Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000203.1 Hibiscus syriacus cultivar Beakdansim tig00000363_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: 124114
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Found at i:968 original size:14 final size:14
Alignment explanation
Indices: 934--995 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
924 TTGCTTGTTT
*
934 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
948 AACTGATTTGTAAA
1 AATTGATTTGTAAA
* *
962 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
977 TATTGATGTGTAAA
1 AATTGATTTGTAAA
991 TAATT
1 -AATT
996 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:1132 original size:20 final size:20
Alignment explanation
Indices: 1109--1147 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1099 ACGCTAAACT
*
1109 CAAAATCGCAATGCGAAAGA
1 CAAAATCGCAACGCGAAAGA
1129 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACGCGAAAG
1148 TCAATTCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGA
Found at i:1183 original size:20 final size:20
Alignment explanation
Indices: 1141--1420 Score: 291
Period size: 20 Copynumber: 14.7 Consensus size: 20
1131 AAATCGCAAC
*
1141 GCGAAAGTC-AATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
1160 GCGATAGTCTAATACGCTTT
1 GCGATAGTCAAATTCGCGTT
*
1180 GCGAT--T----TTCTCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
1194 ACGATAGTCAAATACCCGTT
1 GCGATAGTCAAATTCGCGTT
*
1214 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
1234 GCGATACTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
1254 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
1274 GCGATAGTCAAA-TAGCCGTT
1 GCGATAGTCAAATTCG-CGTT
1294 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* *
1314 GCGATAGTCATATTCGTGTT
1 GCGATAGTCAAATTCGCGTT
*
1334 GTGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* *
1354 GCGAT--T----TTTGAGTT
1 GCGATAGTCAAATTCGCGTT
*
1368 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
1388 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
*
1408 GCGATATTCAAAT
1 GCGATAGTCAAAT
1421 GAATGTGTAA
Statistics
Matches: 217, Mismatches: 29, Indels: 29
0.79 0.11 0.11
Matches are distributed among these distances:
14 20 0.09
16 2 0.01
18 2 0.01
19 10 0.05
20 181 0.83
21 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCGTT
Found at i:1578 original size:132 final size:133
Alignment explanation
Indices: 1408--1652 Score: 447
Period size: 132 Copynumber: 1.8 Consensus size: 133
1398 AATTCGCGTT
*
1408 GCGATATTCAAATGAATGTGTAATAAGTGATAAAAACTGAACATATCATAGCAATGTTCAAACTC
1 GCGATATTCAAATGAATGTGTAATAAGTGATAAAAACTGAACAGATCATAGCAATGTTCAAACTC
*
1473 AAGTTTCTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACACAATAGTCAAA
66 AAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACACAATAGTCAAA
1538 TTC
131 TTC
* *
1541 GCGATATTC-AATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGTAATGTTCAAACTC
1 GCGATATTCAAATGAATGTGTAATAAGTGATAAAAACTGAACAGATCATAGCAATGTTCAAACTC
1605 AAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 AAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1653 TACAACGTTT
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
132 99 0.92
133 9 0.08
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (133 bp):
GCGATATTCAAATGAATGTGTAATAAGTGATAAAAACTGAACAGATCATAGCAATGTTCAAACTC
AAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACACAATAGTCAAA
TTC
Found at i:1727 original size:12 final size:12
Alignment explanation
Indices: 1712--1754 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
1702 AAGCCGGTTG
*
1712 TGATTGGGATTT
1 TGATTGCGATTT
**
1724 TGATTTTGATTT
1 TGATTGCGATTT
1736 TGATTGCGATTT
1 TGATTGCGATTT
1748 TGATTGC
1 TGATTGC
1755 CTTTTTCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (12 bp):
TGATTGCGATTT
Found at i:1728 original size:6 final size:6
Alignment explanation
Indices: 1719--1752 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1709 TTGTGATTGG
**
1719 GATTTT GATTTT GATTTT GATTGC GATTTT GATT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATT
1753 GCCTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59
Consensus pattern (6 bp):
GATTTT
Found at i:4036 original size:24 final size:24
Alignment explanation
Indices: 4002--4055 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3992 CTGAAACATC
4002 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
4026 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4050 ATCAAA
1 ATCAAA
4056 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4905 original size:20 final size:20
Alignment explanation
Indices: 4869--5037 Score: 135
Period size: 20 Copynumber: 8.3 Consensus size: 20
4859 AAATTCAGTG
* * *
4869 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAAAATCGCA
* *
4889 TTACGATAGTCAAAATCGTA
1 TTGCGATAGTCAAAATCGCA
4909 TTGCGATAGTCAAAATCGCA
1 TTGCGATAGTCAAAATCGCA
*
4929 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAAAATCGCA
* * *
