Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007826.1 Hibiscus syriacus cultivar Beakdansim tig00110165_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: 115469
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1022 original size:18 final size:18
Alignment explanation
Indices: 996--1038 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
986 CATATGTAAG
*
996 AAAAAAATAATTAA-TAAT
1 AAAATAATAA-TAATTAAT
1014 AAAATAATAATAATTAAT
1 AAAATAATAATAATTAAT
*
1032 AATATAA
1 AAAATAA
1039 CATAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATAATAATAATTAAT
Found at i:1026 original size:14 final size:15
Alignment explanation
Indices: 999--1027 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
989 ATGTAAGAAA
999 AAAATAATTAATAAT
1 AAAATAATTAATAAT
1014 AAAATAA-TAATAAT
1 AAAATAATTAATAAT
1028 TAATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAATTAATAAT
Found at i:1560 original size:79 final size:80
Alignment explanation
Indices: 1378--1646 Score: 301
Period size: 80 Copynumber: 3.3 Consensus size: 80
1368 ATATGCCCTC
* * *
1378 GAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCC-TAAGCTATGCTGC
1 GAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGC-GC
1442 AAATGATGATGCATTT
65 AAATGATGATGCATTT
* *
1458 GAGCTGAGTGGAGTCGAATTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGGGCTATGC-CA
1 GAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCGCA
* * *
1522 AATGATGGTTCCTTT
66 AATGATGATGCATTT
* * * *
1537 GAGTTGAGTGGAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGT
1 GAGCTGAGTGGAGTCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTTGAGCTATG-
* * * * *
1602 TGTAAATGACG-TGCCTTG
62 CGCAAATGATGATGCATTT
* *
1620 GAGCTGAGCGTAGTCGAACTCGAAGGT
1 GAGCTGAGTGGAGTCGAACTCGAAGGT
1647 TTGGTGTTTC
Statistics
Matches: 161, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
79 44 0.27
80 48 0.30
81 9 0.06
82 24 0.15
83 29 0.18
84 7 0.04
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (80 bp):
GAGCTGAGTGGAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCGCA
AATGATGATGCATTT
Found at i:1683 original size:30 final size:30
Alignment explanation
Indices: 1647--1762 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 30
1637 ACTCGAAGGT
1647 TTGGTGTTTCAAGAGAAACATTTTCAAAGA
1 TTGGTGTTTCAAGAGAAACATTTTCAAAGA
*
1677 TTGGTGTTTCAAGAGAAAC-TGTCTCAAGGGAGGCAAAA
1 TTGGTGTTTCAAGAGAAACAT-TTTCAA---A-G----A
* *
1715 TT-TTGTTTCAAGAGAAACATATTCAAAGA
1 TTGGTGTTTCAAGAGAAACATTTTCAAAGA
1744 TTGGTGTTTCAAGAGAAAC
1 TTGGTGTTTCAAGAGAAAC
1763 TATCTCAAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
29 4 0.06
30 39 0.56
33 2 0.03
34 2 0.03
37 19 0.27
38 4 0.06
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.30
Consensus pattern (30 bp):
TTGGTGTTTCAAGAGAAACATTTTCAAAGA
Found at i:1731 original size:37 final size:35
Alignment explanation
Indices: 1681--1829 Score: 136
Period size: 37 Copynumber: 4.3 Consensus size: 35
1671 CAAAGATTGG
* *
1681 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGA-G-AAAATTT
*
1718 TGTTTCAAGAGAAACATAT-TC-A-A-AG---ATTGG
1 TGTTTCAAGAGAAAC-TATCTCAAGAGAGAAAATT-T
1748 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAG--AAAATTT
* *
1785 TGTTTCAAG-GAAATTGTCTCAAGAGAGAAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAATTT
1818 TGTTTCAAGAGA
1 TGTTTCAAGAGA
1830 GACAAACTTA
Statistics
Matches: 94, Mismatches: 6, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
29 6 0.06
30 17 0.18
31 1 0.01
32 1 0.01
33 14 0.15
34 7 0.07
36 17 0.18
37 26 0.28
38 5 0.05
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (35 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGAAAATTT
Found at i:1759 original size:67 final size:67
Alignment explanation
Indices: 1651--1797 Score: 251
Period size: 67 Copynumber: 2.2 Consensus size: 67
1641 GAAGGTTTGG
* * * *
1651 TGTTTCAAGAGAAACATTTTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAAT
1 TGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAAT
1716 TT
66 TT
1718 TGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAAT
1 TGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAAT
1783 TT
66 TT
1785 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
1798 TTGTCTCAAG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
66 4 0.05
67 72 0.95
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (67 bp):
TGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAAT
TT
Found at i:1833 original size:55 final size:55
Alignment explanation
Indices: 1767--1947 Score: 150
Period size: 55 Copynumber: 3.1 Consensus size: 55
1757 AGAAACTATC
1767 TCAAGAGAGACAAAATTTTGTTTCAAGGAAATTGTCTCAAGAGAGAAAATTTGTT
1 TCAAGAGAGACAAAATTTTGTTTCAAGGAAATTGTCTCAAGAGAGAAAATTTGTT
* * * ** *
1822 TCAAGAGAGAC-AAACTTAGTTCCGAAATAAACTGTCTCAAG-GAGACGAAATTTGTT
1 TCAAGAGAGACAAAATTTTGTTTC-AAGGAAATTGTCTCAAGAGAGA--AAATTTGTT
* * *
1878 TCAAGGAAAACATATTCAAAGATTTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTT
1 TCAA-G---AGAGA--CAAA-ATTTTGTTTCAA-GGAAATTGTCTCAAGAGAG--AAAATTTGTT
1943 TCAAG
1 TCAAG
1948 GGAAACTGTC
Statistics
Matches: 96, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
54 13 0.14
55 25 0.26
56 13 0.14
57 1 0.01
60 3 0.03
62 1 0.01
63 4 0.04
64 19 0.20
65 16 0.17
67 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (55 bp):
TCAAGAGAGACAAAATTTTGTTTCAAGGAAATTGTCTCAAGAGAGAAAATTTGTT
Found at i:1926 original size:100 final size:100
Alignment explanation
Indices: 1822--2302 Score: 414
Period size: 100 Copynumber: 4.6 Consensus size: 100
1812 AAAATTTGTT
* *
1822 TCAAGAGAGACAAACTTAGTTCCGAA-ATAAACTGTCTCAAG-GAGACGAAATTTGTTTCAAGGA
1 TCAAGAGAGACAAAATTAGTTCC-AAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGA
* *
1885 AAACATATTCAAAGATTTTGTTTTAAGGGAAATTGTC
65 AAACATATTCAAAGA-TTTGTTTCAAGGGAAACTGTC
* * * *
1922 TCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGA
1 TCAAGAGAGACAAAATTAGTTCCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAG-G-
* * ** * * *
1987 ATTGTATCAAGAGAGACAAAGACAAAATTTGTTTCGAGAGAAACTATC
64 A----A--AACATATTCAAAG-----ATTTGTTTCAAGGGAAACTGTC
* * * *
2035 TCAAGAGATACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTT-AATGT
1 TCAAGAGAGACAAAA-TTAGTTCCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAA-GG
2099 AAAACATATTCAAAGATTTGTTTCAAGGGAAACTGTC
64 AAAACATATTCAAAGATTTGTTTCAAGGGAAACTGTC
* * * *
2136 TCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-ATAATTTGTTTCAAGGG
1 TCAAGAGAGACAAAATTAGTTCCAAGAGAAACTGTCTCAAGAGAGACGA-AATTTGTTTCAAGGA
*
2200 AAAC-TGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTC
65 AAACATAT-TC-A-A-AG-----ATTTGTTTCAAGGGAAACTGTC
* * ** *
2244 TTAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
