCCGATTAT-GAAAAATCGATATTTTAGAAATAAAACCGA-GGTTGGAGTA
1 AGGGTTGGAGTATCCCCGATTGTAGAAAAATTGATGTTTTAGAAATAAAATCTAGGGTTGGAGTA
42308 TCCCCTC-GAAA
66 TCCCCTCAGAAA
42319 ATAAAAACTT
Statistics
Matches: 325, Mismatches: 52, Indels: 31
0.80 0.13 0.08
Matches are distributed among these distances:
78 13 0.04
79 179 0.55
80 128 0.39
81 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (81 bp):
AGGGTTGGAGTATCCCCGATTGTAGAAAAATTGATGTTTTAGAAATAAAATCTAGGGTTGGAGTA
TCCCCTCAGAAATAAC
Found at i:42005 original size:209 final size:209
Alignment explanation
Indices: 41695--42073 Score: 532
Period size: 209 Copynumber: 1.8 Consensus size: 209
41685 AAAGATGGGG
* * * *
41695 TTGGAGTATCCCTTCAGAAATAACGGGGCGGAGTATCTCCGATTGTGGAAAATCGGTGTTCTAGA
1 TTGGAGTATCCCCTCAGAAATAACGGGGCGGAGTATCCCCGATTGTGGAAAATCGATATTCTAGA
* * *
41760 AATAAAATCGGGGTTAGAGTATTCTCTCAGAAATAAC-GAGGTTGGAGTATCCCCGATTGTGG-A
66 AATAAAATCGGGGTTAGAGTATCCTCTCAGAAATAACAG-GGTTAGAGTATCCCCGATTATGGAA
*
41823 AAA-TCATTGTTCTAGAAATAAAATTAGGGTTGGAGTATCCCCGATGGTAGAAAATTGCTGTTTT
130 AAATTCA-TGTTCTAGAAATAAAATCAGGGTTGGAGTATCCCCGATGGTAGAAAATTGCTGTTTT
41887 GAAAATAAAACTAGGC
194 GAAAATAAAACTAGGC
** *
41903 TTGGAGTATCCCCTCAGAAATAACGGAGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAG
1 TTGGAGTATCCCCTCAGAAATAACGG-GGCGGAGTATCCCCGATTGTGGAAAATCGATATTCTAG
* * *
41968 ATATAAAATCGTGGTTAGAGTATCCTCT-TGAAAATAACAGGGTTAGAGTATCCCCGATTATGGA
65 AAATAAAATCGGGGTTAGAGTATCCTCTCAG-AAATAACAGGGTTAGAGTATCCCCGATTATGGA
* * * *
42032 AAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCC
129 AAAATTCATGTTCTAGAAATAAAATCAGGGTTGGAGTATCCC
42074 TTAAGAAATA
Statistics
Matches: 148, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
208 26 0.18
209 85 0.57
210 35 0.24
211 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (209 bp):
TTGGAGTATCCCCTCAGAAATAACGGGGCGGAGTATCCCCGATTGTGGAAAATCGATATTCTAGA
AATAAAATCGGGGTTAGAGTATCCTCTCAGAAATAACAGGGTTAGAGTATCCCCGATTATGGAAA
AATTCATGTTCTAGAAATAAAATCAGGGTTGGAGTATCCCCGATGGTAGAAAATTGCTGTTTTGA
AAATAAAACTAGGC
Found at i:42069 original size:159 final size:156
Alignment explanation
Indices: 41848--42322 Score: 544
Period size: 159 Copynumber: 3.0 Consensus size: 156
41838 AAATAAAATT
* ** *
41848 AGGGTTGGAGTATCCCCGATGGTA-G-AAAATTGCTGTTTTGAAAATAAAA-CTAGGCTTGGAGT
1 AGGGTTGGAGTATCCCCGAT--TATGAAAAATTGATGTTTTGAAAATAAAATCGGGGGTTGGAGT
* * *
41910 ATCCCCTCAGAAATAACGGAGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAGATATAAA
64 ATCCCCTAAGAAATAACGG-GTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAA
* *
41975 ATCGTGGTTAGAGTATCCTCTTGAAAATAAC
128 ACCG-GGTTGGAGTATCC-CTTGAAAATAAC
* *
42006 AGGGTTAGAGTATCCCCGATTATGGAAAAATTGATGTTTTGGAAATAAAATC-GGGGTTGGAGTA
1 AGGGTTGGAGTATCCCCGATTAT-GAAAAATTGATGTTTTGAAAATAAAATCGGGGGTTGGAGTA
* * * * * *
42070 TCCCTTAAGAAATAATAGGGTTGGAGTATCCTCAATTGTGAAAAATTGATGTTTTAGAAATAAAA
65 TCCCCTAAGAAATAA-CGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAA
* *
42135 CCGGAGTTGGAGTATCCCCTCATAAATAAC
129 CCGG-GTTGGAGTATCCCTTGA-AAATAAC
* * * * *
42165 AGGGTTGGAGTATCCTCAATTATGAAAATTTGGTGTTTTGAAAATAAAATCGGGGGTTAGAGTAT
1 AGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAATCGGGGGTTGGAGTAT
* * * * *
42230 TCCCTTAGAAATAACAGGGCTCGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAAC
66 CCCCTAAGAAATAAC-GGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAAC
*
42295 CGAGGTTGGAGTATCCCCTCGAAAATAA
130 CG-GGTTGGAGTAT-CCCTTGAAAATAA
42323 AAACTTGAAT
Statistics
Matches: 267, Mismatches: 39, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
156 2 0.01
158 49 0.18
159 208 0.78
160 8 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (156 bp):
AGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAATCGGGGGTTGGAGTAT
CCCCTAAGAAATAACGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAACC
GGGTTGGAGTATCCCTTGAAAATAAC
Found at i:42147 original size:238 final size:238
Alignment explanation
Indices: 41847--42311 Score: 588
Period size: 238 Copynumber: 2.0 Consensus size: 238
41837 GAAATAAAAT
* *
41847 TAGGGTTGGAGTATCCCCGATGGTAGAAAATTGCTGTTTTGAAAATAAAACTAGGCTTGGAGTAT
1 TAGGGTTGGAGTATCCCCAATGGTAGAAAATTGATGTTTTGAAAATAAAACTAGGCTTGGAGTAT
* * *
41912 CCCCTCAGAAATAAC-GGAGTTGGAGTATCCCCGATTGTGGAAAA-TCGATATTTT-AGATATAA
66 CCCCTCAGAAATAACAGG-GTTGGAGTATCCCCAATTAT-GAAAATTCGATATTTTGA-AAATAA
* *
41974 AATC-GTGGTTAGAGTA-TCCTCTT-GAAAATAACAGGGTTAGAGTATCCCCGATTATGGAAAAA
128 AATCGGGGGTTAGAGTATTCC-CTTAG-AAATAACAGGGCTAGAGTATCCCCGATTAT-GAAAAA
* * * * *
42036 TTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTAAGAAATAA
190 TCGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCTTAAGAAATAA
* * * *
42085 TAGGGTTGGAGTATCCTCAATTGT-GAAAAATTGATGTTTT-AGAAATAAAAC-CGGAGTTGGAG
1 TAGGGTTGGAGTATCCCCAATGGTAG-AAAATTGATGTTTTGA-AAATAAAACTAGG-CTTGGAG
* * * * *
42147 TATCCCCTCATAAATAACAGGGTTGGAGTATCCTCAATTATGAAAATTTGGTGTTTTGAAAATAA
63 TATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAATTCGATATTTTGAAAATAA
*
42212 AATCGGGGGTTAGAGTATTCCCTTAGAAATAACAGGGCTCGAGTATCCCCGATTATGAAAAATCG
128 AATCGGGGGTTAGAGTATTCCCTTAGAAATAACAGGGCTAGAGTATCCCCGATTATGAAAAATCG
42277 ATATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
193 ATATTTTAGAAATAAAACCGAGGTTGGAGTATCCC
42312 CTCGAAAATA
Statistics
Matches: 196, Mismatches: 22, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
237 9 0.05
238 138 0.70
239 45 0.23
240 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (238 bp):
TAGGGTTGGAGTATCCCCAATGGTAGAAAATTGATGTTTTGAAAATAAAACTAGGCTTGGAGTAT
CCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAATTCGATATTTTGAAAATAAAAT
CGGGGGTTAGAGTATTCCCTTAGAAATAACAGGGCTAGAGTATCCCCGATTATGAAAAATCGATA
TTTTAGAAATAAAACCGAGGTTGGAGTATCCCTTAAGAAATAA
Found at i:45460 original size:41 final size:42
Alignment explanation
Indices: 45373--45467 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 42
45363 ATGTAACCTG
* * *
45373 CTCTTTGAGGACAAAGGAGAAAAGGAAAAAAAGTGCATCTTG
1 CTCTTTGAGGACAAAAGAGAAAAGGAAAAAAAGTGCATCCTA
* **
45415 CTCTTTGAGGACAAAAG-GAAAAGGAAATAAAGTGTGTCCTA
1 CTCTTTGAGGACAAAAGAGAAAAGGAAAAAAAGTGCATCCTA
*
45456 CTCTTTGGGGAC
1 CTCTTTGAGGAC
45468 TCAAGGTGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 30 0.65
42 16 0.35
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (42 bp):
CTCTTTGAGGACAAAAGAGAAAAGGAAAAAAAGTGCATCCTA
Found at i:45546 original size:61 final size:59
Alignment explanation
Indices: 45450--45643 Score: 196
Period size: 59 Copynumber: 3.2 Consensus size: 59
45440 AATAAAGTGT
* * *
45450 GTCCTACTCTTTGGGGACTCA-AGGTGCCACTAACTTGTATGGGCTTTGCAAGGAGAAAGC
1 GTCCTGCTCTTTGAGGACT-AGAGGTGCCACCAACTTGTATGGGCTTTG-AAGGAGAAAGC
* * * *
45510 GTCATGCTCTTTGAGGACTAAGAGGTGCCACCAACTTGCATGGGCATTGAAAG-GAAAGC
1 GTCCTGCTCTTTGAGGACT-AGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAAGC
* * * * * *
45569 GTCCTACTCTTTAAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGAT
1 GTCCTGCTCTTTGAGGACTAG-AGGTGCCACCAACTTGTATGGGCTTT-GAAGGAGAAAG-C
45630 GTCCTGCTCTTTGA
1 GTCCTGCTCTTTGA
45644 AGATTGAAAG
Statistics
Matches: 109, Mismatches: 20, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
58 2 0.02
59 44 0.40
60 27 0.25
61 36 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (59 bp):
GTCCTGCTCTTTGAGGACTAGAGGTGCCACCAACTTGTATGGGCTTTGAAGGAGAAAGC
Found at i:46654 original size:18 final size:18
Alignment explanation
Indices: 46621--46681 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
46611 AAGTAGGTTC
* *
46621 TTTTCTTTTCTTTTTTT-
1 TTTTTTTTTGTTTTTTTA
*
46638 TTTGTTTTTGTTTTTTTA
1 TTTTTTTTTGTTTTTTTA
*
46656 TTTTTTTTTGTTTTTTTG
1 TTTTTTTTTGTTTTTTTA
46674 TTTTTTTT
1 TTTTTTTT
46682 AAATTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
17 14 0.37
18 24 0.63
ACGTcount: A:0.02, C:0.03, G:0.07, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTTTA
Found at i:46671 original size:26 final size:27
Alignment explanation
Indices: 46621--46694 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 27
46611 AAGTAGGTTC
*
46621 TTTTCTTTTCTTTTTTTTT-TGTTTTTG
1 TTTT-TTTTATTTTTTTTTGTGTTTTTG
*
46648 -TTTTTTTATTTTTTTTTGTTTTTTTG
1 TTTTTTTTATTTTTTTTTGTGTTTTTG
46674 TTTTTTTTAAATTTTTTTTTG
1 TTTTTTTT--ATTTTTTTTTG
46695 AGAAAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.32
26 10 0.24
27 7 0.17
29 11 0.27