4949 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CAAAATCGCA
4969 TTGCGATAGTCGGAAAATCGCA
1 TTGCGATAGTC--AAAATCGCA
** * *
4991 ACGCGA-ATTTGGAAAATCGCA
1 TTGCGATA-GT-CAAAATCGCA
* * *
5012 ATGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAAAATCGCA
5032 TTGCGA
1 TTGCGA
5038 ATCTGGAAAC
Statistics
Matches: 119, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.01
20 88 0.74
21 17 0.14
22 13 0.11
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (20 bp):
TTGCGATAGTCAAAATCGCA
Found at i:6274 original size:60 final size:60
Alignment explanation
Indices: 6149--6267 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
6139 GCTATTTTAA
* * *
6149 AACTTTTAATAGTCAAGGGACTAAACAAAACAACTCTCTATAGTCAGGGGACCATGTTGT
1 AACTTTTAATAGTCAAAGGACTAAACAAAACAAATCTCTAGAGTCAGGGGACCATGTTGT
* * * * *
6209 AACTTTTAATAGTCAAATGACTCAATAAAGCAAAATC-CTAGAGTTAGGGGACCAT-TTGT
1 AACTTTTAATAGTCAAAGGACTAAACAAAAC-AAATCTCTAGAGTCAGGGGACCATGTTGT
6268 GTACTTTACC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 4 0.08
60 42 0.84
61 4 0.08
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (60 bp):
AACTTTTAATAGTCAAAGGACTAAACAAAACAAATCTCTAGAGTCAGGGGACCATGTTGT
Found at i:19846 original size:55 final size:55
Alignment explanation
Indices: 19776--19912 Score: 213
Period size: 55 Copynumber: 2.5 Consensus size: 55
19766 ATGAGAAATC
* * **
19776 TAAGGTACATGAGTCATATGAGTAACAGTGTCAGGTTACTCCTCCTCGGTACCA-
1 TAAGGTACACGAGTCATATGAGTAACAGTGTCAGGTTACTCCACCTCGACACCAT
*
19830 TAGTGGTACACGAGTCATATGAGTAACAGTGTCAGGTTACTCCACCTCGACACCAT
1 TA-AGGTACACGAGTCATATGAGTAACAGTGTCAGGTTACTCCACCTCGACACCAT
19886 TAAGGTACACGAGTCATATGAGTAACA
1 TAAGGTACACGAGTCATATGAGTAACA
19913 ATATCATATC
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
54 2 0.03
55 71 0.95
56 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (55 bp):
TAAGGTACACGAGTCATATGAGTAACAGTGTCAGGTTACTCCACCTCGACACCAT
Found at i:25617 original size:19 final size:19
Alignment explanation
Indices: 25579--25623 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
25569 AACAAGTATG
*
25579 CTTTGA-CCAAACTGTTGA
1 CTTTGACCCAAACTATTGA
*
25597 CTTTGACCCATACTATTGA
1 CTTTGACCCAAACTATTGA
25616 CTTTGACC
1 CTTTGACC
25624 AGAGTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (19 bp):
CTTTGACCCAAACTATTGA
Found at i:30372 original size:15 final size:16
Alignment explanation
Indices: 30352--30382 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30342 CGTAAATGAT
30352 AATAA-TAAAATATCA
1 AATAATTAAAATATCA
30367 AATAATTAAAATATCA
1 AATAATTAAAATATCA
30383 TGTCTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATTAAAATATCA
Found at i:30871 original size:21 final size:20
Alignment explanation
Indices: 30822--30874 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
30812 CAACCACTTT
*
30822 TATGTTATTATGTGTGATGT
1 TATGTTATTATGTGTGATGA
*
30842 TCATATTATTA-GTGATGCATGA
1 T-ATGTTATTATGTG-TG-ATGA
30864 TATGTTATTAT
1 TATGTTATTAT
30875 CATGACTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (20 bp):
TATGTTATTATGTGTGATGA
Found at i:34707 original size:7 final size:7
Alignment explanation
Indices: 34695--34752 Score: 80
Period size: 7 Copynumber: 8.3 Consensus size: 7
34685 CCTTGCAATG
34695 AACCCTA
1 AACCCTA
34702 AACCCTA
1 AACCCTA
34709 AACCCTA
1 AACCCTA
*
34716 AATCCTA
1 AACCCTA
*
34723 AATCCTA
1 AACCCTA
*
34730 AATCCTA
1 AACCCTA
*
34737 AATCCTA
1 AACCCTA
34744 AACCCTA
1 AACCCTA
34751 AA
1 AA
34753 TTATACTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCTA
Found at i:34753 original size:21 final size:21
Alignment explanation
Indices: 34698--34753 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
34688 TGCAATGAAC
*
34698 CCTAAACCCTAAACCCTAAAT
1 CCTAAACCCTAAATCCTAAAT
*
34719 CCTAAATCCTAAATCCTAAAT
1 CCTAAACCCTAAATCCTAAAT
34740 CCTAAACCCTAAAT
1 CCTAAACCCTAAAT
34754 TATACTTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (21 bp):
CCTAAACCCTAAATCCTAAAT
Found at i:34834 original size:14 final size:14
Alignment explanation
Indices: 34833--34884 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
34823 TACAAACTCT
34833 AAACCCTAAACTAC
1 AAACCCTAAACTAC
*
34847 AAACCTTAAACTAC
1 AAACCCTAAACTAC
*
34861 AAACCCTAAACTAT
1 AAACCCTAAACTAC
34875 AAACCCTAAA
1 AAACCCTAAA
34885 ACTTAAATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCTAAACTAC
Found at i:34857 original size:21 final size:21
Alignment explanation
Indices: 34811--34850 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
34801 ATCTTTGCAA
34811 TAAACCCTAAACTACAAACTC
1 TAAACCCTAAACTACAAACTC
34832 TAAACCCTAAACTACAAAC
1 TAAACCCTAAACTACAAAC
34851 CTTAAACTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCTAAACTACAAACTC
Found at i:34891 original size:14 final size:14
Alignment explanation
Indices: 34826--34884 Score: 82
Period size: 14 Copynumber: 4.2 Consensus size: 14
34816 CCTAAACTAC
*
34826 AAACTCTAAACCCT
1 AAACTATAAACCCT
* *
34840 AAACTACAAACCTT
1 AAACTATAAACCCT
*
34854 AAACTACAAACCCT
1 AAACTATAAACCCT
34868 AAACTATAAACCCT
1 AAACTATAAACCCT
34882 AAA
1 AAA
