Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1938
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: 105443
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2873 original size:20 final size:20
Alignment explanation
Indices: 2848--2900 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2838 CTTAAATGTT
*
2848 TGTATCGATACA-CAACAATA
1 TGTATCGATACATC-ACAAAA
*
2868 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
2888 TGTATCGATACAT
1 TGTATCGATACAT
2901 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:3968 original size:13 final size:13
Alignment explanation
Indices: 3950--3974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3940 ATGTTGCACA
3950 GTATCGATACATT
1 GTATCGATACATT
3963 GTATCGATACAT
1 GTATCGATACAT
3975 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:3987 original size:20 final size:21
Alignment explanation
Indices: 3962--4014 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
3952 ATCGATACAT
**
3962 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
3982 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
4003 TGTATCGATACA
1 TGTATCGATACA
4015 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:4085 original size:13 final size:13
Alignment explanation
Indices: 4067--4091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4057 CAACACAGTA
4067 TGTATCGATACAT
1 TGTATCGATACAT
4080 TGTATCGATACA
1 TGTATCGATACA
4092 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9864 original size:13 final size:13
Alignment explanation
Indices: 9846--9870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9836 ATTTTGCTAA
9846 GTATCGATACATT
1 GTATCGATACATT
9859 GTATCGATACAT
1 GTATCGATACAT
9871 AGCATTGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:9945 original size:22 final size:22
Alignment explanation
Indices: 9917--9970 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
9907 CATCACTATT
9917 CATCACTGTTTATCTATCGATA
1 CATCACTGTTTATCTATCGATA
*
9939 CATCACTGTTTATGTATCGATA
1 CATCACTGTTTATCTATCGATA
*
9961 TATCACTGTT
1 CATCACTGTT
9971 CATAACTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (22 bp):
CATCACTGTTTATCTATCGATA
Found at i:10161 original size:20 final size:19
Alignment explanation
Indices: 10113--10151 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
10103 ATAATTTTAA
10113 ATGCATGTATCGATACATT
1 ATGCATGTATCGATACATT
*
10132 ATGAATTGTATCGATACATT
1 ATGCA-TGTATCGATACATT
10152 GGAGCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGCATGTATCGATACATT
Found at i:10580 original size:34 final size:35
Alignment explanation
Indices: 10517--10583 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
10507 CTAAGTGATT
10517 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
10553 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
10584 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:11526 original size:13 final size:13
Alignment explanation
Indices: 11508--11533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11498 ACAGCATTCT
11508 CTGTATCGATACA
1 CTGTATCGATACA
11521 CTGTATCGATACA
1 CTGTATCGATACA
11534 AGGGGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:11690 original size:22 final size:19
Alignment explanation
Indices: 11655--11701 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
11645 AAATCTTTTG
*
11655 CAAAATTCTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCA--T
11676 CAAAATACATTGTTTTTCAT
1 CAAAATAC-TTGTTTTTCAT
11696 CAAAAT
1 CAAAAT
11702 CGTCATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (19 bp):
CAAAATACTTGTTTTTCAT
Found at i:13978 original size:13 final size:13
Alignment explanation
Indices: 13960--13984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13950 ATGTTGCACA
13960 GTATCGATACATT
1 GTATCGATACATT
13973 GTATCGATACAT
1 GTATCGATACAT
13985 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:13997 original size:20 final size:21
Alignment explanation
