Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008450.1 Hibiscus syriacus cultivar Beakdansim tig00111255_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: 106858
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:720 original size:19 final size:19
Alignment explanation
Indices: 696--741 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
686 GAGGGTTGTA
696 CGAGAAGCTACTTGAAGCG
1 CGAGAAGCTACTTGAAGCG
715 CGAGAAGCTACTTGAAGCG
1 CGAGAAGCTACTTGAAGCG
*
734 TGAGAAGC
1 CGAGAAGC
742 AGCTCCGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.15
Consensus pattern (19 bp):
CGAGAAGCTACTTGAAGCG
Found at i:1807 original size:26 final size:26
Alignment explanation
Indices: 1768--1844 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
1758 ACCTTTGTTG
* *
1768 CATTTGCATTTTGCATTCGTAATTTTTT
1 CATTTACA-TTTGCATT-GTAATATTTT
* *
1796 CA-TTACATTTGCATTTTTATATTTT
1 CATTTACATTTGCATTGTAATATTTT
* *
1821 CATTTACATTTTCATT-TTATATTT
1 CATTTACATTTGCATTGTAATATTT
1845 GCATCTTTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 17 0.40
26 20 0.47
27 4 0.09
28 2 0.05
ACGTcount: A:0.22, C:0.13, G:0.05, T:0.60
Consensus pattern (26 bp):
CATTTACATTTGCATTGTAATATTTT
Found at i:1838 original size:25 final size:25
Alignment explanation
Indices: 1792--1844 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
1782 ATTCGTAATT
1792 TTTTCATTACATTTGCATTTTTATA
1 TTTTCATTACATTTGCATTTTTATA
*
1817 TTTTCATTTACATTTTCA-TTTTATA
1 TTTTCA-TTACATTTGCATTTTTATA
1842 TTT
1 TTT
1845 GCATCTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTCATTACATTTGCATTTTTATA
Found at i:4052 original size:70 final size:71
Alignment explanation
Indices: 3932--4065 Score: 218
Period size: 70 Copynumber: 1.9 Consensus size: 71
3922 ATACAATAAA
* *
3932 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAACTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCACCCTAAAACAATTGGTTAATAGCCCCAACTTTATGGATAATA-TCAGCTAAT
3997 CTTTTAT
65 CTTTTAT
*
4004 GCTTGAGTTATCACCCTAAAAC-ATTGGTT-ATAGCCCCGACTTTATGGATAATATCAGCTAAT
1 GCTTGAGTTATCACCCTAAAACAATTGGTTAATAGCCCCAACTTTATGGATAATATCAGCTAAT
4066 TTGTTATACT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
69 9 0.15
70 23 0.39
71 7 0.12
72 20 0.34
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (71 bp):
GCTTGAGTTATCACCCTAAAACAATTGGTTAATAGCCCCAACTTTATGGATAATATCAGCTAATC
TTTTAT
Found at i:6302 original size:75 final size:75
Alignment explanation
Indices: 6214--6367 Score: 193
Period size: 75 Copynumber: 2.1 Consensus size: 75
6204 TGGGACATCT
* ** *
6214 TGAAAGCCCATTTCAATCAAAAATTA-GAATATTAACGCATTTTGAATGTTTGTATCAGTAAATA
1 TGAAAGCCCATTTCAATC-AAAATCAGGAATATTAACGCATTTTGAACATTTGTATCAGCAAATA
*
6278 CGGGGGCATAC
65 CAGGGGCATAC
* * ** *
6289 TGAAAGCCCATTTCAATCAGAATCAGGAATGTTGGCGCATTTTGAACATTTGTATCTGCAAATAC
1 TGAAAGCCCATTTCAATCAAAATCAGGAATATTAACGCATTTTGAACATTTGTATCAGCAAATAC
*
6354 AGGGGCATGC
66 AGGGGCATAC
6364 TGAA
1 TGAA
6368 GGCTCATATC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
74 5 0.07
75 62 0.93
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (75 bp):
TGAAAGCCCATTTCAATCAAAATCAGGAATATTAACGCATTTTGAACATTTGTATCAGCAAATAC
AGGGGCATAC
Found at i:7740 original size:22 final size:22
Alignment explanation
Indices: 7712--7771 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
7702 ATATCTACAT
7712 TCTTCAAAGATGAAAGATTCTC
1 TCTTCAAAGATGAAAGATTCTC
* * *
7734 TCTTCAAAGATGATATATTCTT
1 TCTTCAAAGATGAAAGATTCTC
*
7756 TTTTCAAAGATGAAAG
1 TCTTCAAAGATGAAAG
7772 CTTTATTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGAAAGATTCTC
Found at i:8552 original size:76 final size:76
Alignment explanation
Indices: 8423--8609 Score: 277
Period size: 76 Copynumber: 2.5 Consensus size: 76
8413 CTATTTCCCA
* *
8423 CATCTGTAAGCCCTTCAGTGTATAATGTTTTCAAAAAGCCTTCAGAAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCAGAAGTTTTTTGATGTTTTCAA
*
8488 AGCCTTCGGGT
66 AACCTTCGGGT
* * *
8499 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCTTTCGGGA-TCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCAGAAGT-TTTTTGATGTTTTCA
8563 AAACCTTCGGGT
65 AAACCTTCGGGT
* **
8575 CATCTGCAAGCCCTAAAGTGCATGATGTTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
8610 GCCTTCGGGT
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 1 0.01
76 100 0.99
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCAGAAGTTTTTTGATGTTTTCAA
AACCTTCGGGT
Found at i:8616 original size:45 final size:45
Alignment explanation
Indices: 8552--8799 Score: 370
Period size: 45 Copynumber: 5.5 Consensus size: 45
8542 GGGATCTTTT
* * *
8552 TGATGTTTTCAAAACCTTCGGGTCATCTGCAAGCCCTAAAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
8597 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* * *
8642 GGATGTTTTCAAAACCTTCGAGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
*
8687 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGTA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
8732 GGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
8777 AGATGTTTTCAAAAAGCTTCGGG
1 TGATGTTTTC-AAAACCTTCGGG
8800 AGCTTTTTGA
Statistics
Matches: 185, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
45 174 0.94
46 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:8885 original size:45 final size:45
Alignment explanation
Indices: 8821--8951 Score: 208
