Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006052.1 Hibiscus syriacus cultivar Beakdansim tig00014315_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: 148200
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Found at i:7756 original size:91 final size:90
Alignment explanation
Indices: 7581--7761 Score: 213
Period size: 91 Copynumber: 2.0 Consensus size: 90
7571 CCTAGAATAC
* *
7581 CCATGTGCCTTGCATATGACCAGCCCCCTTGTGCCCTGCATGTGGATCATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCCTGCATATGGATCATTTAGGCGCCAAGATG
* *
7646 AAGAGTTCTCTCCGTATTCGGCCAAG
66 AAGAGATCTATCCG-ATTCGGCCAAG
** * * * * *
7672 CCATGTGTTTTGCATGTGATCAGCCCTCATGTGCCTTGCATATGGTTCATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCCTGCATATGGATCATTTAGGCGCCAAGATG
7737 AATG-GCCATCTATCC-ATTCGGCCAA
66 AA-GAG--ATCTATCCGATTCGGCCAA
7762 TCACCATTAC
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
91 69 0.91
92 1 0.01
93 6 0.08
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (90 bp):
CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCCTGCATATGGATCATTTAGGCGCCAAGATG
AAGAGATCTATCCGATTCGGCCAAG
Found at i:11459 original size:13 final size:12
Alignment explanation
Indices: 11440--11504 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
11430 ATATAGGCGT
11440 GATATGGTGATG
1 GATATGGTGATG
11452 GAATATGGTGAT-
1 G-ATATGGTGATG
*
11464 GATATAGGCG-T-
1 GATAT-GGTGATG
11475 GATAATGGTGATG
1 GAT-ATGGTGATG
11488 GACTATGGTGAT-
1 GA-TATGGTGATG
11500 GATAT
1 GATAT
11505 AGGCGTGATG
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
11 14 0.31
12 10 0.22
13 20 0.44
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:11495 original size:36 final size:35
Alignment explanation
Indices: 11422--11513 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 35
11412 ATTTATAAGT
*
11422 TGGTGATAATATAGGCGTGATATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATATGGTGATGGAATA
*
11457 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGAT-ATGGTGATGGAATA
11493 TGGTGATGATATAGGCGTGAT
1 TGGTGATGATATAGGCGTGAT
11514 GGTTAGAAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
35 20 0.37
36 34 0.63
ACGTcount: A:0.28, C:0.04, G:0.36, T:0.32
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATATGGTGATGGAATA
Found at i:14772 original size:17 final size:17
Alignment explanation
Indices: 14750--14806 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
14740 AATTGGAGTG
14750 CAAAAAGAAAGAAAAGA
1 CAAAAAGAAAGAAAAGA
14767 CAAAAAGAAA-AAAA-A
1 CAAAAAGAAAGAAAAGA
*
14782 TCAGAATAG-AAGAAAAGA
1 -CA-AAAAGAAAGAAAAGA
*
14800 AAAAAAG
1 CAAAAAG
14807 TAGAATTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.03
16 12 0.36
17 19 0.58
18 1 0.03
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.04
Consensus pattern (17 bp):
CAAAAAGAAAGAAAAGA
Found at i:19131 original size:26 final size:24
Alignment explanation
Indices: 19102--19149 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
19092 GCAAAAAGAA
19102 AGAAAAGACAAAAAAGGAAAAAAATC
1 AGAAAAGA-AAAAAA-GAAAAAAATC
* *
19128 AGAATAGAAGAAAAGAAAAAAA
1 AGAAAAGAAAAAAAGAAAAAAA
19150 GAAGAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 5 0.25
26 7 0.35
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (24 bp):
AGAAAAGAAAAAAAGAAAAAAATC
Found at i:28325 original size:11 final size:11
Alignment explanation
Indices: 28309--28355 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
28299 AAATTTTGGC
*
28309 TTTTTTGGCTT
1 TTTTTTGCCTT
**
28320 TTTTTTGTTTT
1 TTTTTTGCCTT
28331 TTTTTTGCCTT
1 TTTTTTGCCTT
28342 TTTTTTGCCTT
1 TTTTTTGCCTT
28353 TTT
1 TTT
28356 GAAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (11 bp):
TTTTTTGCCTT
Found at i:29996 original size:8 final size:8
Alignment explanation
Indices: 29985--30037 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
29975 TTTTGAAATC
29985 TTTTTCTTT
1 TTTTTC-TT
29994 TTTTTCTT
1 TTTTTCTT
*
30002 TTCTTCTT
1 TTTTTCTT
*
30010 TTCTTCTT
1 TTTTTCTT
*
30018 TTTGTCTT
1 TTTTTCTT
30026 TTCTTTCTT
1 TT-TTTCTT
30035 TTT
1 TTT
30038 GCACTCTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
8 26 0.67
9 13 0.33
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:30038 original size:17 final size:16
Alignment explanation
Indices: 29985--30037 Score: 72