ACGTcount: A:0.05, C:0.03, G:0.07, T:0.85
Consensus pattern (27 bp):
TTTTTTTTATTTTTTTTTGTGTTTTTG
Found at i:46693 original size:1 final size:1
Alignment explanation
Indices: 46621--46681 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
46611 AAGTAGGTTC
* * * * * * *
46621 TTTTCTTTTCTTTTTTTTTTGTTTTTGTTTTTTTATTTTTTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46682 AAATTTTTTT
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:0.02, C:0.03, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:53151 original size:14 final size:14
Alignment explanation
Indices: 53132--53158 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53122 TACCACCTAG
53132 GGTATGGCGGTGAT
1 GGTATGGCGGTGAT
53146 GGTATGGCGGTGA
1 GGTATGGCGGTGA
53159 CTTCGGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.52, T:0.26
Consensus pattern (14 bp):
GGTATGGCGGTGAT
Found at i:56109 original size:61 final size:61
Alignment explanation
Indices: 56024--56596 Score: 520
Period size: 61 Copynumber: 9.8 Consensus size: 61
56014 AATGGGTCCG
* * * * * * *
56024 GCTCCTTGGGGACTAGAAGGTGCCACCAACTTATATGGGCTTTGCAAA-GAGAAA-GCATCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA-AAAGGCATCCT
* * *
56085 GCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * * *
56146 GCTCATTGAGGACTGAAAAGTGCCACCAACTTGTGTGTGCTTTAAAAGGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * * * *
56207 ACTCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAACGCAT-CT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * * * *
56267 AGCTCTTTAAGGAGTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCC
1 -GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * * *
56329 GCTCTTTAAGGACT-GAAAGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGCGTCTT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
** * *
56383 GCTCTTTGAGGTTTGGAAAATACCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * *
56438 GCTCTTTGATGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * *
56493 GCTCTTTGATGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* ** * *
56548 GCTCTTTGAGGGA-TGAAAAACGCCACCAACTTGTGTAGGCTTTGAAAGG
1 GCTCTTTGA-GGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
56597 CGTCCTGTTC
Statistics
Matches: 448, Mismatches: 53, Indels: 23
0.85 0.10 0.04
Matches are distributed among these distances:
54 19 0.04
55 176 0.39
56 2 0.00
60 35 0.08
61 215 0.48
62 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (61 bp):
GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
Found at i:56424 original size:55 final size:55
Alignment explanation
Indices: 56074--56620 Score: 496
Period size: 55 Copynumber: 9.6 Consensus size: 55
56064 TTTGCAAAGA
* * **
56074 GAAA-GCATCCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
* * * *
56128 AAAAGGAAAAGGCGTCCTGCTCATTGAGGACTGAAAAGTGCCACCAACTTGTGTGTGCTTT
1 -----G-AAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
* * * *
56189 AAAAGGAAAAGGCGTCCTACTCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 -----G-AAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
* * * **
56250 AAAAGAAAAACGCAT-CTAGCTCTTTAAGGAGT-AGAAGGTGCCACCAACTTGTGTGGGCTTT
1 ----G--AAAGGCATCCT-GCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT
* * * *
56311 AAAAGGAAAAGGCATCCCGCTCTTTAAGGACTG-AAAGTGCCACCAGCTTGTGTGGGCTTT
1 -----G-AAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
* * ** * *
56371 GAAAGGCGTCTTGCTCTTTGAGGTTTGGAAAATACCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
*
56426 GAAAGGCATCCTGCTCTTTGATGACT-AGAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT
*
56481 GAAAGGCATCCTGCTCTTTGATGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
* *
56536 GAAAGGCATCCTGCTCTTTGAGGGA-TGAAAAACGCCACCAACTTGTGTAGGCTTT
1 GAAAGGCATCCTGCTCTTTGA-GGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
* *
56591 GAAAGGCGTCCTGTTCTTTGAGGACT-AAAA
1 GAAAGGCATCCTGCTCTTTGAGGACTGAAAA
56621 GGTAAAAGGA
Statistics
Matches: 431, Mismatches: 44, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
54 27 0.06
55 194 0.45
56 3 0.01
59 1 0.00
60 35 0.08
61 166 0.39
62 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (55 bp):
GAAAGGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:57712 original size:11 final size:11
Alignment explanation
Indices: 57684--57736 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
57674 AAGCAAGTTC
*
57684 TTTTCTTTTCT
1 TTTTTTTTTCT
57695 TTCTTTTTTTCT
1 TT-TTTTTTTCT
*
57707 TTTTTTTTTGT
1 TTTTTTTTTCT
** *
57718 TTTTTGGTTGT
1 TTTTTTTTTCT
57729 TTTTTTTT
1 TTTTTTTT
57737 AAAAAAAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 25 0.71
12 10 0.29
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:61964 original size:20 final size:20
Alignment explanation
Indices: 61941--62006 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
61931 CGCACCCAGA
61941 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
61961 TGTATCGATACA-------T
1 TGTATCGATACATGCTGCTT
*
61974 TATATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
61994 TGTATCGATACAT
1 TGTATCGATACAT
62007 TATATCGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 12 0.32
20 25 0.68
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGCTGCTT
Found at i:61985 original size:33 final size:33
Alignment explanation
Indices: 61943--62038 Score: 160
Period size: 33 Copynumber: 2.9 Consensus size: 33
61933 CACCCAGATG
61943 TATCGATACATGCTGCTTTGTATCGATACATTA
1 TATCGATACATGCTGCTTTGTATCGATACATTA
61976 TATCGATACATGCTGCTTTGTATCGATACATTA
1 TATCGATACATGCTGCTTTGTATCGATACATTA
*
62009 TATCGATACATG-T-TTATTGTATCGATACAT
1 TATCGATACATGCTGCT-TTGTATCGATACAT
62039 AGACAATTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
31 1 0.02
32 15 0.25
33 45 0.74
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (33 bp):
TATCGATACATGCTGCTTTGTATCGATACATTA
Found at i:62033 original size:19 final size:19
Alignment explanation
Indices: 62009--62141 Score: 72
Period size: 20 Copynumber: 6.6 Consensus size: 19
61999 CGATACATTA
***
62009 TATCGATACATGTTTATTG
1 TATCGATACATGACAATTG
62028 TATCGATACATAGACAATTG
1 TATCGATACAT-GACAATTG
*
62048 TATCGATACATGA-AACTGG
1 TATCGATACATGACAA-TTG
* * * *
62067 TAGTAGCTAGCCTATCACTATTTG
1 TA-TCGATA--C-ATGAC-AATTG
62091 TATCGATACATGGTACAA-TG
1 TATCGATACAT-G-ACAATTG
* *
62111 TATCGATACATGAAGAAATG
1 TATCGATACATG-ACAATTG
62131 TATCGATACAT
1 TATCGATACAT
62142 AGCCTGTAAC
Statistics
Matches: 88, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.02
19 21 0.24
20 48 0.55
21 2 0.02
22 3 0.03
23 7 0.08
24 4 0.05
25 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (19 bp):
TATCGATACATGACAATTG
Found at i:65251 original size:79 final size:79
Alignment explanation
Indices: 65134--65332 Score: 208
Period size: 79 Copynumber: 2.5 Consensus size: 79
65124 GTGATGGTGG
* * * ** * *
65134 AAAATCGATGTTTTGGAAATAAAACCGGGGCTAAAGTATCCTTTC-AGAAATAACGGGGTT-AGA
1 AAAATTGATGTTTTGAAAATAAAACCGAGATTAGAGTATCCTTTCGA-AAATAACAGGGTTGA-A
* *
65197 GTATCCTCGATTGTGA-
64 GTATCCCCGATTAT-AC
* * * *
65213 AAAATTGGTGTTTT-AGAAATAAAGCCGAGATTGGAGTATCTTTTCGAAAATAACAGGGTTGAAG
1 AAAATTGATGTTTTGA-AAATAAAACCGAGATTAGAGTATCCTTTCGAAAATAACAGGGTTGAAG
65277 TATCCCCGATTATAC
65 TATCCCCGATTATAC
*
65292 AAAATTGATGTTTTGAAAATAAAACCGAGGTTAGAGTATCC
1 AAAATTGATGTTTTGAAAATAAAACCGAGATTAGAGTATCC
65333 CCAATTGTGA
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.01
79 93 0.96
80 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (79 bp):
AAAATTGATGTTTTGAAAATAAAACCGAGATTAGAGTATCCTTTCGAAAATAACAGGGTTGAAGT
ATCCCCGATTATAC
Found at i:65333 original size:51 final size:51
Alignment explanation
Indices: 65275--65381 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
65265 ACAGGGTTGA
* * *
65275 AGTATCCCCGATTAT-ACAAAATTGAT-GTTTTGAAAATAAAACCGAGGTTAG
1 AGTATCCCCAATTATGA-AAAATCGATGGTTTAG-AAATAAAACCGAGGTTAG
* * *
65326 AGTATCCCCAATTGTGAAAAATCGGTGGTTTAGAAATAAAATCGAGGTTAG
1 AGTATCCCCAATTATGAAAAATCGATGGTTTAGAAATAAAACCGAGGTTAG
65377 AGTAT
1 AGTAT
65382 TCCCTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 42 0.88
52 6 0.12
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (51 bp):
AGTATCCCCAATTATGAAAAATCGATGGTTTAGAAATAAAACCGAGGTTAG
Found at i:65360 original size:130 final size:130