Indices: 13972--14024 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
13962 ATCGATACAT
**
13972 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
13992 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
14013 TGTATCGATACA
1 TGTATCGATACA
14025 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:14118 original size:33 final size:32
Alignment explanation
Indices: 14056--14123 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
14046 GTAGCCAAAC
** * *
14056 TTGTATCGATACACACAGTATGTATCGATATA
1 TTGTATCGATACACACAAAATGTAACGATACA
*
14088 TTGTATCGATACACCATAAAATGTAACGATACA
1 TTGTATCGATACA-CACAAAATGTAACGATACA
14121 TTG
1 TTG
14124 GCTTGTAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTAACGATACA
Found at i:14865 original size:24 final size:24
Alignment explanation
Indices: 14838--14883 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
14828 CCCCCCTCTT
*
14838 GGTTCGTTATTCCTTGAGCTTTTA
1 GGTTCATTATTCCTTGAGCTTTTA
14862 GGTTCATTATTCCTTGAGCTTT
1 GGTTCATTATTCCTTGAGCTTT
14884 CAACTGGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.17, G:0.20, T:0.50
Consensus pattern (24 bp):
GGTTCATTATTCCTTGAGCTTTTA
Found at i:20078 original size:8 final size:8
Alignment explanation
Indices: 20065--20095 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
20055 ATTTGATTAA
20065 ATTTTGTG
1 ATTTTGTG
20073 ATTTTGTG
1 ATTTTGTG
20081 ATTTTGTG
1 ATTTTGTG
20089 ATGTTTG
1 AT-TTTG
20096 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:20289 original size:13 final size:13
Alignment explanation
Indices: 20271--20309 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
20261 ACAGCATTCT
20271 TTGTATCGATACA
1 TTGTATCGATACA
20284 TTGTATCGATACA
1 TTGTATCGATACA
*
20297 GTGTATCGATACA
1 TTGTATCGATACA
20310 AAGGGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:22809 original size:13 final size:13
Alignment explanation
Indices: 22791--22815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22781 ATATTGCACA
22791 GTATCGATACATT
1 GTATCGATACATT
22804 GTATCGATACAT
1 GTATCGATACAT
22816 GGCCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:22937 original size:32 final size:33
Alignment explanation
Indices: 22896--22962 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
22886 CCTTAACTGT
* *
22896 TTGTATCGATACA-CACAATATGTATCGATGCA
1 TTGTATCGATACATCACAAAATGTATCGATACA
*
22928 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
22961 TT
1 TT
22963 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:26790 original size:19 final size:20
Alignment explanation
Indices: 26762--26814 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
26752 ATCGATACAT
* *
26762 TGTATTGATACATGCTC-AC
1 TGTATCGATACATGCACAAC
* *
26781 TGTATCGATACATGGACAAT
1 TGTATCGATACATGCACAAC
26801 TGTATCGATACATG
1 TGTATCGATACATG
26815 AGATTAGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGCACAAC
Found at i:26877 original size:13 final size:13
Alignment explanation
Indices: 26859--26911 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
26849 GATACATGGG
26859 ACATTGTATCGAT
1 ACATTGTATCGAT
26872 ACATTGTATCGAT
1 ACATTGTATCGAT
26885 ACA-TG-AT-GA-
1 ACATTGTATCGAT
26894 A-ATTGTATCGAT
1 ACATTGTATCGAT
26906 ACATTG
1 ACATTG
26912 CTTGTAACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 3 0.09
10 4 0.11
11 4 0.11
12 3 0.09
13 20 0.57
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:26904 original size:34 final size:33
Alignment explanation
Indices: 26841--26911 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
26831 CCCTATCACT
*
26841 ATTGTATCGATACATGGGACATTGTATCGATAC
1 ATTGTATCGATACATGGGAAATTGTATCGATAC
*
26874 ATTGTATCGATACATGATGAAATTGTATCGATAC
1 ATTGTATCGATACATG-GGAAATTGTATCGATAC
26908 ATTG
1 ATTG
26912 CTTGTAACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 16 0.46
34 19 0.54
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACATGGGAAATTGTATCGATAC
Found at i:35546 original size:20 final size:22
Alignment explanation