Period size: 45 Copynumber: 2.9 Consensus size: 45
8811 ATTTAAAGCC
* * *
8821 TCGGGTCATCTGTAAGACCTATAGTGCATGATGTTTTCAAAACAT
1 TCGGGTCATCCGTAAGACCTACAGTGCAGGATGTTTTCAAAACAT
* *
8866 TCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAACCT
1 TCGGGTCATCCGTAAGACCTACAGTGCAGGATGTTTTCAAAACAT
*
8911 TCGGGTCATTCGTAAGACCTACAGTGCAGGATGTTTTCAAA
1 TCGGGTCATCCGTAAGACCTACAGTGCAGGATGTTTTCAAA
8952 GAAGATTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 79 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (45 bp):
TCGGGTCATCCGTAAGACCTACAGTGCAGGATGTTTTCAAAACAT
Found at i:10622 original size:21 final size:22
Alignment explanation
Indices: 10596--10646 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
10586 CTTATTATCC
10596 AATTAAATATGAAAAGATCAT-
1 AATTAAATATGAAAAGATCATA
10617 AATTAAATATGAAAAGATCATA
1 AATTAAATATGAAAAGATCATA
10639 AATTAAAT
1 AATTAAAT
10647 TCATATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (22 bp):
AATTAAATATGAAAAGATCATA
Found at i:17762 original size:29 final size:29
Alignment explanation
Indices: 17725--17782 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
17715 CAAAACAATG
* *
17725 AAATTTTACTT-GTTAGGCATCCTTTCTCT
1 AAATATTACTTAGTTA-GCATCATTTCTCT
*
17754 AAATATTACTTATTTAGCATCATTTCTCT
1 AAATATTACTTAGTTAGCATCATTTCTCT
17783 CACATGAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (29 bp):
AAATATTACTTAGTTAGCATCATTTCTCT
Found at i:18041 original size:15 final size:15
Alignment explanation
Indices: 18023--18089 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
18013 AAAAATATTA
18023 AAAAACAAAATAAAT
1 AAAAACAAAATAAAT
18038 AAAAATTCAATAATTAAAT
1 AAAAA--CAA-AA-TAAAT
* *
18057 AATAAA-AACATTAAT
1 AA-AAACAAAATAAAT
18072 --AAACAAAATAAAT
1 AAAAACAAAATAAAT
18085 AAAAA
1 AAAAA
18090 GTCCATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
12 3 0.08
13 7 0.17
15 12 0.30
16 1 0.03
17 5 0.12
18 2 0.05
19 7 0.17
20 3 0.08
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAACAAAATAAAT
Found at i:18041 original size:24 final size:23
Alignment explanation
Indices: 18006--18089 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 23
17996 GCCAATAATT
18006 AAATAATAAAAATATTAAAAAACA
1 AAATAATAAAAA-ATTAAAAAACA
* * **
18030 AAATAA-ATAAAAATTCAATAATT
1 AAATAATA-AAAAATTAAAAAACA
*
18053 AAATAATAAAAACATTAATAAACA
1 AAATAATAAAAA-ATTAAAAAACA
18077 AAATAAATAAAAA
1 AAAT-AATAAAAA
18090 GTCCATATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
23 18 0.38
24 21 0.45
25 8 0.17
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATAATAAAAAATTAAAAAACA
Found at i:18073 original size:12 final size:12
Alignment explanation
Indices: 18009--18089 Score: 51
Period size: 12 Copynumber: 6.8 Consensus size: 12
17999 AATAATTAAA
*
18009 TAATAAAAATAT
1 TAATAAAAAAAT
*
18021 TAA-AAAACAAAA
1 TAATAAAA-AAAT
*
18033 TAA-ATAAAAAT
1 TAATAAAAAAAT
**
18044 TCAATAATTAAA-
1 T-AATAAAAAAAT
*
18056 TAATAAAAACAT
1 TAATAAAAAAAT
18068 TAATAAACAAAAT
1 TAATAAA-AAAAT
*
18081 AAATAAAAA
1 TAATAAAAA
18090 GTCCATATTA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
11 15 0.29
12 23 0.44
13 14 0.27
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
TAATAAAAAAAT
Found at i:18122 original size:46 final size:47
Alignment explanation
Indices: 18000--18219 Score: 239
Period size: 47 Copynumber: 4.9 Consensus size: 47
17990 ATCTGAGCCA
* * * *
18000 ATAATTAAATAATAAAAATATTAAAAAACAAAATAAATAAAAATTCA
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCC
*
18047 ATAATTAAATAATAAAAACATTAATAAACAAAATAAATAAAAAGTCC
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCC
*
18094 AT-ATTAAATAATAAAAACATTAAGAAAC---A-AAA-AAAATGTCC
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCC
* * * * *
18135 GTAATT--A-AATAAAAATAGTAAGAAACAAAATAAATAAAAAAATTC
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAAT-AAAAAGTCC
*
18180 ATAATT--A-AATAAAAACACTAAGAAACAAAATAAATAAAAA
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAA
18220 CAAGTCTATC
Statistics
Matches: 151, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 17 0.11
40 1 0.01
41 9 0.06
42 7 0.05
43 4 0.03
44 5 0.03
45 38 0.25
46 25 0.17
47 45 0.30
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (47 bp):
ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAAGTCC
Found at i:18122 original size:93 final size:93
Alignment explanation
Indices: 18000--18219 Score: 239
Period size: 85 Copynumber: 2.5 Consensus size: 93
17990 ATCTGAGCCA
* *
18000 ATAATTAAATAATAAAAATATTAAAAAACAAAATAAATAAAAAT-TCAATAATTAAATAATAAAA
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAATGTCAATAATT--A-AATAAAA
* * *
18064 ACATTAATAAACAAAATAAAT-AAAAAGTCC
63 ACAGTAAGAAACAAAATAAATAAAAAAATCC
** *
18094 AT-ATTAAATAATAAAAACATTAAGAAAC-----AAA-AAAAATGTCCGTAATTAAATAAAAATA
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAATGTCAATAATTAAATAAAAACA
*
18152 GTAAGAAACAAAATAAATAAAAAAATTC
66 GTAAGAAACAAAATAAATAAAAAAATCC
*
18180 ATAATT--A-AATAAAAACACTAAGAAACAAAATAAATAAAAA
1 ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAA
18220 CAAGTCTATC
Statistics
Matches: 107, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
84 18 0.17
85 26 0.24
86 10 0.09
87 9 0.08
88 10 0.09
89 3 0.03
90 5 0.05
93 24 0.22
94 2 0.02
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (93 bp):