Alignment explanation
Indices: 65190--65541 Score: 422
Period size: 130 Copynumber: 2.7 Consensus size: 130
65180 GAAATAACGG
* * * ** * **
65190 GGTTAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTAGAAATAAAGCCGAGATTGGAGTATCTT
1 GGTTAGAGTATCCTCAATTGTGAAAAATCGGTGGTTTAGAAATAAAATCGAGGTTGGAGTATCCC
* * * *
65255 TTCGAAAATAACAGGGTTGAAGTATCCCCGATTAT-ACAAAATTGATGTTTTGAAAATAAAACCG
66 TTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGA-AAAATCGATGTTTTGAAAATAAAACCA
65319 A
130 A
* *
65320 GGTTAGAGTATCCCCAATTGTGAAAAATCGGTGGTTTAGAAATAAAATCGAGGTTAGAGTATTCC
1 GGTTAGAGTATCCTCAATTGTGAAAAATCGGTGGTTTAGAAATAAAATCGAGGTTGGAGTA-TCC
* * * * * *
65385 CTT-AAAAATAATAGAGTTGGAGTATCCTCGATTTTGAAATATCGGTGTTTTGAAAATAAAACCA
65 CTTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAACCA
65449 A
130 A
* * * * *
65450 GGTTGGAGTATCTTCAATTATG-AAAATCAGTGGTTTGGAAATAAAATCGAGGTTGGAGTATCCC
1 GGTTAGAGTATCCTCAATTGTGAAAAATCGGTGGTTTAGAAATAAAATCGAGGTTGGAGTATCCC
* *
65514 CTCAAAAATAACGGGGTTGGAGTATCCC
66 TTCAAAAATAACAGGGTTGGAGTATCCC
65542 TGAGGGTGGA
Statistics
Matches: 187, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
128 5 0.03
129 56 0.30
130 121 0.65
131 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (130 bp):
GGTTAGAGTATCCTCAATTGTGAAAAATCGGTGGTTTAGAAATAAAATCGAGGTTGGAGTATCCC
TTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAACCAA
Found at i:65506 original size:50 final size:51
Alignment explanation
Indices: 65400--65512 Score: 147
Period size: 50 Copynumber: 2.2 Consensus size: 51
65390 AAATAATAGA
* * * *
65400 GTTGGAGTATCCTCGATTTTGAAATATCGGTGTTTTGAAAATAAAACCAAG
1 GTTGGAGTATCCTCAATTATGAAATATCAGTGGTTTGAAAATAAAACCAAG
* * * *
65451 GTTGGAGTATCTTCAATTATGAAA-ATCAGTGGTTTGGAAATAAAATCGAG
1 GTTGGAGTATCCTCAATTATGAAATATCAGTGGTTTGAAAATAAAACCAAG
65501 GTTGGAGTATCC
1 GTTGGAGTATCC
65513 CCTCAAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 32 0.60
51 21 0.40
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCTCAATTATGAAATATCAGTGGTTTGAAAATAAAACCAAG
Found at i:65571 original size:129 final size:130
Alignment explanation
Indices: 65302--65574 Score: 329
Period size: 129 Copynumber: 2.1 Consensus size: 130
65292 AAAATTGATG
* * *
65302 TTTTGAAAATAAAACCGAGGTTAGAGTATCCCCAATTGTGAAAAATCGGTGGTTTAGAAATAAAA
1 TTTTGAAAATAAAACCAAGGTTAGAGTATCCCCAATTATGAAAAATCAGTGGTTTAGAAATAAAA
* * * ** * * *
65367 TCGAGGTTAGAGTATTCCCTTAAAAATAATAGAGTTGGAGTATCCTCGATTTTGAAATATCGGTG
66 TCGAGGTTAGAGTATCCCCTCAAAAATAACAGAGTTGGAGTATCCTCGAGGTGGAAATATCAGTA
* ** *
65432 TTTTGAAAATAAAACCAAGGTTGGAGTATCTTCAATTATG-AAAATCAGTGGTTTGGAAATAAAA
1 TTTTGAAAATAAAACCAAGGTTAGAGTATCCCCAATTATGAAAAATCAGTGGTTTAGAAATAAAA
* * *
65496 TCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCC-CTGAGGGTGGAAA-ATCAG
66 TCGAGGTTAGAGTATCCCCTCAAAAATAACAGAGTTGGAGTATCCTC-GA-GGTGGAAATATCAG
65559 TA
129 TA
65561 TTTT-AGAAATAAAA
1 TTTTGA-AAATAAAA
65575 ACATGAATAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
128 2 0.02
129 80 0.66
130 40 0.33
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (130 bp):
TTTTGAAAATAAAACCAAGGTTAGAGTATCCCCAATTATGAAAAATCAGTGGTTTAGAAATAAAA
TCGAGGTTAGAGTATCCCCTCAAAAATAACAGAGTTGGAGTATCCTCGAGGTGGAAATATCAGTA
Found at i:68048 original size:20 final size:20
Alignment explanation
Indices: 68023--68077 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
68013 TAAAACCTAG
*
68023 AATGTATCGATACAATGAAT
1 AATGTATTGATACAATGAAT
68043 AATGTATTGATACAATGAAT
1 AATGTATTGATACAATGAAT
68063 AATGTATTGATACAA
1 AATGTATTGATACAA
68078 AAATTTTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATTGATACAATGAAT
Found at i:68056 original size:50 final size:50
Alignment explanation
Indices: 67926--68056 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 50
67916 ATGCCTGAAA
* * *
67926 GTATCGATAC-ATTAAGAAATGTATCGATACATCTCGATAAAACCCAAAAT
1 GTATCGATACAATGAA-TAATGTATCGATACATCTAGATAAAACCCAAAAT
* * * * *
67976 GTATCGATACAATGAATAATGTGTCAATACATCTAGGTAAAACCTAGAAT
1 GTATCGATACAATGAATAATGTATCGATACATCTAGATAAAACCCAAAAT
*
68026 GTATCGATACAATGAATAATGTATTGATACA
1 GTATCGATACAATGAATAATGTATCGATACA
68057 ATGAATAATG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
50 65 0.94
51 4 0.06
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (50 bp):
GTATCGATACAATGAATAATGTATCGATACATCTAGATAAAACCCAAAAT
Found at i:69056 original size:24 final size:24
Alignment explanation
Indices: 69028--69076 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
69018 AGAGTATGTC
69028 AAAATATCCTTCTAATAGTGTCTT
1 AAAATATCCTTCTAATAGTGTCTT
69052 AAAATATCCTTCTAATAGTGTCTT
1 AAAATATCCTTCTAATAGTGTCTT
69076 A
1 A
69077 TTCATCCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (24 bp):
AAAATATCCTTCTAATAGTGTCTT
Found at i:73627 original size:67 final size:67
Alignment explanation
Indices: 73445--73628 Score: 226
Period size: 67 Copynumber: 2.7 Consensus size: 67
73435 TTAACAGCCA
* * * * *
73445 AAACTGATAACAAGCTAAAGTAAAAGATCATAATG-GGGAATATGTGGTTACCATCAATAGCCGA
1 AAACTGATAACAAGCTAGAGTAAAAGATCATGATGAGGG-ATATGTGGTTACCATCAACAACCAA
73509 AAT
65 AAT
* * *** * *
73512 AAACTAATAACAAGCTGGAGTAAAAGATCATGATGAGATTTATGTGGTTCCCATCAACAACTAAA
1 AAACTGATAACAAGCTAGAGTAAAAGATCATGATGAGGGATATGTGGTTACCATCAACAACCAAA
73577 AT
66 AT
* *
73579 AAATTGATAACAAGCTAGAGTAAAAGATCATGATGAGGGATATATGGTTA
1 AAACTGATAACAAGCTAGAGTAAAAGATCATGATGAGGGATATGTGGTTA
73629 TAAAATTTCC
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
67 95 0.99
68 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (67 bp):
AAACTGATAACAAGCTAGAGTAAAAGATCATGATGAGGGATATGTGGTTACCATCAACAACCAAA
AT
Found at i:75849 original size:26 final size:26
Alignment explanation
Indices: 75813--75865 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
75803 GATTTGTCTT
*
75813 TATCTTTAAGG-ATACTCTAACTCCAC
1 TATCTCTAAGGTATACTCTAAC-CCAC
*
75839 TATCTCTAAGGTTTACTCTAACCCAC
1 TATCTCTAAGGTATACTCTAACCCAC
75865 T
1 T
75866 TTTACTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (26 bp):
TATCTCTAAGGTATACTCTAACCCAC
Found at i:75975 original size:80 final size:80
Alignment explanation
Indices: 75865--76180 Score: 325
Period size: 80 Copynumber: 4.0 Consensus size: 80
75855 TCTAACCCAC
* * * ** * *
75865 TTTTACTTCCAAAATGCTAAATTTTGCATCTTTAGGGATACTCTAACCTTACCATCTCCAAGGGG
1 TTTTACTTCCAAAATGCCAAATTTTTCATCTTTAGGGATACTCCAACCCCACCATCTCCGAGAGG
*
75930 ATACTCCAA-TTCTGT
66 ATACTCCAACCTC-GT
* * ** *
75945 TTTTACCTCCAAAATGCCAAATTTTTCATC-TTAGGGGATACTCCAATCCTGCTATCTCCGAGAG
1 TTTTACTTCCAAAATGCCAAATTTTTCATCTTTA-GGGATACTCCAACCCCACCATCTCCGAGAG
*
76009 GATACTTCAACCTCGT
65 GATACTCCAACCTCGT
* * *
76025 TTTTACTTCCAAAATGCCAAACTTTTCATCTCTT-GGGATACTCCAACCCCACCATCTCTGAGGG
1 TTTTACTTCCAAAATGCCAAATTTTTCATCT-TTAGGGATACTCCAACCCCACCATCTCCGAGAG
*
76089 GATAC-CTCAACCTCAT
65 GATACTC-CAACCTCGT
* **** * * * *
76105 TTTTACTTTCAAAACATTAAATTCTTCATCTTTGGGGATACTCTAACCCCACCATCTCCTAGAGG
1 TTTTACTTCCAAAATGCCAAATTTTTCATCTTTAGGGATACTCCAACCCCACCATCTCCGAGAGG
76170 ATACTCCAACC
66 ATACTCCAACC
76181 CTGGTTTTCA
Statistics
Matches: 196, Mismatches: 33, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
79 5 0.03
80 186 0.95
81 3 0.02
82 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (80 bp):
TTTTACTTCCAAAATGCCAAATTTTTCATCTTTAGGGATACTCCAACCCCACCATCTCCGAGAGG
ATACTCCAACCTCGT
Found at i:76110 original size:160 final size:160
Alignment explanation
Indices: 75865--76180 Score: 361
Period size: 160 Copynumber: 2.0 Consensus size: 160
75855 TCTAACCCAC
* * **
75865 TTTTACTTCCAAAATGCTAAATTTTGCATCTTTAGGGATACTCTAACCTTACCATCTCCAAGGGG
1 TTTTACTTCCAAAATGCCAAATTTTGCATCTTTAGGGATACTCCAACCCCACCATCTCCAAGGGG
* * ** * * *
75930 ATACTCCAATTCTGTTTTTACCTCCAAAATGCCAAATTTTTCATCTTAGGGGATACTCCAATCCT
66 ATACTCCAACTCTATTTTTACCTCCAAAACACCAAATTCTTCATCTTAGGGGATACTCCAACCCC
* * *
75995 GCTATCTCCGAGAGGATACTTCAACCTCGT
131 ACCATCTCCGAGAGGATACTCCAACCTCGT
**
76025 TTTTACTTCCAAAATGCCAAACTTTT-CATCTCTT-GGGATACTCCAACCCCACCATCTCTGAGG
1 TTTTACTTCCAAAATGCCAAA-TTTTGCATCT-TTAGGGATACTCCAACCCCACCATCTCCAAGG
* * ** * *
76088 GGATAC-CTCAAC-CTCATTTTTACTTTCAAAACATTAAATTCTTCATCTTTGGGGATACTCTAA
64 GGATACTC-CAACTCT-ATTTTTACCTCCAAAACACCAAATTCTTCATCTTAGGGGATACTCCAA
*
76151 CCCCACCATCTCCTAGAGGATACTCCAACC
127 CCCCACCATCTCCGAGAGGATACTCCAACC
76181 CTGGTTTTCA
Statistics