Indices: 35523--35578 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
35513 CACTCCTAGA
*
35523 TGTATCGATACAT-TATGCT-T
1 TGTATCGATACATACATGCTAT
35543 TGTATCGATACATACATGCTCAT
1 TGTATCGATACATACATGCT-AT
35566 TGTATCGATACAT
1 TGTATCGATACAT
35579 GGACAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 13 0.41
21 5 0.16
23 14 0.44
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (22 bp):
TGTATCGATACATACATGCTAT
Found at i:47883 original size:16 final size:16
Alignment explanation
Indices: 47839--47884 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
47829 CCTTCGTACA
47839 AAAAAAAAAGAAAAAAC
1 AAAAAAAAA-AAAAAAC
*
47856 AAAAAAATAAAAAAACC
1 AAAAAAA-AAAAAAAAC
*
47873 AAAAATAAAAAA
1 AAAAAAAAAAAA
47885 TAAATAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 5 0.19
17 19 0.73
18 2 0.08
ACGTcount: A:0.87, C:0.07, G:0.02, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:47893 original size:15 final size:13
Alignment explanation
Indices: 47838--47884 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
47828 TCCTTCGTAC
47838 AAAAAAAAAAGAA-
1 AAAAAAAAAA-AAT
*
47851 AAAACAAAAAAAT
1 AAAAAAAAAAAAT
47864 AAAAAAACCAAAAAT
1 AAAAAAA--AAAAAT
47879 AAAAAA
1 AAAAAA
47885 TAAATAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 2 0.07
13 15 0.52
15 12 0.41
ACGTcount: A:0.87, C:0.06, G:0.02, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAAAAT
Found at i:49179 original size:28 final size:28
Alignment explanation
Indices: 49144--49715 Score: 506
Period size: 28 Copynumber: 20.0 Consensus size: 28
49134 TGTTCATCTC
* *
49144 TTTAAAGCCCATAGGTCAGTGGCATCCT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* * *
49172 TTTGAAGCCCACAAGTAAATGGCAT-CT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
*
49199 TTTCAAAGCCCACAAGTCAATGGCATCCT
1 TTT-AAAGCCCACAAGTCAGTGGCATCCT
* *
49228 TTTAAAGCCCACAAGTAAATGGCAT-CT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
*
49255 TTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTT-AAAGCCCACAAGTCAGTGGCATCCT
* * *
49284 TTCAAAGCCTACAAGTTAGTGGCATCCT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
*
49312 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* * *
49340 TTTAAAGCCCTCAAGTTAGTGGCATCTT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
*
49368 TTTCAAAGACCACAAGTCAGTGGCATCC-
1 TTT-AAAGCCCACAAGTCAGTGGCATCCT
*
49396 TTTAAAGCCCACAAGTTAGTGGCA-CCT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* *
49423 TTTCATAGCCTACAAGTCAGTGGCATACCCT
1 TTT-AAAGCCCACAAGTCAGTGGCAT--CCT
* * * * *
49454 TTCAAAGTCCACACAAATTAGTCGCACCCT
1 TTTAAAG-CC-CACAAGTCAGTGGCATCCT
** * *
49484 TCCAAAGCCCACAAGTTAGTGGCACCCT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* * * *
49512 TTCAAAGGCCACAAGTCAGTGTCACCCT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
49540 TTCAAAGGCCACAAGTCAGTGGTACCCC
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* * *
49568 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* *
49596 TTCAAAGCCCACAAGTTAGTGGCATACCCT
1 TTTAAAGCCCACAAGTCAGTGGCAT--CCT
* * * *
49626 TTCAAAGCCCACAAGTCGGTGGCACCCC
1 TTTAAAGCCCACAAGTCAGTGGCATCCT
* * *
49654 TTCAAAGCCCACACAAGTCAATGGCAACTCT
1 TTTAAAG-CC-CACAAGTCAGTGGCATC-CT
*
49685 TTTCAAAGCCCACACAAGTTAGTGGCA-CCT
1 TTT-AAAG-CC-CACAAGTCAGTGGCATCCT
49715 T
1 T
49716 CTTTTTTAAA
Statistics
Matches: 463, Mismatches: 63, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.00
27 32 0.07
28 299 0.65
29 33 0.07
30 54 0.12
31 11 0.02
32 32 0.07
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTAAAGCCCACAAGTCAGTGGCATCCT
Found at i:49224 original size:56 final size:56
Alignment explanation
Indices: 49143--49713 Score: 624
Period size: 56 Copynumber: 10.0 Consensus size: 56
49133 ATGTTCATCT
* * ** * * *
49143 CTTT-AAAGCCCATAGGTCAGTGGCATCCTTTTGAAGCCCACAAGTAAATGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
* * * * * *
49198 TTTTCAAAGCCCACAAGTCAATGGCATCCTTTTAAAGCCCACAAGTAAATGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
