Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006742.1 Hibiscus syriacus cultivar Beakdansim tig00016926_pilon, whole genome shotgun sequence
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: 76865
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3722 original size:11 final size:11
Alignment explanation
Indices: 3708--3746 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
3698 AAAAGTGAAG
3708 AAGAAAAAAAA
1 AAGAAAAAAAA
3719 AAGAAAAAAAA
1 AAGAAAAAAAA
*
3730 AAGAGAAAAAA
1 AAGAAAAAAAA
*
3741 GAGAAA
1 AAGAAA
3747 GGGGGGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:3727 original size:13 final size:13
Alignment explanation
Indices: 3705--3740 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
3695 AGAAAAAGTG
3705 AAGAAGAAAAAAAA
1 AAGAA-AAAAAAAA
3719 AAGAAAAAAAAAA
1 AAGAAAAAAAAAA
*
3732 GAGAAAAAA
1 AAGAAAAAA
3741 GAGAAAGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:4107 original size:18 final size:18
Alignment explanation
Indices: 4084--4119 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4074 GTTCATTTTA
4084 TTTGAAATTCAATTTATT
1 TTTGAAATTCAATTTATT
4102 TTTGAAATTCAATTTATT
1 TTTGAAATTCAATTTATT
4120 CTTCTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTGAAATTCAATTTATT
Found at i:5015 original size:83 final size:83
Alignment explanation
Indices: 4876--5431 Score: 943
Period size: 83 Copynumber: 6.7 Consensus size: 83
4866 CATTAACTGA
* *
4876 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTGGACAG
1 AAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
4940 AACCAATCATTGAATTTGG
65 AACCAATCATTGAATTTGG
* *
4959 AAGATGAATGTGCTCATAGAATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
5024 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
*
5042 AAGATGAATGTGCTCATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
5107 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
* * *
5125 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* *
5190 ACAAATCATTGAATTTAG
66 ACCAATCATTGAATTTGG
* *
5208 AAAATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
5273 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
* *
5291 AAGATGAATGTGCTCATAGAATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
5356 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
* * *
5374 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTAAGTTATTTGATCTGGTT
1 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
5432 TTGTAAGAAC
Statistics
Matches: 447, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
83 446 1.00
84 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (83 bp):
AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTGG
Found at i:6483 original size:222 final size:224
Alignment explanation
Indices: 6185--6943 Score: 1394
Period size: 225 Copynumber: 3.4 Consensus size: 224
6175 ATTGACATTT
6185 CCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAA
6249 TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAGGTTCATAATG
66 TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAGGTTCATAATG
6314 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG-ATTTGTTCAACCTTTTGTC
131 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTC
6378 TGAATTC-TCACTTGATGGATTATTTTTG
196 TGAATTCATCACTTGATGGATTATTTTTG
6406 CCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGA
*
6470 ATTTGTTCAACCTTTTGTCTGAATTCGTCACTTGATGGATTATTTTTGCCAGAGAGGTTCATAAT
65 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAGGTTCATAAT
6535 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
130 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
*
6600 CTAAATTCATCACTTGATGGATTATTTTTG
195 CTGAATTCATCACTTGATGGATTATTTTTG
*
6630 CCAGATAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGA
6695 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCAT-A
65 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAG-AGGTTCATAA
6759 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
129 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
6824 TCTGAATTCATCACTTGATGGATTATTTTTG
194 TCTGAATTCATCACTTGATGGATTATTTTTG
6855 CCAGAGAAGGTTCATAATGAG-AG-ACTCATCTGAAG-AG--GAAGAAGTTCATAATGAGAAGAA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAA
6915 TTTGTTCAACCTTTTGTCTGAATTCATCA
66 TTTGTTCAACCTTTTGTCTGAATTCATCA
6944 TCTGAAGAAT
Statistics
Matches: 527, Mismatches: 6, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
219 52 0.10
221 39 0.07
222 136 0.26
223 37 0.07
224 30 0.06
225 225 0.43
226 8 0.02
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (224 bp):
CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAA
TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAGGTTCATAATG
AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTC
TGAATTCATCACTTGATGGATTATTTTTG
Found at i:6553 original size:112 final size:112
Alignment explanation
Indices: 6185--6943 Score: 1376
Period size: 112 Copynumber: 6.8 Consensus size: 112
6175 ATTGACATTT
*
6185 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAA
1 CCAGAGAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
6249 TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
6296 CCAGAGAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG-A
1 CCAGAGAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
6360 TTTGTTCAACCTTTTGTCTGAATTC-TCACTTGATGGATTATTTTTG
66 TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
*
6406 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 CCAGAGAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
*
6471 TTTGTTCAACCTTTTGTCTGAATTCGTCACTTGATGGATTATTTTTG
66 TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
6518 CCAGAGAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 CCAGAGAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
*
6583 TTTGTTCAACCTTTTGTCTAAATTCATCACTTGATGGATTATTTTTG
66 TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
*
6630 CCAGATAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGA-GAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
6695 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
65 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
6743 CCAGAGAAGGTTCAT-ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAG-AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
6807 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
65 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
6855 CCAGAGAAGGTTCATAATGAG-AG-ACTCATCTGAAG-A-G--GAAGAAGTTCATAATGAGAAGA
1 CCAGAG-AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
6914 ATTTGTTCAACCTTTTGTCTGAATTCATCA
65 ATTTGTTCAACCTTTTGTCTGAATTCATCA
6944 TCTGAAGAAT
Statistics
Matches: 634, Mismatches: 8, Indels: 16
0.96 0.01 0.02
Matches are distributed among these distances:
107 52 0.08
109 1 0.00
110 84 0.13
111 101 0.16
112 273 0.43
113 123 0.19
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (112 bp):
CCAGAGAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
TTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
Found at i:7163 original size:111 final size:110
Alignment explanation
Indices: 6941--7203 Score: 359
Period size: 111 Copynumber: 2.3 Consensus size: 110
6931 TCTGAATTCA
* * *
6941 TCATCTGAAGAATGAAGAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAA-G--GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTCAAATCA
*
7006 TCACTTGATGGATTATTTTTGCCTGAGAAAGTTCATAATGAGAAGAAC
63 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
7054 TCATCTGAAGAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAAACCTTTT-TGCTCAAATCTA
1 TCATCTGAAGAAGGAAGAAGTTCATAATGAGAAGAATTTGTTC-AACCTTTTGT-CTCAAATC-A
* * *
7118 TTACTTGATGGGTTATTTTT-TCAGAGAAAGTTCATAATGAGAAGAAC
63 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
*
7165 TCATCTGAAGAAAGAAGAGAAAGTTCATAATGAGAAGAA
1 TCATCTGAAG-AAGGA-AG-AAGTTCATAATGAGAAGAA
7204 CTCATCAAAG
Statistics
Matches: 136, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
110 30 0.22
111 49 0.36
112 24 0.18
113 14 0.10
114 19 0.14
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (110 bp):
TCATCTGAAGAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTCAAATCATCA
CTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
Found at i:7455 original size:3 final size:3
Alignment explanation
Indices: 7447--7501 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
7437 TTTTTACTCA
*
7447 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7494 TAT TAT TA
1 TAT TAT TA
7502 ATATATTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7964 original size:21 final size:21
Alignment explanation
Indices: 7938--7982 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