1 TCAAGAGAGACAAAATTAGTTCCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTTGTTT
2303 TGAGTAAATT
Statistics
Matches: 309, Mismatches: 42, Indels: 51
0.77 0.10 0.13
Matches are distributed among these distances:
99 5 0.02
100 76 0.25
101 55 0.18
102 2 0.01
103 3 0.01
106 9 0.03
107 1 0.00
108 69 0.22
109 17 0.06
112 1 0.00
113 32 0.10
114 39 0.13
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (100 bp):
TCAAGAGAGACAAAATTAGTTCCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAA
AACATATTCAAAGATTTGTTTCAAGGGAAACTGTC
Found at i:1946 original size:21 final size:21
Alignment explanation
Indices: 1917--1986 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
1907 TTAAGGGAAA
1917 TTGTCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGACAAAAT
*
1938 TTGTTTCAAG-G-G---AAA-
1 TTGTCTCAAGAGAGACAAAAT
*
1953 CTGTCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGACAAAAT
*
1974 TTGTTTCAAGAGA
1 TTGTCTCAAGAGA
1987 ATTGTATCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 8 0.21
16 4 0.11
17 1 0.03
19 1 0.03
20 4 0.11
21 20 0.53
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (21 bp):
TTGTCTCAAGAGAGACAAAAT
Found at i:1949 original size:36 final size:36
Alignment explanation
Indices: 1901--2302 Score: 439
Period size: 36 Copynumber: 11.2 Consensus size: 36
1891 ATTCAAAGAT
* *
1901 TTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1937 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
1973 TTTGTTTCAAGAG-AATTGTATCAAGAGAGACAAAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTC-A-AGAG----AGACAAAA
* * * *
2014 TTTGTTTCGAGAGAAACTATCTCAAGAGATACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * *
2050 CTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** *
2087 TTTGTTT-AATGTAAAACATAT-TC-A-A-AG-----A
1 TTTGTTTCAA-GGGAAAC-TGTCTCAAGAGAGACAAAA
2115 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
2151 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACATAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
2187 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
2223 TTTGTTTCAAGGGAAACTGTCTTAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
2259 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
2295 CTTTGTTT
1 -TTTGTTT
2303 TGAGTAAATT
Statistics
Matches: 315, Mismatches: 30, Indels: 41
0.82 0.08 0.11
Matches are distributed among these distances:
27 2 0.01
28 15 0.05
29 3 0.01
30 1 0.00
31 2 0.01
33 2 0.01
34 1 0.00
35 10 0.03
36 204 0.65
37 44 0.14
40 4 0.01
41 21 0.07
42 6 0.02
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:2076 original size:214 final size:214
Alignment explanation
Indices: 1822--2302 Score: 665
Period size: 214 Copynumber: 2.3 Consensus size: 214
1812 AAAATTTGTT
* * *
1822 TCAAGAGAGACAAACTTAGTTCCGAAATAAACTGTCTCAAG-GAGACGAAATTTGTTTCAA-GGA
1 TCAAGAGAGACAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTT-AATGGA
* *
1885 AAACATATTCAAAGATTTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGG
65 AAACATATTCAAAGA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGG
*
1950 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAG-AATTGTATCAAGAGAGACAAAGACAAAA
129 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAGACAAAA
2014 TTTGTTTCGAGAGAAACTATC
194 TTTGTTTCGAGAGAAACTATC
* *
2035 TCAAGAGATACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTTAATGTA
1 TCAAGAGAGAC-AAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTTAATGGA
2100 AAACATATTCAAAGATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGA
65 AAACATATTCAAAGATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGA
* * *
2165 AACTGTCTCAAGAGAGACATAATTTGTTTCAAGGGAAACTGTCTC-A-AGAG----AGACAAAAT
130 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAGACAAAAT
* * *
2224 TTGTTTCAAGGGAAACTGTC
195 TTGTTTCGAGAGAAACTATC
* * * ** * * *
2244 TTAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
1 TCAAGAGAGACAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAA-TTTGTTT
2303 TGAGTAAATT
Statistics
Matches: 240, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
208 33 0.14
209 42 0.17
213 14 0.06
214 111 0.46
215 40 0.17
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (214 bp):
TCAAGAGAGACAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTGTTTAATGGAA
AACATATTCAAAGATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAA
ACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGAGACAAAGACAAAATT
TGTTTCGAGAGAAACTATC
Found at i:2713 original size:124 final size:122
Alignment explanation
Indices: 2481--2933 Score: 537
Period size: 124 Copynumber: 3.7 Consensus size: 122
2471 ACTTCATCAG
** * ** * * * * *
2481 GCACGATAGCCTTCCTCGTGAAGTTGAAATTGTGGATGGCTCTTTCGCTGTGAAATTGAGCTTTT
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGC-CTT
** * * *
2546 AATTGGACGTCCTTCATTGTGAAGTTAAAATCCACACTGAAGATGAATGTTGCTGGTGG
65 AATTGGATATCCTTCGTCGTGAAGTTAAAATCCA-ACTGAAGATGAATGTTGCTGGTGA
* * * * * * *
2605 GTACGATTCCCTTCTTTGTGAAGTTAAAATCGTGGATGGCCCATTCGTTGCGAAGTTGAGCCTCG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCT-T
* * *
2670 AATTGGATATCCTTCGTCGTGAAGTTAAAATTCAATCTAAAGATGAATGTTGTTGGTGA
65 AATTGGATATCCTTCGTCGTGAAGTTAAAATCCAA-CTGAAGATGAATGTTGCTGGTGA
*
2729 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCTCATTCGTTGTGAAGTTGAGCCTTA
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTA
* ** * *
2794 ACTTGAATATCCTTCGTCGTGAAAATGAAATCCAAGCTGAAGATGAATGTTACTGGTGA
66 A-TTGGATATCCTTCGTCGTGAAGTTAAAATCCAA-CTGAAGATGAATGTTGCTGGTGA
*
2853 ACACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTA
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTA
* *
2918 GCTTGAATATCCTTCG
66 -ATTGGATATCCTTCG
2934 CCGAAGTTGA
Statistics
Matches: 283, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
123 4 0.01
124 279 0.99
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (122 bp):
GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTA
ATTGGATATCCTTCGTCGTGAAGTTAAAATCCAACTGAAGATGAATGTTGCTGGTGA
Found at i:2930 original size:248 final size:248
Alignment explanation
Indices: 2481--2933 Score: 597
Period size: 248 Copynumber: 1.8 Consensus size: 248
2471 ACTTCATCAG
* ** * *
2481 GCACGATAGCCTTCCTCGTGAAGTTGAAATTGTGGATGGCTCTTTCGCTGTGAAATTGAGCTTTT
1 GCACGATACCCTTCCTCGTGAAGTTGAAACCGTGGATGGCTCATTCGCTGTGAAATTGAGCTCTT
* * * ** * ***
2546 AATTGGACGTCCTTCATTGTGAAGTTAAAATCCACACTGAAGATGAATGTTGCTGGTGGGTACGA
66 AATTGAACATCCTTCATCGTGAAAATAAAATCCACACTGAAGATGAATGTTACTGGTGAACACGA
* * * * *
2611 TTCCCTTCTTTGTGAAGTTAAAATCGTGGATGGCCCATTCGTTGCGAAGTTGAGCCTCGAATTGG
131 TTCCCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCATTCGTTGCGAAGTTGAGCCTAGAATTGA
2676 ATATCCTTCGTCGTGAAGTTAAAATTCAATCTAAAGATGAATGTTGTTGGTGA