Period size: 16 Copynumber: 3.2 Consensus size: 16
29975 TTTTGAAATC
*
29985 TTTTTCTTTTTTTTCT
1 TTTTTCTTTTCTTTCT
30001 TTTCTTCTTTTC-TTCT
1 TTT-TTCTTTTCTTTCT
30017 TTTTGTCTTTTCTTTCT
1 TTTT-TCTTTTCTTTCT
30034 TTTT
1 TTTT
30038 GCACTCTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 1 0.03
16 17 0.52
17 15 0.45
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTCTTTCT
Found at i:35347 original size:19 final size:21
Alignment explanation
Indices: 35304--35355 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
35294 GAAACCCCTT
35304 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
35325 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
35344 TGAAGATACATG
1 TGAAAATACATG
35356 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:44442 original size:19 final size:21
Alignment explanation
Indices: 44399--44450 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
44389 GAAACCCCTT
44399 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
44420 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
44439 TGAAGATACATG
1 TGAAAATACATG
44451 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:45531 original size:24 final size:24
Alignment explanation
Indices: 45481--45530 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
45471 AACACAACTC
* *
45481 TTGGCACTTCAAATGACGTTTCTT
1 TTGGAACTTCAAATGACGTATCTT
*
45505 TTGGAACTTCAAATGGCGTCATCTT
1 TTGGAACTTCAAATGACGT-ATCTT
45530 T
1 T
45531 GAAACATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (24 bp):
TTGGAACTTCAAATGACGTATCTT
Found at i:46871 original size:8 final size:8
Alignment explanation
Indices: 46858--46882 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46848 ACTTTTTCTT
46858 TTCTTTTC
1 TTCTTTTC
46866 TTCTTTTC
1 TTCTTTTC
46874 TTCTTTTC
1 TTCTTTTC
46882 T
1 T
46883 GATTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCTTTTC
Found at i:47240 original size:27 final size:23
Alignment explanation
Indices: 47179--47239 Score: 113
Period size: 23 Copynumber: 2.6 Consensus size: 23
47169 TAATATAAGT
47179 AATGAAAATAAATAATAAGAATGA
1 AATG-AAATAAATAATAAGAATGA
47203 AATGAAATAAATAATAAGAATGA
1 AATGAAATAAATAATAAGAATGA
47226 AATGAAATAAATAA
1 AATGAAATAAATAA
47240 AGGATAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 33 0.89
24 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.21
Consensus pattern (23 bp):
AATGAAATAAATAATAAGAATGA
Found at i:47690 original size:19 final size:21
Alignment explanation
Indices: 47647--47698 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
47637 GAAACCCCTT
47647 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
47668 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
47687 TGAAGATACATG
1 TGAAAATACATG
47699 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:49333 original size:21 final size:20
Alignment explanation
Indices: 49307--49358 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
49297 AATTCTATTC
*
49307 CTTTTCTTTTCTTATTTTCTT
1 CTTTTCTTTTCTT-TTGTCTT
*
49328 CTTTTCTTTCCTTTTGTCTT
1 CTTTTCTTTTCTTTTGTCTT
*
49348 TTCTTTCTTTT
1 CT-TTTCTTTT
49359 TGTACTCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (20 bp):
CTTTTCTTTTCTTTTGTCTT
Found at i:49353 original size:17 final size:17
Alignment explanation
Indices: 49327--49361 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
49317 CTTATTTTCT
49327 TCTTTTCTTTCCTTTTG
1 TCTTTTCTTTCCTTTTG
*
49344 TCTTTTCTTTCTTTTTG
1 TCTTTTCTTTCCTTTTG
49361 T
1 T
49362 ACTCTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (17 bp):
TCTTTTCTTTCCTTTTG
Found at i:51999 original size:14 final size:15
Alignment explanation
Indices: 51980--52013 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
51970 CAAAAGCAAC
*
51980 AAAAAAGAAAGAAGAA
1 AAAAAAGAGA-AAGAA
51996 AAAAAAGAGAAAGAA
1 AAAAAAGAGAAAGAA
52011 AAA
1 AAA
52014 GACTCCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAGAGAAAGAA
Found at i:52049 original size:5 final size:5
Alignment explanation
Indices: 52039--52081 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
52029 TTTAGAGTGC
*
52039 AAAAG AAAAG AAAA- AGAAG AAAACG AAAAG AAAACG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAA-G AAAAG AA
52082 GCAATTTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.09
5 20 0.61
6 10 0.30