* * * *
49254 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
* * *
49310 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCTCAAGTTAGTGGCATCT
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCA-CC
* *
49367 TTTTCAAAGACCACAAGTCAGTGGCATCCTTT-AAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
* * * * *
49422 TTTTCATAGCCTACAAGTCAGTGGCATACCCTTTCAAAGTCCACACAAATTAGTCGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAG-CC-CACAAGTTAGTGGCACC
* * * * * *
49482 CTTCCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGGCCACAAGTCAGTGTCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
* * * *
49538 CTTTCAAAGGCCACAAGTCAGTGGTACCCCTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
* **
49594 CTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCACAAGTCGGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCCCACAAGTTAGTGGCACC
* * *
49652 CCTTCAAAGCCCACACAAGTCAATGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 CTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTTAGTGGCACC
49714 TTCTTTTTTA
Statistics
Matches: 442, Mismatches: 59, Indels: 23
0.84 0.11 0.04
Matches are distributed among these distances:
55 28 0.06
56 250 0.57
57 36 0.08
58 48 0.11
59 4 0.01
60 57 0.13
61 3 0.01
62 16 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (56 bp):
CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACC
Found at i:49287 original size:84 final size:84
Alignment explanation
Indices: 49143--49713 Score: 574
Period size: 84 Copynumber: 6.7 Consensus size: 84
49133 ATGTTCATCT
* * * * * * *
49143 CTTT-AAAGCCCATAGGTCAGTGGCATCCTTTT-GAAGCCCACAAGTAAATGGCATCTTTTCAAA
1 CTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* *
49206 GCCCACAAGTCAATGGCATC
65 GCCCACAAGTCAGTGGCACC
* * *
49226 CTTTTAAAGCCCACAAGTAAATGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
49291 CCTACAAGTTAGTGGCATC
66 CCCACAAGTCAGTGGCACC
* * **
49310 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTT-AAAGCCCTCAAGTTAGTGGCATCTTTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAA
* *
49374 AGACCACAAGTCAGTGGCATC
64 AGCCCACAAGTCAGTGGCACC
* * * *
49395 CTTT-AAAGCCCACAAGTTAGTGGCACCTTTTCATAGCCTACAAGTCAGTGGCATACCCTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAA
* * *
49459 AGTCCACACAAATTAGTCGCACC
64 AG-CC-CACAAGTCAGTGGCACC
* * * * * *
49482 CTTCCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGGCCACAAGTCAGTGTCACCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
49547 GCCACAAGTCAGTGGTACC
66 CCCACAAGTCAGTGGCACC
* * * * *
49566 CCTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAA
*
49631 AGCCCACAAGTCGGTGGCACC
64 AGCCCACAAGTCAGTGGCACC
* * *
49652 CCTTCAAAGCCCACACAAGTCAATGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 CTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGCACC
49714 TTCTTTTTTA
Statistics
Matches: 412, Mismatches: 58, Indels: 29
0.83 0.12 0.06
Matches are distributed among these distances:
83 14 0.03
84 201 0.49
85 44 0.11
86 51 0.12
87 18 0.04
88 55 0.13
89 1 0.00
90 12 0.03
91 2 0.00
92 14 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (84 bp):
CTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACC
Found at i:49858 original size:45 final size:46
Alignment explanation
Indices: 49794--49916 Score: 140
Period size: 49 Copynumber: 2.6 Consensus size: 46
49784 AAGTTCGATA
* * *
49794 TCGCTGGCATTGCATCAGCATATTGGCACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
* *
49839 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATG
* **
49888 TCGCTAGCCTTGAATTGGCACATTGGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
49917 GCCTCTCATC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 23 0.35
47 9 0.14
49 34 0.52
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.30
Consensus pattern (46 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
Found at i:50673 original size:20 final size:19
Alignment explanation