Matches: 129, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
159 3 0.02
160 120 0.93
161 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (160 bp):
TTTTACTTCCAAAATGCCAAATTTTGCATCTTTAGGGATACTCCAACCCCACCATCTCCAAGGGG
ATACTCCAACTCTATTTTTACCTCCAAAACACCAAATTCTTCATCTTAGGGGATACTCCAACCCC
ACCATCTCCGAGAGGATACTCCAACCTCGT
Found at i:79391 original size:13 final size:13
Alignment explanation
Indices: 79373--79402 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
79363 ACTTTTTACC
79373 ATGTATCGATACA
1 ATGTATCGATACA
79386 ATGTATCGATACA
1 ATGTATCGATACA
79399 ATGT
1 ATGT
79403 CCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:79392 original size:33 final size:33
Alignment explanation
Indices: 79350--79418 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
79340 GCCGTTGGGC
** *
79350 ACAATGTATCGATACTTTTTACCATGTATCGAT
1 ACAATGTATCGATACAATGTACCATGTATCGAT
*
79383 ACAATGTATCGATACAATGTCCCATGTATCGAT
1 ACAATGTATCGATACAATGTACCATGTATCGAT
79416 ACA
1 ACA
79419 TTTCACTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTACCATGTATCGAT
Found at i:79490 original size:19 final size:20
Alignment explanation
Indices: 79447--79493 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
79437 CTGTCAGTTT
79447 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
79467 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
79486 CATGTATC
1 CATGTATC
79494 AATATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:86694 original size:9 final size:9
Alignment explanation
Indices: 86680--86713 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
86670 CGAGTCAACT
86680 TCATCATTA
1 TCATCATTA
*
86689 TCATCATCA
1 TCATCATTA
*
86698 TCATCATTT
1 TCATCATTA
86707 TCATCAT
1 TCATCAT
86714 CTTTGATGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
TCATCATTA
Found at i:88912 original size:18 final size:18
Alignment explanation
Indices: 88886--88928 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
88876 TAGAGATCAA
88886 AGCTTTCAAAGTTCAAAG
1 AGCTTTCAAAGTTCAAAG
* * *
88904 AGTTTTCAAATTTCCAAG
1 AGCTTTCAAAGTTCAAAG
88922 AGCTTTC
1 AGCTTTC
88929 GTTTTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (18 bp):
AGCTTTCAAAGTTCAAAG
Found at i:90252 original size:12 final size:12
Alignment explanation
Indices: 90237--90261 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90227 TGAAGAAGAA
90237 GATGATAATGAT
1 GATGATAATGAT
90249 GATGATAATGAT
1 GATGATAATGAT
90261 G
1 G
90262 GTGAGTCGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (12 bp):
GATGATAATGAT
Found at i:94834 original size:13 final size:13
Alignment explanation
Indices: 94816--94852 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
94806 CATTCCTTGC
94816 ATCGATACATTCT
1 ATCGATACATTCT
* *
94829 ATCGATACAATGT
1 ATCGATACATTCT
94842 ATCGATACATT
1 ATCGATACATT
94853 AGGTACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (13 bp):
ATCGATACATTCT
Found at i:97319 original size:13 final size:13
Alignment explanation
Indices: 97301--97327 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
97291 ACATGCTGCT
97301 TTGTATCGATACA
1 TTGTATCGATACA
97314 TTGTATCGATACA
1 TTGTATCGATACA
97327 T
1 T
97328 GGTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:97324 original size:33 final size:32
Alignment explanation
Indices: 97282--97346 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
97272 AACCCTTGAA
*
97282 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCT-CATTGTATCGATACAT
*
97315 TGTATCGATACATGGTCATTGTATCGATACAT
1 TGTATCGATACATGCTCATTGTATCGATACAT
97347 GGATAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATGCTCATTGTATCGATACAT
Found at i:97336 original size:19 final size:20
Alignment explanation
Indices: 97312--97367 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
97302 TGTATCGATA
97312 CATTGTATCGATACATGG-T
1 CATTGTATCGATACATGGAT
97331 CATTGTATCGATACATGGAT
1 CATTGTATCGATACATGGAT
* *
97351 AATTGTCTCGATACATG
1 CATTGTATCGATACATG
97368 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:97453 original size:20 final size:20
Alignment explanation
Indices: 97425--97467 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
97415 AATATATCGA
*
97425 TATATTGTATCGATACATGG
1 TATAATGTATCGATACATGG
*
97445 TATAATGTATCGATACATTG
1 TATAATGTATCGATACATGG
97465 TAT
1 TAT
97468 CGATACATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (20 bp):
TATAATGTATCGATACATGG
Found at i:97485 original size:33 final size:33
Alignment explanation
Indices: 97396--97495 Score: 141
Period size: 33 Copynumber: 3.0 Consensus size: 33
97386 CTATCACTAT
* *
97396 TTGTATCGATACATGGTACAATATATCGATATA
1 TTGTATCGATACATGGTACAATGTATCGATACA
*
97429 TTGTATCGATACATGGTATAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCGATACA
97462 TTGTATCGATACATGAAG-A-AATGTATCGATACA
1 TTGTATCGATACATG--GTACAATGTATCGATACA
97495 T
1 T
97496 AGCTTGTAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
33 60 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCGATACA
Found at i:101317 original size:20 final size:20
Alignment explanation
Indices: 101292--101366 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
101282 TTTTATCTAG
*
101292 ATGTATCAATACATTTTTTA
1 ATGTATCAATACATTTTTAA
* * * *
101312 ATGTATCGATACATGTATGA
1 ATGTATCAATACATTTTTAA
* * *
101332 ATGTATCGATGCATTTTCAA
1 ATGTATCAATACATTTTTAA
*
101352 ATGTATTAATACATT
1 ATGTATCAATACATT
101367 GTGTTTTTTT
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:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCAATACATTTTTAA
Found at i:103743 original size:97 final size:96
Alignment explanation
Indices: 103589--103819 Score: 345
Period size: 97 Copynumber: 2.4 Consensus size: 96
103579 TTTTGGGGAT
* * *
103589 ACTCCAACCCTATTTCTCCGAGGGGATACTCCAACCTCGCTTTTAAACTCATTAAAGTTTAAATC
1 ACTCCAACCCTA-TTCTCCGAGGGGATACTCCAACCCCACTTTTAAACTCATCAAAGTTTAAATC
103654 TTATTCTTACTTAAATTGTCATCATCGAGGAC
65 TTATTCTTACTTAAATTGTCATCATCGAGGAC
* *
103686 ACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAATTTATCAAAGTTTAAATC
1 ACTCCAACCCTATT-CTCCGAGGGGATACTCCAACCCCACTTTTAAACTCATCAAAGTTTAAATC
* * *
103751 TTATTTTTGCTTAAATTGTCATCATCGGGGAC
65 TTATTCTTACTTAAATTGTCATCATCGAGGAC
* *
103783 ACTCCAACCCCATATCTCCGAGAGGATACTCCAACCC
1 ACTCCAACCCTAT-TCTCCGAGGGGATACTCCAACCC
103820 TGTTTTTCAA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 2 0.02
97 119 0.98
98 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (96 bp):
ACTCCAACCCTATTCTCCGAGGGGATACTCCAACCCCACTTTTAAACTCATCAAAGTTTAAATCT
TATTCTTACTTAAATTGTCATCATCGAGGAC
Found at i:109691 original size:20 final size:20
Alignment explanation
Indices: 109670--109835 Score: 152
Period size: 20 Copynumber: 7.8 Consensus size: 20
109660 AAAAAGACAG
*
109670 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* * *
109690 AATGTATCGATATATTCATA
1 AATGTATCGATACATTGAAA
*
109710 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
109730 AATGTATCGATACATCTAGGTAAAAAAACAA
1 AATGTATCGATACAT-T--G-------A-AA
*
109761 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* *
109781 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
*
109801 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
109821 AATGTATCGATACAT
1 AATGTATCGATACAT
109836 CTGGGTAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
20 95 0.81
21 2 0.02
23 1 0.01
28 1 0.01
30 2 0.02
31 17 0.14
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:109791 original size:91 final size:92
Alignment explanation
Indices: 109619--109846 Score: 386
Period size: 91 Copynumber: 2.5 Consensus size: 92
109609 TTTTAACTAG
* * * * *
109619 ATGTATCAATACATTGAAAAATGTATCGATATATGTGGGGAAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAGACAAAATGTATCGATACA
*
109684 TTGAAGAATGTATCGATATATTCATAC
66 TTGAAGAATGTATCGATACATTCATAC
*
109711 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAA-ACAAAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAGACAAAATGTATCGATACA
109775 TTGAAGAATGTATCGATACATTCATAC
66 TTGAAGAATGTATCGATACATTCATAC
109802 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
109847 TGTGACTTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 87 0.68
92 41 0.32
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (92 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAGACAAAATGTATCGATACA
TTGAAGAATGTATCGATACATTCATAC
Found at i:110681 original size:28 final size:28
Alignment explanation
Indices: 110602--111709 Score: 919
Period size: 28 Copynumber: 38.0 Consensus size: 28
110592 TAGAGAAAGT
* *
110602 TGCCACCGACTTGTGTAGGCTTTAAAAGGA
1 TGCCACTGACTTGTG--GGCTTTGAAAGGA
** *
110632 TGCCACTGACTTGTGGATTTTGTGAA-GA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* *
110660 TGCCTCTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
110688 TGCCATTAACTTATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
110716 TCCCACTGACTCGTGGGCTTTGGAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
110744 TGCCACTAACTTATGGGCTTTG-AAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
*
110772 TGCCACTGACTTGTAGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
**
110800 TGCCACTGACTCATGGGCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
** *
110829 TGCCACTGACTCATGGGATTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* *
110858 TGCCACTGACTTGTGGAC-TTGAAAATGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* *
110886 TGCCATTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
110914 TGCCACTAACTTATGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
110942 TGCCACTGATTTGTGGGCTTGGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* * * *
110971 TGCCACTGGCTTATGGACATTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
110999 TGCCACTGACTTGTGGGCTTTGAAAGGCA
1 TGCCACTGACTTGTGGGCTTTGAAAGG-A
* * *
111028 TGCCACTGACTTATGGACTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
111056 TGCCACTAACTTGTGGGCTTTGAAAGGC
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
111084 TGCCATTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
111112 TGGCACTGACTTATGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
111140 TGCCACTAACTTGTGGACTTTGAAATAGGT
1 TGCCACTGACTTGTGGGCTTTG-AA-AGGA
** * *
111170 TGCCACCAACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-G-GA
* * *
111202 TGCCACCGACTTGTGTGGGCTTTTAAATGA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGA
** *
111232 TGCCACCAACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAA--GGA
*
111262 TGCCACTGACTTGTGTAGGCTTTGAAACGGGT
1 TGCCACTGACTTGTG--GGCTTTGAAA--GGA
* *
111294 TGCCA-TCGACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACT-GAC-T-TGTGGGCTTTGAAA-G-GA
* * *
111326 TGCCACCGACTGTTGTGGGCTTTCAAATGAGT
1 TGCCACTGAC--TTGTGGGCTTTGAAA-G-GA
* * *
111358 TGCCACCGACTGTTGTGGGCTTTCAAATGAGT
1 TGCCACTGAC--TTGTGGGCTTTGAAA-G-GA
*
111390 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
111418 TGCCACTAACTTGTGGGCTTTGAGAAGGA
1 TGCCACTGACTTGTGGGCTTTGA-AAGGA
*
111447 TGCCACTGACTTATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
111475 TGCCACTGACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAA--GGA
* * *
111505 TGCCACCGACTTGTGTGGGCTTTAAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
111537 TGCCACCGACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-G-GA
* *
111569 TGCCACCGACTTGTGTGGGCTTTGAAATGA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGA
** * *
111599 TGCCACCAACTTATGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
111627 TGCCACCGACTTATGGGCTTTGAATGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
111655 TGCCATTGACTTATGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
111683 TGCCACTAACTTGTGGGCTTTAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGG
111710 GTGCAGCCGC
Statistics
Matches: 920, Mismatches: 128, Indels: 62
0.83 0.12 0.06
Matches are distributed among these distances:
27 5 0.01
28 475 0.52
29 131 0.14
30 86 0.09
31 8 0.01
32 209 0.23
33 2 0.00
34 4 0.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:111204 original size:32 final size:31
Alignment explanation
Indices: 110999--111703 Score: 513
Period size: 32 Copynumber: 23.7 Consensus size: 31
110989 ATTGAAAGGA
* *
110999 TGCCACTGACT-TGTGGGCTTTGAAA-G-GCA
1 TGCCACCGACTGTGTGGGCTTTGAAATGAG-T
* * * *
111028 TGCCACTGACT-TATGGACTTTGAAA-GA-A
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
** *
111056 TGCCACTAACT-TGTGGGCTTTGAAA-G-GC
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
*** *
111084 TGCCATTAACT-TGTGGGCTTTGAAA-G-GG
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
* * * * *
111112 TGGCACTGACT-TATGGGCTTT-AAAAG-GG
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
** *
111140 TGCCACTAACT-TGTGGACTTTGAAAT-AGGT
1 TGCCACCGACTGTGTGGGCTTTGAAATGA-GT
* *
111170 TGCCACCAACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACCGAC-TGTGTGGGCTTTGAAATGAGT
*
111202 TGCCACCGACTTGTGTGGGCTTTTAAATGA--
1 TGCCACCGAC-TGTGTGGGCTTTGAAATGAGT
* *
111232 TGCCACCAACT-TGTGGGCTTTGAAATGGGT
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
* * * *
111262 TGCCACTGACTTGTGTAGGCTTTGAAACGGGT
1 TGCCACCGAC-TGTGTGGGCTTTGAAATGAGT
* *
111294 TGCCATCGACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACCGAC-TGTGTGGGCTTTGAAATGAGT
*
111326 TGCCACCGACTGTTGTGGGCTTTCAAATGAGT
1 TGCCACCGACTG-TGTGGGCTTTGAAATGAGT
*
111358 TGCCACCGACTGTTGTGGGCTTTCAAATGAGT
1 TGCCACCGACTG-TGTGGGCTTTGAAATGAGT
*
111390 TGCCACTGACT-TGTGGGCTTTGAAATGA--
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
** *
111418 TGCCACTAACT-TGTGGGCTTTGAGAA-G-GA
1 TGCCACCGACTGTGTGGGCTTTGA-AATGAGT
* * *
111447 TGCCACTGACT-TATGGGCTTTGAAA-G-GA
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
* *
111475 TGCCACTGACT-TGTGGGCTTTGAAATGGGT
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
* *
111505 TGCCACCGACTTGTGTGGGCTTTAAAATGGGT
1 TGCCACCGAC-TGTGTGGGCTTTGAAATGAGT
*
111537 TGCCACCGACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACCGAC-TGTGTGGGCTTTGAAATGAGT
111569 TGCCACCGACTTGTGTGGGCTTTGAAATGA--
1 TGCCACCGAC-TGTGTGGGCTTTGAAATGAGT
* *
111599 TGCCACCAACT-TATGGGCTTTGAAATGA--
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
* *
111627 TGCCACCGACT-TATGGGCTTTG-AATG-GA
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
** *
111655 TGCCATTGACT-TATGGGCTTTGAAATGA--
1 TGCCACCGACTGTGTGGGCTTTGAAATGAGT
**
111683 TGCCACTAACT-TGTGGGCTTT
1 TGCCACCGACTGTGTGGGCTTT
111704 AAAAGGGTGC
Statistics
Matches: 594, Mismatches: 57, Indels: 51
0.85 0.08 0.07
Matches are distributed among these distances:
27 7 0.01
28 229 0.39
29 57 0.10
30 62 0.10
31 5 0.01
32 233 0.39
33 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (31 bp):
TGCCACCGACTGTGTGGGCTTTGAAATGAGT
Found at i:111760 original size:27 final size:27
Alignment explanation
Indices: 111719--112143 Score: 552
Period size: 27 Copynumber: 15.6 Consensus size: 27
111709 GGTGCAGCCG
*
111719 CGGAGTTGTGAACTTAAAAGGATGCC-
1 CGGAGTTGTGGACTTAAAAGGATGCCA
**
111745 CTAAAGTTGTGGACTTAAAAGGATGCCA
1 C-GGAGTTGTGGACTTAAAAGGATGCCA
* * *
111773 CAGAGTTATGGACTTAAAAGGGTGCCA
1 CGGAGTTGTGGACTTAAAAGGATGCCA
*
111800 CGGAGTGGTGGACTTTAAAA-GAGTGCCA
1 CGGAGTTGTGGAC-TTAAAAGGA-TGCCA
*
111828 CGGAGTTGTGGACTTAAAAGGGTGCCA
1 CGGAGTTGTGGACTTAAAAGGATGCCA
* *
111855 CGGAGTTGTGGACTTAAAAGGGTACCA
1 CGGAGTTGTGGACTTAAAAGGATGCCA
*
111882 CGGAGTGGTGGACTTTAAAA-GAGTGCCA
1 CGGAGTTGTGGAC-TTAAAAGGA-TGCCA
* *
111910 CGGAGTTGTGGACTTAAAAGGGTGCTA
1 CGGAGTTGTGGACTTAAAAGGATGCCA
*
111937 CGGAGTTGTGGACTTAAAAGGGTGCCA
1 CGGAGTTGTGGACTTAAAAGGATGCCA
*
111964 CGGAGTTGTGGACTTTAAAAGGGTGCCA
1 CGGAGTTGTGGAC-TTAAAAGGATGCCA
*
111992 CGAAGTTGTGGACTTTAAAAGG-TGCCA
1 CGGAGTTGTGGAC-TTAAAAGGATGCCA
* *
112019 CAGAGTTGTGGACTTAAAAGGATACCA
1 CGGAGTTGTGGACTTAAAAGGATGCCA
*
112046 CGGAGTTGTGGACTTTAAAAGGGTGCCA
1 CGGAGTTGTGGAC-TTAAAAGGATGCCA
* *
112074 TGGAGTAGTGGACTTTAAAAGGATGCCA
1 CGGAGTTGTGGAC-TTAAAAGGATGCCA
112102 CGGAGTTGTGGACTTAAAAGGATGCCA
1 CGGAGTTGTGGACTTAAAAGGATGCCA
112129 CGGAGTTGTGGACTT
1 CGGAGTTGTGGACTT
112144 TGTGTAGATA
Statistics
Matches: 356, Mismatches: 32, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.03
27 216 0.61
28 131 0.37
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
CGGAGTTGTGGACTTAAAAGGATGCCA
Found at i:111835 original size:82 final size:82
Alignment explanation
Indices: 111749--112144 Score: 614
Period size: 82 Copynumber: 4.8 Consensus size: 82
111739 GATGCCCTAA
* * *
111749 AGTTGTGGACTTAAAAGGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTGGTGGACT
1 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