ATAATTAAATAATAAAAACATTAAGAAACAAAATAAATAAAAATGTCAATAATTAAATAAAAACA
GTAAGAAACAAAATAAATAAAAAAATCC
Found at i:18161 original size:85 final size:84
Alignment explanation
Indices: 18057--18214 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 84
18047 ATAATTAAAT
* * * *
18057 AATAAAAACATTAATAAACAAAATAAAT-AAAAAGTCCAT-ATTAAATAATAAAAACATTAAGAA
1 AATAAAAACAGTAAGAAACAAAATAAATAAAAAAATCCATAATT--A-AATAAAAACACTAAGAA
18120 ACAAAAAAAATGTCCGTAATTA
63 ACAAAAAAAATGTCCGTAATTA
* *
18142 AATAAAAATAGTAAGAAACAAAATAAATAAAAAAATTCATAATTAAATAAAAACACTAAGAAACA
1 AATAAAAACAGTAAGAAACAAAATAAATAAAAAAATCCATAATTAAATAAAAACACTAAGAAACA
*
18207 AAATAAAT
66 AAAAAAAT
18215 AAAAACAAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
84 26 0.41
85 26 0.41
86 9 0.14
87 3 0.05
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.21
Consensus pattern (84 bp):
AATAAAAACAGTAAGAAACAAAATAAATAAAAAAATCCATAATTAAATAAAAACACTAAGAAACA
AAAAAAATGTCCGTAATTA
Found at i:20903 original size:31 final size:31
Alignment explanation
Indices: 20868--20942 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 31
20858 GAAAATTATT
20868 AAATAATTATTAAATTTATATAATAAT-TA-AA
1 AAATAATTATTAAATTTAT-TAA-AATATATAA
* *
20899 AAAT-ATACAATAAATTTATTAAAATGATATAA
1 AAATAAT-TATTAAATTTATTAAAAT-ATATAA
20931 AAATAATTATTA
1 AAATAATTATTA
20943 GAACATATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
29 3 0.09
30 5 0.14
31 16 0.46
32 9 0.26
33 2 0.06
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (31 bp):
AAATAATTATTAAATTTATTAAAATATATAA
Found at i:31512 original size:16 final size:16
Alignment explanation
Indices: 31475--31515 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
31465 GTTTACTTCA
31475 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
*
31490 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
*
31506 GATTGATTCA
1 GAATGATTCA
31516 GAAGTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:42800 original size:26 final size:26
Alignment explanation
Indices: 42761--42819 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
42751 ACAGTCCCCT
*
42761 ACAAA-ACACAAGCAGGCTCCTCCAC
1 ACAAACACACAAGCAGGCTCCTCCAA
*
42786 ACACACACACAAGCAGGCTCCTCCAA
1 ACAAACACACAAGCAGGCTCCTCCAA
42812 ACAAACAC
1 ACAAACAC
42820 TCACACGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.42, C:0.41, G:0.10, T:0.07
Consensus pattern (26 bp):
ACAAACACACAAGCAGGCTCCTCCAA
Found at i:44219 original size:23 final size:23
Alignment explanation
Indices: 44193--44241 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
44183 ATAAATATGC
44193 TTATTTCATATAT-TATA-ATATAA
1 TTATTT-ATATATATATATATAT-A
44216 TTA-TTATATATATATATATATA
1 TTATTTATATATATATATATATA
44238 TTAT
1 TTAT
44242 ATCTATAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
21 6 0.26
22 10 0.43
23 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATTTATATATATATATATATA
Found at i:44232 original size:19 final size:19
Alignment explanation
Indices: 44206--44248 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44196 TTTCATATAT
44206 TATA-ATATA-AT-TATTA
1 TATATATATATATATATTA
44222 TATATATATATATATATTA
1 TATATATATATATATATTA
*
44241 TATCTATA
1 TATATATA
44249 GTTATTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 2 0.09
19 12 0.52
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATATATATATATTA
Found at i:45540 original size:22 final size:22
Alignment explanation
Indices: 45504--45566 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
45494 CATCTCCATT
*
45504 TCAT-CATCAACACCATCAACA
1 TCATCCATCAAGACCATCAACA
45525 TCATCCATCAAGACCATCAACA
1 TCATCCATCAAGACCATCAACA
45547 TCATCCATCAAGACCATCAA
1 TCATCCATCAAGACCATCAA
45567 TTCTACAACC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.41, C:0.37, G:0.03, T:0.19
Consensus pattern (22 bp):
TCATCCATCAAGACCATCAACA
Found at i:46480 original size:35 final size:36
Alignment explanation
Indices: 46434--46509 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
46424 AAAATACTTT
*
46434 AATTTAGGGTTTAGAATGTAATTAAAGT-ATTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTGATTTTGG
* * *
46469 AATTTAGGGTTTAGGATATAATTGAAGTGTTTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTGATTTTGG
46505 AATTT
1 AATTT
46510 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 25 0.69
36 11 0.31
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.45
Consensus pattern (36 bp):
AATTTAGGGTTTAGAATATAATTAAAGTGATTTTGG
Found at i:53117 original size:21 final size:21
Alignment explanation
Indices: 53093--53162 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
53083 GAAGTTCGCA
53093 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
* ** * *
53114 TTGC-A-ATAGGCGAAGTTCGCG
1 TTGCGATTTATTCCAAATT--CG
*
53135 TTGCGATTCATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
53156 TTGCGAT
1 TTGCGAT
53163 AGTCCAAATA
Statistics
Matches: 34, Mismatches: 11, Indels: 8
0.64 0.21 0.15
Matches are distributed among these distances:
19 7 0.21
20 1 0.03
21 19 0.56
22 1 0.03
23 6 0.18
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (21 bp):
TTGCGATTTATTCCAAATTCG
Found at i:53141 original size:42 final size:42
Alignment explanation
Indices: 53082--53164 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
53072 ACGCGGTAGT
*
53082 CGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCAATAGG
1 CGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCAATAGG
* *
53124 CGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAG
1 CGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCAATAG
53165 TCCAAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (42 bp):
CGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCAATAGG
Found at i:53170 original size:19 final size:19
Alignment explanation
Indices: 53104--53171 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 19
53094 TGCGATTTAT
*
53104 TCCAAATTCGTTGCAATAG
1 TCCAAATTCGTTGCGATAG
* * * *
53123 GCGAAGTTCGCGTTGCGATTCAT
1 TCCAAATT--CGTTGCGA-T-AG
53146 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
53165 TCCAAAT
1 TCCAAAT
53172 ATTGCATTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 13 0.36
20 1 0.03
21 15 0.42
22 1 0.03
23 6 0.17
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:54074 original size:21 final size:21
Alignment explanation
Indices: 54048--54201 Score: 106
Period size: 21 Copynumber: 7.4 Consensus size: 21
54038 TATTTGGACT
*
54048 ATCGCAACGAATTTGGAATGA
1 ATCGCAACGAACTTGGAATGA
* **
54069 ATCGCAACGCGAACTTCGCCT--
1 ATCGCAA--CGAACTTGGAATGA
*
54090 ATCGCAACGAATTTGGAATGA
1 ATCGCAACGAACTTGGAATGA
* **
54111 ATCGCAACGCGAACTTCGCCTG-
1 ATCGCAA--CGAACTTGGAATGA
54133 -TCGCAACGAA-TTGGAATGA
1 ATCGCAACGAACTTGGAATGA
* *
54152 ATCGCAACGTCAACTTCGACT--
1 ATCGCAACG--AACTTGGAATGA
*
54173 ATCGCAACGAATTTGGAATGA
1 ATCGCAACGAACTTGGAATGA
54194 ATCGCAAC
1 ATCGCAAC
54202 ACGAACTTCG
Statistics
Matches: 100, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
18 5 0.05
19 19 0.19
20 8 0.08
21 44 0.44
22 2 0.02
23 22 0.22
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATGA
Found at i:54093 original size:42 final size:42
Alignment explanation
Indices: 54044--54219 Score: 293
Period size: 42 Copynumber: 4.2 Consensus size: 42
54034 GCAATATTTG
54044 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
*
54086 GCCTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
* *
54128 GCCTGTCGCAACGAA-TTGGAATGAATCGCAACGTC-AACTTC
1 GACTATCGCAACGAATTTGGAATGAATCGCAACG-CGAACTTC
*
54169 GACTATCGCAACGAATTTGGAATGAATCGCAACACGAACTTC
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
54211 GACTATCGC
1 GACTATCGC
54220 GTTGCGAATC
Statistics
Matches: 126, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
41 38 0.30
42 88 0.70
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
Found at i:54160 original size:83 final size:84
Alignment explanation
Indices: 54049--54211 Score: 285
Period size: 83 Copynumber: 2.0 Consensus size: 84
54039 ATTTGGACTA
*
54049 TCGCAACGAATTTGGAATGAATCGCAACG-CGAACTTCGCCTATCGCAACGAATTTGGAATGAAT
1 TCGCAACGAATTTGGAATGAATCGCAACGTC-AACTTCGACTATCGCAACGAATTTGGAATGAAT
*
54113 CGCAACGCGAACTTCGCCTG
65 CGCAACACGAACTTCGCCTG
54133 TCGCAACGAA-TTGGAATGAATCGCAACGTCAACTTCGACTATCGCAACGAATTTGGAATGAATC
1 TCGCAACGAATTTGGAATGAATCGCAACGTCAACTTCGACTATCGCAACGAATTTGGAATGAATC
54197 GCAACACGAACTTCG
66 GCAACACGAACTTCG
54212 ACTATCGCGT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
83 65 0.86
84 11 0.14
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (84 bp):
TCGCAACGAATTTGGAATGAATCGCAACGTCAACTTCGACTATCGCAACGAATTTGGAATGAATC
GCAACACGAACTTCGCCTG
Found at i:54218 original size:21 final size:21
Alignment explanation
Indices: 54069--54219 Score: 57
Period size: 21 Copynumber: 7.2 Consensus size: 21
54059 TTTGGAATGA
* *
54069 ATCGCAACGCGAACTTCGCCT
1 ATCGCAACACGAACTTCGACT
* * *
54090 ATCGC-A-ACGAATTTGGAAT
1 ATCGCAACACGAACTTCGACT
* *
54109 GAATCGCAACGCGAACTTCGCCT
1 --ATCGCAACACGAACTTCGACT
* * *
54132 GTCGC-A-ACGAA-TTGGAAT
1 ATCGCAACACGAACTTCGACT
*
54150 GAATCGCAACGTC-AACTTCGACT
1 --ATCGCAAC-ACGAACTTCGACT
* * *
54173 ATCGC-A-ACGAATTTGGAAT
1 ATCGCAACACGAACTTCGACT
54192 GAATCGCAACACGAACTTCGACT
1 --ATCGCAACACGAACTTCGACT
54215 ATCGC
1 ATCGC
54220 GTTGCGAATC
Statistics
Matches: 89, Mismatches: 26, Indels: 30
0.61 0.18 0.21
Matches are distributed among these distances:
18 5 0.06
19 19 0.21
20 7 0.08
21 30 0.34
22 4 0.04
23 24 0.27
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGCAACACGAACTTCGACT
Found at i:55631 original size:2 final size:2
Alignment explanation
Indices: 55624--55662 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
55614 TTTGGAAACA
55624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55663 GCAAAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:56126 original size:113 final size:113
Alignment explanation
Indices: 55907--56138 Score: 317
Period size: 113 Copynumber: 2.1 Consensus size: 113
55897 TGTGTGATCA
* * * *
55907 AATCCTTTTGCTCTTCTCCTTCTTTTTTGTTTTTTTTCTTCTTTTTTTTTTCAAACTCTCTTTGA
1 AATCCTTTTGCTCTTCTCCTCCCTTTTTGGTTTTTTTCTTCTTCTTTTTTTCAAACTCTCTTTGA
* * *
55972 TTCTCTCTCTATCTTTTTTCATCCTACCCCATATTTTTCCCTTGTTCG
66 TTCTCTCTCTATCTTTTTTCATCCTACCCCATATCTCTCCCTTGTTAG
* * *
56020 AATCCTTTTGCTTTTCTCCTCCCTTTTTGGTTTTTTTCTTCTTCTTTTTTT-GAACTCTTTTTGA
1 AATCCTTTTGCTCTTCTCCTCCCTTTTTGGTTTTTTTCTTCTTCTTTTTTTCAAACTCTCTTTGA
*
56084 TTCTCTCTCTATCTTTTTTTCAT-CTGCCCC-TGGATCTCTCCCTTGTTAG
66 TTCTCTCTCTATC-TTTTTTCATCCTACCCCAT--ATCTCTCCCTTGTTAG
56133 AATCCT
1 AATCCT
56139 CCCCTTTTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
111 1 0.01
112 30 0.29
113 74 0.70
ACGTcount: A:0.09, C:0.27, G:0.06, T:0.57
Consensus pattern (113 bp):