34885 ACTTAAATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACTATAAACCCT
Found at i:36778 original size:11 final size:11
Alignment explanation
Indices: 36758--36789 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
36748 TGGTGAGCAC
36758 TTGAGCTTGAA
1 TTGAGCTTGAA
*
36769 TTGAGTTTGAA
1 TTGAGCTTGAA
36780 TTGAGCTTGA
1 TTGAGCTTGA
36790 GTCTCAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (11 bp):
TTGAGCTTGAA
Found at i:39928 original size:98 final size:97
Alignment explanation
Indices: 39756--40002 Score: 287
Period size: 98 Copynumber: 2.5 Consensus size: 97
39746 GGCACACAAA
* * *
39756 TGCGCGTCATTGAAGCCACCGTCATAAATATTAGATGACACACAATTGTGTGTCATAAATCTATG
1 TGCGCGTCATTGAAGCCCCCGTCATAAATA--AGATGACACACATTTGTGTGTCATAAATCTATA
* * * *
39821 ACGCACATTTATGACACGCATTTATGACGTGCAT
64 ACACACATTTATGACACACATTTACGACGTACAT
*
39855 TGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATAA
1 TGCGCGTCATTGAAGCCCCCGTCATAAAT-AAGATGACACACATTTGTGTGTCATAAATCTATAA
** ** * *
39920 CATGCATTTATGACTTACATTTACGACTTATAT
65 CACACATTTATGACACACATTTACGACGTACAT
* * * * *
39953 TGCGTGTCATTGAAGCACACGTCATTAAAAAAGATGACACACATTCGTGT
1 TGCGCGTCATTGAAGCCCCCGTCA-TAAATAAGATGACACACATTTGTGT
40003 TTCGTGATTG
Statistics
Matches: 127, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
98 94 0.74
99 32 0.25
100 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (97 bp):
TGCGCGTCATTGAAGCCCCCGTCATAAATAAGATGACACACATTTGTGTGTCATAAATCTATAAC
ACACATTTATGACACACATTTACGACGTACAT
Found at i:40032 original size:2 final size:2
Alignment explanation
Indices: 40025--40075 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
40015 TGTCGTAAAT
40025 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
40067 TA TA TA TA T
1 TA TA TA TA T
40076 TGTAGATTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41123 original size:12 final size:12
Alignment explanation
Indices: 41106--41136 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
41096 ATATTTTGAT
41106 AATCAAATGAAA
1 AATCAAATGAAA
41118 AATCAAATGAAA
1 AATCAAATGAAA
*
41130 AAACAAA
1 AATCAAA
41137 CCCGGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.13
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:42163 original size:236 final size:236
Alignment explanation
Indices: 41750--42223 Score: 939
Period size: 236 Copynumber: 2.0 Consensus size: 236
41740 CCATCAAATT
41750 GAAAACAATAACATTTATTATTTCTAAGCATAAATGCACCATACTAGTAATTGATGTCAAATGTT
1 GAAAACAATAACATTTATTATTTCTAAGCATAAATGCACCATACTAGTAATTGATGTCAAATGTT
41815 GAAGGCATTGTGACAAAAGACATCTCAAACATGCTCTGCACATTGCTAAGATAGTAGAATTAGAT
66 GAAGGCATTGTGACAAAAGACATCTCAAACATGCTCTGCACATTGCTAAGATAGTAGAATTAGAT
41880 GAGGCTAGTCACTCAAAACTTCAATCGAGTCTATTTCTTTGAGCATGACCTAAGGATTAAAGAGA
131 GAGGCTAGTCACTCAAAACTTCAATCGAGTCTATTTCTTTGAGCATGACCTAAGGATTAAAGAGA
41945 AAAAACAAATATGCAATTACCAAGGAAGAAGAAAGTTATAG
196 AAAAACAAATATGCAATTACCAAGGAAGAAGAAAGTTATAG
41986 GAAAACAATAACATTTATTATTTCTAAGCATAAATGCACCATACTAGTAATTGATGTCAAATGTT
1 GAAAACAATAACATTTATTATTTCTAAGCATAAATGCACCATACTAGTAATTGATGTCAAATGTT
42051 GAAGGCATTGTGACAAAAGACATCTCAAACATGCTCTGCACATTGCTAAGATAGTAGAATTAGAT
66 GAAGGCATTGTGACAAAAGACATCTCAAACATGCTCTGCACATTGCTAAGATAGTAGAATTAGAT
42116 GAGGCTAGTCACTCAAAACTTCAATCGAGTCTATTTCTTTGAGCATGACCTAAGGATTAAAGAGA
131 GAGGCTAGTCACTCAAAACTTCAATCGAGTCTATTTCTTTGAGCATGACCTAAGGATTAAAGAGA
*
42181 AAAAAGAAATATGCAATTACCAAGGAAGAAGAAAGTTATAG
196 AAAAACAAATATGCAATTACCAAGGAAGAAGAAAGTTATAG
42222 GA
1 GA
42224 TAAATACTCT
Statistics
Matches: 237, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
236 237 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (236 bp):
GAAAACAATAACATTTATTATTTCTAAGCATAAATGCACCATACTAGTAATTGATGTCAAATGTT
GAAGGCATTGTGACAAAAGACATCTCAAACATGCTCTGCACATTGCTAAGATAGTAGAATTAGAT
GAGGCTAGTCACTCAAAACTTCAATCGAGTCTATTTCTTTGAGCATGACCTAAGGATTAAAGAGA
AAAAACAAATATGCAATTACCAAGGAAGAAGAAAGTTATAG
Found at i:47919 original size:15 final size:15
Alignment explanation
Indices: 47880--47911 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47870 ACTATTGTGA
*
47880 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
47895 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
47910 CA
1 CA
47912 CTATTAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:50189 original size:21 final size:19
Alignment explanation
Indices: 50165--50207 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
50155 TTGATGTTAT
50165 AATTTAACTTAATTGTGACAA
1 AATTT-ACTT-ATTGTGACAA
* *
50186 AATTTACTTTTTGTGATAA
1 AATTTACTTATTGTGACAA
50205 AAT
1 AAT
50208 AATTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (19 bp):
AATTTACTTATTGTGACAA
Found at i:64516 original size:30 final size:32
Alignment explanation
Indices: 64481--64563 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 32
64471 GACATATCAT
*
64481 ATATCACGTCATCATCTTAAGTGAT-T-GTAC
1 ATATCACATCATCATCTTAAGTGATGTGGTAC
*
64511 ATATCACATCATCGTCTTAAGTGATGTGGTAC
1 ATATCACATCATCATCTTAAGTGATGTGGTAC
* *
64543 ATACCACATCAACATCTTAAG