196 ATATCCTTCGTCGTGAAGTTAAAATTCAATCTAAAGATGAATGTTGTTGGTGA
* * * *
2729 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCTCATTCGTTGTGAAGTTGAGC-CTT
1 GCACGATACCCTTCCTCGTGAAGTTGAAACCGTGGATGGCTCATTCGCTGTGAAATTGAGCTCTT
* * *
2793 AACTTGAATATCCTTCGTCGTGAAAATGAAATCCA-AGCTGAAGATGAATGTTACTGGTGAACAC
66 AA-TTGAACATCCTTCATCGTGAAAATAAAATCCACA-CTGAAGATGAATGTTACTGGTGAACAC
* * *
2857 GATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTAG-CT
129 GATTCCCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCATTCGTTGCGAAGTTGAGCC-TAGAAT
2921 TGAATATCCTTCG
193 TGAATATCCTTCG
2934 CCGAAGTTGA
Statistics
Matches: 173, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
247 5 0.03
248 166 0.96
249 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (248 bp):
GCACGATACCCTTCCTCGTGAAGTTGAAACCGTGGATGGCTCATTCGCTGTGAAATTGAGCTCTT
AATTGAACATCCTTCATCGTGAAAATAAAATCCACACTGAAGATGAATGTTACTGGTGAACACGA
TTCCCTTCGTCGTGAAGTTAAAACCGTGGATGGCCCATTCGTTGCGAAGTTGAGCCTAGAATTGA
ATATCCTTCGTCGTGAAGTTAAAATTCAATCTAAAGATGAATGTTGTTGGTGA
Found at i:3233 original size:64 final size:63
Alignment explanation
Indices: 3154--3287 Score: 205
Period size: 64 Copynumber: 2.1 Consensus size: 63
3144 GTATTATTTC
*
3154 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTATTTGTT
1 GAGTCGAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAAT-AAACTGAAAAATTATTTGTT
* * * *
3218 GAGTCGAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAACTGGAAAGTTGTTTGTT
1 GAGTCGAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATAAACTGAAAAATTATTTGTT
3281 GAAGTCG
1 G-AGTCG
3288 CCCCTTCGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 18 0.28
64 46 0.72
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (63 bp):
GAGTCGAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAATAAACTGAAAAATTATTTGTT
Found at i:3627 original size:32 final size:32
Alignment explanation
Indices: 3541--3628 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
3531 TTCACATATG
*
3541 GATGTTGAATC-CCAAAAAATGCCCCAATATTC
1 GATGTTGAATCTCC-AAAAATGCCCCAACATTC
* * * *
3573 GATGTTGAATATCCGAAAATGCCTCAACATTT
1 GATGTTGAATCTCCAAAAATGCCCCAACATTC
* *
3605 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAAATGCCC
3629 TCATTGTTCC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
32 43 0.96
33 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAAATGCCCCAACATTC
Found at i:9422 original size:21 final size:21
Alignment explanation
Indices: 9396--9435 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9386 CAGAACCCCA
*
9396 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
9417 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
9436 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:9467 original size:21 final size:23
Alignment explanation
Indices: 9416--9467 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9406 GATTCCCCTG
*
9416 TGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGAATCGGCTCCCCTTCA
**
9439 AAGGGGGAATCGGCT-CCC-TCA
1 TGGGGGGAATCGGCTCCCCTTCA
9460 TGGGGGGA
1 TGGGGGGA
9468 TCGATTCCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 9 0.38
22 3 0.12
23 12 0.50
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.19
Consensus pattern (23 bp):
TGGGGGGAATCGGCTCCCCTTCA
Found at i:13326 original size:22 final size:21
Alignment explanation
Indices: 13284--13323 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13274 GAGTTTGTTT
*
13284 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
13305 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
13324 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:17264 original size:19 final size:18
Alignment explanation
Indices: 17225--17264 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
17215 AAACTAATAA
* *
17225 AAATAATAATAATAAACG
1 AAATAATAATAAAAAAAG
17243 AAATAAATAATAAAAAAAG
1 AAAT-AATAATAAAAAAAG
17262 AAA
1 AAA
17265 ATCAAAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (18 bp):
AAATAATAATAAAAAAAG
Found at i:19015 original size:15 final size:15
Alignment explanation
Indices: 18996--19026 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
18986 ATATGTAAGA
18996 AAAAATAATTAATAAT
1 AAAAATAA-TAATAAT
19012 AAAAATAATAATAAT
1 AAAAATAATAATAAT
19027 TAATAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:19023 original size:19 final size:18
Alignment explanation
Indices: 18995--19032 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18985 CATATGTAAG
18995 AAAAAATAATTAA-TAATA
1 AAAAAATAA-TAATTAATA
19013 AAAATAATAATAATTAATA
1 AAAA-AATAATAATTAATA
19032 A
1 A
19033 TATAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAAATAATAATTAATA
Found at i:19026 original size:22 final size:23
Alignment explanation
Indices: 18999--19048 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
18989 TGTAAGAAAA
18999 AATAATTAATAATA-AAAATAAT
1 AATAATTAATAATATAAAATAAT
*
19021 AATAATTAATAATATAACATAAT
1 AATAATTAATAATATAAAATAAT
19044 -ATAAT
1 AATAAT
19049 ATTTTCGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAATTAATAATATAAAATAAT
Found at i:20594 original size:2 final size:2
Alignment explanation
Indices: 20587--20615 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20577 ATAAATTTTA
20587 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20616 ACTTGGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20814 original size:60 final size:59
Alignment explanation
Indices: 20673--20830 Score: 153
Period size: 60 Copynumber: 2.7 Consensus size: 59
20663 TATAATTTGA
* * *
20673 GATGAAATTGAAATGTTCAAAAAGTTTG-GGA-TCAATTTAGAATGAAGGTCAGAGTTCAT
1 GATGAAATTGAAATGTT-AAAAAGTTTGAGGACT-AATTTAGAATGAAGATCAGAGTTAAG
* * * *
20732 GATGCAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATTATA-ATCATAGTTTAAG
1 GATGAAATTGAAATGTTAAAAAGTTTGAGGACTAATTTAGAATGA-AGATCAGAG-TTAAG
* * *
20792 GATGAAATCGAAATGTTTAAAAGTTT-AGGGACTAGTTTA
1 GATGAAATTGAAATGTTAAAAAGTTTGA-GGACTAATTTA
20831 AAATAACAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
58 9 0.11
59 36 0.43
60 38 0.46
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (59 bp):
GATGAAATTGAAATGTTAAAAAGTTTGAGGACTAATTTAGAATGAAGATCAGAGTTAAG
Found at i:21094 original size:14 final size:13
Alignment explanation
Indices: 21075--21113 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
21065 AATGGGAAGT
21075 AATCCCTGCAAATA
1 AATCCCTGCAAA-A
21089 AATCCCTGCATAAA
1 AATCCCTGCA-AAA
*
21103 AATCTCTGCAA
1 AATCCCTGCAA
21114 TATAGACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.23
Consensus pattern (13 bp):
AATCCCTGCAAAA
Found at i:25690 original size:16 final size:19
Alignment explanation
Indices: 25669--25713 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 19
25659 AAGAAATTTA
25669 TTTTTATATTAG-TA-T-T
1 TTTTTATATTAGTTATTAT