AATCCTTTTGCTCTTCTCCTCCCTTTTTGGTTTTTTTCTTCTTCTTTTTTTCAAACTCTCTTTGA
TTCTCTCTCTATCTTTTTTCATCCTACCCCATATCTCTCCCTTGTTAG
Found at i:56464 original size:3 final size:3
Alignment explanation
Indices: 56456--56508 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
56446 GTATTTATTA
* *
56456 AAT AAT AAT AA- AACA AAT AAT AAT AAT AAT AAT AAAT ACT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
56502 AAT AAT A
1 AAT AAT A
56509 TAAAAAACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.05
3 37 0.84
4 5 0.11
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:56878 original size:23 final size:22
Alignment explanation
Indices: 56837--56898 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
56827 ATAAAGATTT
* *
56837 AATTTAAATTAATCATTAATTAA
1 AATTTAATTTAATTATTAA-TAA
* *
56860 AATTTAATTTAATTTTTAATAG
1 AATTTAATTTAATTATTAATAA
*
56882 AATTATATTTTAATTAT
1 AATT-TAATTTAATTAT
56899 ATATTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 6 0.19
23 26 0.81
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTAATTTAATTATTAATAA
Found at i:58080 original size:18 final size:18
Alignment explanation
Indices: 58057--58094 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58047 AATGTTAAAA
*
58057 TGTTTGATCACTTTTTCT
1 TGTTTGATCACTTTTCCT
58075 TGTTTGATCACTTTTCCT
1 TGTTTGATCACTTTTCCT
58093 TG
1 TG
58095 AATGATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (18 bp):
TGTTTGATCACTTTTCCT
Found at i:58100 original size:18 final size:18
Alignment explanation
Indices: 58061--58100 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58051 TTAAAATGTT
* **
58061 TGATCACTTTTTCTTGTT
1 TGATCACTTTTCCTTGAA
58079 TGATCACTTTTCCTTGAA
1 TGATCACTTTTCCTTGAA
58097 TGAT
1 TGAT
58101 TTATTGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (18 bp):
TGATCACTTTTCCTTGAA
Found at i:62010 original size:3 final size:3
Alignment explanation
Indices: 61995--62036 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
61985 AAAGTTTAAA
*
61995 TAT TAT TAGT TAT TAT TAT TAAG TAT TAT TAT TAT TAT TAT T
1 TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT T
62037 TATGAATCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 30 0.86
4 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:62013 original size:13 final size:13
Alignment explanation
Indices: 61995--62036 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
61985 AAAGTTTAAA
61995 TATTATTAGTTAT
1 TATTATTAGTTAT
62008 TATTATTAAG-TAT
1 TATTATT-AGTTAT
62021 TATTATTA-TTAT
1 TATTATTAGTTAT
62033 TATT
1 TATT
62037 TATGAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.30
13 17 0.63
14 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (13 bp):
TATTATTAGTTAT
Found at i:62039 original size:16 final size:15
Alignment explanation
Indices: 61995--62036 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
61985 AAAGTTTAAA
61995 TATTATTAGTTATTAT
1 TATTATTA-TTATTAT
*
62011 TATTAAGTATTATTAT
1 TATT-ATTATTATTAT
62027 TATTATTATT
1 TATTATTATT
62037 TATGAATCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 15 0.65
17 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TATTATTATTATTAT
Found at i:64403 original size:29 final size:29
Alignment explanation
Indices: 64361--64416 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
64351 CTTTATTTTG
*
64361 ATCGGAGTAAGAATCAGTTGCTTCAAGAT
1 ATCGGAGTAAGAATCAATTGCTTCAAGAT
*
64390 ATCGGAGTAAGAATTAATTGCTTCAAG
1 ATCGGAGTAAGAATCAATTGCTTCAAG
64417 GTATGAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (29 bp):
ATCGGAGTAAGAATCAATTGCTTCAAGAT
Found at i:66105 original size:27 final size:29
Alignment explanation
Indices: 66074--66145 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
66064 ACTCTGAATT
* * *
66074 ATTTTATCATTATTTTT-GTAT-GAAGTG
1 ATTTTATTATTATTTTTAGTATAAAAGTA
66101 ATTTT-TTATTATTATTTAGTATAAAAGTA
1 ATTTTATTATTATT-TTTAGTATAAAAGTA
66130 ATTTTATTATTATTTT
1 ATTTTATTATTATTTT
66146 GATGGTGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 7 0.18
27 8 0.21
28 4 0.11
29 11 0.29
30 8 0.21
ACGTcount: A:0.31, C:0.01, G:0.08, T:0.60
Consensus pattern (29 bp):
ATTTTATTATTATTTTTAGTATAAAAGTA
Found at i:67786 original size:15 final size:15
Alignment explanation
Indices: 67748--67803 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
67738 GCCTAGCCCA
*
67748 GTCTGAGTCAAC-CT
1 GTCTGAGTCAACTCG
*
67762 GTCCGAGTCAACTCG
1 GTCTGAGTCAACTCG
*
67777 GTCTGAGTCAACTAG
1 GTCTGAGTCAACTCG
67792 GTCTGAGTCAAC
1 GTCTGAGTCAAC
67804 CCATTGACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 11 0.30
15 26 0.70
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (15 bp):
GTCTGAGTCAACTCG
Found at i:67840 original size:13 final size:13
Alignment explanation
Indices: 67807--67844 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
67797 AGTCAACCCA
67807 TTGACTTTGACCTG
1 TTGACTTTGA-CTG
*
67821 TTAACTTTGACTG
1 TTGACTTTGACTG
67834 TTGACTTTGAC
1 TTGACTTTGAC
67845 CAAAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (13 bp):
TTGACTTTGACTG
Found at i:68865 original size:25 final size:23
Alignment explanation
Indices: 68837--68882 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
68827 TGACCTAAAG
*
68837 TACCTTTAAGCCCTGGAATAACTAA
1 TACCCTTAA-CCCTGGAA-AACTAA
*
68862 TACCCTTAACTCTGGAAAACT
1 TACCCTTAACCCTGGAAAACT