ACGTcount: A:0.77, C:0.05, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:52055 original size:11 final size:11
Alignment explanation
Indices: 52039--52081 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
52029 TTTAGAGTGC
52039 AAAAGAAAAGA
1 AAAAGAAAAGA
52050 AAAAG--AAGA
1 AAAAGAAAAGA
*
52059 AAACGAAAAGA
1 AAAAGAAAAGA
*
52070 AAACGAAAAGA
1 AAAAGAAAAGA
52081 A
1 A
52082 GCAATTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 8 0.28
11 21 0.72
ACGTcount: A:0.77, C:0.05, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:57647 original size:22 final size:21
Alignment explanation
Indices: 57621--57661 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
57611 GGCTGCGGAA
*
57621 TTGATAGTCTTGATGGATGATG
1 TTGATAGTATTGAT-GATGATG
*
57643 TTGATGGTATTGATGATGA
1 TTGATAGTATTGATGATGA
57662 AATGGAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.24, C:0.02, G:0.32, T:0.41
Consensus pattern (21 bp):
TTGATAGTATTGATGATGATG
Found at i:63173 original size:14 final size:14
Alignment explanation
Indices: 63154--63196 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
63144 ATAAGATACT
* *
63154 ATCTATTCATCATC
1 ATCTATCCATCACC
63168 ATCTATCCATCACC
1 ATCTATCCATCACC
*
63182 ATC-CTCCATCACC
1 ATCTATCCATCACC
63195 AT
1 AT
63197 TCACGCCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.33
Consensus pattern (14 bp):
ATCTATCCATCACC
Found at i:63632 original size:6 final size:6
Alignment explanation
Indices: 63591--63634 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
63581 AAAAGTAACA
*
63591 AAAAGAG AAAAAG AAAGAAG AAAAAC AAAAAG -AAAAG AAAAAG A
1 AAAA-AG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG A
63635 CTCCTACATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 5 0.15
6 18 0.55
7 10 0.30
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:64436 original size:19 final size:20
Alignment explanation
Indices: 64395--64445 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
64385 GAAACCCCTT
*
64395 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
64415 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
64434 TGAAGATACATG
1 TGAAAATACATG
64446 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:65746 original size:16 final size:16
Alignment explanation
Indices: 65712--65760 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
65702 GTAAGTTATC
* * *
65712 TTCACTTTCTTACTAT
1 TTCATTTTCTTATTCT
65728 TTCATTTTCTTATTCT
1 TTCATTTTCTTATTCT
65744 TTCATCTATTCTTATTC
1 TTCAT-T-TTCTTATTC
65761 CATTACCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCATTTTCTTATTCT
Found at i:66987 original size:33 final size:33
Alignment explanation
Indices: 66945--67013 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
66935 GTTGATGAAT
*
66945 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
66978 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
67011 GAA
1 GAA
67014 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:67054 original size:36 final size:36
Alignment explanation
Indices: 66984--67096 Score: 165
Period size: 36 Copynumber: 3.2 Consensus size: 36
66974 AATGGAAGGA
* *
66984 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
67019 TGATGATATAGGCGTGATAATAGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
67055 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
67091 TGATGA
1 TGATGA
67097 AAATAGTATC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 16 0.23
36 54 0.77
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:70947 original size:33 final size:33
Alignment explanation
Indices: 70905--70973 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
70895 GTTGATGAAT
*
70905 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
70938 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
70971 GAA
1 GAA
70974 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:70978 original size:13 final size:12
Alignment explanation
Indices: 70959--71055 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
70949 TTATTGGCGT
70959 GATATGGTGATG
1 GATATGGTGATG
70971 GAATATGGTGAT-
1 G-ATATGGTGATG
*
70983 GATATAGGCG-T-
1 GATAT-GGTGATG
70994 GATAATGGTGATG
1 GAT-ATGGTGATG
71007 GACTATGGTGAT-
1 GA-TATGGTGATG
*
71019 GATATAGGCG-T-
1 GATAT-GGTGATG
*
71030 GATAATGGAGATG
1 GAT-ATGGTGATG
71043 GATTATGGTGATG
1 GA-TATGGTGATG