*
25685 TTTTTA-AATAGTTATTAT
1 TTTTTATATTAGTTATTAT
25703 TTTTTATATTA
1 TTTTTATATTA
25714 ATATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 1 0.04
18 7 0.30
19 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTATATTAGTTATTAT
Found at i:25710 original size:34 final size:34
Alignment explanation
Indices: 25664--25771 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 34
25654 GTGGTAAGAA
* *
25664 ATTTATTTTTATATTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTATATTAATATATTTATGTAAATA-TT
25698 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTATATTAATATATTTATGTAAATATT
* * *
25733 ATTTTTTTTAT-TAAAATAATATTTATATAATTATT
1 ATTTTTTTTATAT-TAAT-ATATTTATGTAAATATT
25768 ATTT
1 ATTT
25772 ATTTAGAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
33 1 0.02
34 28 0.44
35 28 0.44
36 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (34 bp):
ATTTTTTTTATATTAATATATTTATGTAAATATT
Found at i:25738 original size:32 final size:34
Alignment explanation
Indices: 25697--25776 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 34
25687 TTTAAATAGT
*
25697 TATTATTTTTTATATT-AAT-ATATTTATGTAAA
1 TATTATTTTTTATATTAAATAATATTTATATAAA
* *
25729 TATTATTTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATATT-AAATAATATTTATATAAA
25764 TATTATTTATTTA
1 TATTATTT-TTTA
25777 GAATTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 15 0.38
34 3 0.08
35 19 0.47
36 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTATATTAAATAATATTTATATAAA
Found at i:27528 original size:21 final size:21
Alignment explanation
Indices: 27498--27545 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
27488 GCAGGGGTAC
* *
27498 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
27519 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
27540 ATGCCA
1 ATGCCA
27546 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:27575 original size:21 final size:21
Alignment explanation
Indices: 27549--27642 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
27539 TATGCCATCT
* *
27549 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
27570 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
27591 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
27612 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
27633 CCGCAGGGTT
1 CCGCAGGGTT
27643 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:28224 original size:33 final size:34
Alignment explanation
Indices: 28165--28261 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
28155 AAATGTTTTT
*
28165 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
28199 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
28232 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
28262 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:28268 original size:34 final size:33
Alignment explanation
Indices: 28163--28268 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
28153 ATAAATGTTT
*
28163 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
28197 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
28229 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
28264 TTAAA
1 TTAAA
28269 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:29109 original size:255 final size:256
Alignment explanation
Indices: 28647--29257 Score: 1167
Period size: 255 Copynumber: 2.4 Consensus size: 256
28637 TTTAAGTTAT
*
28647 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA--AAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
28710 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
28775 CCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGC
131 CCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGC
28840 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
196 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
28901 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
28966 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGT-
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
*
29030 CCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGATGAAATAATGGAAGGC
131 CCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGC
*
29095 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTTATATATCTAGTG
196 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
29156 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
29221 GCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
29258 CCGATTATAG
Statistics
Matches: 352, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
254 82 0.23
255 194 0.55
256 76 0.22
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (256 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
CCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:29129 original size:127 final size:128
Alignment explanation
Indices: 28647--29257 Score: 1167
Period size: 128 Copynumber: 4.8 Consensus size: 128
28637 TTTAAGTTAT
*
28647 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA--AAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
28710 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
28773 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
28838 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
28901 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
28966 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
29029 T-CCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGATGAAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
*
29093 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTTATATATCTAGTG
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
29156 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
29221 GCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
29258 CCGATTATAG
Statistics
Matches: 478, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
126 50 0.10
127 157 0.33
128 271 0.57
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:29338 original size:8 final size:8
Alignment explanation
Indices: 29325--29365 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
29315 TCACAATCTT
29325 TCAAATTC
1 TCAAATTC
29333 TCAAATTC
1 TCAAATTC
* *
29341 CCAAACTC
1 TCAAATTC
29349 T-AAATTC
1 TCAAATTC
29356 TCAAATTC
1 TCAAATTC
29364 TC
1 TC
29366 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:32391 original size:12 final size:13
Alignment explanation
Indices: 32358--32395 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
32348 AAATACATAA
32358 ATATATTTAATAT
1 ATATATTTAATAT
*
32371 ATTTATTTAATAT
1 ATATATTTAATAT
32384 A-ATATTTAATAT
1 ATATATTTAATAT
32396 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:34009 original size:18 final size:18
Alignment explanation
Indices: 33977--34015 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33967 TTGTTTCGTG