68883 CTGAAGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (23 bp):
TACCCTTAACCCTGGAAAACTAA
Found at i:71861 original size:10 final size:9
Alignment explanation
Indices: 71826--71953 Score: 112
Period size: 10 Copynumber: 13.3 Consensus size: 9
71816 GCTGCTGGAA
*
71826 ACCGGTTTA
1 ACCGGTTTG
*
71835 ACCGGTTTTCA
1 ACCGG-TTT-G
71846 ACCGGTTCTG
1 ACCGGTT-TG
71856 ACCGGTTTG
1 ACCGGTTTG
*
71865 ACCGGTTTCA
1 ACCGGTTT-G
71875 ACCGGTTCTG
1 ACCGGTT-TG
71885 ACCGGTTTG
1 ACCGGTTTG
*
71894 ACCGGTTTCA
1 ACCGGTTT-G
*
71904 ACCGGTTCG
1 ACCGGTTTG
71913 AACCGGTTTG
1 -ACCGGTTTG
*
71923 ACCGGTCTG
1 ACCGGTTTG
*
71932 AACCGATTTG
1 -ACCGGTTTG
*
71942 ACCGGTCTG
1 ACCGGTTTG
71951 ACC
1 ACC
71954 TGACCCGACC
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
9 43 0.43
10 48 0.48
11 8 0.08
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:71870 original size:19 final size:19
Alignment explanation
Indices: 71846--71953 Score: 109
Period size: 19 Copynumber: 5.7 Consensus size: 19
71836 CCGGTTTTCA
71846 ACCGGTTCTGACCGGTTTG
1 ACCGGTTCTGACCGGTTTG
*
71865 ACCGGTT-TCAACCGGTTCTG
1 ACCGGTTCT-GACCGGTT-TG
*
71885 ACCGGTT-TGACCGGTTTCA
1 ACCGGTTCTGACCGGTTT-G
71904 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTG-ACCGGTTTG
*
71923 ACCGG-TCTGAACCGATTTG
1 ACCGGTTCTG-ACCGGTTTG
71942 ACCGG-TCTGACC
1 ACCGGTTCTGACC
71954 TGACCCGACC
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.09
19 53 0.68
20 18 0.23
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.28
Consensus pattern (19 bp):
ACCGGTTCTGACCGGTTTG
Found at i:71883 original size:29 final size:29
Alignment explanation
Indices: 71826--71953 Score: 179
Period size: 29 Copynumber: 4.4 Consensus size: 29
71816 GCTGCTGGAA
*
71826 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTCTG
71856 ACCGGTTTGACCGGTTTCAACCGGTTCTG
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
71885 ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
71913 AACCGGTTTGACCGGTCTGAACCGATT-TG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCTG
*
71942 ACCGGTCTGACC
1 ACCGGTTTGACC
71954 TGACCCGACC
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
28 12 0.13
29 66 0.73
30 13 0.14
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.29
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:71980 original size:22 final size:22
Alignment explanation
Indices: 71948--72014 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
71938 TTTGACCGGT
*
71948 CTGACCTGACCCGACCGTTGAC
1 CTGACCCGACCCGACCGTTGAC
71970 CTGACCCGACCCGACCGTTGAC
1 CTGACCCGACCCGACCGTTGAC
*
71992 CCGACCCGACCCGACCGTTGAC
1 CTGACCCGACCCGACCGTTGAC
72014 C
1 C
72015 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.46, G:0.22, T:0.13
Consensus pattern (22 bp):
CTGACCCGACCCGACCGTTGAC
Found at i:79137 original size:9 final size:9
Alignment explanation
Indices: 79123--79219 Score: 106
Period size: 9 Copynumber: 10.3 Consensus size: 9
79113 GCTGCTGGAA
79123 ACCGGTTTG
1 ACCGGTTTG
*
79132 ACCGGTTTCA
1 ACCGGTTT-G
79142 ACCGGTTCTG
1 ACCGGTT-TG
79152 ACCGGTTTG
1 ACCGGTTTG
79161 ACCGGTTCTG
1 ACCGGTT-TG
79171 ACCGGTTTG
1 ACCGGTTTG
*
79180 ACCGGTTTCA
1 ACCGGTTT-G
*
79190 ACCGGTTCG
1 ACCGGTTTG
79199 AACC-GTTTG
1 -ACCGGTTTG
*
79208 ACCGGTCTG
1 ACCGGTTTG
79217 ACC
1 ACC
79220 CGACCCGACC
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
8 3 0.04
9 38 0.51
10 33 0.44
11 1 0.01
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:79146 original size:19 final size:18
Alignment explanation
Indices: 79122--79213 Score: 96
Period size: 19 Copynumber: 4.9 Consensus size: 18
79112 GGCTGCTGGA
79122 AACCGGTTTGACCGGTTT
1 AACCGGTTTGACCGGTTT
79140 CAACCGGTTCTGACCGGTTT
1 -AACCGGTT-TGACCGGTTT
*
79160 GACCGGTTCTGACCGGTTT
1 AACCGGTT-TGACCGGTTT
* * *
79179 GACCGGTTTCAACCGGTTCG
1 AACCGGTTT-GACCGGTT-T
79199 AACC-GTTTGACCGGT
1 AACCGGTTTGACCGGT
79214 CTGACCCGAC
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.11
19 45 0.69
20 13 0.20
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (18 bp):
AACCGGTTTGACCGGTTT
Found at i:79165 original size:29 final size:28
Alignment explanation
Indices: 79123--79219 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 28
79113 GCTGCTGGAA
79123 ACCGGTTTGACCGGTTTC-AACCGGTTCTG
1 ACCGGTTTGACCGG-TTCGAACCGGTT-TG
79152 ACCGGTTTGACCGGTTCTG-ACCGGTTTG
1 ACCGGTTTGACCGGTTC-GAACCGGTTTG
*
79180 ACCGGTTTCAACCGGTTCGAACC-GTTTG
1 ACCGGTTT-GACCGGTTCGAACCGGTTTG
*
79208 ACCGGTCTGACC
1 ACCGGTTTGACC
79220 CGACCCGACC
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
27 3 0.05
28 26 0.43
29 32 0.52
ACGTcount: A:0.14, C:0.29, G:0.28, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTCGAACCGGTTTG
Found at i:79237 original size:17 final size:17
Alignment explanation
Indices: 79215--79253 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
79205 TTGACCGGTC
79215 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
79232 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
79249 TGACC
1 TGACC
79254 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:86427 original size:19 final size:18
Alignment explanation
Indices: 86403--86495 Score: 105
Period size: 19 Copynumber: 4.9 Consensus size: 18
86393 GGCTGCTGGA
86403 AACCGGTTTGACCGGTTT
1 AACCGGTTTGACCGGTTT
86421 CAACCGGTTCTGACCGGTTT
1 -AACCGGTT-TGACCGGTTT
*
86441 GACCGGTTCTGACCGGTTT