1 ATATCACATCATCATCTTAAG
64564 AGACATGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 23 0.50
31 1 0.02
32 22 0.48
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (32 bp):
ATATCACATCATCATCTTAAGTGATGTGGTAC
Found at i:66276 original size:31 final size:30
Alignment explanation
Indices: 66227--66284 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
66217 ATTTGAATAT
66227 AGATCAAATGAACCTTTATTTGAAAAATCAA
1 AGATCAAATGAACCTTTATTT-AAAAATCAA
***
66258 AGATCAAATGAGTTTTTATTTAAAAAT
1 AGATCAAATGAACCTTTATTTAAAAAT
66285 TTCAATCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (30 bp):
AGATCAAATGAACCTTTATTTAAAAATCAA
Found at i:68585 original size:37 final size:37
Alignment explanation
Indices: 68544--68640 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
68534 GGATCCTATA
*
68544 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
* * * *
68581 TTTAGGAGTTTAAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
*
68618 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTAAATCCTAGTAG
68641 GACGAAAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (37 bp):
TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
Found at i:68852 original size:13 final size:12
Alignment explanation
Indices: 68834--68870 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
68824 TGATATGAAA
68834 TCGAAGTCGTAG
1 TCGAAGTCGTAG
68846 TTCGAAGTCGTAG
1 -TCGAAGTCGTAG
*
68859 TCGAAGTTGTAG
1 TCGAAGTCGTAG
68871 AAGCATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (12 bp):
TCGAAGTCGTAG
Found at i:69778 original size:51 final size:51
Alignment explanation
Indices: 69718--69870 Score: 272
Period size: 50 Copynumber: 3.0 Consensus size: 51
69708 AATTTCGCAC
* * *
69718 CCTTAAATTTATAATATAAATTTATAAGTCCATACCCCTAACATAAAACTA
1 CCTTAAATTTACAATATAAATTTATAAGTTCATACCCCTAATATAAAACTA
69769 CCTTAAATTTACAATATAAATTTATAAGTTCATACCCCTAATATAAAACTA
1 CCTTAAATTTACAATATAAATTTATAAGTTCATACCCCTAATATAAAACTA
69820 -CTTAAATTTACAATATAAATTTATAAGTTCATACCCCTAATATAAAACTA
1 CCTTAAATTTACAATATAAATTTATAAGTTCATACCCCTAATATAAAACTA
69870 C
1 C
69871 GTATATGTTT
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 50 0.51
51 48 0.49
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (51 bp):
CCTTAAATTTACAATATAAATTTATAAGTTCATACCCCTAATATAAAACTA
Found at i:71491 original size:18 final size:19
Alignment explanation
Indices: 71468--71511 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
71458 CCAGTAATCC
* *
71468 TATTCC-CTGGTAATCTTT
1 TATTCCACTGATAATCTTA
71486 TATTCCCACTGATAATCTTA
1 TATT-CCACTGATAATCTTA
71506 TATTCC
1 TATTCC
71512 GTAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:73312 original size:7 final size:7
Alignment explanation
Indices: 73300--73325 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
73290 AATATATATA
73300 GAGAGAG
1 GAGAGAG
73307 GAGAGAG
1 GAGAGAG
73314 GAGAGAG
1 GAGAGAG
73321 GAGAG
1 GAGAG
73326 GACATTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (7 bp):
GAGAGAG
Found at i:74781 original size:4 final size:4
Alignment explanation
Indices: 74772--74895 Score: 68
Period size: 4 Copynumber: 29.0 Consensus size: 4
74762 AGAGGTAATT
* * *
74772 TTTA TTTA TTTA TTTA TTTTGA ATTA TTTA TTTA TTTCAA ATAA TTTA
1 TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA TTT--A TTTA TTTA
* * * * * * *
74820 TTTA TTTA TGTA TTCA TTTA TTTTGA ATAA ATTA GTGA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA TTTA TTTA TTTA
* *
74870 TTTCAA ATTA TTTT TTTA TTTA TTTA
1 TTT--A TTTA TTTA TTTA TTTA TTTA
74896 ATTGAAATGG
Statistics
Matches: 91, Mismatches: 21, Indels: 16
0.71 0.16 0.12
Matches are distributed among these distances:
4 75 0.82
5 9 0.10
6 7 0.08
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:74798 original size:18 final size:18
Alignment explanation
Indices: 74777--74842 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
74767 TAATTTTTAT
74777 TTATTTATTTATTTTGAA
1 TTATTTATTTATTTTGAA
**
74795 TTATTTATTTATTTCAAA
1 TTATTTATTTATTTTGAA
* *
74813 TAATTTATTTATTTATGTA
1 TTATTTATTTATTT-TGAA
74832 TTCATTTATTT
1 TT-ATTTATTT
74843 TGAATAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 29 0.74
19 2 0.05
20 8 0.21
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TTATTTATTTATTTTGAA
Found at i:74802 original size:26 final size:26
Alignment explanation
Indices: 74768--74895 Score: 107
Period size: 26 Copynumber: 4.8 Consensus size: 26
74758 ATACAGAGGT
74768 AATT-TTTATTTATTTATTTATTTTG
1 AATTATTTATTTATTTATTTATTTTG
** *
74793 AATTATTTATTTATTTCAAATAATTT-
1 AATTATTTATTTATTT-ATTTATTTTG
* * *
74819 ATTTATTTATGTATTCATTTATTTTG
1 AATTATTTATTTATTTATTTATTTTG
* **
74845 AATAAATTAGTGATTTATTTATTTATTTCA
1 AAT-TATT--T-ATTTATTTATTTATTTTG
*
74875 AATTATTTTTTTATTTATTTA
1 AATTATTTATTTATTTATTTA
74896 ATTGAAATGG
Statistics
Matches: 79, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
25 10 0.13
26 38 0.48
27 10 0.13
29 4 0.05
30 17 0.22
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (26 bp):
AATTATTTATTTATTTATTTATTTTG