71056 AAAATAGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
11 21 0.30
12 16 0.23
13 30 0.43
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:71014 original size:36 final size:36
Alignment explanation
Indices: 70944--71056 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
70934 AATGGAAGGA
* *
70944 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
70979 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
71015 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
71051 TGATGA
1 TGATGA
71057 AAATAGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 16 0.22
36 56 0.78
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:75908 original size:10 final size:9
Alignment explanation
Indices: 75887--75926 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
75877 TCCAGCAGTC
75887 GAAAAG-AA
1 GAAAAGAAA
75895 GAAAAGCAAA
1 GAAAAG-AAA
75905 GAAAAGAAAA
1 GAAAAG-AAA
75915 GAAAAGAAA
1 GAAAAGAAA
75924 GAA
1 GAA
75927 GTTGAAGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 6 0.21
9 6 0.21
10 17 0.59
ACGTcount: A:0.75, C:0.03, G:0.23, T:0.00
Consensus pattern (9 bp):
GAAAAGAAA
Found at i:75910 original size:5 final size:5
Alignment explanation
Indices: 75893--75923 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
75883 AGTCGAAAAG
*
75893 AAGAA AAGCA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA A
75924 GAAGTTGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:78957 original size:14 final size:15
Alignment explanation
Indices: 78926--78967 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
78916 TTTGGAGTGC
78926 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
78941 AAAAG-AAGAATA-A
1 AAAAGAAAGAAAAGA
78954 AAAAGCAAAGAAAA
1 AAAAG-AAAGAAAA
78968 AGTGAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.26
14 6 0.26
15 11 0.48
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:85306 original size:11 final size:12
Alignment explanation
Indices: 85285--85333 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
85275 TTGAGAATTT
85285 GGTGATGATATA
1 GGTGATGATATA
85297 GGTG-TGATAT-
1 GGTGATGATATA
*
85307 GATGATGGACTAT-
1 GGTGAT-GA-TATA
85320 GGTGATGATATA
1 GGTGATGATATA
85332 GG
1 GG
85334 CGTGATAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 3 0.10
11 10 0.32
12 10 0.32
13 8 0.26
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.33
Consensus pattern (12 bp):
GGTGATGATATA
Found at i:85330 original size:35 final size:37
Alignment explanation
Indices: 85284--85363 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
85274 TTTGAGAATT
* *
85284 TGGTGATGATATAGGTGTGAT-AT-GATGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
85319 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
85356 TGGGGATG
1 TGGTGATG
85364 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 20 0.51
36 2 0.05
37 17 0.44
ACGTcount: A:0.29, C:0.03, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:86946 original size:33 final size:33
Alignment explanation
Indices: 86882--86982 Score: 82
Period size: 33 Copynumber: 3.0 Consensus size: 33
86872 CTTGTTGATG
* * *
86882 AATG-AAGGATGAT-TTAATGGTGATGAAATGGT
1 AATGAAAGGATGATGTTATTGGCG-TGATATGGT
86914 AATGAAAGGATGATGTTATTGGCGTGATATGGT
1 AATGAAAGGATGATGTTATTGGCGTGATATGGT
* * *
86947 GATGGAATATGG-TGATGATATAGGCGTGATAATGGT
1 AAT-GAA-A-GGATGATGTTATTGGCGTGAT-ATGGT
86983 GATGGACAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
32 4 0.07
33 19 0.33
34 10 0.18
35 17 0.30
36 7 0.12
ACGTcount: A:0.33, C:0.02, G:0.34, T:0.32
Consensus pattern (33 bp):
AATGAAAGGATGATGTTATTGGCGTGATATGGT
Found at i:90842 original size:33 final size:33
Alignment explanation
Indices: 90800--90868 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
90790 GTTGATGAAT
*
90800 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
90833 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
90866 GAA
1 GAA
90869 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:94749 original size:33 final size:33
Alignment explanation
Indices: 94707--94775 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
94697 GTTGATGAAT
*
94707 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
94740 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
94773 GAA
1 GAA
