Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001787.1 Hibiscus syriacus cultivar Beakdansim tig00003606_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: 145145
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9167 original size:21 final size:21
Alignment explanation
Indices: 9141--9204 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
9131 TTTTTGTGCA
*
9141 GAGGGAATCGATCCCCCCCAT
1 GAGGGAACCGATCCCCCCCAT
* **
9162 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCAT
*
9183 GAAGAGGAACCGATTCCCCCCA
1 G-AG-GGAACCGATCCCCCCCA
9205 CAGGGGAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.51
22 2 0.06
23 15 0.43
ACGTcount: A:0.25, C:0.36, G:0.23, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCAT
Found at i:11470 original size:12 final size:12
Alignment explanation
Indices: 11453--11478 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11443 AAAGGGGGAG
11453 AAGTGTGTTTTA
1 AAGTGTGTTTTA
11465 AAGTGTGTTTTA
1 AAGTGTGTTTTA
11477 AA
1 AA
11479 ATGATAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (12 bp):
AAGTGTGTTTTA
Found at i:13145 original size:2 final size:2
Alignment explanation
Indices: 13125--13170 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
13115 TATTATTACC
* *
13125 AT AT CT AT AT AT GT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13166 AT AT A
1 AT AT A
13171 AAGATATCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22616 original size:20 final size:19
Alignment explanation
Indices: 22570--22624 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
22560 TGAAAATGAT
22570 TTTC-TTTTGAAAGAAAAAA
1 TTTCATTTTGAAA-AAAAAA
22589 TTGT-ATTTTGAAAAACAAAA
1 TT-TCATTTTGAAAAA-AAAA
22609 TTTCATTTTTGAAAAA
1 TTTCA-TTTTGAAAAA
22625 TGATTTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.16
20 16 0.52
21 10 0.32
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.40
Consensus pattern (19 bp):
TTTCATTTTGAAAAAAAAA
Found at i:24008 original size:20 final size:18
Alignment explanation
Indices: 23943--24009 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 18
23933 AGTTTATCAA
*
23943 AAAGTTTCGATACTTT-T
1 AAAGTTTCGAAACTTTCT
*
23960 CAAGAGTTTCGAAACTATCT
1 -AA-AGTTTCGAAACTTTCT
23980 AAAGTGTTTCGAAACTTTCCCT
1 AAA--GTTTCGAAACTTT--CT
24002 AAAGTTTC
1 AAAGTTTC
24010 AATACTTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
18 3 0.08
19 14 0.35
20 18 0.45
22 5 0.12
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (18 bp):
AAAGTTTCGAAACTTTCT
Found at i:28863 original size:19 final size:20
Alignment explanation
Indices: 28839--28884 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
28829 AGAAAATGGC
28839 TCAATTTC-ACACTCCAACA
1 TCAATTTCAACACTCCAACA
*
28858 TCAATTTCAACACTCTAACA
1 TCAATTTCAACACTCCAACA
*
28878 TTAATTT
1 TCAATTT
28885 ACAGTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (20 bp):
TCAATTTCAACACTCCAACA
Found at i:30834 original size:21 final size:21
Alignment explanation
Indices: 30799--30857 Score: 100
Period size: 21 Copynumber: 2.7 Consensus size: 21
30789 GAGTTTTGAG
30799 ACCATATAGATATAGTGTCACTA
1 ACCATAT--ATATAGTGTCACTA
30822 ACCATATATATAGTGTCACTA
1 ACCATATATATAGTGTCACTA