7928 CCCGAACCTG
7938 AAAAAAA-AGGAGACAGAGACA
1 AAAAAAAGAGGA-ACAGAGACA
*
7959 AAAAAAAGAGGAACAGAGAGA
1 AAAAAAAGAGGAACAGAGACA
7980 AAA
1 AAA
7983 CAGAGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.69, C:0.07, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAGGAACAGAGACA
Found at i:7982 original size:19 final size:19
Alignment explanation
Indices: 7937--8002 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
7927 ACCCGAACCT
*
7937 GAAAAAAAAGGAGACAGAGACA
1 GAAAAAAGAGGA-ACAGAG--A
*
7959 AAAAAAAGAGGAACAGAGA
1 GAAAAAAGAGGAACAGAGA
* *
7978 GAAAACAGAGAAACA-AGA
1 GAAAAAAGAGGAACAGAGA
7996 GACAAAA
1 GA-AAAA
8003 CCGAGAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 5 0.14
19 16 0.43
21 6 0.16
22 10 0.27
ACGTcount: A:0.67, C:0.09, G:0.24, T:0.00
Consensus pattern (19 bp):
GAAAAAAGAGGAACAGAGA
Found at i:7996 original size:20 final size:19
Alignment explanation
Indices: 7950--8010 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
7940 AAAAAAGGAG
* *
7950 ACAGAGACAAAAAAAAGAGGA
1 ACAGAGAC--AAAACAGAGAA
*
7971 ACAGAGAGAAAACAGAGAA
1 ACAGAGACAAAACAGAGAA
*
7990 ACAAGAGACAAAACCGAGAA
1 AC-AGAGACAAAACAGAGAA
8010 A
1 A
8011 AAATATATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 11 0.32
20 16 0.47
21 7 0.21
ACGTcount: A:0.64, C:0.13, G:0.23, T:0.00
Consensus pattern (19 bp):
ACAGAGACAAAACAGAGAA
Found at i:8884 original size:34 final size:35
Alignment explanation
Indices: 8824--8898 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 35
8814 TCATTTATTT
* *
8824 TTGTATTTTTTATTGCTTTTAAATATAGTTAGA-A
1 TTGTATTTTTTATTACTTTTAAATATAGTTAAATA
* * *
8858 TTGTATTTTTTTTTACTTGTT-TATATATTTAAATA
1 TTGTATTTTTTATTACTT-TTAAATATAGTTAAATA
8893 TTGTAT
1 TTGTAT
8899 AAATATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
34 25 0.74
35 9 0.26
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (35 bp):
TTGTATTTTTTATTACTTTTAAATATAGTTAAATA
Found at i:8930 original size:13 final size:13
Alignment explanation
Indices: 8912--8958 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
8902 TATATATAAA
8912 TAAATATTTATTT
1 TAAATATTTATTT
*
8925 TAAATAAATTATTT
1 TAAAT-ATTTATTT
8939 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
8952 TCAATAT
1 TAAATAT
8959 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:14034 original size:20 final size:20
Alignment explanation
Indices: 14009--14052 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
13999 CTTATTTGAT
14009 CAACATGTCTTTTGTATATA
1 CAACATGTCTTTTGTATATA
14029 CAACATGTCTTTTGTATATA
1 CAACATGTCTTTTGTATATA
14049 CAAC
1 CAAC
14053 CGTTTGTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (20 bp):
CAACATGTCTTTTGTATATA
Found at i:14450 original size:50 final size:54
Alignment explanation
Indices: 14375--14571 Score: 197
Period size: 59 Copynumber: 3.5 Consensus size: 54
14365 CACACTCCAA
* ** *
14375 TTTGTATTTTCATCACGACTAGGAGGG-T-T-GG-TTAGAGACATATTATCGAG
1 TTTGTCTTTTCATTGCGACTAGGAGGGTTATAGGCTTAGAGCCATATTATCGAG
14425 TTTGTCTTTTCATTGCGACTAGGAGGGTTCGATAGGACTCTTAGAGCCATATTATCGAG
1 TTTGTCTTTTCATTGCGACTAGGAGGGTT--ATAGG---CTTAGAGCCATATTATCGAG
* *
14484 TTTGCCTTTTCATTGCGACTAAGAGGGTTCGATAGGACTCTTAGAGCCATATTATCGAG
1 TTTGTCTTTTCATTGCGACTAGGAGGGTT--ATAGG---CTTAGAGCCATATTATCGAG
*
14543 TTT-TCCTTTTCATTGTGACTAGGAGGGTT
1 TTTGT-CTTTTCATTGCGACTAGGAGGGTT
14572 CGATAAGACA
Statistics
Matches: 128, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
50 24 0.19
51 1 0.01
54 1 0.01
55 2 0.02
59 100 0.78
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (54 bp):
TTTGTCTTTTCATTGCGACTAGGAGGGTTATAGGCTTAGAGCCATATTATCGAG
Found at i:14498 original size:59 final size:59
Alignment explanation
Indices: 14406--14585 Score: 297
Period size: 59 Copynumber: 3.1 Consensus size: 59
14396 GGAGGGTTGG
* *
14406 TTAGAGACATATTATCGAGTTTGTCTTTTCATTGCGACTAGGAGGGTTCGATAGGACTC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGACTC
*
14465 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAAGAGGGTTCGATAGGACTC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGACTC
* * * *
14524 TTAGAGCCATATTATCGAGTTTTCCTTTTCATTGTGACTAGGAGGGTTCGATAAGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGACTC
14583 TTA
1 TTA
14586 TCCATATATT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 113 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGACTC
Found at i:17669 original size:13 final size:13
Alignment explanation
Indices: 17651--17680 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17641 GTCACAACCC
*
17651 GACCCGACCCGTT
1 GACCCGACCAGTT
17664 GACCCGACCAGTT
1 GACCCGACCAGTT
17677 GACC
1 GACC
17681 GTTGACCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCAGTT
Found at i:20261 original size:24 final size:24
Alignment explanation
Indices: 20139--20254 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
20129 TTCGATTTGA
20139 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
20163 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
20187 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
20211 ATTATGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
20234 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
20255 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:20277 original size:24 final size:24
Alignment explanation
Indices: 20191--20264 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
20181 ACATGGATTC
* *
20191 TGATCTGATACTTGACTTGGA-TTA
1 TGATATGATACTTGACCT-GATTTA
* * *
20215 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
20239 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
20263 TG
1 TG
20265 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:22426 original size:59 final size:59
Alignment explanation
Indices: 22334--22454 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
22324 GGAGGGTTGG
* *
22334 TTAGAGTCATATTATCGAGTTTGTCTTTTCATTGTGACTATGAGGGTTCGATAGGACAC
1 TTAGAGTCATATTATCGAGTTTGCCTTTTCATTGAGACTATGAGGGTTCGATAGGACAC
*
22393 TTAGAGTTATATTATCGAGTTTGCCTTTTCATTGAGACTATGAGGGTTCGATAGGACAC
1 TTAGAGTCATATTATCGAGTTTGCCTTTTCATTGAGACTATGAGGGTTCGATAGGACAC
22452 TTA
1 TTA
22455 TCCATCTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (59 bp):
TTAGAGTCATATTATCGAGTTTGCCTTTTCATTGAGACTATGAGGGTTCGATAGGACAC
Found at i:24891 original size:18 final size:18
Alignment explanation
Indices: 24850--24887 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
24840 TTATTTTTAC
*
24850 TTTAATTGCTTTTACTTA
1 TTTAATCGCTTTTACTTA
24868 TTTAATCGCTTTTA-TTA
1 TTTAATCGCTTTTACTTA
24885 TTT
1 TTT
24888 TAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTAATCGCTTTTACTTA
Found at i:28825 original size:15 final size:15
Alignment explanation
Indices: 28805--28834 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28795 TTGTACTTCC
*
28805 AGATGAAAAGGGAGA
1 AGATGAAAAGAGAGA
28820 AGATGAAAAGAGAGA
1 AGATGAAAAGAGAGA
28835 TACCTGAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.07
Consensus pattern (15 bp):
AGATGAAAAGAGAGA
Found at i:28986 original size:15 final size:15
Alignment explanation
Indices: 28968--29033 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
28958 AAATGGAAAA
28968 TGAATTACTGAAATT
1 TGAATTACTGAAATT
28983 TGAATTACT-AGAATT
1 TGAATTACTGA-AATT
*
28998 TGAATTACTGGAAA-A
1 TGAATTACT-GAAATT
* *
29013 TAAATTACTGGAATT
1 TGAATTACTGAAATT
29028 TGAATT
1 TGAATT
29034 CTGGAAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
14 4 0.10
15 35 0.83
16 2 0.05
17 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:29047 original size:29 final size:30
Alignment explanation
Indices: 28968--29049 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
28958 AAATGGAAAA
*
28968 TGAATTACT-GAAATTTGAATTACTAGAATT
1 TGAATTACTGGAAA-ATGAATTACTAGAATT
* *
28998 TGAATTACTGGAAAATAAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTAGAATT
29028 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
29050 ATTTCTGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 15 0.32
30 28 0.60
31 4 0.09
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTAGAATT
Found at i:29055 original size:20 final size:20
Alignment explanation
Indices: 29032--29081 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
29022 GGAATTTGAA
29032 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
29052 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
29072 TTCTGGAAAA
1 TTCTGGAAAA
29082 CATCTGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:29289 original size:28 final size:27
Alignment explanation
Indices: 29248--29312 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
29238 TTTACTAAAA
* *
29248 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAAAATTAT
29276 TCATTATTAAATATATAAAAAAAATTAT
1 T-ATTATTAAATATATAAAAAAAATTAT
29304 TATATATTA
1 TAT-TATTA
29313 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 25 0.76
29 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAAAATTAT
Found at i:29313 original size:31 final size:30
Alignment explanation
Indices: 29247--29351 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 30
29237 CTTTACTAAA
29247 ATATTATTGAAATATAT--AAATAATATTAT
1 ATATTATT-AAATATATAAAAATAATATTAT
*
29276 -TCATTATTAAATATATAAAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAATAA-TATTAT
29307 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-ATAATAT-TAT
29336 ATATTATTATAATATA
1 ATATTATTA-AATATA
29352 ATTGATTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
28 9 0.14
29 23 0.35
30 14 0.22
31 18 0.28
32 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (30 bp):
ATATTATTAAATATATAAAAATAATATTAT
Found at i:29323 original size:24 final size:23
Alignment explanation
Indices: 29278--29337 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
29268 AATATTATTC
*
29278 ATTATTAAATA-TA-TAAAAAAA
1 ATTATTATATATTATTAAAAAAA
29299 ATTATTATATATTATTAAAATAAA
1 ATTATTATATATTATTAAAA-AAA
* * *
29323 AATATAATATCTTAT
1 ATTATTATATATTAT
29338 ATTATTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 2 0.06
23 5 0.16
24 15 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATTATATATTATTAAAAAAA
Found at i:29390 original size:22 final size:23
Alignment explanation
Indices: 29365--29408 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
29355 GATTATTTTA
29365 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
29387 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
29409 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:29413 original size:22 final size:22
Alignment explanation
Indices: 29369--29425 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
29359 ATTTTATATA
* *
29369 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
29390 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
29412 ATATTTTAAATATT
1 ATATTATAAATATT
29426 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:29424 original size:52 final size:51
Alignment explanation
Indices: 29305--29425 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
29295 AAAAATTATT
**
29305 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
29356 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
29410 ATATATTTTAAATATT
1 ATATATTTTAAATATT
29426 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:29650 original size:28 final size:29
Alignment explanation
Indices: 29618--29725 Score: 82
Period size: 28 Copynumber: 3.9 Consensus size: 29
29608 ATTACATTCC
29618 GGAAAACGAATTACGTG-AAACAAATACG
1 GGAAAACGAATTACGTGAAAACAAATACG
** *
29646 GGAAAACGTTTTCCG-GAAAACAAATTACG
1 GGAAAACGAATTACGTGAAAACAAA-TACG
* ** * ** *
29675 TG-AAAC-AAACACGGGAAAACATTTTCG
1 GGAAAACGAATTACGTGAAAACAAATACG
29702 GGAAAACGAATTACGTG-AAACAAA
1 GGAAAACGAATTACGTGAAAACAAA
29726 CACGAGAACT
Statistics
Matches: 57, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
27 7 0.12
28 39 0.68
29 11 0.19
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (29 bp):
GGAAAACGAATTACGTGAAAACAAATACG
Found at i:29673 original size:42 final size:42
Alignment explanation
Indices: 29614--29729 Score: 196
Period size: 42 Copynumber: 2.8 Consensus size: 42
29604 ATGAATTACA
* *
29614 TTCCGGAAAACGAATTACGTGAAACAAATACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
29656 TTCCGGAAAACAAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
29698 TTCGGGAAAACGAATTACGTGAAACAAACACG
1 TTCCGGAAAACGAATTACGTGAAACAAACACG
29730 AGAACTCGGG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:30083 original size:12 final size:12
Alignment explanation
Indices: 30066--30093 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30056 CAAAGAAATT
30066 AAATTTATTTTA
1 AAATTTATTTTA
30078 AAATTTATTTTA
1 AAATTTATTTTA
30090 AAAT
1 AAAT
30094 ATAGATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:30106 original size:22 final size:22
Alignment explanation
Indices: 30080--30246 Score: 205
Period size: 22 Copynumber: 7.6 Consensus size: 22
30070 TTATTTTAAA
*
30080 ATTTATTTTAAAATATAGATTT
1 ATTTATTTTAAAATATAGATTG
***
30102 ATTTATTTTAAAATATA-AAAA
1 ATTTATTTTAAAATATAGATTG
30123 ATTTTATTTTAAAATAT-GAATTG
1 A-TTTATTTTAAAATATAG-ATTG
30146 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
*
30168 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
***
30190 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATAGATTG
*
30211 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATAGATTG
30234 ATTTATTTTAAAA
1 ATTTATTTTAAAA
30247 AAAATTATTA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
21 5 0.04
22 115 0.91
23 6 0.05
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATAGATTG
Found at i:30131 original size:44 final size:43
Alignment explanation
Indices: 30077--30246 Score: 250
Period size: 44 Copynumber: 3.9 Consensus size: 43
30067 AATTTATTTT
* *
30077 AAAATTTATTTTAAAATATAGATTTATTTATTTTAAAATATAA
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATAA
*
30120 AAAATTTTATTTTAAAATATGAATTGATTTATTTTAAAATATAGA
1 AAAA-TTTATTTTAAAATATGGATTGATTTATTTTAAAATATA-A
***
30165 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAA
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATAT-AA
*
30209 AAATTTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAA
30247 AAAATTATTA
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
43 4 0.04
44 106 0.94
45 3 0.03
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (43 bp):
AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATAA
Found at i:30195 original size:66 final size:65
Alignment explanation
Indices: 30077--30246 Score: 234
Period size: 66 Copynumber: 2.6 Consensus size: 65
30067 AATTTATTTT
*
30077 AAAATTTATTTTAAAATATAGATTTATTTATTTTAAAATATAAAAAATTTTATTTTAAAATATGA
1 AAAATTTATTTTAAAATATAGATTGATTTATTTTAAAATATAAAAAATTTTATTTTAAAATATGA
** * ***
30142 ATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGA-TTTATTTTAAAATAT
1 A-AAATTTATTTTAAAATATAGATTGATTTATTTTAAAATAT-AAAAAATTTTATTTTAAAATAT
30206 GA
64 GA
*
30208 AAAATTTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 AAAA-TTTATTTTAAAATATAGATTGATTTATTTTAAAA
30247 AAAATTATTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 88 0.96
67 2 0.02
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (65 bp):
AAAATTTATTTTAAAATATAGATTGATTTATTTTAAAATATAAAAAATTTTATTTTAAAATATGA
Found at i:30328 original size:31 final size:31
Alignment explanation
Indices: 30271--30329 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
30261 AGTTGTATGG
* *
30271 ATTATTTAAATTTCATTATTATAAAACTAAA
1 ATTATTTAAATTTCAATATTACAAAACTAAA
* *
30302 ATTATTTCAATTTCAATATTGCAAAACT
1 ATTATTTAAATTTCAATATTACAAAACT
30330 CTCTTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (31 bp):
ATTATTTAAATTTCAATATTACAAAACTAAA
Found at i:31210 original size:3 final size:3
Alignment explanation
Indices: 31202--31246 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
31192 AATTTTTTCA
* *
31202 TAT TAT TAT TAT TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31247 ATATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:31251 original size:2 final size:2
Alignment explanation
Indices: 31244--31304 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
31234 TTATTATTAT
31244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
31286 TA TA -A AA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA
31305 CAAGGCCCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:31752 original size:19 final size:19
Alignment explanation
Indices: 31724--31762 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
31714 ACCAGAAAAT
*
31724 AAAAAAGAAAAACGGAGAG
1 AAAAAAGAAAAACAGAGAG
* *
31743 AAAAACGAAAGACAGAGAG
1 AAAAAAGAAAAACAGAGAG
31762 A
1 A
31763 CACAATAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.08, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAACAGAGAG
Found at i:38275 original size:2 final size:2
Alignment explanation
Indices: 38268--38354 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
38258 ATTTATCCTT
38268 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38352 TA T
1 TA T
38355 CCTTTTTTGT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38673 original size:6 final size:6
Alignment explanation
Indices: 38662--38695 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
38652 AGAAGAAGGA
38662 AAAAAC AAAAAC -AAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
38696 GGAAAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:38677 original size:11 final size:12