Found at i:74849 original size:34 final size:34
Alignment explanation
Indices: 74779--74892 Score: 94
Period size: 34 Copynumber: 3.4 Consensus size: 34
74769 ATTTTTATTT
74779 ATTTATTTATTT-TGAATTATTTATTTATTTCAAATA
1 ATTTATTTATTTATG---TATTTATTTATTTCAAATA
* **
74815 ATTTATTTATTTATGTATTCATTTATTTTGAATA
1 ATTTATTTATTTATGTATTTATTTATTTCAAATA
* * * *
74849 A---A-TTAGTGATTTATTTATTTATTTCAAATT
1 ATTTATTTATTTATGTATTTATTTATTTCAAATA
*
74879 ATTTTTTTATTTAT
1 ATTTATTTATTTAT
74893 TTAATTGAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
30 22 0.37
31 1 0.02
34 23 0.38
36 12 0.20
37 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (34 bp):
ATTTATTTATTTATGTATTTATTTATTTCAAATA
Found at i:78799 original size:33 final size:33
Alignment explanation
Indices: 78752--78817 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
78742 GAAAATAAAT
78752 CAACATATTTGAGTCCTATTGAAACACTAAAAC
1 CAACATATTTGAGTCCTATTGAAACACTAAAAC
* *
78785 CAACGTATTTGAGTCTTATTGAAACACTAAAAC
1 CAACATATTTGAGTCCTATTGAAACACTAAAAC
78818 TGAAGCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (33 bp):
CAACATATTTGAGTCCTATTGAAACACTAAAAC
Found at i:78828 original size:33 final size:33
Alignment explanation
Indices: 78758--78833 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
78748 AAATCAACAT
*
78758 ATTTGAGTCCTATTGAAACACTAAAACCAACGT
1 ATTTGAGTCCTATTGAAACACTAAAACCAACGC
* *
78791 ATTTGAGTCTTATTGAAACACTAAAACTGAA-GC
1 ATTTGAGTCCTATTGAAACACTAAAAC-CAACGC
78824 ATTTGAGTCC
1 ATTTGAGTCC
78834 AAGTAGGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 36 0.95
34 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (33 bp):
ATTTGAGTCCTATTGAAACACTAAAACCAACGC
Found at i:82260 original size:14 final size:14
Alignment explanation
Indices: 82243--82301 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
82233 CAAAAAGTAA
82243 AAAGAGAAAAAAAC
1 AAAGAGAAAAAAAC
*
82257 -AA-AG-AAAAAGC
1 AAAGAGAAAAAAAC
82268 AAAGAGAAAATAAA-
1 AAAGAGAAAA-AAAC
82282 AAAGAGAAACAAAAAC
1 AAAGAG-AA-AAAAAC
82298 AAAG
1 AAAG
82302 TAAAAAGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
11 6 0.17
12 4 0.11
13 4 0.11
14 9 0.25
15 7 0.19
16 6 0.17
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAGAGAAAAAAAC
Found at i:82273 original size:25 final size:24
Alignment explanation
Indices: 82243--82294 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
82233 CAAAAAGTAA
82243 AAAGAGAAAA-AAACAAAGAAAAAGC
1 AAAGAGAAAATAAA-AAAGAAAAA-C
*
82268 AAAGAGAAAATAAAAAAGAGAAAC
1 AAAGAGAAAATAAAAAAGAAAAAC
82292 AAA
1 AAA
82295 AACAAAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 18 0.72
26 3 0.12
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (24 bp):
AAAGAGAAAATAAAAAAGAAAAAC
Found at i:82319 original size:41 final size:39
Alignment explanation
Indices: 82241--82321 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 39
82231 AACAAAAAGT
82241 AAAAAGAGAAAAAAACAAAGAAAAAGCAAAGAGAAAATA
1 AAAAAGAGAAAAAAACAAAGAAAAAGCAAAGAGAAAATA
**
82280 AAAAAGAGAAACAAAAACAAAGTAAAAAGTGAAGA-AAAATA
1 AAAAAGAG-AA-AAAAACAAAG-AAAAAGCAAAGAGAAAATA
82321 A
1 A
82322 GACAAGACGC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 8 0.22
40 2 0.05
41 17 0.46
42 10 0.27
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (39 bp):
AAAAAGAGAAAAAAACAAAGAAAAAGCAAAGAGAAAATA
Found at i:84720 original size:37 final size:37
Alignment explanation
Indices: 84670--84781 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
84660 TTTCCAAGTT
84670 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
* *
84707 TTGTCTCTCTTGAGACAGTCTCCCTTGAAAC-AAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
*
84743 TTATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
84780 TT
1 TT
84782 TGAATATATT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 33 0.48
37 36 0.52
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
Found at i:84757 original size:36 final size:36
Alignment explanation
Indices: 84668--84776 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
84658 AATTTCCAAG
84668 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
* *
84705 TCTTGTCTCTCTTGAGACAGTCTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
84741 TTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
84777 ATCTTTGAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 36 0.54
37 31 0.46
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:84867 original size:15 final size:15
Alignment explanation
Indices: 84817--84867 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
84807 TTTGTCTCCC
84817 TTGAGACAGTTTCTT
1 TTGAGACAGTTTCTT
84832 TT-AGAACTAAGTTT-TT
1 TTGAG-AC--AGTTTCTT
84848 CTTGAGACAGTTTCTT
1 -TTGAGACAGTTTCTT
84864 TTGA
1 TTGA
84868 AACAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
14 2 0.07
15 13 0.43
16 4 0.13
17 9 0.30
18 2 0.07
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (15 bp):
TTGAGACAGTTTCTT
Found at i:84896 original size:36 final size:34
Alignment explanation