Indices: 50630--50702 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
50620 TTTTGCCTAG
* *
50630 ATGTATTGATACAT-TGAAA
1 ATGTATCGATACATCT-ACA
*
50649 ATGTATCGATACATGTACGA
1 ATGTATCGATACATCTAC-A
* *
50669 ATGTATCGTTACATTCTTCA
1 ATGTATCGATACA-TCTACA
50689 ATGTATCGATACAT
1 ATGTATCGATACAT
50703 TTTGTCTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 15 0.33
20 27 0.60
21 3 0.07
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGTATCGATACATCTACA
Found at i:50703 original size:20 final size:21
Alignment explanation
Indices: 50648--50703 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
50638 ATACATTGAA
*
50648 AATGTATCGATACA-TGTACG
1 AATGTATCGATACATTCTACG
* *
50668 AATGTATCGTTACATTCTTC-
1 AATGTATCGATACATTCTACG
50688 AATGTATCGATACATT
1 AATGTATCGATACATT
50704 TTGTCTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTCTACG
Found at i:60046 original size:65 final size:65
Alignment explanation
Indices: 59970--60109 Score: 271
Period size: 65 Copynumber: 2.2 Consensus size: 65
59960 ATGGTCATGA
*
59970 TGGAATGAATGCATGCATCAAACAAAAACAAATGAGAACGTGGGTAGTGACTATATAAAAATAAT
1 TGGAATGAATGCATGCATCAAACAAAAACAAATGAGAACGTGGGTAGTGACTATACAAAAATAAT
60035 TGGAATGAATGCATGCATCAAACAAAAACAAATGAGAACGTGGGTAGTGACTATACAAAAATAAT
1 TGGAATGAATGCATGCATCAAACAAAAACAAATGAGAACGTGGGTAGTGACTATACAAAAATAAT
60100 TGGAATGAAT
1 TGGAATGAAT
60110 AGCAAGAATA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 74 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (65 bp):
TGGAATGAATGCATGCATCAAACAAAAACAAATGAGAACGTGGGTAGTGACTATACAAAAATAAT
Found at i:60093 original size:33 final size:33
Alignment explanation
Indices: 59991--60095 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
59981 CATGCATCAA
59991 ACAAAAACAAATGAGAACGTGGGTAGTGACTAT
1 ACAAAAACAAATGAGAACGTGGGTAGTGACTAT
* * * * *** * *
60024 ATAAAAATAATTG-GAATGAATGCA-TG-CATCAA
1 ACAAAAACAAATGAGAACGTGGGTAGTGAC-T-AT
60056 ACAAAAACAAATGAGAACGTGGGTAGTGACTAT
1 ACAAAAACAAATGAGAACGTGGGTAGTGACTAT
60089 ACAAAAA
1 ACAAAAA
60096 TAATTGGAAT
Statistics
Matches: 49, Mismatches: 18, Indels: 10
0.64 0.23 0.13
Matches are distributed among these distances:
30 1 0.02
31 3 0.06
32 17 0.35
33 24 0.49
34 3 0.06
35 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.19
Consensus pattern (33 bp):
ACAAAAACAAATGAGAACGTGGGTAGTGACTAT
Found at i:64120 original size:13 final size:14
Alignment explanation
Indices: 64102--64131 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
64092 CAATAAATTG
64102 CTGAAAA-CACTTT
1 CTGAAAAGCACTTT
64115 CTGAAAAGCACTTT
1 CTGAAAAGCACTTT
64129 CTG
1 CTG
64132 CCTCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (14 bp):
CTGAAAAGCACTTT
Found at i:66030 original size:147 final size:153
Alignment explanation
Indices: 65856--66134 Score: 455
Period size: 147 Copynumber: 1.8 Consensus size: 153
65846 TTTTGTAAGT
*
65856 ATTTACAATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTGAACA
1 ATTTACAATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACA
*
65921 TTAATAATAATAAT-T-GTTATTATTATTATAATA-TAAAAAA-C-CAACAGCAAACAAATCACA
66 TTAATAATAATAATATAATTATTATTATTATAA-ACTAAAAAACCACAACAGCAAACAAATCACA
65981 TGTCAACATCAAACATTAATAATA
130 TGTCAACATCAAACATTAATAATA
*
66005 ATTTAC-A-ATATATATATACATCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACA
1 ATTTACAATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACA
66068 TTAATAATAATAATAATAATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAAATCAC
66 TTAATAATAATAAT-ATAATTATTATTATTATAAACTAAAAAACC-ACAACAGCAAACAAATCAC
66133 AT
129 AT
66135 AACAACAATT
Statistics
Matches: 120, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
147 68 0.57
148 1 0.01
149 8 0.07
150 22 0.18
151 1 0.01
153 20 0.17
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.34
Consensus pattern (153 bp):
ATTTACAATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACA
TTAATAATAATAATATAATTATTATTATTATAAACTAAAAAACCACAACAGCAAACAAATCACAT