Alignment explanation
Indices: 38662--38695 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
38652 AGAAGAAGGA
38662 AAAAACAAAAAC
1 AAAAACAAAAAC
38674 -AAAACAAAAAC
1 AAAAACAAAAAC
38685 AAAAACAAAAA
1 AAAAACAAAAA
38696 GGAAAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:38684 original size:17 final size:17
Alignment explanation
Indices: 38662--38694 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38652 AGAAGAAGGA
38662 AAAAACAAAAACAAAAC
1 AAAAACAAAAACAAAAC
38679 AAAAACAAAAACAAAA
1 AAAAACAAAAACAAAA
38695 AGGAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAACAAAAACAAAAC
Found at i:43175 original size:50 final size:50
Alignment explanation
Indices: 43116--43215 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
43106 TGATTGAGAA
* *
43116 ATCTGAGCAGAAGCCACA-GAAAAGGATGAATGTGTTGTCAAGTGTTTTAC
1 ATCTGAGCAGAAACCACATG-AAAGGATGAATGTGTTGTCAAATGTTTTAC
* * *
43166 ATCTGAGCAGAAACCACATGAGATGATGCATGTGTTGTCAAATGTTTTAC
1 ATCTGAGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTAC
43216 GAACCAGTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
ATCTGAGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:44393 original size:76 final size:76
Alignment explanation
Indices: 44294--44870 Score: 985
Period size: 76 Copynumber: 7.6 Consensus size: 76
44284 CTATTTCCCA
44294 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
44359 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * **
44370 CATCTGTAAGTCCTACAGTGCATGATGTTTCCTAAAAGCCTTCGGGAGATTTTTTATGTGCTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
44435 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
44446 CATCTGTAAGTTCTACAGTGCGTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
44511 AGCCTTAGGGT
66 AGCCTTAGGGT
*
44522 CATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
44587 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
44598 CATCTATAAGTCCTATAGTGCATGATGTTCCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
44663 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
44674 CATCTGTAATTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTCTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
44739 AGCCTTAGGGT
66 AGCCTTAGGGT
44750 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
44815 AGCCTTAGGGT
66 AGCCTTAGGGT
** * *
44826 CATCTGTAAGTCCTTTAGTGCATGATGTTTTC-AAAACCCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
44871 TCATCTGTAA
Statistics
Matches: 469, Mismatches: 32, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
75 12 0.03
76 457 0.97
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:44880 original size:46 final size:46
Alignment explanation
Indices: 44803--45090 Score: 434
Period size: 46 Copynumber: 6.2 Consensus size: 46
44793 GGGAGCTTTT
* * * *
44803 TGATGTTTTC-AAAGCCTTAGGGTCATCTGTAAGTCCTTTAGTGCA
1 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
44848 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
44894 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAATGCA
1 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
44940 TGATGTTTTCAAAAAAAAACCTTCGGGTCATTTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC----AAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
44990 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
45036 TGATATTTTCAAAACCCTTCGGGTCACCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
45082 TGATGTTTT
1 TGATGTTTT
45091 AAACATTTCC
Statistics
Matches: 225, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
45 10 0.04
46 172 0.76
50 43 0.19
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (46 bp):
TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:44992 original size:96 final size:92
Alignment explanation
Indices: 44803--45090 Score: 434
Period size: 96 Copynumber: 3.1 Consensus size: 92
44793 GGGAGCTTTT
* * * *
44803 TGATGTTTTC-AAAGCCTTAGGGTCATCTGTAAGTCCTTTAGTGCATGATGTTTTCAAAACCCTT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCCTT
*
44867 CGGGTCATCTGTAAGTCCTTCAGTGCA
66 CGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
44894 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAAAAAAA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC----AAAAC
*
44959 CCTTCGGGTCATTTGTAAGCCCTTCAGTGCA
62 CCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
44990 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCCTT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCCTT
*
45055 CGGGTCACCTGTAAGCCCTTCAGTGCA
66 CGGGTCATCTGTAAGCCCTTCAGTGCA
45082 TGATGTTTT
1 TGATGTTTT
45091 AAACATTTCC
Statistics
Matches: 178, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
91 10 0.06
92 82 0.46
96 86 0.48
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (92 bp):
TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCCTT
CGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:45082 original size:142 final size:142
Alignment explanation
Indices: 44817--45090 Score: 467
Period size: 142 Copynumber: 1.9 Consensus size: 142
44807 GTTTTCAAAG
* * *
44817 CCTTAGGGTCATCTGTAAGTCCTTTAGTGCATGATGTTTTCAAAACCCTTCGGGTCATCTGTAAG
1 CCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAG
* * *
44882 TCCTTCAGTGCATGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTT
66 CCCTTCAGTGCATGATATTTTCAAAACCCTTCGGGTCACCTGTAAGCCCTTCAATGCATGATGTT
44947 TTCAAAAAAAAA
131 TTCAAAAAAAAA
* *
44959 CCTTCGGGTCATTTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAG
1 CCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAG
*
45024 CCCTTCAGTGCATGATATTTTCAAAACCCTTCGGGTCACCTGTAAGCCCTTCAGTGCATGATGTT
66 CCCTTCAGTGCATGATATTTTCAAAACCCTTCGGGTCACCTGTAAGCCCTTCAATGCATGATGTT
45089 TT
131 TT
45091 AAACATTTCC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 123 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (142 bp):
CCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAG
CCCTTCAGTGCATGATATTTTCAAAACCCTTCGGGTCACCTGTAAGCCCTTCAATGCATGATGTT
TTCAAAAAAAAA
Found at i:45222 original size:3 final size:3
Alignment explanation
Indices: 45214--45258 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
45204 AATTTTTTCA
* * *
45214 TAT TAT TAT TTT TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45259 ATATATATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:48147 original size:12 final size:13
Alignment explanation
Indices: 48130--48158 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
48120 TTTATTTGTG
48130 AAAATTAAAA-TT
1 AAAATTAAAATTT
48142 AAAATTAAAATTT
1 AAAATTAAAATTT
48155 AAAA
1 AAAA
48159 AACTCGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:48317 original size:5 final size:5
Alignment explanation
Indices: 48309--48349 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
48299 AAAAGAAAAT
48309 AATAA AAT-- AATAA AATAA AATAA AAT-- AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
48350 TAAGAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 6 0.19
5 26 0.81
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:48325 original size:13 final size:13
Alignment explanation
Indices: 48299--48369 Score: 92
Period size: 13 Copynumber: 5.5 Consensus size: 13
48289 TGAAGAAGGA
*
48299 AAAAGAAAATAAT
1 AAAATAAAATAAT
48312 AAAATAATAA-AAT
1 AAAATAA-AATAAT
48325 AAAATAAAATAAT
1 AAAATAAAATAAT
48338 AAAATAAAATAAT
1 AAAATAAAATAAT
*
48351 AAGAA-ACAATAAT
1 AA-AATAAAATAAT
48364 AAAATA
1 AAAATA
48370 TTAGTTAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.08
13 44 0.85
14 4 0.08
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:48332 original size:18 final size:18
Alignment explanation
Indices: 48309--48349 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
48299 AAAAGAAAAT
48309 AATAAAATAATAAAATAA
1 AATAAAATAATAAAATAA
48327 AATAAAATAATAAAATAA
1 AATAAAATAATAAAATAA
48345 AATAA
1 AATAA
48350 TAAGAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAAATAATAAAATAA
Found at i:48335 original size:26 final size:25
Alignment explanation
Indices: 48299--48415 Score: 92
Period size: 26 Copynumber: 4.3 Consensus size: 25
48289 TGAAGAAGGA
48299 AAAAGAAAATAATAAAATAATAA-AAT
1 AAAA-AAAATAATAAAATAA-AATAAT
48325 AAAATAAAATAATAAAATAAAATAAT
1 AAAA-AAAATAATAAAATAAAATAAT
* ** *
48351 AAGAAACAATAATAAAATATTAGTTAAA
1 AA-AAAAAATAATAAAATA--AAATAAT
48379 AAAAACAAATAAATAAGAATAAAAATTAAT
1 AAAAA-AAAT-AATAA-AAT-AAAA-TAAT
48409 AAAAAAA
1 AAAAAAA
48416 TGTAGTAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
25 2 0.03
26 37 0.51
27 5 0.07
28 9 0.12
29 8 0.11
30 11 0.15
31 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (25 bp):
AAAAAAAATAATAAAATAAAATAAT
Found at i:48361 original size:18 final size:18