111814 TTAAAAGAGTGCCACGG
66 TTAAAAGAGTGCCACGG
* * *
111831 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTACCACGGAGTGGTGGACT
1 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
111896 TTAAAAGAGTGCCACGG
66 TTAAAAGAGTGCCACGG
* *
111913 AGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
1 AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
* *
111978 TTAAAAGGGTGCCACGA
66 TTAAAAGAGTGCCACGG
* * *
111995 AGTTGTGGACTTTAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGGATACCACGGAGTTGTGGAC
1 AGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* *
112059 TTTAAAAGGGTGCCATGG
65 TTTAAAAGAGTGCCACGG
* *
112077 AGTAGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC
1 AGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
112142 TTT
65 TTT
112145 GTGTAGATAC
Statistics
Matches: 294, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
82 240 0.82
83 54 0.18
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (82 bp):
AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TTAAAAGAGTGCCACGG
Found at i:112144 original size:55 final size:54
Alignment explanation
Indices: 111719--112143 Score: 577
Period size: 55 Copynumber: 7.8 Consensus size: 54
111709 GGTGCAGCCG
* * **
111719 CGGAGTTGTGAACTTAAAAGGATGCC-CTAAAGTTGTGGACTTAAAAGGATGCCA
1 CGGAGTTGTGGACTTAAAAGGGTGCCAC-GGAGTTGTGGACTTAAAAGGATGCCA
* * *
111773 CAGAGTTATGGACTTAAAAGGGTGCCACGGAGTGGTGGACTTTAAAA-GAGTGCCA
1 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA-TGCCA
* *
111828 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTACCA
1 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCA
* * * *
111882 CGGAGTGGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTA
1 CGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCA
*
111937 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCA
1 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCA
* * *
111992 CGAAGTTGTGGACTTTAAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGATACCA
1 CGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCA
* *
112046 CGGAGTTGTGGACTTTAAAAGGGTGCCATGGAGTAGTGGACTTTAAAAGGATGCCA
1 CGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCA
*
112102 CGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
1 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
112144 TGTGTAGATA
Statistics
Matches: 331, Mismatches: 31, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
54 114 0.34
55 185 0.56
56 32 0.10
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (54 bp):
CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCA
Found at i:112782 original size:49 final size:50
Alignment explanation
Indices: 112694--112805 Score: 172
Period size: 49 Copynumber: 2.3 Consensus size: 50
112684 TCACAATTTG
* * *
112694 TATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTATTCATTA
1 TATCGATACATTCTAGGTTTTACCCAGATGTATCAATACATTATTCAATA
* *
112744 TATCGATACATTCTAGG-TTTACCCAGATGTATCAATACATTTTTCAATG
1 TATCGATACATTCTAGGTTTTACCCAGATGTATCAATACATTATTCAATA
112793 TATCGATACATTC
1 TATCGATACATTC
112806 AGGCATTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 41 0.72
50 16 0.28
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (50 bp):
TATCGATACATTCTAGGTTTTACCCAGATGTATCAATACATTATTCAATA
Found at i:115348 original size:28 final size:27
Alignment explanation
Indices: 115287--115357 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
115277 TTCATAATTG
115287 GGGATACTCCAACCCCGTATTTTCATCA
1 GGGATACTCCAACCCCGTATTTT-ATCA
*
115315 GGGATACTCCAACCCCGTTATTTT-TGA
1 GGGATACTCCAACCCCG-TATTTTATCA
*
115342 GGAGATACTCCGACCC
1 GG-GATACTCCAACCC
115358 TGGCTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 4 0.10
28 29 0.74
29 6 0.15
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTATTTTATCA
Found at i:115409 original size:79 final size:78
Alignment explanation
Indices: 115311--115644 Score: 334
Period size: 79 Copynumber: 4.3 Consensus size: 78
115301 CCGTATTTTC
* * * * *
115311 ATCAGGGATACTCCAACCCCGTTATTTTTGAGGAGATACTCCGACCCTGGCTTTA-TTTCTAAAA
1 ATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTTC-AAAA
* *
115375 TATTGATTTCTTATA
65 CATCGATTT-TTATA
* * * * *
115390 ATCGGGGATACTCCAACCCCATTATTTTC-ACAGGGATACTCCAACCCCGGCCTTA-TTTCTAAA
1 ATCAGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCCGACTTTATTTTC-AAA
* * *
115453 GCATCGATTTTCCACA
64 ACATCGATTTT-TATA
* * * * *
115469 ATCGGGGATATTTCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAAC
1 ATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTTCAAAAC
* *
115534 ATCAATTTCTATA
66 ATCGATTTTTATA
* * * * *
115547 ATCAGGGATATTCTAA-CCCTTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAAC
1 ATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTTCAAAAC
115611 ATCGATTTTTCATA
66 ATCGATTTTT-ATA
*
115625 ATCAGGGATACTCCAGCCCC
1 ATCAGGGATACTCCAACCCC
115645 ATTGTTATCC
Statistics
Matches: 212, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
77 53 0.25
78 33 0.16
79 121 0.57
80 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
ATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTTCAAAAC
ATCGATTTTTATA
Found at i:116288 original size:33 final size:33
Alignment explanation
Indices: 116246--116311 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
116236 GCCAAGGAAA
116246 TGTATCAATACATT-ATTCAATGTATCGATACAT
1 TGTATCAATACATTGA-TCAATGTATCGATACAT
**
116279 TGTATCAATACATTGATCTTTGTATCGATACAT
1 TGTATCAATACATTGATCAATGTATCGATACAT
116312 CTAGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (33 bp):
TGTATCAATACATTGATCAATGTATCGATACAT
Found at i:125158 original size:39 final size:39
Alignment explanation
Indices: 125104--125184 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
125094 CAGGGGTTAG
* *
125104 TCACCTAACCCATAACGGGAGATGTTACGCTCCTCTAGC
1 TCACCTAACCCATAACGGGAGATGTTACGCTCCCCCAGC
125143 TCACCTAACCCATAACGGGAGATGTTACGCTCCCCCAGC
1 TCACCTAACCCATAACGGGAGATGTTACGCTCCCCCAGC
125182 TCA
1 TCA
125185 AGGAAAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (39 bp):
TCACCTAACCCATAACGGGAGATGTTACGCTCCCCCAGC
Found at i:125752 original size:20 final size:20
Alignment explanation
Indices: 125729--125863 Score: 135
Period size: 20 Copynumber: 6.6 Consensus size: 20
125719 AGAATTCAAA
*
125729 GTATCGATACATGTCGCAAT
1 GTATCGATACATGTAGCAAT
* **
125749 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
*
125770 GTATCGATACATGTCGCAAT
1 GTATCGATACATGTAGCAAT
* **
125790 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
*
125811 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTAGCAAT
* **
125831 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
125852 GTATCGATACAT
1 GTATCGATACAT
125864 TTCTTGGCAG
Statistics
Matches: 92, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
20 46 0.50
21 46 0.50
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (20 bp):
GTATCGATACATGTAGCAAT
Found at i:125773 original size:21 final size:21
Alignment explanation
Indices: 125747--125863 Score: 148
Period size: 21 Copynumber: 5.7 Consensus size: 21
125737 ACATGTCGCA
125747 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
125768 ATGTATCGATACATGTCGCA-
1 ATGTATCGATACATGAAAAAG
125788 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
125809 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
125829 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
125850 ATGTATCGATACAT
1 ATGTATCGATACAT
125864 TTCTTGGCAG
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
20 32 0.41
21 46 0.59
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:125780 original size:41 final size:41
Alignment explanation
Indices: 125729--125863 Score: 261
Period size: 41 Copynumber: 3.3 Consensus size: 41
125719 AGAATTCAAA
125729 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
125770 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
*
125811 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
125852 GTATCGATACAT
1 GTATCGATACAT
125864 TTCTTGGCAG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (41 bp):
GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
Found at i:128158 original size:21 final size:21
Alignment explanation
Indices: 128125--128169 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