94776 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:97010 original size:13 final size:11
Alignment explanation
Indices: 96969--97053 Score: 75
Period size: 11 Copynumber: 7.2 Consensus size: 11
96959 ACAATCTGTC
96969 CATCACCATTAT
1 CATCACCA-TAT
96981 CA-CACCTATAT
1 CATCACC-ATAT
96992 CATCACCATAGT
1 CATCACCATA-T
97004 CCATCACCATTAT
1 -CATCACCA-TAT
*
97017 CA-CGCCTATAT
1 CATCACC-ATAT
97028 CATCACCATATT
1 CATCACCATA-T
97040 CCATCACCATAT
1 -CATCACCATAT
97052 CA
1 CA
97054 CGCCCATATT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 25 0.40
12 16 0.26
13 19 0.31
14 2 0.03
ACGTcount: A:0.33, C:0.36, G:0.02, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:97013 original size:36 final size:36
Alignment explanation
Indices: 96966--97070 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
96956 GATACAATCT
*
96966 GTCCATCACCATTATCACACCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
97002 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
97038 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
97071 ACTTATAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 20 0.31
36 45 0.69
ACGTcount: A:0.31, C:0.37, G:0.04, T:0.28
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:97477 original size:21 final size:18
Alignment explanation
Indices: 97452--97494 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
97442 GTGTTACAAC
*
97452 AAAAAGCAACAAGAAAGAAG
1 AAAAAACAA-AAGAAA-AAG
*
97472 AAAAAACAAAAGGAAAAG
1 AAAAAACAAAAGAAAAAG
97490 AAAAA
1 AAAAA
97495 GACTCCTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 8 0.38
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAGAAAAAG
Found at i:100000 original size:33 final size:33
Alignment explanation
Indices: 99921--100024 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
99911 ATACAATCTG
* *
99921 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
99957 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
99990 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
100023 TC
1 TC
100025 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:104485 original size:33 final size:33
Alignment explanation
Indices: 104406--104509 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
104396 ATACAATCTG
* *
104406 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
104442 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
104475 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
104508 TC
1 TC
104510 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:107374 original size:13 final size:11
Alignment explanation
Indices: 107352--107417 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 11
107342 TATCACGCCT
107352 ATATCATCACC
1 ATATCATCACC
107363 ATAGTCCATCACC
1 ATA-T-CATCACC
*
107376 ATTATCA-CGCC
1 A-TATCATCACC
107387 TATATCATCACC
1 -ATATCATCACC
107399 ATATTCCATCACC
1 ATA-T-CATCACC
107412 ATATCA
1 ATATCA
107418 CGCCCATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
11 16 0.35
12 9 0.20
13 19 0.41
14 2 0.04
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.29
Consensus pattern (11 bp):
ATATCATCACC
Found at i:107380 original size:36 final size:36
Alignment explanation
Indices: 107330--107434 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
107320 GATACAATCT
*
107330 GTCCATCACTATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
107366 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
107402 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
107435 ACTTATAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 20 0.31
36 45 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:111255 original size:11 final size:12
Alignment explanation
Indices: 111234--111282 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
111224 TTAAGAATTT
111234 GGTGATGATATA
1 GGTGATGATATA
111246 GGTG-TGATAT-
1 GGTGATGATATA
*
111256 GATGATGGACTAT-
1 GGTGAT-GA-TATA
111269 GGTGATGATATA
1 GGTGATGATATA
111281 GG
1 GG
111283 CGTGATAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 3 0.10
11 10 0.32
12 10 0.32
13 8 0.26
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.33
Consensus pattern (12 bp):
GGTGATGATATA
Found at i:111279 original size:35 final size:37
Alignment explanation
Indices: 111233--111312 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