Alignment explanation
Indices: 48309--48369 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
48299 AAAAGAAAAT
*
48309 AATAAAATAATAAAATAA
1 AATAAAAGAATAAAATAA
*
48327 AATAAAATAATAAAATAA
1 AATAAAAGAATAAAATAA
*
48345 AATAATAAGAAACAATAATAA
1 AATAA-AAG-AATAA-AATAA
48366 AATA
1 AATA
48370 TTAGTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 23 0.61
19 2 0.05
20 4 0.11
21 9 0.24
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AATAAAAGAATAAAATAA
Found at i:49728 original size:38 final size:36
Alignment explanation
Indices: 49603--49925 Score: 199
Period size: 38 Copynumber: 8.9 Consensus size: 36
49593 TATATACTTT
* * * *
49603 AAAAAAGTTTTCAAAACTATATATTACAT-AGTTTC
1 AAAAATGTTTTTAAAACTATATATTATATAATTTTC
* *
49638 CAAAATGTTTTTAAAAATAT-TA-TATA-AATTTTC
1 AAAAATGTTTTTAAAACTATATATTATATAATTTTC
49671 AAAACAAATGTTTTT-AAACTATATATTATATAATTTTAC
1 --AA-AAATGTTTTTAAAACTATATATTATATAATTTT-C
* *
49710 AAAAAATGTTTTTAAAACTATATACTATATATGTTTTC
1 -AAAAATGTTTTTAAAACTATATATTATATA-ATTTTC
* * *
49748 -AAAATGTTTTAAAAACTATATAATATTTAAACGTTTTC
1 AAAAATGTTTTTAAAACTATATATTATAT-AA--TTTTC
*
49786 -AAAATGTTTTAAAAACTATATATTATATACGTATTTTC
1 AAAAATGTTTTTAAAACTATATATTATATA---ATTTTC
* * *
49824 -AAAATGTTTTCAAAA--A-A-ACTATATAA-TAT-
1 AAAAATGTTTTTAAAACTATATATTATATAATTTTC
* * *
49853 ATAAATGTTTTCAAAAAAACTATATAATATATAAATGTTTTC
1 AAAAATGTTTT---TAAAACTATATATTATAT-AA--TTTTC
* *
49895 AAACATGTTTTCAAAACTATATATTA-ATAAT
1 AAAAATGTTTTTAAAACTATATATTATATAAT
49926 ATATAGACGT
Statistics
Matches: 232, Mismatches: 27, Indels: 58
0.73 0.09 0.18
Matches are distributed among these distances:
30 11 0.05
31 1 0.00
33 12 0.05
34 9 0.04
35 26 0.11
36 39 0.17
37 24 0.10
38 80 0.34
39 18 0.08
40 1 0.00
41 2 0.01
42 9 0.04
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.41
Consensus pattern (36 bp):
AAAAATGTTTTTAAAACTATATATTATATAATTTTC
Found at i:49861 original size:30 final size:30
Alignment explanation
Indices: 49825--49897 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
49815 CGTATTTTCA
49825 AAATGTTTTCAAAAAAACTATATAATATAT
1 AAATGTTTTCAAAAAAACTATATAATATAT
49855 AAATGTTTTCAAAAAAACTATATAATATAT
1 AAATGTTTTCAAAAAAACTATATAATATAT
49885 AAATGTTTTCAAA
1 AAATGTTTTCAAA
49898 CATGTTTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (30 bp):
AAATGTTTTCAAAAAAACTATATAATATAT
Found at i:49946 original size:23 final size:23
Alignment explanation
Indices: 49914--49957 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
49904 TTCAAAACTA
* * *
49914 TATATTAATAATATATAGACGTT
1 TATATAAATAAAAAATAGACGTT
49937 TATATAAATAAAAAATAGACG
1 TATATAAATAAAAAATAGACG
49958 AAAATGAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (23 bp):
TATATAAATAAAAAATAGACGTT
Found at i:50707 original size:84 final size:83
Alignment explanation
Indices: 50540--51025 Score: 556
Period size: 84 Copynumber: 5.9 Consensus size: 83
50530 ACTCGAAGGT
* * * * * *
50540 GATAACCTTTCTTGACTTGAGCTATTCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTTGAAC
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAAC
* *
50604 TCAAAGGTCTTTTGTTGGCA
65 TCGAAGGT-ATTTGTTGGCA
* * * * * * *
50624 GACAACCCTTCTAGATTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGTGTAGTCGAACG
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
50689 CGAAGGTATTTGATTGGCA
66 CGAAGGTATTTG-TTGGCA
* * * *
50708 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAAC
** *
50773 TCG--GGGGTCT-TTGGCA
65 TCGAAGGTATTTGTTGGCA
*
50789 GATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAAC
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAAC
* *
50853 TCAAAGGTATTTGGTTGGTA
65 TCGAAGGTATTT-GTTGGCA
* * *
50873 GATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAAC
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAAC
* *
50938 TCGAAGG--TCT-CTGGCA
65 TCGAAGGTATTTGTTGGCA
* *
50954 GATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
*
51019 CAAAGGT
66 CGAAGGT
51026 CTTTTGTTCG
Statistics
Matches: 341, Mismatches: 50, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
80 48 0.14
81 87 0.26
82 4 0.01
83 12 0.04
84 142 0.42
85 48 0.14
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (83 bp):
GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
CGAAGGTATTTGTTGGCA
Found at i:50819 original size:165 final size:165
Alignment explanation
Indices: 50540--51025 Score: 643
Period size: 165 Copynumber: 2.9 Consensus size: 165
50530 ACTCGAAGGT
* * * * * * * * * *
50540 GATAACCTTTCTTGACTTGAGCTATTCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTTGAAC
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
* * * * * * *
50604 TCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGATTTAAGTTGTGCTGCAAATGATATGCCTTG
66 TCGAAGGTC---T-TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
* *
50669 GAGCTGAGTGTAGTCGAACGCGAAGGTATTTGATTGGCA
127 GAGCTGAGCGTAGTCGAACGCAAAGGTATTTGATTGGCA
50708 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
**
50773 TCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAG
66 TCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAG
* * *
50837 CTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGTA
130 CTGAGCGTAGTCGAACGCAAAGGTATTTGATTGGCA
* * *
50873 GATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAAC
1 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
* *
50938 TCGAAGGTCTCTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
66 TCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
*
51003 TGAGCGTAGTCGAACTCAAAGGT
131 TGAGCGTAGTCGAACGCAAAGGT
51026 CTTTTGTTCG
Statistics
Matches: 284, Mismatches: 31, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
164 2 0.01
165 219 0.77
166 3 0.01
168 39 0.14
169 21 0.07
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (165 bp):
GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
TCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
TGAGCGTAGTCGAACGCAAAGGTATTTGATTGGCA
Found at i:51389 original size:94 final size:94
Alignment explanation
Indices: 51265--51856 Score: 772
Period size: 94 Copynumber: 6.0 Consensus size: 94
51255 TGAAATTGGC
* *
51265 TTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTATTGTCTGGA
1 TTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGA
* *
51330 GCCCAATATCTTTCGTTGTGAAGTTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAA
*
51359 TTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCTGGA
1 TTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGA
51424 GTCCAATATCCTTCGTTGTGAAGTTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAA
*
51453 TTGGCTCTGAAATTGGGAAATTGTTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
1 TTGG----GAAA-T--G-----GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*
51518 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
54 GTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* * *
51559 TTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
1 TTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGA
51624 GTCCAATATCCTTCGTTGTGAAGTTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAA
* ** * * * *
51653 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTCAACCGCCCCTTCG-CTGTGAAGTTGAGCT
1 TTGG----GAAA-T-----G--GTTTATTGACAACCAGCGGTCCCTTCGTC-GTGAAGTTGAACT
*
51717 TGTGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
53 TGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* *
51759 TTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGA
1 TTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGA
51824 GTCCAATATCCTTCGTTGTGAAGTTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAA
51853 TTGG
1 TTGG
51857 CTCTGAAATT
Statistics
Matches: 441, Mismatches: 31, Indels: 52
0.84 0.06 0.10
Matches are distributed among these distances:
94 256 0.58
95 1 0.00
98 8 0.02
99 2 0.00
101 3 0.01
102 8 0.02
105 1 0.00
106 162 0.37
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (94 bp):
TTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGA
GTCCAATATCCTTCGTTGTGAAGTTGAAA
Found at i:51539 original size:106 final size:106
Alignment explanation
Indices: 51354--51976 Score: 751
Period size: 106 Copynumber: 6.1 Consensus size: 106
51344 GTTGTGAAGT
* *
51354 TGAAATTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
51419 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
51460 TGAAATTGGGAAATTGTTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
51525 CTGGAGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
51554 TGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
51619 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * ** * * * *