Indices: 84796--84907 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 34
84786 TATATTTTCC
84796 TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTT-TC-CCCTTGAGACAGTTTCTT
*
84832 TT-AGAACTAAGTTTTT---CTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTTCCCCTTGAGACAGTTTCTT
*
84864 TTGAAACAAATTTTTCCCCTATTGAGACAGTTTCTC
1 TTGAAACAAATTTTTCCCC--TTGAGACAGTTTCTT
84900 TTGAAACA
1 TTGAAACA
84908 CAAAAAAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
31 7 0.11
32 21 0.32
33 1 0.02
34 1 0.02
35 1 0.02
36 28 0.43
37 6 0.09
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (34 bp):
TTGAAACAAATTTTTCCCCTTGAGACAGTTTCTT
Found at i:84983 original size:31 final size:31
Alignment explanation
Indices: 84909--84972 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
84899 CTTGAAACAC
* * *
84909 AAAAAAAAACCCTCGAAATTGTTTCTCTTGA
1 AAAAAAAAACCTTTGAAAATGTTTCTCTTGA
84940 AAAAAAAAACCTTTGAAAATGTTTCTCTTGA
1 AAAAAAAAACCTTTGAAAATGTTTCTCTTGA
84971 AA
1 AA
84973 CATCAAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (31 bp):
AAAAAAAAACCTTTGAAAATGTTTCTCTTGA
Found at i:85118 original size:83 final size:82
Alignment explanation
Indices: 84979--85236 Score: 340
Period size: 83 Copynumber: 3.1 Consensus size: 82
84969 GAAACATCAA
* * * *
84979 ACCTTCGAGTTCGATTACGCTCAACTTCAAGACACATCATTTACAGCATAACTCAAGGCTAGAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
85044 GGTTATCTGCCAACAAAG
66 GGTTATCTG-CAACAAAG
85062 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
* *
85127 GGTTATCTGTTAACAAGG
66 GGTTATCTG-CAACAAAG
* * * * * * * * *
85145 ACCTCCGAGTTCAACTCCACTCAGCTCAAAAGCACTATCATTTGCAGCATAGCTCAAGGCAAGAA
1 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC-ATCATTTACAGCATAACTCAAGGCTAGAA
85210 GGGTTATCTGC--CAAAG
65 GGGTTATCTGCAACAAAG
85226 ACCTTCGAGTT
1 ACCTTCGAGTT
85237 TGATTCCATT
Statistics
Matches: 155, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
81 14 0.09
83 105 0.68
84 36 0.23
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (82 bp):
ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
GGTTATCTGCAACAAAG
Found at i:85720 original size:33 final size:33
Alignment explanation
Indices: 85682--85762 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
85672 AAAATAAATT
85682 AACGTATTTGAGTCCTATTAAAACAATAAAACC
1 AACGTATTTGAGTCCTATTAAAACAATAAAACC
* * *
85715 AACGTATTTGAGTCCTATTGAAACACTAAAACT
1 AACGTATTTGAGTCCTATTAAAACAATAAAACC
* *
85748 AAAGCATTTGAGTCC
1 AACGTATTTGAGTCC
85763 AAGTAGGACT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (33 bp):
AACGTATTTGAGTCCTATTAAAACAATAAAACC
Found at i:87347 original size:19 final size:20
Alignment explanation
Indices: 87318--87355 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
87308 AGAAATTTGT
87318 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
87338 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
87356 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:87398 original size:63 final size:62
Alignment explanation
Indices: 87323--87481 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
87313 TTTGTTGAAG
* * * *
87323 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
87386 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
87449 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
87482 ACCTCCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 80 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:88611 original size:18 final size:18
Alignment explanation
Indices: 88588--88623 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88578 AGGAATGATA
* *
88588 TGTGGTCCTTCGGGACAT
1 TGTGGTCATTCGGAACAT
88606 TGTGGTCATTCGGAACAT
1 TGTGGTCATTCGGAACAT
88624 ATATGTATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (18 bp):
TGTGGTCATTCGGAACAT
Found at i:88732 original size:18 final size:18
Alignment explanation
Indices: 88709--88744 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
88699 AGGAATGATA
88709 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
*
88727 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTCGGGACAT
88745 ATATGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.33, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:88754 original size:121 final size:121
Alignment explanation
Indices: 88483--88848 Score: 615
Period size: 121 Copynumber: 3.0 Consensus size: 121
88473 TGAGGGTCTA
88483 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
88548 GATCCCTAGCATATATATATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGC--ATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
* * *
88606 TGTGGTCATTCGGAACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACATATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
88671 GATCCCTAGCATATGTATATGATTTTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
* * *
88727 TGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* **
88792 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
88848 T
1 T
88849 ATTATATGGC
Statistics
Matches: 228, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