*
33977 TTAAAATTAAAAAATATA
1 TTAAAATTAAAAAATAAA
33995 TTAAAAGTT-AAAAATAAA
1 TTAAAA-TTAAAAAATAAA
34013 TTA
1 TTA
34016 CATAAAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TTAAAATTAAAAAATAAA
Found at i:38054 original size:19 final size:19
Alignment explanation
Indices: 38032--38075 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
38022 GATTGCAGAT
*
38032 AGATTAGCAAAACAGAGAC
1 AGATAAGCAAAACAGAGAC
38051 AGATAAGCAAAACAGAGAC
1 AGATAAGCAAAACAGAGAC
38070 AGATAA
1 AGATAA
38076 TATAGTTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.20, T:0.09
Consensus pattern (19 bp):
AGATAAGCAAAACAGAGAC
Found at i:42980 original size:55 final size:58
Alignment explanation
Indices: 42913--43041 Score: 149
Period size: 55 Copynumber: 2.3 Consensus size: 58
42903 GAAATATAAA
* * * * *
42913 AAAATAAATATATATAAAAAAATACATAAATAAAATAAGA-TAAAATCAA-GA-GAGA-
1 AAAATATATATATATAAAAAAATAAATAAAGAAAATAAAAGTAAAATAAATGATGA-AT
* * *
42968 GAAATATATATATATATAAAGATAAATAAAGAAAATAAAAGTAAAATAAATGATGAAT
1 AAAATATATATATATAAAAAAATAAATAAAGAAAATAAAAGTAAAATAAATGATGAAT
43026 AAAATATATATATATA
1 AAAATATATATATATA
43042 TATATATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 33 0.54
56 8 0.13
57 3 0.05
58 17 0.28
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.25
Consensus pattern (58 bp):
AAAATATATATATATAAAAAAATAAATAAAGAAAATAAAAGTAAAATAAATGATGAAT
Found at i:43057 original size:54 final size:54
Alignment explanation
Indices: 42973--43102 Score: 97
Period size: 54 Copynumber: 2.4 Consensus size: 54
42963 AGAGAGAAAT
* * * * * *
42973 ATATATATATATAAAGATAAATAAAGAAAATAAA-AGTAAA-AT-AAATGATGAATA
1 ATATATATATATATATAT-ATTAAAGAAAATAAAGA-AAAATATAAAATGA-AAACA
* * *
43027 AAATATATATATATATATATATTAAA-AAAATAAGGAAAAATATTAAAATTAAAACA
1 ATATATATATATATAT--ATATTAAAGAAAATAAAGAAAAATA-TAAAATGAAAACA
43083 ATATATATATATATATATAT
1 ATATATATATATATATATAT
43103 ATATATATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
54 27 0.45
55 7 0.12
56 21 0.35
57 5 0.08
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (54 bp):
ATATATATATATATATATATTAAAGAAAATAAAGAAAAATATAAAATGAAAACA
Found at i:43090 original size:2 final size:2
Alignment explanation
Indices: 43083--43110 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43073 AATTAAAACA
43083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43111 TTGATAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45331 original size:106 final size:106
Alignment explanation
Indices: 45202--46369 Score: 1561
Period size: 106 Copynumber: 11.0 Consensus size: 106
45192 GACCCCTTCT
* * * * *
45202 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
45267 CCAGCCGTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * *
45308 GAGTCCAATATCCTTCGCTGTGAAGATGAAATTGGCTCTGAAACTT-AGAAATGGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGGGAAATTGTTTGTTGACA
* *
45372 ACCAGTCGTCCCTTCGTCATGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * * * * * *
45414 GAGTCCAATATCATTCGTTGTGAAGTTGAGACTCGCTCTGAAATTGGGTAATGGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
45479 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * * *
45520 GAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAACTGGGTAATGGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
**
45585 CCAGTAGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * * * * *
45626 GAGTCCAATATCATTCGTTGTGAAGTTGAGATTTGCTCTGAAACTGGGTAA-TGATTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTTGTTGACA
* * *
45690 ACTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTC
65 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * * * * * *
45732 GAGTCTAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAACTGGGTAATGGTTTATTTACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
45797 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * *
45838 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGG-AGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GGAAATTGTTTGTTGACA
* *
45902 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT-TCGTTGTCTG
65 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGT-GTTGTCTC
** * * *
45944 GAGTCCAATATCCTTCGCTACGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
46009 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * *
46050 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
46115 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * *
46156 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * ** *
46221 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTCCGTTGTCTG
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
* * *
46262 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCAGAAATTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * *
46327 CCAGTCATCCCTTCGTTGTGAAGTTGAACTTGTGTTTTCTC
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
46368 GA
1 GA
46370 ATGGCACGAT
Statistics
Matches: 953, Mismatches: 101, Indels: 16
0.89 0.09 0.01
Matches are distributed among these distances:
105 5 0.01
106 943 0.99
107 5 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
Found at i:47363 original size:22 final size:22
Alignment explanation
Indices: 47333--47387 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
47323 TTGTGTTTGG
47333 TCAAAGGTTTGGCATTTGATGT
1 TCAAAGGTTTGGCATTTGATGT
* * *
47355 TCAATGGTTTGTCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGT
*
47377 TAAAAGGTTTG
1 TCAAAGGTTTG
47388 ATGGGGTAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.42
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGT
Found at i:48046 original size:13 final size:12
Alignment explanation
Indices: 48030--48094 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 12
48020 TTTCTTTCGA
48030 TTTTTGTTCTTT
1 TTTTTGTTCTTT
48042 CTTTTTGTTCTTT
1 -TTTTTGTTCTTT
*
48055 TGTTTT-TTC-CT
1 T-TTTTGTTCTTT
48066 TTTTTGCTTCTTT
1 TTTTTG-TTCTTT
*
48079 TCTTTTTTTCTTT
1 T-TTTTGTTCTTT
48092 TTT
1 TTT
48095 CCCTTTTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
10 4 0.09
11 2 0.05
12 9 0.20
13 25 0.57
14 4 0.09
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (12 bp):
TTTTTGTTCTTT
Found at i:48076 original size:24 final size:22
Alignment explanation
Indices: 48031--48094 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
48021 TTCTTTCGAT
*
48031 TTTTGTTCTTTC-TTTTTGTTC
1 TTTTGTTTTTTCTTTTTTGTTC
48052 TTTTGTTTTTTCCTTTTTTGCTTC
1 TTTTGTTTTTT-CTTTTTTG-TTC
*
48076 TTTTCTTTTTTTCTTTTTT
1 TTTT-GTTTTTTCTTTTTT
48095 CCCTTTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.27
22 1 0.03
23 6 0.16
24 14 0.38
25 6 0.16
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTGTTTTTTCTTTTTTGTTC
Found at i:48087 original size:8 final size:8