51660 TGAAATTGAGAAGTTGTTTGTTGACAGTCAACCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGTTG
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGTGTTG
*
51724 TCTTGAGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
51754 TGAAATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
51819 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
** * * ** * * * * * *
51860 TGAAATTTAGAAGTTGTTTGTTGACAGTCAACCGCCCCTTTG-CTGTGAAGTTGAGCTTGTGCT-
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGTGTTG
* *
51923 TCTTGAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
51965 TGAAATTTGGAA
1 TGAAATTGGGAA
51977 GCCCCTTCGT
Statistics
Matches: 446, Mismatches: 44, Indels: 55
0.82 0.08 0.10
Matches are distributed among these distances:
94 155 0.35
95 5 0.01
96 4 0.01
99 6 0.01
100 8 0.02
101 6 0.01
104 4 0.01
105 57 0.13
106 201 0.45
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (106 bp):
TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:51557 original size:43 final size:43
Alignment explanation
Indices: 51496--51651 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 43
51486 ACCAGCGGTC
51496 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * ** **
51539 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCAGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTG--TCTGGA-GTCCAATA-T
51589 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
51633 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
51652 ATTGGCTCTG
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
43 40 0.47
44 1 0.01
45 4 0.05
46 7 0.08
48 7 0.08
49 4 0.05
50 1 0.01
51 22 0.26
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:51566 original size:200 final size:200
Alignment explanation
Indices: 51269--51961 Score: 1050
Period size: 200 Copynumber: 3.5 Consensus size: 200
51259 ATTGGCTTGG
* * * * *
51269 GAAATTGTTTATTGACAACCAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGTATTGTCTGGAGCC
1 GAAATTGTTTATTGACAACCAACCGCCCCTTCGCT-GTGAAGTTGAACTTGTGTTGTCTGGAGTC
* *
51333 CAATATCTTTCGTTGTGAAGTTGAAATTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTCGTC
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
*
51398 ATGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
130 GTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
51463 AATTGG
195 AATTGA
* * * * *
51469 GAAATTGTTTATTGATAACCAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 GAAATTGTTTATTGACAACCAACCGCCCCTTCGCT-GTGAAGTTGAACTTGTGTTGTCTGGAGTC
*
51533 CAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTC
65 CAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
*
51598 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
130 GTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
51663 AATTGA
195 AATTGA
* * ** * *
51669 GAAGTTGTTTGTTGACAGTCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCC
1 GAAATTGTTTATTGACAACCAACCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTGGAGTCC
*
51734 AATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCG
66 AATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCG
51799 TGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
131 TGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
*
51864 ATTTA
196 ATTGA
* * ** * * * *
51869 GAAGTTGTTTGTTGACAGTCAACCGCCCCTTTGCTGTGAAGTTGAGCTTGTGCT-TCTTGAGTCC
1 GAAATTGTTTATTGACAACCAACCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTGGAGTCC
*
51933 AATATCCTTCGTTGTGAAATTGAAATTGG
66 AATATCCTTCGTTGTGAAGTTGAAATTGG
51962 CTCTGAAATT
Statistics
Matches: 464, Mismatches: 28, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
199 38 0.08
200 425 0.92
201 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (200 bp):
GAAATTGTTTATTGACAACCAACCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCG
TGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
ATTGA
Found at i:51743 original size:43 final size:43
Alignment explanation
Indices: 51696--51851 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
51686 GTCAACCGCC
* *
51696 CCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
* * * ** **
51739 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGAT
1 CCTTCGTTGTGAAGTTGAACTTGTG---TTG--TCTTGA-GTCCA-ATAT
* *
51789 CCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
51833 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
51852 ATTGGCTCTG
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
43 39 0.45
44 2 0.02
45 3 0.03
46 7 0.08
48 8 0.09
49 3 0.03
50 2 0.02
51 22 0.26
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
Found at i:51794 original size:294 final size:290
Alignment explanation
Indices: 51265--51856 Score: 815
Period size: 294 Copynumber: 2.0 Consensus size: 290
51255 TGAAATTGGC
* *
51265 TTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTATTGTCTGGA
1 TTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGA
* * * *
51330 GCCCAATATCTTTCGTTGTGAAGTTGAAATTGGGAAATGGTTTATTGACAACCAGCGGTCCCTTC
66 GCCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATGGTTTATTGACAACCAACCGCCCCTTC
51395 GTCATGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
131 GTCATGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGT--AGTTGAAA-T-GCTC
* *
51460 TGAAATTGGGAAATTGTTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
192 TGAAATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
51525 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
257 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
51559 TTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
1 TTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGA
* * **
51624 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTC
66 GCCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAA-T-----G--GTTTATTGACAACC
* * *
51689 AACCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCG-T-T-G-T
119 AACCGCCCCTTCGTC-ATGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTAGTT
51749 G-AA-G-T-TGAAATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAAC
183 GAAATGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAAC
*
51810 TTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
248 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
51853 TTGG
1 TTGG
51857 CTCTGAAATT
Statistics
Matches: 268, Mismatches: 17, Indels: 26
0.86 0.05 0.08
Matches are distributed among these distances:
294 193 0.72
295 1 0.00
296 1 0.00
298 4 0.01
299 3 0.01
300 2 0.01
301 1 0.00
304 2 0.01
305 2 0.01
306 59 0.22
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (290 bp):
TTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGA
GCCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATGGTTTATTGACAACCAACCGCCCCTTC
GTCATGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTAGTTGAAATGCTCTGAA
ATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTTCGTTGTGAAGTTGAAA
Found at i:56230 original size:18 final size:18
Alignment explanation
Indices: 56209--56243 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56199 TGAAGAAGGA
56209 AAAACAAAATAATAAAAT
1 AAAACAAAATAATAAAAT
*
56227 AAAATAAAATAATAAAA
1 AAAACAAAATAATAAAA
56244 GATTAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAACAAAATAATAAAAT
Found at i:57689 original size:9 final size:10
Alignment explanation
Indices: 57658--57698 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
57648 GAAAAAAAAC
57658 AAAATTAAAT
1 AAAATTAAAT
*
57668 GAAATTAAAT
1 AAAATTAAAT
57678 AAAATT-AAT
1 AAAATTAAAT
*
57687 AAAATAAAAT
1 AAAATTAAAT
57697 AA
1 AA
57699 TATGATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAATTAAAT
Found at i:57795 original size:24 final size:25
Alignment explanation
Indices: 57749--57802 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
57739 TATTTTTTAG
*
57749 AAAACTATATACTTTAAAAAGTTTTC
1 AAAACTATATAC-TTAAAAAGTTTCC
* *
57775 AAAACTATATA-TTACATAGTTTCC
1 AAAACTATATACTTAAAAAGTTTCC
57799 AAAA
1 AAAA
57803 TGTTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
26 11 0.44
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAACTATATACTTAAAAAGTTTCC
Found at i:57885 original size:38 final size:36
Alignment explanation
Indices: 57764--58061 Score: 242
Period size: 38 Copynumber: 8.1 Consensus size: 36
57754 TATATACTTT
* *
57764 AAAAA-GTTTTCAAAACTATATATTACAT-AGTTTC
1 AAAAATGTTTTCAAAACTATATATTATATAATTTTC
* *
57798 CAAAATGTTTT-TAAA--A-ATATTATATAAGTTTTCC
1 AAAAATGTTTTCAAAACTATATATTATATAA-TTTT-C
*
57832 AAAAAAAATGTTTTTAAAACTATATATTATATAATTTTAC
1 ---AAAAATGTTTTCAAAACTATATATTATATAATTTT-C
* * *
57872 AAAAAATGTTTTTAAAACTATATACTATATATGTTTTC
1 -AAAAATGTTTTCAAAACTATATATTATATA-ATTTTC
* * *
57910 -AAAATGTTTTAAAAACTATATAATATTTAAACGTTTTC