121 156 0.68
123 72 0.32
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:88923 original size:23 final size:23
Alignment explanation
Indices: 88855--88915 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
88845 CATTATTATA
*
88855 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTATG
*
88878 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTATG
*
88901 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
88916 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTATG
Found at i:92752 original size:19 final size:20
Alignment explanation
Indices: 92723--92760 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
92713 AGAAATTTGT
92723 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
92743 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
92761 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:92803 original size:63 final size:62
Alignment explanation
Indices: 92728--92886 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
92718 TTTGTTGAAG
* * * *
92728 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
92791 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
92854 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
92887 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 80 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:94012 original size:18 final size:18
Alignment explanation
Indices: 93989--94024 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93979 AGGAATGATA
93989 TGTGGTCCTTCAGGACAT
1 TGTGGTCCTTCAGGACAT
*
94007 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCAGGACAT
94025 ATATGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCAGGACAT
Found at i:94044 original size:121 final size:121
Alignment explanation
Indices: 93886--94249 Score: 658
Period size: 121 Copynumber: 3.0 Consensus size: 121
93876 CGAGGGTCTA
*
93886 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATTTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
93951 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGACAT
94007 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
94072 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATATGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGACAT
* *
94128 TGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
94193 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTT-ATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCA-GGACAT
94249 T
1 T
94250 ATTATATGGC
Statistics
Matches: 234, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
121 234 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCAGGACAT
Found at i:94085 original size:59 final size:59
Alignment explanation
Indices: 93901--94085 Score: 141
Period size: 59 Copynumber: 3.1 Consensus size: 59
93891 TCCTTCGGGA
*
93901 CATATATGTATTCTTTGGAACATTTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
1 CATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
* * * * * *
93960 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCCT--TCAG-GACAT--TGTGGTCCTTC
1 CATA--TATGT-ATTCTT-TGGAA-CATATGTGAAGT-CTGGTGAGACACATACT-TGATCC--C
**
94018 GGG
57 TAG
*
94021 ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
1 -CATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
94081 CATAT
1 CATAT
94086 GTATATGATT
Statistics
Matches: 91, Mismatches: 18, Indels: 34
0.64 0.13 0.24
Matches are distributed among these distances:
57 6 0.07
58 7 0.08
59 22 0.24
60 13 0.14
61 13 0.14
62 17 0.19
63 7 0.08
64 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (59 bp):
CATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
Found at i:94286 original size:23 final size:23
Alignment explanation
Indices: 94256--94316 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
94246 CATTATTATA
94256 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
94279 TGGCACTATGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
94302 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
94317 TTTATATGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:97945 original size:16 final size:17
Alignment explanation
Indices: 97910--97947 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
97900 CTAATTTTTT
97910 TTTTAAATTTTCTTATA
1 TTTTAAATTTTCTTATA
* *
97927 TTTTAATTTTTTTTA-A
1 TTTTAAATTTTCTTATA
97943 TTTTA
1 TTTTA
97948 TGTTGATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAAATTTTCTTATA
Found at i:100440 original size:16 final size:17
Alignment explanation
Indices: 100402--100447 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
100392 TGTTTATGAG
100402 GGAATTAGAATCTGTAAA
1 GGAATTAGAATCTGT-AA
100420 GGAATTAGAATCTGT-A
1 GGAATTAGAATCTGTAA
*
100436 GGAATTTGAATC
1 GGAATTAGAATC
100448 CAATTCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.44
18 15 0.56
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (17 bp):
GGAATTAGAATCTGTAA
Found at i:101078 original size:38 final size:37
Alignment explanation