111223 TTTAAGAATT
* *
111233 TGGTGATGATATAGGTGTGAT-AT-GATGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
111268 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
111305 TGGGGATG
1 TGGTGATG
111313 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 20 0.51
36 2 0.05
37 17 0.44
ACGTcount: A:0.29, C:0.03, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:114049 original size:15 final size:15
Alignment explanation
Indices: 114038--114066 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114028 ACACAAAAAG
114038 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
114053 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
114067 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:119488 original size:36 final size:36
Alignment explanation
Indices: 119441--119545 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
119431 GATACAATCT
*
119441 GTCCATCACCATTTTCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
119477 GTCCATCACCATTATCACACCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
119513 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
119546 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 20 0.31
36 44 0.69
ACGTcount: A:0.30, C:0.36, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:119503 original size:11 final size:11
Alignment explanation
Indices: 119463--119528 Score: 71
Period size: 13 Copynumber: 5.5 Consensus size: 11
119453 TTTCACGCCT
119463 ATATCATCACC
1 ATATCATCACC
119474 ATAGTCCATCACC
1 ATA-T-CATCACC
119487 ATTATCA-CACC
1 A-TATCATCACC
119498 TATATCATCACC
1 -ATATCATCACC
119510 ATATTCCATCACC
1 ATA-T-CATCACC
119523 ATATCA
1 ATATCA
119529 CGCCTATATT
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
11 17 0.35
12 10 0.21
13 19 0.40
14 2 0.04
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (11 bp):
ATATCATCACC
Found at i:123681 original size:35 final size:36
Alignment explanation
Indices: 123601--123683 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 36
123591 AGATACTATC
* * *
123601 TATTCATCACCACCTTCCATCACCATTTTCACTCCTA
1 TATT-ATCACCACATTCCATCACCATTATCACGCCTA
** * *
123638 TAACATCACCATATTCCATTACCA-TATCACGCCTA
1 TATTATCACCACATTCCATCACCATTATCACGCCTA
123673 TATTATCACCA
1 TATTATCACCA
123684 ACTTATAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
35 18 0.49
36 17 0.46
37 2 0.05
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.33
Consensus pattern (36 bp):
TATTATCACCACATTCCATCACCATTATCACGCCTA
Found at i:136146 original size:36 final size:36
Alignment explanation
Indices: 136087--136199 Score: 156
Period size: 36 Copynumber: 3.2 Consensus size: 36
136077 AATGGTAAGA
* *
136087 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* * *
136122 TGATTATATAGGTGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
136158 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
136194 TGATGA
1 TGATGA
136200 AAATAGTATC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 14 0.21
36 54 0.79
ACGTcount: A:0.27, C:0.03, G:0.35, T:0.35
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:136198 original size:13 final size:12
Alignment explanation
Indices: 136104--136199 Score: 56
Period size: 13 Copynumber: 7.9 Consensus size: 12
136094 ATTGGCGTGA
*
136104 TATGGTGATGGAA
1 TATGGTGAT-GAT
*
136117 TATGGTGATTA-
1 TATGGTGATGAT
136128 TATAGGTG-TGAT
1 TAT-GGTGATGAT
* *
136140 AATGGTGATGGAC
1 TATGGTGAT-GAT
136153 TATGGTGATGA-
1 TATGGTGATGAT
*
136164 TATAGGCG-TGAT
1 TAT-GGTGATGAT
* *
136176 AATGGAGATGGAT
1 TATGGTGAT-GAT
136189 TATGGTGATGA
1 TATGGTGATGA
136200 AAATAGTATC
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
11 18 0.28
12 18 0.28
13 29 0.45
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.33
Consensus pattern (12 bp):
TATGGTGATGAT
Found at i:140072 original size:33 final size:33
Alignment explanation
Indices: 140013--140077 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
140003 TGATGAATGA
*
140013 AGGATGATTTAATGGTGATGAAATGGTAATGGT
1 AGGATGATTTAATGGCGATGAAATGGTAATGGT
* * *
140046 AGGATGATGTTATTGGCG-TGATATGGTGATGG
1 AGGATGAT-TTAATGGCGATGAAATGGTAATGG
140078 AATATGGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.28, C:0.02, G:0.37, T:0.34
Consensus pattern (33 bp):
AGGATGATTTAATGGCGATGAAATGGTAATGGT
Found at i:140109 original size:36 final size:36