1 AACCGGTT-TGACCGGTTT
* * *
86460 GACCGGTTTCAACCGGTTCG
1 AACCGGTTT-GACCGGTT-T
86480 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
86496 CTGACCCGAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
18 1 0.02
19 47 0.71
20 18 0.27
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (18 bp):
AACCGGTTTGACCGGTTT
Found at i:86446 original size:29 final size:28
Alignment explanation
Indices: 86404--86501 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 28
86394 GCTGCTGGAA
86404 ACCGGTTTGACCGGTTTC-AACCGGTTCTG
1 ACCGGTTTGACCGG-TTCGAACCGGTT-TG
86433 ACCGGTTTGACCGGTTCTG-ACCGGTTTG
1 ACCGGTTTGACCGGTTC-GAACCGGTTTG
*
86461 ACCGGTTTCAACCGGTTCGAACCGGTTTG
1 ACCGGTTT-GACCGGTTCGAACCGGTTTG
*
86490 ACCGGTCTGACC
1 ACCGGTTTGACC
86502 CGACCCGACC
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
28 17 0.27
29 45 0.73
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTCGAACCGGTTTG
Found at i:86475 original size:48 final size:47
Alignment explanation
Indices: 86404--86501 Score: 171
Period size: 48 Copynumber: 2.1 Consensus size: 47
86394 GCTGCTGGAA
86404 ACCGGTTTGACCGGTTTCAACCGGTTCTG-ACCGGTTTGACCGGTTCTG
1 ACCGGTTTGACCGGTTTCAACCGGTTC-GAACCGGTTTGACCGG-TCTG
86452 ACCGGTTTGACCGGTTTCAACCGGTTCGAACCGGTTTGACCGGTCTG
1 ACCGGTTTGACCGGTTTCAACCGGTTCGAACCGGTTTGACCGGTCTG
86499 ACC
1 ACC
86502 CGACCCGACC
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 8 0.16
48 41 0.84
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (47 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCGAACCGGTTTGACCGGTCTG
Found at i:86512 original size:48 final size:48
Alignment explanation
Indices: 86412--86512 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
86402 AAACCGGTTT
****
86412 GACCGGTTTCAACCGGTTCTGACCGGTTTGACCGGTTCTGACCGGTTT
1 GACCGGTTTCAACCGGTTCTGACCGGTTTGACCGGTTCTGACCGACCC
86460 GACCGGTTTCAACCGGTTC-GAACCGGTTTGACCGG-TCTGACCCGACCC
1 GACCGGTTTCAACCGGTTCTG-ACCGGTTTGACCGGTTCTGA-CCGACCC
86508 GACCG
1 GACCG
86513 TTGACCCGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
47 6 0.13
48 41 0.87
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.25
Consensus pattern (48 bp):
GACCGGTTTCAACCGGTTCTGACCGGTTTGACCGGTTCTGACCGACCC
Found at i:86519 original size:17 final size:17
Alignment explanation
Indices: 86497--86535 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
86487 TTGACCGGTC
86497 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
86514 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
86531 TGACC
1 TGACC
86536 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:94131 original size:15 final size:15
Alignment explanation
Indices: 94111--94139 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94101 TTAATTTTTG
94111 TTATTTATATGTTAT
1 TTATTTATATGTTAT
94126 TTATTTATATGTTA
1 TTATTTATATGTTA
94140 AAATTACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TTATTTATATGTTAT
Found at i:95418 original size:19 final size:19
Alignment explanation
Indices: 95391--95438 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
95381 ACGATGCTTG
*
95391 GGTCATCACAAGGTACAAT
1 GGTCCTCACAAGGTACAAT
95410 GGTCCTCACAAGGTACAAT
1 GGTCCTCACAAGGTACAAT
*
95429 AGTCCTCACA
1 GGTCCTCACA
95439 TATGTTTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (19 bp):
GGTCCTCACAAGGTACAAT
Found at i:97537 original size:22 final size:23
Alignment explanation
Indices: 97509--97558 Score: 93
Period size: 22 Copynumber: 2.2 Consensus size: 23
97499 ATCAAATTCA
97509 TTAATTACTTTTAATC-AAACAT
1 TTAATTACTTTTAATCAAAACAT
97531 TTAATTACTTTTAATCAAAACAT
1 TTAATTACTTTTAATCAAAACAT
97554 TTAAT
1 TTAAT
97559 AAAATTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAATTACTTTTAATCAAAACAT
Found at i:97579 original size:35 final size:36
Alignment explanation
Indices: 97518--97587 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
97508 ATTAATTACT
*
97518 TTTAATCAAACATTTAATTAC-TTTTAATCAAAACA
1 TTTAATCAAACATTTAATTACATTTAAATCAAAACA
97553 TTTAAT-AAA-ATTCTAATTAACATTTAAATCAAAAC
1 TTTAATCAAACATT-TAATT-ACATTTAAATCAAAAC
97588 CAAATAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
33 3 0.10
34 8 0.26
35 8 0.26
36 12 0.39
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.39
Consensus pattern (36 bp):
TTTAATCAAACATTTAATTACATTTAAATCAAAACA
Found at i:98782 original size:22 final size:22
Alignment explanation
Indices: 98755--98796 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
98745 AATACATATT
98755 ATGCATACATAATATATGAACC
1 ATGCATACATAATATATGAACC
* * *
98777 ATGCATGCATATTATTTGAA
1 ATGCATACATAATATATGAA
98797 AATTATTCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (22 bp):
ATGCATACATAATATATGAACC
Found at i:98841 original size:27 final size:28
Alignment explanation
Indices: 98795--98854 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 28
98785 ATATTATTTG
98795 AAAATTATTCGAACCCTAATATATGAAT
1 AAAATTATTCGAACCCTAATATATGAAT
*
98823 AAAATT-TTTGAACCCTAATATATGAAT
1 AAAATTATTCGAACCCTAATATATGAAT
98850 AAAAT
1 AAAAT
98855 AAATTATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAATTATTCGAACCCTAATATATGAAT
Found at i:100743 original size:341 final size:346
Alignment explanation
Indices: 100109--100792 Score: 1154
Period size: 341 Copynumber: 2.0 Consensus size: 346
100099 ATATATTATA
*
100109 ATAAAAACATTGATGTGTATTATATAATACAATGTGACATGAACGTTAATTATATTTATTTTAAC