GTCAACATCAAACATTAATAATA
Found at i:66067 original size:72 final size:72
Alignment explanation
Indices: 65856--66078 Score: 177
Period size: 72 Copynumber: 3.0 Consensus size: 72
65846 TTTTGTAAGT
* *
65856 ATTTACAATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTGAACA
1 ATTTAC-A-ATATATATATACATCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACA
65921 TTAATAATA
64 TTAATAATA
*** * * *** ** * **
65930 ATAATTGTTAT-TATTATTATA-AT--ATAAAAAACCAACAGCAAACAAATCACATGT-CAACAT
1 AT--TTACAATATA-TA-TATACATCAATAGAAAA-TAAC-TTTAAC-AATCTTAT-TATAATTT
*
65990 CAAACATTAATAATA
58 TAAACATTAATAATA
66005 ATTTACAATATATATATACATCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACATT
1 ATTTACAATATATATATACATCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACATT
66070 AATAATA
66 AATAATA
66077 AT
1 AT
66079 AATAATAATT
Statistics
Matches: 106, Mismatches: 30, Indels: 28
0.65 0.18 0.17
Matches are distributed among these distances:
71 1 0.01
72 36 0.34
73 16 0.15
74 15 0.14
75 35 0.33
76 3 0.03
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (72 bp):
ATTTACAATATATATATACATCAATAGAAAATAACTTTAACAATCTTATTATAATTTTAAACATT
AATAATA
Found at i:68495 original size:13 final size:13
Alignment explanation
Indices: 68477--68501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68467 AGATTGCACA
68477 GTATCGATACATT
1 GTATCGATACATT
68490 GTATCGATACAT
1 GTATCGATACAT
68502 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:68620 original size:13 final size:13
Alignment explanation
Indices: 68602--68627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68592 ACACACATTA
68602 TGTATCGATACAT
1 TGTATCGATACAT
68615 TGTATCGATACAT
1 TGTATCGATACAT
68628 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:68643 original size:33 final size:32
Alignment explanation
Indices: 68582--68649 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
68572 CCTTAACTGT
**
68582 TTGTATCGATACACACATTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
68614 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
68647 TTG
1 TTG
68650 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:76535 original size:63 final size:66
Alignment explanation
Indices: 76413--76535 Score: 155
Period size: 63 Copynumber: 1.9 Consensus size: 66
76403 GGCTCGACCA
* * *
76413 ATTTTGAGAATGAGTTTGACTTTGAAAGAAAAGAAAAACTTTGATAGCAATCTTAGGGCTTGATT
1 ATTTTGAAAATGAGTTAGACTTTGAAAGAAAAGAAAAACCTTGATAGCAATCTTAGGGCTTGATT
76478 T
66 T
* * *
76479 ATTTTGAAAATGAGTTAGACTTT-AAA-AACA-TAAAACCTTGAT-GACAATCTTGGGGCT
1 ATTTTGAAAATGAGTTAGACTTTGAAAGAAAAGAAAAACCTTGATAG-CAATCTTAGGGCT
76536 CAACCCATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
62 1 0.02
63 22 0.44
64 3 0.06
65 3 0.06
66 21 0.42
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (66 bp):
ATTTTGAAAATGAGTTAGACTTTGAAAGAAAAGAAAAACCTTGATAGCAATCTTAGGGCTTGATT
T
Found at i:81039 original size:21 final size:20
Alignment explanation
Indices: 80992--81045 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
80982 CATTTTAAGC
80992 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
81012 ATGTATCGATACATTGC-CTT
1 ATGTATCGATACATT-CACTT
81032 ATTGTATCGATACA
1 A-TGTATCGATACA
81046 AATTATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:85614 original size:20 final size:21
Alignment explanation
Indices: 85589--85642 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
85579 GTTTGAGGTA
*
85589 ATGTATCGATACAATTCT-TC
1 ATGTATCGATACAATTCTGCC
*
85609 ATGTATCGATAC-ATTGTGCC
1 ATGTATCGATACAATTCTGCC
85629 ATGTATCGATACAA
1 ATGTATCGATACAA
85643 ATAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 25 0.83
21 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTCTGCC
Found at i:88191 original size:13 final size:13
Alignment explanation
Indices: 88152--88183 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88142 ATAGTAACCC
88152 ATGTATCGATACA
1 ATGTATCGATACA
*
88165 TTGTATCGATACA
1 ATGTATCGATACA
88178 ATGTAT
1 ATGTAT