1 AAAAATGTTTTCAAAACTATATATTATAT-AA--TTTTC
57948 -AAAATGTTTTCAAAAC--TATATTATATACATTTTC
1 AAAAATGTTTTCAAAACTATATATTATATA-ATTTTC
*
57982 -AAAATGTTTTCAAAAAACTATATAATATA-AATGTTTTC
1 AAAAATGTTTTC--AAAACTATATATTATATAA--TTTTC
*
58020 AAACATGTTTTCAAAACTATATATTATATATATTTTC
1 AAAAATGTTTTCAAAACTATATATTATATA-ATTTTC
58057 AAAAA
1 AAAAA
58062 CCATTTGCAA
Statistics
Matches: 219, Mismatches: 20, Indels: 47
0.77 0.07 0.16
Matches are distributed among these distances:
31 8 0.04
32 2 0.01
33 3 0.01
34 24 0.11
35 6 0.03
36 40 0.18
37 36 0.16
38 68 0.31
39 15 0.07
40 6 0.03
41 11 0.05
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (36 bp):
AAAAATGTTTTCAAAACTATATATTATATAATTTTC
Found at i:57925 original size:74 final size:71
Alignment explanation
Indices: 57836--58060 Score: 267
Period size: 74 Copynumber: 3.1 Consensus size: 71
57826 TTTTCCAAAA
* * *
57836 AAAATGTTTTTAAAACTATATATTATATAATTTTACAAAAAATGTTTTTAAAACTATATACTATA
1 AAAATGTTTTAAAAACTATATAATATATAATTTT-C-AAAAATGTTTTCAAAACTATATA-TATA
*
57901 TATGTTTTC
63 TATATTTTC
*
57910 AAAATGTTTTAAAAACTATATAATATTTAAACGTTTTC-AAAATGTTTTCAAAACTATAT-TATA
1 AAAATGTTTTAAAAACTATATAATATAT-AA--TTTTCAAAAATGTTTTCAAAACTATATATATA
*
57973 TACATTTTC
63 TATATTTTC
*
57982 AAAATGTTTTCAAAAAACTATATAATATA-AATGTTTTCAAACATGTTTTCAAAACTATATATTA
1 AAAATGTTTT--AAAAACTATATAATATATAA--TTTTCAAAAATGTTTTCAAAACTATATA-TA
58046 TATATATTTTC
61 TATATATTTTC
58057 AAAA
1 AAAA
58061 ACCATTTGCA
Statistics
Matches: 133, Mismatches: 10, Indels: 15
0.84 0.06 0.09
Matches are distributed among these distances:
72 29 0.22
73 20 0.15
74 61 0.46
75 18 0.14
76 1 0.01
77 4 0.03
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (71 bp):
AAAATGTTTTAAAAACTATATAATATATAATTTTCAAAAATGTTTTCAAAACTATATATATATAT
ATTTTC
Found at i:58074 original size:110 final size:108
Alignment explanation
Indices: 57854--58084 Score: 263
Period size: 110 Copynumber: 2.1 Consensus size: 108
57844 TTTAAAACTA
* * *
57854 TATATTATATAATTTTACAAAAAATGTTTTTAAAACTATATACTATATATGTTTTCAAAATGTTT
1 TATATTATATAATTTTAC-AAAAATGTTTTAAAAACTATATAATATAAATGTTTTCAAAATGTTT
* ** *
57919 TAAAAACTATATAATATTTAAACGTTTTCAAAATGTTTTCAAAAC
65 TAAAAACTATATAATATATAAAC-TTTTCAAAACATTTGCAAAAC
57964 TATATTATATACATTTT-C-AAAATGTTTTCAAAAAACTATATAATATAAATGTTTTCAAACATG
1 TATATTATATA-ATTTTACAAAAATGTTTT--AAAAACTATATAATATAAATGTTTTCAAA-ATG
* * *
58027 TTTTCAAAACTATATATTATATATA-TTTTCAAAAACCATTTGC-AAAC
62 TTTTAAAAACTATATAATATATAAACTTTTC-AAAA-CATTTGCAAAAC
*
58074 TATATAATATA
1 TATATTATATA
58085 TAGACGTATA
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
108 10 0.10
109 5 0.05
110 56 0.54
111 33 0.32
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (108 bp):
TATATTATATAATTTTACAAAAATGTTTTAAAAACTATATAATATAAATGTTTTCAAAATGTTTT
AAAAACTATATAATATATAAACTTTTCAAAACATTTGCAAAAC
Found at i:58850 original size:84 final size:83
Alignment explanation
Indices: 58744--59214 Score: 517
Period size: 84 Copynumber: 5.7 Consensus size: 83
58734 TGAGCTATTA
*
58744 TGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACC
1 TGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGTTGGCAGATAACC
* *
58808 CTTCTAGACTTAAGTTGTGC
64 CTTCTCGACTTAAGTTATGC
* * *
58828 TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTTGCAGATAACCC
1 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG-TTGGCAGATAACCC
58893 TTCTCGACTTAAGTTATGC
65 TTCTCGACTTAAGTTATGC
* * * * * *** * *
58912 TACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCATATAGCCC
1 TGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAACCC
*
58974 TTCTCGACTTAAGCTATGC
65 TTCTCGACTTAAGTTATGC
* * ** *
58993 TGCAAATGATGTTCCGTT-GAGATGAGATTAGTCCAACTCAAAGGTCTTTGGTTGGCAGATAACC
1 TGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GTTGGCAGATAACC
59057 CTTCTCGACTTAAGTTATGC
64 CTTCTCGACTTAAGTTATGC
* * * * * * *
59077 TACAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTC--T-CTGGTAGATAGCCC
1 TGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAACCC
*
59139 TTCTCGACTTAAGCTATGC
65 TTCTCGACTTAAGTTATGC
* * *
59158 TGCAAATGATGTGCCTTAGAGCTAAGCGTAGTCGAACTCAAAGGTATTTTGTTGGCA
1 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGT-CTTTGTTGGCA
59215 AACACTCATT
Statistics
Matches: 319, Mismatches: 54, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
80 48 0.15
81 82 0.26
82 1 0.00
83 9 0.03
84 128 0.40
85 51 0.16
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAACCCT
TCTCGACTTAAGTTATGC
Found at i:58999 original size:81 final size:81
Alignment explanation
Indices: 58682--59202 Score: 485
Period size: 84 Copynumber: 6.3 Consensus size: 81
58672 ATTTGCCTCT
* * * * ** * * * **
58682 GAGCTGAATATAATCGAACTCGAAGGTCTTTAGCAGATAACCCTTATTAATTTGAGCTATTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
58747 AAATGATGTGCCGTT-
66 AAATGATGTGCCCTTG
* * * * * *
58762 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
58827 CTGCAAATGATATG-CCTTG
62 CTGCAAATGATGTGCCCTTG
* *
58846 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATTTGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG----GCAGATAACCCTTCTCGACTTAAGTTATG
* *
58911 CTACAAATGATGTGCCCTCG
62 CTGCAAATGATGTGCCCTTG
* ** * * *
58931 AAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
* *
58996 AAATGATGTTCCGTT-
66 AAATGATGTGCCCTTG
* * * *
59011 GAGATGAGAT-TAGTCCAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
1 GAGCTGAG-TGTAATCGAACTCGAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGTTAT
*
59075 GCTACAAATGATGTGCCCTTG
61 GCTGCAAATGATGTGCCCTTG
* * * *
59096 GAGCTGAGTGTAATCGAACTCGAAGGTCTCTGGTAGATAGCCCTTCTCGACTTAAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
*
59161 AAATGATGTG-CCTTA
66 AAATGATGTGCCCTTG
* * * *
59176 GAGCTAAGCGTAGTCGAACTCAAAGGT
1 GAGCTGAGTGTAATCGAACTCGAAGGT
59203 ATTTTGTTGG
Statistics
Matches: 360, Mismatches: 64, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
80 72 0.20
81 84 0.23
82 1 0.00
83 5 0.01
84 145 0.40
85 53 0.15
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (81 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
AAATGATGTGCCCTTG
Found at i:59214 original size:165 final size:163
Alignment explanation
Indices: 58746--59214 Score: 598
Period size: 165 Copynumber: 2.8 Consensus size: 163
58736 AGCTATTATG
* * * * * *
58746 CAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCT
1 CAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCT
* * * * * *
58810 TCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
62 TCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTCAAAGGTTT
*
58875 TTGATTTGCAGATAACCCTTCTCGACTTAAGTTATGCTA
126 TTG-TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTA
* * ** *
58914 CAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCATATAGCCCTTCTC
1 CAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTC
* * ** * *
58979 GACTTAAGCTATGCTGCAAATGATGTTCCGTTGAGATGAGATTAGTCCAACTCAAAGGTCTTTGG
66 GACTTAAGCTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAACTCAAAGGT-TTTTG
59044 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTA
129 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTA
* *
59079 CAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTCTGGTAGATAGCCCTTCTC
1 CAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTC
*
59144 GACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTAAGCGTAGTCGAACTCAAAGGTATTTTG
66 GACTTAAGCTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTCAAAGGT-TTTTG
59209 TTGGCA
129 TTGGCA
59215 AACACTCATT
Statistics
Matches: 258, Mismatches: 39, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
164 2 0.01
165 214 0.83
166 6 0.02
168 14 0.05
169 22 0.09
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (163 bp):
CAAATGATGTGCCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTC
GACTTAAGCTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTGTT
GGCAGATAACCCTTCTCGACTTAAGTTATGCTA
Found at i:62724 original size:65 final size:65
Alignment explanation
Indices: 62620--62778 Score: 282
Period size: 65 Copynumber: 2.4 Consensus size: 65
62610 ATTCCCTTAT
* *
62620 GCCCGCACGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCCGAAGGTTACTTGCTAG
1 GCCCGCACGGTGAATAAATTCACACGAAGACATAAGGTATATGAATACCGAAGGCTACTTGCTAG
62685 GCCCGCACGGTGAATAAATTCACACGAAGACATAAGGTATATGAATACCGAAGGCTACTTGCTAG
1 GCCCGCACGGTGAATAAATTCACACGAAGACATAAGGTATATGAATACCGAAGGCTACTTGCTAG
* *
62750 GCCCACACAGTGAATAAATTCACACGAAG
1 GCCCGCACGGTGAATAAATTCACACGAAG
62779 GCGTCGCTTT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 90 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (65 bp):
GCCCGCACGGTGAATAAATTCACACGAAGACATAAGGTATATGAATACCGAAGGCTACTTGCTAG