128115 TTGCAAGTTG
*
128125 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
128147 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
128167 AAA
1 AAA
128170 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:132095 original size:13 final size:13
Alignment explanation
Indices: 132077--132114 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
132067 CATTTTTCTT
132077 TGTATCGATACAA
1 TGTATCGATACAA
*
132090 TGTATCGATACAC
1 TGTATCGATACAA
132103 TGTATCGATACA
1 TGTATCGATACA
132115 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:134590 original size:20 final size:20
Alignment explanation
Indices: 134567--134660 Score: 98
Period size: 20 Copynumber: 4.6 Consensus size: 20
134557 AGAATTCAAA
*
134567 GTATCGATACATGTCGCAAT
1 GTATCGATACATGTAGCAAT
* **
134587 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
*
134608 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTAGCAAT
* **
134628 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAGCA-AT
134649 GTATCGATACAT
1 GTATCGATACAT
134661 TTCTTGGCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 30 0.50
21 30 0.50
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGTAGCAAT
Found at i:134611 original size:21 final size:21
Alignment explanation
Indices: 134585--134660 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
134575 ACATGTCGCA
134585 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
134606 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
134626 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
134647 ATGTATCGATACAT
1 ATGTATCGATACAT
134661 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:134618 original size:41 final size:41
Alignment explanation
Indices: 134567--134660 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
134557 AGAATTCAAA
134567 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
*
134608 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
134649 GTATCGATACAT
1 GTATCGATACAT
134661 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTCGCAATGTATCGATACATGAAAAAGAT
Found at i:134717 original size:13 final size:13
Alignment explanation
Indices: 134699--134724 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
134689 TACAGCAAGT
134699 ATGTATCGATACA
1 ATGTATCGATACA
134712 ATGTATCGATACA
1 ATGTATCGATACA
134725 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:140995 original size:12 final size:12
Alignment explanation
Indices: 140978--141016 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
140968 GAGGTGTTCA
140978 TTTATTTATTTT
1 TTTATTTATTTT
140990 TTTATTTATTTGT
1 TTTATTTATTT-T
*
141003 TTTGTTT-TTTT
1 TTTATTTATTTT
141014 TTT
1 TTT
141017 GTATAGTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 4 0.16
12 14 0.56
13 7 0.28
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:142273 original size:252 final size:253
Alignment explanation
Indices: 141814--142320 Score: 980
Period size: 252 Copynumber: 2.0 Consensus size: 253
141804 ACCAACCATC
141814 CTAGCTGAAACTATTCGGGCTCTCAGTTTTTGTAAGAAGACGGGTACAGGCCGCTTCATCGGATG
1 CTAGCTGAAACTATTCGGGCTCTCAGTTTTTGTAAGAAGACGGGTACAGGCCGCTTCATCGGATG
*
141879 TGCACCACTCCTTCACATTTGGCTCATCAGTCACTTCGGTCTAGAAGAAAACAGGATAGCATACA
66 TGCACCACTCCTTCACATTTGGCTCATCAGTCACTTCGGTCCAGAAGAAAACAGGATAGCATACA
141944 ATTTCCTACCCAACTTTAGTCCTATCTCCAAAGCCATTGAAAAGGAATGGCTTCAAGACAAGTCT
131 ATTTCCTACCCAACTTTAGTCCTATCTCCAAAGCCATTGAAAAGGAATGGCTTCAAGACAAGTCT
142009 AAAAAGCAATGGGTCCAGAGACTGCGAAACCTCAAGGGAGAAGAAGTAACATAGAGGA
196 AAAAAGCAATGGGTCCAGAGACTGCGAAACCTCAAGGGAGAAGAAGTAACATAGAGGA
142067 CTAGCTGAAACTATTCGGGCTCTCAGTTTTTGTAAGAAGACGGGTACAGGCCGCTTCATCGGATG
1 CTAGCTGAAACTATTCGGGCTCTCAGTTTTTGTAAGAAGACGGGTACAGGCCGCTTCATCGGATG
142132 TGCACCACTCCTTCACATTTGGCTCATCAGTCAC-TCGGTCCAGAAGAAAACAGGATAGCATACA
66 TGCACCACTCCTTCACATTTGGCTCATCAGTCACTTCGGTCCAGAAGAAAACAGGATAGCATACA
142196 ATTTCCTACCCAACTTTAGTCCTATCTCCAAAGCCATTGAAAAGGAATGGCTTCAAGACAAGTCT
131 ATTTCCTACCCAACTTTAGTCCTATCTCCAAAGCCATTGAAAAGGAATGGCTTCAAGACAAGTCT
* *
142261 GAAAAGCAATGGGTCCAGAGACTGTGAAACCTCAAGGGAGAAGAAGTAACATAGAGGA
196 AAAAAGCAATGGGTCCAGAGACTGCGAAACCTCAAGGGAGAAGAAGTAACATAGAGGA
142319 CT
1 CT
142321 TGTTAGTTTT
Statistics
Matches: 251, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
252 152 0.61
253 99 0.39
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (253 bp):
CTAGCTGAAACTATTCGGGCTCTCAGTTTTTGTAAGAAGACGGGTACAGGCCGCTTCATCGGATG
TGCACCACTCCTTCACATTTGGCTCATCAGTCACTTCGGTCCAGAAGAAAACAGGATAGCATACA
ATTTCCTACCCAACTTTAGTCCTATCTCCAAAGCCATTGAAAAGGAATGGCTTCAAGACAAGTCT
AAAAAGCAATGGGTCCAGAGACTGCGAAACCTCAAGGGAGAAGAAGTAACATAGAGGA
Found at i:153348 original size:52 final size:51
Alignment explanation
Indices: 153270--153418 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
153260 CGAAATATGA
153270 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
153322 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
153374 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
153419 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:153425 original size:13 final size:13
Alignment explanation
Indices: 153407--153431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153397 CAAAGATCAG
153407 TGTATCGATACAA
1 TGTATCGATACAA
153420 TGTATCGATACA
1 TGTATCGATACA
153432 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:153488 original size:33 final size:33
Alignment explanation
Indices: 153451--153517 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
153441 AGTAGCTTAA
153451 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
153484 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
153517 A
1 A
153518 AATCGTTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:153491 original size:13 final size:13
Alignment explanation
Indices: 153473--153497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153463 CAAAAAAATA
153473 TGTATCGATACAT
1 TGTATCGATACAT
153486 TGTATCGATACA
1 TGTATCGATACA
153498 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:154591 original size:9 final size:9
Alignment explanation
Indices: 154577--154630 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
154567 CCTTCTTTTT
154577 AAAAAAAAC
1 AAAAAAAAC
*
154586 AAAAAAACAA
1 AAAAAAA-AC
154596 AAAAAAAAC
1 AAAAAAAAC
*
154605 AACAAAAA-
1 AAAAAAAAC
*
154613 AAACAAAAC
1 AAAAAAAAC
154622 AAAGAAAAA
1 AAA-AAAAA
154631 ATAGAGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
8 6 0.17
9 18 0.50
10 12 0.33
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:154599 original size:17 final size:17
Alignment explanation
Indices: 154577--154631 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 17
154567 CCTTCTTTTT
154577 AAAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAC
*
154594 --AAAAAA-AAAACAAC
1 AAAAAAAACAAAAAAAC
*
154608 AAAAAAAACAAAACAAAG
1 AAAAAAAACAAAA-AAAC
154626 AAAAAA
1 AAAAAA
154632 TAGAGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.23
15 6 0.19
16 6 0.19
17 4 0.13
18 8 0.26
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:154603 original size:14 final size:14
Alignment explanation
Indices: 154579--154631 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
154569 TTCTTTTTAA
154579 AAAAAACAAAAAAAC
1 AAAAAA-AAAAAAAC
*
154594 AAAAAAAAAACAAC
1 AAAAAAAAAAAAAC
*
154608 AAAAAAAACAAAAC
1 AAAAAAAAAAAAAC
154622 AAAGAAAAAA
1 AAA-AAAAAA
154632 TAGAGAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:154608 original size:22 final size:22
Alignment explanation
Indices: 154577--154630 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
154567 CCTTCTTTTT
154577 AAAAAAAAC-AAAAAAACAAAA
1 AAAAAAAACAAAAAAAACAAAA
154598 AAAAAACAACAAAAAAAACAAAA
1 AAAAAA-AACAAAAAAAACAAAA
154621 CAAAGAAAAA
1 -AAA-AAAAA
154631 ATAGAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.21
22 3 0.10
23 12 0.41
24 5 0.17
25 3 0.10
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAAAAACAAAAAAAACAAAA
Found at i:154631 original size:11 final size:11
Alignment explanation
Indices: 154577--154620 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
154567 CCTTCTTTTT
*
154577 AAAAAA-AACA
1 AAAAAACAAAA
154587 AAAAAACAAAA
1 AAAAAACAAAA
154598 AAAAAACAACAA
1 AAAAAACAA-AA
154610 AAAAAACAAAA
1 AAAAAACAAAA