Alignment explanation
Indices: 48030--48094 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
48020 TTTCTTTCGA
48030 TTTTTGTTC
1 TTTTT-TTC
48039 TTTCTTTT-
1 TTT-TTTTC
*
48047 TGTTCTTTTG
1 T-TT-TTTTC
*
48057 TTTTTTCC
1 TTTTTTTC
*
48065 TTTTTTGC
1 TTTTTTTC
*
48073 TTCTTTTC
1 TTTTTTTC
48081 TTTTTTTC
1 TTTTTTTC
48089 TTTTTT
1 TTTTTT
48095 CCCTTTTTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 30 0.64
9 14 0.30
10 3 0.06
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:51548 original size:19 final size:19
Alignment explanation
Indices: 51515--51551 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
51505 TGCAGATGAT
51515 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
51534 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
51552 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:52850 original size:52 final size:55
Alignment explanation
Indices: 52755--52878 Score: 130
Period size: 52 Copynumber: 2.3 Consensus size: 55
52745 GAAATATAAA
* * * * *
52755 AAAATAAATATATATAAAAAATACATAAATAAAATAAGATAAAATCAA-GA-G-A-
1 AAAATATATATATAT-AAAAATAAATAAAGAAAATAAAATAAAATAAATGATGAAT
* **
52807 GAAATATATATATATAAGGATAAATAAAGAAAATAAAAGTAAAATAAATGATGAAT
1 AAAATATATATATATAAAAATAAATAAAGAAAATAAAA-TAAAATAAATGATGAAT
52863 AAAATATATATATATA
1 AAAATATATATATATA
52879 TATATATATA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
51 18 0.31
52 21 0.36
53 2 0.03
54 1 0.02
55 1 0.02
56 15 0.26
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (55 bp):
AAAATATATATATATAAAAATAAATAAAGAAAATAAAATAAAATAAATGATGAAT
Found at i:52873 original size:2 final size:2
Alignment explanation
Indices: 52866--52891 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52856 GATGAATAAA
52866 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52892 TAAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52933 original size:2 final size:2
Alignment explanation
Indices: 52926--52961 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
52916 AATTAAAACA
52926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52962 TTGATAACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56895 original size:18 final size:18
Alignment explanation
Indices: 56864--56898 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56854 TTAATGTTCT
**
56864 TAATTAAACTTTCTCATA
1 TAATTAAAAATTCTCATA
56882 TAATTAAAAATTCTCAT
1 TAATTAAAAATTCTCAT
56899 TAAGCCTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATTAAAAATTCTCATA
Found at i:60328 original size:2 final size:2
Alignment explanation
Indices: 60321--60375 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
60311 ATTCTAACCC
60321 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
60363 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
60376 GAATATTTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62404 original size:19 final size:19
Alignment explanation
Indices: 62336--62416 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
62326 TTAAATATCT
62336 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
62355 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
62374 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
62394 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
62412 -TATTA
1 TTATTA
62417 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:62503 original size:8 final size:8
Alignment explanation
Indices: 62492--62540 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
62482 ATATAATATC
62492 TTATATTA
1 TTATATTA
*
62500 TTATAATA
1 TTATATTA
62508 -TA-ATTGA
1 TTATATT-A
62515 TTAT-TTA
1 TTATATTA
*
62522 TTATAATA
1 TTATATTA
62530 TTATATTA
1 TTATATTA
62538 TTA
1 TTA
62541 GAAATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
6 2 0.06
7 8 0.24
8 23 0.70
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (8 bp):
TTATATTA
Found at i:71430 original size:20 final size:20
Alignment explanation
Indices: 71402--71456 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
71392 AAAATGACCA
*
71402 ACAAATTCGCAACGCAAATT
1 ACAATTTCGCAACGCAAATT
* **
71422 ACAATTTCGCAACCCAGTTT
1 ACAATTTCGCAACGCAAATT
*
71442 CCAATTTCGCAACGC
1 ACAATTTCGCAACGC
71457 GAATATGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.31, G:0.11, T:0.24
Consensus pattern (20 bp):
ACAATTTCGCAACGCAAATT
Found at i:71495 original size:21 final size:21
Alignment explanation
Indices: 71471--71511 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
71461 ATGTAAATCA
*
71471 CATTACGATTTTCCAAATTCG
1 CATTACGATATTCCAAATTCG
*
71492 CATTGCGATATTCCAAATTC
1 CATTACGATATTCCAAATTC
71512 ACAACGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (21 bp):
CATTACGATATTCCAAATTCG
Found at i:71683 original size:22 final size:22
Alignment explanation
Indices: 71657--71707 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
71647 CTACGGCGAC
71657 ATCCGTCCCCATCTCTGACGAA
1 ATCCGTCCCCATCTCTGACGAA
*
71679 ATCCGTCCCCATTTCTGACGAA
1 ATCCGTCCCCATCTCTGACGAA
71701 ATCCGTC
1 ATCCGTC
71708 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.39, G:0.14, T:0.25
Consensus pattern (22 bp):
ATCCGTCCCCATCTCTGACGAA
Found at i:72028 original size:20 final size:20
Alignment explanation
Indices: 71990--72028 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
71980 ACTAAAATCG
* * *
71990 CGTTGCGATTTTCATTTTCT
1 CGTTGCGAATTTAAGTTTCT
72010 CGTTGCGAATTTAAGTTTC
1 CGTTGCGAATTTAAGTTTC
72029 AGAAACTTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.49
Consensus pattern (20 bp):
CGTTGCGAATTTAAGTTTCT
Found at i:74192 original size:2 final size:2
Alignment explanation
Indices: 74185--74213 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
74175 CTTTTAAAAC
74185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74214 CCCCCATCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74401 original size:24 final size:24
Alignment explanation
Indices: 74374--74480 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
74364 AAACGGAGAT
*
74374 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
74398 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
74422 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
74446 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
74470 ATCAGAAATCA
1 ATCAGAAATCA
74481 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:74480 original size:48 final size:48
Alignment explanation
Indices: 74374--74482 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
74364 AAACGGAGAT
* * * *
74374 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
74422 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
74470 ATCAGAAATCAGA
1 ATCAGAAATCAGA
74483 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:78103 original size:9 final size:9