Found at i:63275 original size:6 final size:6
Alignment explanation
Indices: 63264--63302 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
63254 TTATTTGCGA
63264 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
63303 AAACTTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:63467 original size:13 final size:13
Alignment explanation
Indices: 63441--63498 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
63431 TGAAGAAGGA
*
63441 AAAAGAAAATAAT
1 AAAATAAAATAAT
63454 AAAATAATAA-AAT
1 AAAATAA-AATAAT
63467 AAAATAAAATAAT
1 AAAATAAAATAAT
*
63480 AAAA-ACCAATAAT
1 AAAATA-AAATAAT
63493 AAAATA
1 AAAATA
63499 TTAGTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.08
13 33 0.85
14 3 0.08
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:63470 original size:21 final size:19
Alignment explanation
Indices: 63446--63543 Score: 76
Period size: 18 Copynumber: 4.9 Consensus size: 19
63436 AAGGAAAAAG
63446 AAAATAATAAAATAATAAA
1 AAAATAATAAAATAATAAA
*
63465 ATAA-AATAAAATAATAAA
1 AAAATAATAAAATAATAAA
63483 AACCAATAATAAAATATTAGTTAAA
1 AA--AATAATAAAATA--A--TAAA
* *
63508 AAAACAA-ATAAATAAGAATA
1 AAAATAATA-AAATAATAA-A
63528 AAAATAATAAAA-AATA
1 AAAATAATAAAATAATA
63544 TATAGTAAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
18 15 0.24
19 8 0.13
20 12 0.19
21 11 0.17
22 1 0.02
23 10 0.16
25 6 0.10
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATAATAAAATAATAAA
Found at i:63493 original size:26 final size:26
Alignment explanation
Indices: 63441--63570 Score: 81
Period size: 26 Copynumber: 4.8 Consensus size: 26
63431 TGAAGAAGGA
*
63441 AAAAGAAAATAATAAAATA-ATAA-AAT
1 AAAATAAAATAATAAAA-ACA-AATAAT
*
63467 AAAATAAAATAATAAAAACCAATAAT
1 AAAATAAAATAATAAAAACAAATAAT
**
63493 AAAATATTAGTTAA-AAAAACAAATAAAT
1 AAAATA--AAATAATAAAAACAAAT-AAT
*
63521 AAGAATAAAAATAATAAAAA-ATATATAGT
1 AA-AAT-AAAATAATAAAAACA-A-ATAAT
* *
63550 AAAGTAAAAT-AGAAAAACAAA
1 AAAATAAAATAATAAAAACAAA
63571 ATTAAATTAA
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
25 4 0.05
26 32 0.39
27 15 0.18
28 16 0.19
29 13 0.16
30 3 0.04
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (26 bp):
AAAATAAAATAATAAAAACAAATAAT
Found at i:63498 original size:8 final size:8
Alignment explanation
Indices: 63446--63483 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
63436 AAGGAAAAAG
63446 AAAATAAT
1 AAAATAAT
63454 AAAATAAT
1 AAAATAAT
63462 AAAATAAAAT
1 AAAAT--AAT
63472 AAAATAAT
1 AAAATAAT
63480 AAAA
1 AAAA
63484 ACCAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 20 0.71
10 8 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:64922 original size:18 final size:18
Alignment explanation
Indices: 64901--64938 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
64891 AAAAAACAAA
64901 AATAAATGAAATTAAATT
1 AATAAATGAAATTAAATT
*
64919 AATAAATTAAATTAAATT
1 AATAAATGAAATTAAATT
64937 AA
1 AA
64939 ATTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATAAATGAAATTAAATT
Found at i:64934 original size:10 final size:10
Alignment explanation
Indices: 64903--64943 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
64893 AAAACAAAAA
*
64903 TAAATGAAAT
1 TAAATTAAAT
64913 TAAATT-AA-
1 TAAATTAAAT
64921 TAAATTAAAT
1 TAAATTAAAT
64931 TAAATTAAAT
1 TAAATTAAAT
64941 TAA
1 TAA
64944 TATATGATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 6 0.21
9 4 0.14
10 18 0.64
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
TAAATTAAAT
Found at i:65082 original size:35 final size:36
Alignment explanation
Indices: 65040--65147 Score: 125
Period size: 35 Copynumber: 3.0 Consensus size: 36
65030 CATAGTTTCC
65040 AAATGTTTTTAAAA-TATTATATAAGTTTTCAAAAA
1 AAATGTTTTTAAAACTATTATATAAGTTTTCAAAAA
* *
65075 AAATGTTTTTAAAACTA-TATATTA-TATTT-ACAAA
1 AAATGTTTTTAAAACTATTATATAAGT-TTTCAAAAA
65109 AAATGTTTTTAAAACTATATACTATATATGTTTTCAAAA
1 AAATGTTTTTAAAACTAT-TA-TATA-A-GTTTTCAAAA
65148 TGTTTTAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
34 22 0.37
35 23 0.38
36 4 0.07
37 3 0.05
38 1 0.02
39 3 0.05
40 4 0.07
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (36 bp):
AAATGTTTTTAAAACTATTATATAAGTTTTCAAAAA
Found at i:65115 original size:34 final size:34
Alignment explanation
Indices: 65040--65172 Score: 125
Period size: 36 Copynumber: 3.9 Consensus size: 34
65030 CATAGTTTCC
* *
65040 AAATGTTTTTAAAA-TATTATATAAGT-TTTCAAAAA
1 AAATGTTTTTAAAACTA-TATATTA-TATTT-ACAAA
65075 AAATGTTTTTAAAACTATATATTATATTTACAAA
1 AAATGTTTTTAAAACTATATATTATATTTACAAA
*
65109 AAATGTTTTTAAAACTATATACTATATATGTTTTC--A
1 AAATGTTTTTAAAACTATATA-T-TATA--TTTACAAA
*
65145 AAATGTTTTAAAAACTATATA--ATATTTA
1 AAATGTTTTTAAAACTATATATTATATTTA
65173 AACGTTTTCA
Statistics
Matches: 87, Mismatches: 5, Indels: 17
0.80 0.05 0.16
Matches are distributed among these distances:
30 3 0.03
32 3 0.03
34 26 0.30
35 24 0.28
36 27 0.31
38 4 0.05
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (34 bp):
AAATGTTTTTAAAACTATATATTATATTTACAAA
Found at i:65137 original size:36 final size:36
Alignment explanation
Indices: 65004--65210 Score: 152
Period size: 38 Copynumber: 5.8 Consensus size: 36
64994 TATATACTTT
* *
65004 AAAAAA-GTTTTCAAAACTATATATTACATAGTTT-C
1 AAAAAATGTTTTTAAAACTATATA-TATATAGTTTAC
* *
65039 --CAAATGTTTTTAAAA-TAT-TATATA-AGTTTTCAA
1 AAAAAATGTTTTTAAAACTATATATATATAG-TTT-AC
65072 AAAAAATGTTTTTAAAACTATATAT-TATA-TTTAC
1 AAAAAATGTTTTTAAAACTATATATATATAGTTTAC
*
65106 AAAAAATGTTTTTAAAACTATATACTATATATGTTTTC
1 AAAAAATGTTTTTAAAACTATATA-TATATA-GTTTAC
* * *
65144 --AAAATGTTTTAAAAACTATATAATATTTAAACGTTTTC
1 AAAAAATGTTTTTAAAACTATAT-ATA--TATA-GTTTAC
*
65182 --AAAATGTTTTCAAAACTATATATTATATA
1 AAAAAATGTTTTTAAAACTATATA-TATATA
65211 CGTATTTTCA
Statistics
Matches: 143, Mismatches: 12, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
30 2 0.01
31 6 0.04
32 2 0.01
33 6 0.04
34 34 0.24
35 18 0.13
36 34 0.24
37 6 0.04
38 35 0.24
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.43
Consensus pattern (36 bp):
AAAAAATGTTTTTAAAACTATATATATATAGTTTAC
Found at i:65180 original size:38 final size:38
Alignment explanation
Indices: 65108--65288 Score: 185
Period size: 38 Copynumber: 4.8 Consensus size: 38
65098 ATATTTACAA
* * *
65108 AAAATGTTTTTAAAACTATATACTATAT--ATGTTTTC
1 AAAATGTTTTAAAAACTATATAATATATAAACGTTTTC
*
65144 AAAATGTTTTAAAAACTATATAATATTTAAACGTTTTC
1 AAAATGTTTTAAAAACTATATAATATATAAACGTTTTC
* *
65182 AAAATGTTTTCAAAACTATAT-AT-TATATACGTATTTTC
1 AAAATGTTTTAAAAACTATATAATATATAAACG--TTTTC
*
65220 AAAATGTTTTCAAAAAAACTATATAATATAT-AATGTTTTC
1 AAAATGTTTT---AAAAACTATATAATATATAAACGTTTTC
* *
65260 AAACATGTTTT-CAAACTATATATTATATA
1 AAA-ATGTTTTAAAAACTATATAATATATA
65289 TTTTCAAAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
36 31 0.25
37 17 0.14
38 42 0.34
40 8 0.07
41 17 0.14
42 4 0.03
43 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (38 bp):
AAAATGTTTTAAAAACTATATAATATATAAACGTTTTC
Found at i:65284 original size:78 final size:73
Alignment explanation
Indices: 65108--65297 Score: 242
Period size: 74 Copynumber: 2.5 Consensus size: 73
65098 ATATTTACAA
* * * *
65108 AAAATGTTTTTAAAACTATATACTATATATGTTTTCAAAATGTTTTAAAAACTATATAATATTTA
1 AAAATG-TTTTCAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATAATATATA
65173 AACGTTTTC
65 AACGTTTTC
65182 AAAATGTTTTCAAAACTATATATTATATACGTATTTTCAAAATGTTTTCAAAAAAACTATATAAT
1 AAAATGTTTTC-AAACTATATATTATATA--TATTTTCAAAATGTTTT---AAAAACTATATAAT
*
65247 ATAT-AATGTTTTC
60 ATATAAACGTTTTC
65260 AAACATGTTTTCAAACTATATA-T-TATATATTTTCAAAA
1 AAA-ATGTTTTCAAACTATATATTATATATATTTTCAAAA
65298 ACCATTTGCA
Statistics
Matches: 104, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
73 4 0.04
74 33 0.32
76 20 0.19
77 1 0.01
78 21 0.20
79 25 0.24
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (73 bp):
AAAATGTTTTCAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATAATATATAA
ACGTTTTC
Found at i:70016 original size:22 final size:22
Alignment explanation
Indices: 69991--70035 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
69981 CTTCCCGTTT
* *
69991 CGTTGTTTGGTACTTGTTCCAC
1 CGTTATTTGGTACCTGTTCCAC
70013 CGTTATTTGGTACCTGTTCCAC
1 CGTTATTTGGTACCTGTTCCAC
70035 C
1 C
70036 ACTGTTGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.42
Consensus pattern (22 bp):
CGTTATTTGGTACCTGTTCCAC
Found at i:74547 original size:23 final size:23
Alignment explanation
Indices: 74517--74573 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
74507 AAAAATACAT
74517 AATCGAAAAACCATGTTTACCAG
1 AATCGAAAAACCATGTTTACCAG
***
74540 AATCGAAAAATTTTGTTTACCAG
1 AATCGAAAAACCATGTTTACCAG
* *
74563 AACCGGAAAAC
1 AATCGAAAAAC
74574 TCTATTCTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (23 bp):
AATCGAAAAACCATGTTTACCAG
Done.