Alignment explanation
Indices: 140050--140162 Score: 156
Period size: 36 Copynumber: 3.2 Consensus size: 36
140040 AATGGTAGGA
* *
140050 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* * *
140085 TGATTATATAGGTGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
140121 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
140157 TGATGA
1 TGATGA
140163 AAATAGTATC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 14 0.21
36 54 0.79
ACGTcount: A:0.27, C:0.03, G:0.35, T:0.35
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:140161 original size:13 final size:12
Alignment explanation
Indices: 140067--140162 Score: 56
Period size: 13 Copynumber: 7.9 Consensus size: 12
140057 ATTGGCGTGA
*
140067 TATGGTGATGGAA
1 TATGGTGAT-GAT
*
140080 TATGGTGATTA-
1 TATGGTGATGAT
140091 TATAGGTG-TGAT
1 TAT-GGTGATGAT
* *
140103 AATGGTGATGGAC
1 TATGGTGAT-GAT
140116 TATGGTGATGA-
1 TATGGTGATGAT
*
140127 TATAGGCG-TGAT
1 TAT-GGTGATGAT
* *
140139 AATGGAGATGGAT
1 TATGGTGAT-GAT
140152 TATGGTGATGA
1 TATGGTGATGA
140163 AAATAGTATC
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
11 18 0.28
12 18 0.28
13 29 0.45
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.33
Consensus pattern (12 bp):
TATGGTGATGAT
Found at i:143512 original size:74 final size:74
Alignment explanation
Indices: 143429--143663 Score: 227
Period size: 74 Copynumber: 3.2 Consensus size: 74
143419 TAACATGTGC
143429 ATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGATATTCATGCATATAATCTATAGTTGT
1 ATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGATATTCATGCATATAATCTATAGTTGT
143494 AATAATAAT
66 AATAATAAT
* * * ** *
143503 ATTCATTCATTA--TCGTAT-G-ATGCATGAGTT-ATT-AT-TAT-AACCTATAGTTATGCT-TG
1 ATTCATTCATTATGTCCTATGGTTTGCATCA-TTGATTGATAT-TCATGC-ATA-TAAT-CTAT-
* * * * *
143559 AATTATCATAACATGT
60 AGTTGTAATAATA-AT
143575 GCATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGATATTCATGCATATAATCTATAGTT
1 --ATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGATATTCATGCATATAATCTATAGTT
143640 GTAATAATAAT
64 GTAATAATAAT
143651 ATTCATTCATTAT
1 ATTCATTCATTAT
143664 CGTATGATGC
Statistics
Matches: 121, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
68 3 0.02
69 6 0.05
70 13 0.11
71 14 0.12
72 6 0.05
74 37 0.31
76 6 0.05
77 14 0.12
78 13 0.11
79 6 0.05
80 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (74 bp):
ATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGATATTCATGCATATAATCTATAGTTGT
AATAATAAT
Found at i:143671 original size:148 final size:148
Alignment explanation
Indices: 143403--143699 Score: 594
Period size: 148 Copynumber: 2.0 Consensus size: 148
143393 CATATTAGAC
143403 TATGCTTGAATTATCATAACATGTGCATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGA
1 TATGCTTGAATTATCATAACATGTGCATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGA
143468 TATTCATGCATATAATCTATAGTTGTAATAATAATATTCATTCATTATCGTATGATGCATGAGTT
66 TATTCATGCATATAATCTATAGTTGTAATAATAATATTCATTCATTATCGTATGATGCATGAGTT
143533 ATTATTATAACCTATAGT
131 ATTATTATAACCTATAGT
143551 TATGCTTGAATTATCATAACATGTGCATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGA
1 TATGCTTGAATTATCATAACATGTGCATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGA
143616 TATTCATGCATATAATCTATAGTTGTAATAATAATATTCATTCATTATCGTATGATGCATGAGTT
66 TATTCATGCATATAATCTATAGTTGTAATAATAATATTCATTCATTATCGTATGATGCATGAGTT
143681 ATTATTATAACCTATAGT
131 ATTATTATAACCTATAGT
143699 T
1 T
143700 CACATCTTTA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (148 bp):
TATGCTTGAATTATCATAACATGTGCATTCATTCATTATGTCCTATGGTTTGCATCATTGATTGA
TATTCATGCATATAATCTATAGTTGTAATAATAATATTCATTCATTATCGTATGATGCATGAGTT
ATTATTATAACCTATAGT
Found at i:145009 original size:33 final size:33
Alignment explanation
Indices: 144930--145038 Score: 96
Period size: 33 Copynumber: 3.2 Consensus size: 33
144920 ATACAATCTG
* *
144930 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
144966 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
144999 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
*
145032 TCAATCA
1 TCCATCA
145039 TCAACAAGGC
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
33 27 0.43
34 7 0.11
35 17 0.27
36 12 0.19
ACGTcount: A:0.32, C:0.36, G:0.02, T:0.30
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Done.