Alignment explanation
Indices: 78089--78117 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
78079 CGGGGACTTT
78089 TTTTTCTTC
1 TTTTTCTTC
78098 TTTTTCTTC
1 TTTTTCTTC
78107 TTTTTCTTC
1 TTTTTCTTC
78116 TT
1 TT
78118 CAGGGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:78493 original size:12 final size:12
Alignment explanation
Indices: 78472--78505 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
78462 TGTTGTGGGT
*
78472 TTTGAGATTGTG
1 TTTGATATTGTG
78484 TTTGATATTGTG
1 TTTGATATTGTG
*
78496 TTTGGTATTG
1 TTTGATATTG
78506 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:79306 original size:20 final size:20
Alignment explanation
Indices: 79251--79539 Score: 168
Period size: 20 Copynumber: 14.6 Consensus size: 20
79241 ACTAAAACCT
*
79251 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
* *
79270 ATTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
79289 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
* *
79308 GTTGCGAATTTGAAAATC-A
1 GTTGCGAATTTGAAATTCGC
**
79327 GTTGCGAATTTGATTTTCGC
1 GTTGCGAATTTGAAATTCGC
*
79347 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
* *
79367 GTTGTGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
* * *
79387 GTTGAGAACTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
*
79407 GTTGCGAATTTGGAATATCGC
1 GTTGCGAATTTGAAAT-TCGC
*** * *
79428 AACGCGAATTTGGAAAATCGT
1 GTTGCGAATTT-GAAATTCGC
**
79449 AATGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* *
79469 GTTGCGAAATTGGAAATT-GG
1 GTTGCG-AATTTGAAATTCGC
* * *
79489 GTTGCAAAATTGGAATTCGC
1 GTTGCGAATTTGAAATTCGC
* *
79509 ATTGCGAATTTGAGA-TCGC
1 GTTGCGAATTTGAAATTCGC
79528 GTTGCGAATTTG
1 GTTGCGAATTTG
79540 TTGGTCATTT
Statistics
Matches: 218, Mismatches: 41, Indels: 22
0.78 0.15 0.08
Matches are distributed among these distances:
18 1 0.00
19 85 0.39
20 98 0.45
21 26 0.12
22 7 0.03
23 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:79311 original size:19 final size:20
Alignment explanation
Indices: 79251--79359 Score: 111
Period size: 19 Copynumber: 5.7 Consensus size: 20
79241 ACTAAAACCT
*
79251 GTTGCGAAATT-AAATTCGCA
1 GTTGCGAATTTGAAATTCG-A
* *
79271 -TTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGA
79289 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
*
79308 GTTGCGAATTTGAAAATC-A
1 GTTGCGAATTTGAAATTCGA
** *
79327 GTTGCGAATTTGATTTTCGC
1 GTTGCGAATTTGAAATTCGA
79347 GTTGCGAATTTGA
1 GTTGCGAATTTGA
79360 CTATCGCGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
19 59 0.76
20 19 0.24
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:79518 original size:19 final size:19
Alignment explanation
Indices: 79496--79537 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
79486 TGGGTTGCAA
79496 AATTGGA-ATTCGCATTGCG
1 AATTGGAGA-TCGCATTGCG
* *
79515 AATTTGAGATCGCGTTGCG
1 AATTGGAGATCGCATTGCG
79534 AATT
1 AATT
79538 TGTTGGTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (19 bp):
AATTGGAGATCGCATTGCG
Found at i:81195 original size:22 final size:22
Alignment explanation
Indices: 81170--81240 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 22
81160 GGGATTTTAT
81170 TATTTCAAATTAATTAAATCTA
1 TATTTCAAATTAATTAAATCTA
81192 TATTT--AATTAATTGAAAT-TA
1 TATTTCAAATTAATT-AAATCTA
* *
81212 AATATTCAATATT-ATTAAAACATA
1 TAT-TTCAA-ATTAATTAAATC-TA
81236 TATTT
1 TATTT
81241 AATTAACTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
20 12 0.31
21 6 0.15
22 8 0.21
23 6 0.15
24 7 0.18
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (22 bp):
TATTTCAAATTAATTAAATCTA
Found at i:81198 original size:90 final size:89
Alignment explanation
Indices: 81039--81215 Score: 318
Period size: 90 Copynumber: 2.0 Consensus size: 89
81029 CCTAACACAC
*
81039 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTATTTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
*
81104 TTTAATTAATTGAAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
81128 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
81193 ATTTAATTAATTGAAATTAAATA
65 ATTTAATTAATTGAAATTAAATA
81216 TTCAATATTA
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
89 34 0.40
90 50 0.60
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:81202 original size:20 final size:20
Alignment explanation
Indices: 81177--81246 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 20
81167 TATTATTTCA
81177 AATTAATTAAATCTATATTT
1 AATTAATTAAATCTATATTT
*
81197 AATTAATTGAAAT-TAAATATTC
1 AATTAATT-AAATCT--ATATTT
* *
81219 AATATTATTAAAACATATATTT
1 AAT-TAATTAAATC-TATATTT
81241 AATTAA
1 AATTAA
81247 CTCTAGATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 9 0.23
21 6 0.15
22 19 0.49
23 4 0.10
24 1 0.03
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (20 bp):
AATTAATTAAATCTATATTT
Found at i:88027 original size:81 final size:81
Alignment explanation
Indices: 87887--88044 Score: 262
Period size: 81 Copynumber: 2.0 Consensus size: 81
87877 GTCTCTTGCA
* * *
87887 CAACTGGCTCGGTAGCTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTA
1 CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTA
87952 CGAACCATTCTTGGTG
66 CGAACCATTCTTGGTG
* * *
87968 CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTTGCTCCGCCATTTCGTGTG
1 CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTA
88033 CGAACCATTCTT
66 CGAACCATTCTT
88045 TGTAACTCGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (81 bp):
CAACCGGCTCAGTAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTA
CGAACCATTCTTGGTG
Found at i:88347 original size:54 final size:54
Alignment explanation
Indices: 88160--88461 Score: 295
Period size: 54 Copynumber: 5.5 Consensus size: 54
88150 TAGAATTAAC
*
88160 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAA-T
* **
88215 GATTGAGCACCTCTGTGCTT-AATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAG------CCAAAAT
* ** * * * *
88274 GACTGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
*
88328 GATTGAGCACCTCTGTGCTTCAATCGAG-GACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAG-CTGACACCTCTGTGCAGCCAA-AAT
* * * * * * * **
88383 GACTGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCCCTGTGCA-TCGGAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGA-GCTGACACCTCTGTGCAGCCAAAAT
*
88437 GATTGAGCACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
88462 TAAAATCAAG
Statistics
Matches: 204, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
53 1 0.00
54 96 0.47
55 48 0.24
56 14 0.07
59 20 0.10
60 25 0.12
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
Found at i:88363 original size:114 final size:114
Alignment explanation
Indices: 88163--88374 Score: 354
Period size: 114 Copynumber: 1.9 Consensus size: 114
88153 AATTAACGAT