Indices: 101019--101105 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 37
101009 TTTCCACCCT
101019 AAACCCGAACCCGACCTGACCCGAATATCACACTTAAAA
1 AAACCCG-ACCCGACCTGACCCGAATATCACACTT-AAA
*
101058 AAACCCGACCCGA-CTCGACCCGAATATCACACTTATA
1 AAACCCGACCCGACCT-GACCCGAATATCACACTTAAA
*
101095 AAACCAGACCC
1 AAACCCGACCC
101106 AACCCGAACA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 14 0.31
38 24 0.53
39 7 0.16
ACGTcount: A:0.39, C:0.38, G:0.10, T:0.13
Consensus pattern (37 bp):
AAACCCGACCCGACCTGACCCGAATATCACACTTAAA
Found at i:101467 original size:221 final size:216
Alignment explanation
Indices: 101060--101639 Score: 750
Period size: 221 Copynumber: 2.6 Consensus size: 216
101050 ACTTAAAAAA
* * *
101060 ACCCGACCCGACTCGACCCGAATATCACACTTATAAAACCAGACCCAACCCGAACAAAATAAAGT
1 ACCCGACCCAACTCGACCCGAATATCACACATATAAAA--A-ACCCGACCCGAACAAAATAAAGT
*
101125 TTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACTCGACCGACCCGAAATAATAAAAA
63 TTCATCCGACCCGACCCGAATATATGAATTAGAAATCC-A-AC--CCGACCCGAAATAATAAAAA
101190 AATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACCCAAATTATATATATTTTCGGG
124 AATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACCCAAATTATATATATTTTCGGG
101255 TCGGTCCGGTTTTTTTCACCCTAAACCTGAACCCG
189 TCGGTCCGGTTTTTTT-ACCCT--A----AACCCG
101290 ACCCGACCCAACTCGACCCGAATATCACAC-T-TAAAAAACCCGACCCGAACAAAATAAAGTTTC
1 ACCCGACCCAACTCGACCCGAATATCACACATATAAAAAACCCGACCCGAACAAAATAAAGTTTC
* * *
101353 ATCCGACCCGACCCAAATATATGAATTAGAAATCCAACCCGACCCGACATAATAAAAAATTATTT
66 ATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGAAATAATAAAAAAATATTT
* * **
101418 TTATTTAATAAAAACAGTGATTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCGGTCC
131 TTATTTAATAAAAACAGTGACTTAATCCGACCCAACCCAAATTATATATATTTTCGGGTCGGTCC
101483 GGTTTTTTTACCCTAAACCCG
196 GGTTTTTTTACCCTAAACCCG
* * * *
101504 ----TACCCAACCCGACCCGAATATCACACATAAAAAAAACTTGATCCGACCCGACCAAAATAAA
1 ACCCGACCCAACTCGACCCGAATATCACACATATAAAAAAC-----CCGACCCGAACAAAATAAA
* *
101565 GTTTCACCCGACCCGACCCGAATATATGAATTAG--A---AACCCGACCCAAAATAATAAAAAAA
61 GTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGAAATAATAAAAAAA
*
101625 TATTTTTATTCAATA
126 TATTTTTATTTAATA
101640 TATGAATAAG
Statistics
Matches: 323, Mismatches: 20, Indels: 32
0.86 0.05 0.09
Matches are distributed among these distances:
210 24 0.07
211 1 0.00
212 43 0.13
214 6 0.02
215 1 0.00
217 50 0.15
218 1 0.00
220 5 0.02
221 95 0.29
223 1 0.00
224 1 0.00
225 59 0.18
226 1 0.00
228 5 0.02
229 1 0.00
230 29 0.09
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.23
Consensus pattern (216 bp):
ACCCGACCCAACTCGACCCGAATATCACACATATAAAAAACCCGACCCGAACAAAATAAAGTTTC
ATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGAAATAATAAAAAAATATTT
TTATTTAATAAAAACAGTGACTTAATCCGACCCAACCCAAATTATATATATTTTCGGGTCGGTCC
GGTTTTTTTACCCTAAACCCG
Found at i:102472 original size:19 final size:19
Alignment explanation
Indices: 102450--102488 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
102440 AAAATTATTA
*
102450 TATATATTTTTTTAAAAAT
1 TATATATTTTATTAAAAAT
*
102469 TATATATTTTATTCAAAAT
1 TATATATTTTATTAAAAAT
102488 T
1 T
102489 TATTTTCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATTTTATTAAAAAT
Found at i:111399 original size:18 final size:18
Alignment explanation
Indices: 111378--111423 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
111368 GTAAAAAGAT
*
111378 ATTAAAAT-AATAAAAGCG
1 ATTAAAATAAAT-AAAGCA
111396 ATT-AAATAAATAAAGCA
1 ATTAAAATAAATAAAGCA
*
111413 ATTAAAGTAAA
1 ATTAAAATAAA
111424 AATAAGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (18 bp):
ATTAAAATAAATAAAGCA
Found at i:113414 original size:32 final size:32
Alignment explanation
Indices: 113344--113416 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
113334 CCTAAGGTGA
*
113344 CCCTTGGGTAGGCTCTAAGGCCCCGAGAAACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGAAACT
** * *
113376 TTCTTGGGTAGGCTCTCAGGCCCCAAGGAACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGAAACT
113408 CCCTTGGGT
1 CCCTTGGGT
113417 TAATCATGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.18, C:0.30, G:0.29, T:0.23
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTAAGGCCCCAAGAAACT
Found at i:121605 original size:24 final size:24
Alignment explanation
Indices: 121572--121618 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
121562 TTTATTAGTT
*
121572 TAATTTAATATATAAAATTATTAA
1 TAATTAAATATATAAAATTATTAA
* *
121596 TAATTAAATATGTAATATTATTA
1 TAATTAAATATATAAAATTATTA
121619 TATCTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATTAAATATATAAAATTATTAA
Found at i:122256 original size:20 final size:20
Alignment explanation
Indices: 122231--122268 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
122221 TCCAGTTAAT
122231 TTTATGTTTGTTTA-CATTCG
1 TTTATG-TTGTTTATCATTCG
122251 TTTATGTTGTTTATCATT
1 TTTATGTTGTTTATCATT
122269 TTAACGGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.16, C:0.08, G:0.13, T:0.63
Consensus pattern (20 bp):
TTTATGTTGTTTATCATTCG
Done.