1 ATAAAAACATTGATGTGTATTATATAATACAATGTGACATGAACGTTAATTATACTTATTTTAAC
100174 ACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTATTTTTTTTATCGATT
66 ACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTATTTTTTTTATCGATT
100239 TGTTTACAATTAATTCTACATTTGAAGGTTAATGATATTTTATTTAAACCTGATATAATTATCAT
131 TGTTTACAATTAATTCTACATTTGAAGGTT-ATGATATTTTATTTAAACCTGATATAATTATCAT
100304 GCTATCATTATATTATTATATAATATACATATATTTACATGAAAATTAACAATTCTATAACACTT
195 GCTATCATTATATTATTATATAATATACATATATTTACATGAAAATTAACAATTCTATAACACTT
* *
100369 CTATTAATATAAAATATGATTAATAGATACTAATAGTTTAGAGATGAAATTAAAATATTT-AAAA
260 CTATCAATATAAAATATGATTAACAGATACTAATAGTTTAGAGATGAAATTAAAATATTTAAAAA
100433 AATTAAAGATTAATTTATTACT
325 AATTAAAGATTAATTTATTACT
*
100455 ATAAAAACATTGATGTGTATTATATAATATACATGTGACATGAACGTTAATTAT-CTT-TTTTAA
1 ATAAAAACATTGATGTGTATTATATAATACA-ATGTGACATGAACGTTAATTATACTTATTTTAA
100518 CACACATTGAAGTCATCATTTATAAT-AAATTAAAATATTGTTTACTTTTA-TTTTTTTATCGAT
65 CACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTATTTTTTTTATCGAT
100581 TTGTTTACAATTAATTCTACATTTGAAGG-T-T-ATA-TTTATTTAAACCTGATATTAATTATCA
130 TTGTTTACAATTAATTCTACATTTGAAGGTTATGATATTTTATTTAAACCTGATA-TAATTATCA
* *
100642 TGCATATCATTATATTATTATATAATATACCTATTATTTACATG-AAGTTAACAATTTCTATAAC
194 TGC-TATCATTATATTATTATATAATATACATA-TATTTACATGAAAATTAACAA-TTCTATAAC
* * **
100706 ACTTCTCTCAATATAGAATATGATTAACATTTACTAATAGTTTAGAGATGAAATTAAAATATTTA
256 ACTTCTATCAATATAAAATATGATTAACAGATACTAATAGTTTAGAGATGAAATTAAAATATTTA
100771 AAAAAATTAAAGATTAATTTAT
321 AAAAAATTAAAGATTAATTTAT
100793 ATCGAGAATT
Statistics
Matches: 322, Mismatches: 10, Indels: 16
0.93 0.03 0.05
Matches are distributed among these distances:
338 17 0.05
339 15 0.05
340 38 0.12
341 77 0.24
342 23 0.07
343 42 0.13
344 24 0.07
345 32 0.10
346 32 0.10
347 22 0.07
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (346 bp):
ATAAAAACATTGATGTGTATTATATAATACAATGTGACATGAACGTTAATTATACTTATTTTAAC
ACACATTGAAGTCATCATTTATAATAAAATTAAAATATTGTTTACTTTTATTTTTTTTATCGATT
TGTTTACAATTAATTCTACATTTGAAGGTTATGATATTTTATTTAAACCTGATATAATTATCATG
CTATCATTATATTATTATATAATATACATATATTTACATGAAAATTAACAATTCTATAACACTTC
TATCAATATAAAATATGATTAACAGATACTAATAGTTTAGAGATGAAATTAAAATATTTAAAAAA
ATTAAAGATTAATTTATTACT
Found at i:101889 original size:3 final size:3
Alignment explanation
Indices: 101881--101939 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
101871 TGTCGACTTA
* * * *
101881 CCT CCT CCT CCT CCT CCC CCT CCT CCG CCC CCT CCT CCT CCT CCT CGT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
101929 CCT CCT CCT CC
1 CCT CCT CCT CC
101940 CCGTCCTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.69, G:0.03, T:0.27
Consensus pattern (3 bp):
CCT
Found at i:104068 original size:43 final size:43
Alignment explanation
Indices: 104020--104102 Score: 100
Period size: 42 Copynumber: 1.9 Consensus size: 43
104010 AGTGATTGAA
104020 ATTTGTACTACTTTATAA-ATTTTTTGAA-TTTTATTT-TTTAAAT
1 ATTTGTA-TACTTTATAATA-TTTTT-AATTTTTATTTATTTAAAT
* *
104063 ATTTGTATAGTTTATGATATTTTTAATTTTTATTTATTTA
1 ATTTGTATACTTTATAATATTTTTAATTTTTATTTATTTA
104103 TATAGTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
41 2 0.06
42 21 0.60
43 12 0.34
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (43 bp):
ATTTGTATACTTTATAATATTTTTAATTTTTATTTATTTAAAT
Found at i:105216 original size:42 final size:40
Alignment explanation
Indices: 105156--105358 Score: 153
Period size: 41 Copynumber: 5.0 Consensus size: 40
105146 GTTTGAGAAT
* * * *
105156 AAAAACGCTGCAATAGGTCAAGATATATCGCGACGTTTTGG
1 AAAAACGCCGCAAAAGGTC-AGATATATAGCGGCGTTTTGG
* *
105197 AACAAACGCCGCAAAAGGTCGATATATATAGCGGCATTTTTGG
1 AA-AAACGCCGCAAAAGGTC-AGATATATAGCGGC-GTTTTGG
* * * *
105240 AACAAATGCCG-AAAAGATC-GATATCTATAAC-G-TTTTTGGG
1 AA-AAACGCCGCAAAAGGTCAGATA--TATAGCGGCGTTTT-GG
* * * *
105280 AAAAACGCCACAAAAGATAAGATCTATAGCGGCGTTTTGG
1 AAAAACGCCGCAAAAGGTCAGATATATAGCGGCGTTTTGG
* *
105320 AAACAACGCTGCAAAAGGTCAGATTTATAGCGGCGTTTT
1 AAA-AACGCCGCAAAAGGTCAGATATATAGCGGCGTTTT
105359 TTTTATACAA
Statistics
Matches: 130, Mismatches: 22, Indels: 20
0.76 0.13 0.12
Matches are distributed among these distances:
39 16 0.12
40 20 0.15
41 40 0.31
42 38 0.29
43 16 0.12
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (40 bp):
AAAAACGCCGCAAAAGGTCAGATATATAGCGGCGTTTTGG
Found at i:105297 original size:40 final size:41
Alignment explanation
Indices: 105191--105297 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
105181 TATCGCGACG
* *
105191 TTTTGGAACAAACGCCGCAAAAGGTCGATATATATAGCGGCAT
1 TTTTGGAACAAACGCC-CAAAAGATCGATATATATAACGG-AT
* * *
105234 TTTTGGAACAAATGCCGAAAAGATCGATATCTATAAC-G-T
1 TTTTGGAACAAACGCCCAAAAGATCGATATATATAACGGAT
105273 TTTTGGGAA-AAACGCCACAAAAGAT
1 TTTT-GGAACAAACGCC-CAAAAGAT
105298 AAGATCTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 11 0.20
40 11 0.20
41 1 0.02
42 17 0.31
43 15 0.27
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (41 bp):
TTTTGGAACAAACGCCCAAAAGATCGATATATATAACGGAT
Found at i:105447 original size:3 final size:3
Alignment explanation
Indices: 105439--105489 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
105429 ACTAATATGA
105439 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
105487 AAT
1 AAT
105490 CTCTAAGGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.