*
88163 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
88228 TGTGCTTAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATGAC
66 TGTGCTTAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATGAC
* * * *
88277 TGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGA-TGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
*
88341 TGTGCTTCAATCGAGGACTGACACCTCTGTGCAG
66 TGTGCTT-AATCGAGAACTGACACCTCTGTGCAG
88375 CCAACTATGA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 21 0.23
114 70 0.77
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (114 bp):
TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
TGTGCTTAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATGAC
Found at i:88439 original size:109 final size:110
Alignment explanation
Indices: 88163--88461 Score: 307
Period size: 114 Copynumber: 2.7 Consensus size: 110
88153 AATTAACGAT
* * * * * *
88163 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAAAGCTGACACCCCTGTGCAGCGAAGA-TGATTGAGCACCTC
88228 TGTGCTT-AATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATGAC
65 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAG----AAAAAAAATGAC
* ** * * *
88277 TGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGATGATTGAGCACCTCT
1 TGAGCACCTCTGTGCTTCAACCGAAAGCTGACACCCCTGTGCAGCGAAGATGATTGAGCACCTCT
* ** **
88342 GTGCTTCAATCGAGGACTGACACCTCTGTGCAG-CCAACTATGAC
66 GTGCTTCAATCGAGAACTGACACCTCTGTGCAGAAAAAAAATGAC
* * * * * *
88386 TGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCCCTGTGCATCGGA-ATGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAAA-GCTGACACCCCTGTGCAGCGAAGATGATTGAGCACCTC
*
88450 TGTGCTACAATC
65 TGTGCTTCAATC
88462 TAAAATCAAG
Statistics
Matches: 160, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
109 54 0.34
110 15 0.09
113 21 0.13
114 70 0.44
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (110 bp):
TGAGCACCTCTGTGCTTCAACCGAAAGCTGACACCCCTGTGCAGCGAAGATGATTGAGCACCTCT
GTGCTTCAATCGAGAACTGACACCTCTGTGCAGAAAAAAAATGAC
Found at i:90708 original size:21 final size:20
Alignment explanation
Indices: 90683--90722 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
90673 GTTAAACATA
90683 TAAATTAATCAAAAAATAATT
1 TAAA-TAATCAAAAAATAATT
* *
90704 TAAATATTTAAAAAATAAT
1 TAAATAATCAAAAAATAAT
90723 AATATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAATAATCAAAAAATAATT
Found at i:90842 original size:2 final size:2
Alignment explanation
Indices: 90835--90869 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
90825 CCAATCATTA
90835 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
90870 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:90874 original size:2 final size:2
Alignment explanation
Indices: 90869--90909 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
90859 TCTCTCTCTC
90869 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90910 CACCATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94228 original size:13 final size:13
Alignment explanation
Indices: 94203--94240 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
94193 AGTACATGTG
*
94203 AACAGT-AACAGT
1 AACAGTGAATAGT
94215 AACAGTGAATAGT
1 AACAGTGAATAGT
*
94228 AATAGTGAATAGT
1 AACAGTGAATAGT
94241 GACGATGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (13 bp):
AACAGTGAATAGT
Found at i:97407 original size:45 final size:45
Alignment explanation
Indices: 97278--97526 Score: 328
Period size: 45 Copynumber: 5.6 Consensus size: 45
97268 TTGTTGTAAG
*
97278 CATCTTGCATTGTAGG--TTACAGATGA-CCGAAGGCTTTGAAAA
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
* * ** *
97320 TATCATGCACTGTAGGTCTTATGGATG-GCCGAAGGCTTTGAAAA
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
*
97364 CATCTTGCACTATAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
97409 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
* ** * *
97454 CATCCTGCACTGTAGGTCTTATGGATGACTCGAAGGTTTTGAAAA
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
* *
97499 CAT-TATGCACTGAAGGTCTTACATATGA
1 CATCT-TGCACTGTAGGTCTTACAGATGA
97527 GCAAAATATT
Statistics
Matches: 180, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
42 13 0.07
44 45 0.25
45 122 0.68
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTGAAAA
Found at i:98676 original size:54 final size:54
Alignment explanation
Indices: 98577--98684 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
98567 ATAATCACTA
* * *
98577 GTTCATAAAACATTTGTCAACACATTCATCCTTTATTGTGTCTTCT-GTCCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTAG-CCAGAT
* * *
98631 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCCTGTGGCTTCTAGCCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTAGCCAGAT
98685 TTCTCAATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 46 0.98
55 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (54 bp):
GTTCATAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTAGCCAGAT
Found at i:104014 original size:12 final size:13
Alignment explanation
Indices: 103990--104037 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
103980 GAAAAGATGC
*
103990 AAATATAAAATGA
1 AAATGTAAAATGA
104003 AAATGT-AAATGA
1 AAATGTAAAATGA
*
104015 AAATATAAAAATGA
1 AAATGT-AAAATGA
104029 AAATG-AAAA
1 AAATGTAAAA
104038 CATAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 15 0.50
13 5 0.17
14 10 0.33
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (13 bp):
AAATGTAAAATGA
Found at i:104027 original size:20 final size:20
Alignment explanation
Indices: 104002--104045 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
103992 ATATAAAATG
* *
104002 AAAATGTAAATGAAAATATA
1 AAAATGAAAATGAAAACATA
104022 AAAATGAAAATGAAAACATA
1 AAAATGAAAATGAAAACATA
104042 AAAA
1 AAAA
104046 ATGCAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (20 bp):
AAAATGAAAATGAAAACATA
Found at i:106771 original size:21 final size:18
Alignment explanation
Indices: 106730--106795 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 18
106720 TCATTTCTTT
106730 AATATTAAAAAATAAATA
1 AATATTAAAAAATAAATA
*
106748 AATATTAATAAAATATGATAA
1 AATATTAA-AAAATA-AAT-A
106769 AATAATTTAAAAAACTAAAGTA
1 AAT-A-TTAAAAAA-TAAA-TA
106791 AATAT
1 AATAT
106796 ATATATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
18 8 0.21
19 6 0.15
20 3 0.08
21 5 0.13
22 10 0.26
23 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (18 bp):
AATATTAAAAAATAAATA
Found at i:108307 original size:14 final size:13
Alignment explanation
Indices: 108281--108312 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
108271 ATATTTATTT
108281 AATAATAATAATA
1 AATAATAATAATA
108294 AATAATATATAATA
1 AATAATA-ATAATA
108308 AATAA
1 AATAA
108313 GATCAGGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATAATAATA
Done.