88184 GAATACAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:90743 original size:33 final size:32
Alignment explanation
Indices: 90687--90753 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
90677 GTTACATGCT
90687 ATGTATCGATACATTTCTTCATGTAACGATACA
1 ATGTATCGATACATTTC-TCATGTAACGATACA
*
90720 ATGTATCGATACATTGTAC-CATGTATCGATACA
1 ATGTATCGATACATT-T-CTCATGTAACGATACA
90753 A
1 A
90754 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
ATGTATCGATACATTTCTCATGTAACGATACA
Found at i:90827 original size:19 final size:20
Alignment explanation
Indices: 90803--90855 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
90793 ACAATTTGGC
*
90803 CATGTATCGATACAATG-AA
1 CATGTATCGATACAAAGCAA
*
90822 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAAAGCAA
90842 CATGTATCGATACA
1 CATGTATCGATACA
90856 TCTAGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAA
Found at i:91398 original size:17 final size:17
Alignment explanation
Indices: 91376--91424 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
91366 GTTTTAGTTT
*
91376 TTCTCCCCTTAAAAATA
1 TTCTCCCCTTAAAAAGA
*
91393 TTCTCCCCCTT-AAACGA
1 TTCT-CCCCTTAAAAAGA
*
91410 TTCTCCTCTTAAAAA
1 TTCTCCCCTTAAAAA
91425 AAAATTCTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.35
Consensus pattern (17 bp):
TTCTCCCCTTAAAAAGA
Found at i:92584 original size:13 final size:13
Alignment explanation
Indices: 92566--92594 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
92556 AAATAGTACC
92566 CAATGTATCGATA
1 CAATGTATCGATA
92579 CAATGTATCGATA
1 CAATGTATCGATA
92592 CAA
1 CAA
92595 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:98798 original size:20 final size:20
Alignment explanation
Indices: 98773--98825 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
98763 GTTACATGCT
98773 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
98793 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
98813 ATGTATCGATACA
1 ATGTATCGATACA
98826 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:98900 original size:19 final size:19
Alignment explanation
Indices: 98855--98911 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
98845 CTGCCAGTTT
**
98855 CATGTATCGATACAATTTGGC
1 CATGTATCGATACAA--TGAA
98876 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
98895 CATGTATCGATACAATG
1 CATGTATCGATACAATG
98912 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:98914 original size:13 final size:13
Alignment explanation
Indices: 98896--98922 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98886 TACAATGAAC
98896 ATGTATCGATACA
1 ATGTATCGATACA
98909 ATGTATCGATACA
1 ATGTATCGATACA
98922 A
1 A
98923 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:98937 original size:33 final size:32
Alignment explanation
Indices: 98877--98941 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
98867 CAATTTGGCC
*
98877 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
98909 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
98942 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:103368 original size:28 final size:28
Alignment explanation
Indices: 103328--103411 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 28
103318 ATGTATCGAT
*
103328 ACAT-TTGCTCATGTATCGATACAATGA
1 ACATGTTGTTCATGTATCGATACAATGA
*
103355 ACATGTTGTTCATGTATCAATACAATGA
1 ACATGTTGTTCATGTATCGATACAATGA
*
103383 ACATGTATCGATACATTGTATCGATACAA
1 ACATGT-T-G-TTCA-TGTATCGATACAA
103412 AGCATAATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.08
28 27 0.56
29 1 0.02
30 1 0.02
31 3 0.06
32 12 0.25
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (28 bp):
ACATGTTGTTCATGTATCGATACAATGA
Found at i:103404 original size:13 final size:13
Alignment explanation
Indices: 103386--103410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103376 ACAATGAACA
103386 TGTATCGATACAT
1 TGTATCGATACAT
103399 TGTATCGATACA
1 TGTATCGATACA
103411 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.