154621 CAAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 6 0.19
11 14 0.45
12 11 0.35
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:155787 original size:55 final size:54
Alignment explanation
Indices: 155727--155890 Score: 157
Period size: 55 Copynumber: 2.9 Consensus size: 54
155717 AGAGCAGGAC
* ** *
155727 GCCTTTCAAAACCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGAATGAT
1 GCCTTTCAAAACCCACACAAGCTGGTGGCA-CCTTCAGTCCTCAAAGAGAATGAT
* ***
155782 GCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCGGGAT
1 GCCTTTCAAAACCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGAATGAT
* * *
155836 GCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCTTCAAAGAG
1 GCC-TTT-C----AAAACCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAG
155891 CGGGACGCCT
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
54 21 0.23
55 31 0.34
56 1 0.01
60 27 0.29
61 12 0.13
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
GCCTTTCAAAACCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGAATGAT
Found at i:155910 original size:61 final size:61
Alignment explanation
Indices: 155728--156140 Score: 468
Period size: 61 Copynumber: 6.9 Consensus size: 61
155718 GAGCAGGACG
* * ** * * * *
155728 CCTTTCAAAACCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGAATGATGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
155788 -C----AAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCGGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
155843 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCTTCAAAGAGCGGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
155904 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTTAAGGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACGCCTTTT
* * *
155965 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAGGAGCAGGACGCATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
156026 CCTTTTAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATG-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTT-T
** * * *
156087 CCTTGCAAAGCCCATACAAGTTGGTGGCACCTTCTAGTCCCCAAGGAGCAGGAC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
156141 CCATTTCATT
Statistics
Matches: 309, Mismatches: 34, Indels: 19
0.85 0.09 0.05
Matches are distributed among these distances:
54 19 0.06
55 26 0.08
56 1 0.00
59 1 0.00
60 34 0.11
61 223 0.72
62 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:156799 original size:29 final size:30
Alignment explanation
Indices: 156737--156805 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
156727 TTTCACAATT
* *
156737 TGTATCGATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTCTGGGTTTTACCCAAA
*
156767 TGTATTGATACATTCTGGG-TTTACCCAAA
1 TGTATCGATACATTCTGGGTTTTACCCAAA
156796 TGTATCGATA
1 TGTATCGATA
156806 TATTTTTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 17 0.49
30 18 0.51
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (30 bp):
TGTATCGATACATTCTGGGTTTTACCCAAA
Found at i:159214 original size:51 final size:51
Alignment explanation
Indices: 159159--159255 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
159149 CTAACCCCGG
*
159159 TTTTATTTCTAAAACA-TCAATTTTTCACAATCGGGGATACTCCAACTCTGA
1 TTTTATTTCCAAAACACT-AATTTTTCACAATCGGGGATACTCCAACTCTGA
* **
159210 TTTTATTTCCAAAATACTAATTTTTCAGGATCGGGGATACTCCAAC
1 TTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
159256 CCCGTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (51 bp):
TTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACTCTGA
Found at i:159275 original size:28 final size:28
Alignment explanation
Indices: 159239--159293 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
159229 ATTTTTCAGG
159239 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
159267 ATCGGGGATACTCCAACCCTGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
159294 TCGAGGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:159429 original size:158 final size:157
Alignment explanation
Indices: 159267--159550 Score: 403
Period size: 158 Copynumber: 1.8 Consensus size: 157
159257 CCGTTATTTC
* * *
159267 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATAC-CCTGACCCCGGTTTTA-TTTCTAAA
1 ATCGGAGATACTCCAACCCTGTTATTTTCGAGGGGATACTCC-AACCCCGATTTTATTTTC-AAA
* * *
159330 ATATTGA-TTTCTCACAATCGGGGATACTCCAACCCCATTATTTTCACGGAGATACTCCAACCCC
64 ACA-TCATTTTCT-ACAATCAGGGATACTCCAACCCCATTATTTTCACGGAGATACTCCAACCCC
159394 GGCTTTATTTTTAAAGCATCAATTTTTCACA
127 GGCTTTATTTTTAAAGCATCAATTTTTCACA
*
159425 ATCGGAGATACTCCAACCCTGTTCTTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAAC
1 ATCGGAGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAAC
* * ** *
159490 ATCATTTTCTATAATCAGGGATACTCCAACCCTATTATTTTCTTGGGGATACTCCAACCCC
66 ATCATTTTCTACAATCAGGGATACTCCAACCCCATTATTTTCACGGAGATACTCCAACCCC
159551 AATTTTATTT
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
157 47 0.42
158 58 0.52
159 6 0.05
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (157 bp):
ATCGGAGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAAC
ATCATTTTCTACAATCAGGGATACTCCAACCCCATTATTTTCACGGAGATACTCCAACCCCGGCT
TTATTTTTAAAGCATCAATTTTTCACA
Found at i:159538 original size:78 final size:80
Alignment explanation
Indices: 159271--159596 Score: 319
Period size: 79 Copynumber: 4.1 Consensus size: 80
159261 TATTTCATCG
* * * *
159271 GGGATACTCCAACCCTGTTATTTTCGAGGGGATAC-CCTGACCCCGGTTTTA-TTTCTAAAATAT
1 GGGATACTCCAACCCTATTATTTTCGAGGGGATACTCC-AACCCCGATTTTATTTTC-AAAACAT
** *
159334 TGA-TTTCTCACAATCG
64 CAATTTTCTCACAATCA
* * ** * *
159350 GGGATACTCCAACCCCATTATTTTC-ACGGAGATACTCCAACCCCGGCTTTATTTTTAAAGCATC
1 GGGATACTCCAACCCTATTATTTTCGA-GGGGATACTCCAACCCCGATTTTATTTTCAAAACATC
159414 AATTTT-TCACAATC-
65 AATTTTCTCACAATCA
* *
159428 GGAGATACTCCAACCCTGTTCTTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATC
1 GG-GATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATC
*
159493 -ATTTTCT-ATAATCA
65 AATTTTCTCACAATCA
** * * * * *
159507 GGGATACTCCAACCCTATTATTTTCTTGGGGATACTCCAACCCCAATTTTATTTCCAGAATACCA
1 GGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCA
*
159572 ATTTTC-CATAATCA
66 ATTTTCTCACAATCA
* *
159586 AGGATAATCCA
1 GGGATACTCCA
159597 GCCCCATTGT
Statistics
Matches: 207, Mismatches: 30, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
78 66 0.32
79 132 0.64
80 9 0.04
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (80 bp):
GGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCA
ATTTTCTCACAATCA
Found at i:166315 original size:13 final size:13
Alignment explanation
Indices: 166297--166322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
166287 CAATTTTTTG
166297 TGTATCGATACAT
1 TGTATCGATACAT
166310 TGTATCGATACAT
1 TGTATCGATACAT
166323 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:166333 original size:32 final size:33
Alignment explanation
Indices: 166277--166340 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
166267 TACAAGCCAA
*
166277 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
166310 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
166341 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:166334 original size:19 final size:19
Alignment explanation
Indices: 166277--166340 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
166267 TACAAGCCAA
*
166277 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
166297 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
166310 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
166329 TGTATCGATACA
1 TGTATCGATACA
166341 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:166488 original size:21 final size:21
Alignment explanation
Indices: 166464--166505 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
166454 GTCAACCTTA
166464 ATGTATTAATACCAATA-GTAT
1 ATGTATTAATA-CAATACGTAT
*
166485 ATGTATTGATACAATACGTAT
1 ATGTATTAATACAATACGTAT
166506 TTTTACTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
ATGTATTAATACAATACGTAT
Found at i:168136 original size:13 final size:13
Alignment explanation
Indices: 168118--168142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
168108 ACTGAAGTAA
168118 TGTATCGATACAT
1 TGTATCGATACAT
168131 TGTATCGATACA
1 TGTATCGATACA
168143 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.