30843 ACCATATATATAGTG
1 ACCATATATATAGTG
30858 GTGTTGTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 29 0.81
23 7 0.19
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (21 bp):
ACCATATATATAGTGTCACTA
Found at i:33427 original size:35 final size:34
Alignment explanation
Indices: 33378--33463 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 34
33368 TATACTCTAA
* **
33378 GTGTCTTTGGTATACACTCTAGTGTTTTGCACAAT
1 GTGTCTTTGCTATACACTCTAGTG-CATGCACAAT
*
33413 GTGTCTTTGCTATACACTCTAGTGCATGCACTAT
1 GTGTCTTTGCTATACACTCTAGTGCATGCACAAT
* *
33447 GGGTCTTTTCTATACAC
1 GTGTCTTTGCTATACAC
33464 ACTAATGCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
34 22 0.49
35 23 0.51
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.41
Consensus pattern (34 bp):
GTGTCTTTGCTATACACTCTAGTGCATGCACAAT
Found at i:33453 original size:34 final size:35
Alignment explanation
Indices: 33380--33463 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 35
33370 TACTCTAAGT
* ** *
33380 GTCTTTGGTATACACTCTAGTGTTTTGCACAATGT
1 GTCTTTGCTATACACTCTAGTGTCATGCACAATGG
*
33415 GTCTTTGCTATACACTCTAGTG-CATGCACTATGG
1 GTCTTTGCTATACACTCTAGTGTCATGCACAATGG
*
33449 GTCTTTTCTATACAC
1 GTCTTTGCTATACAC
33464 ACTAATGCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 22 0.51
35 21 0.49
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (35 bp):
GTCTTTGCTATACACTCTAGTGTCATGCACAATGG
Found at i:34918 original size:19 final size:20
Alignment explanation
Indices: 34894--34939 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
34884 CAAAATGGCC
*
34894 CAATTTC-ACACTCTAACAT
1 CAATTTCAACACCCTAACAT
34913 CAATTTCAACACCCTAACAT
1 CAATTTCAACACCCTAACAT
*
34933 TAATTTC
1 CAATTTC
34940 TAGAATAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (20 bp):
CAATTTCAACACCCTAACAT
Found at i:36078 original size:12 final size:12
Alignment explanation
Indices: 36061--36118 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
36051 TAATATATAG
36061 TTTTGAAAACAT
1 TTTTGAAAACAT
36073 TTTTGAAAACAT
1 TTTTGAAAACAT
* * * *
36085 ATAT-AATATATAG
1 TTTTGAA-A-ACAT
36098 TTTTGAAAACAT
1 TTTTGAAAACAT
36110 TTTTGAAAA
1 TTTTGAAAA
36119 TGTATATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
11 2 0.06
12 26 0.74
13 5 0.14
14 2 0.06
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:36097 original size:37 final size:37
Alignment explanation
Indices: 35987--36271 Score: 355
Period size: 37 Copynumber: 7.7 Consensus size: 37
35977 TATAATGATC
* * *
35987 TTGAAAACATTTTTTGAAAATATACAAAATATATATAGTT
1 TTGAAAACA-TTTTTGAAAACATA-TATA-ATATATAGTT
* * *
36027 TTGAAAACATTTTT-TAAGCGTATATAATATATAGTT
1 TTGAAAACATTTTTGAAAACATATATAATATATAGTT
36063 TTGAAAACATTTTTGAAAACATATATAATATATAGTT
1 TTGAAAACATTTTTGAAAACATATATAATATATAGTT
**
36100 TTGAAAACATTTTTGAAAATGTATATAATATATAGTT
1 TTGAAAACATTTTTGAAAACATATATAATATATAGTT
*
36137 TTGGAAACATTTTTGAAAACATATATAATATATAGTT
1 TTGAAAACATTTTTGAAAACATATATAATATATAGTT
* *
36174 TTGAAAACATTGTTGAAAAC--GTATAATATATAGTT
1 TTGAAAACATTTTTGAAAACATATATAATATATAGTT
* *
36209 TTG-AAATATCTTTGAAAACATATAT-ATAATATAGTT
1 TTGAAAACATTTTTGAAAACATATATAAT-ATATAGTT
*
36245 TTGAAAATGTATTTTTGAAAACATATA
1 TTGAAAA--CATTTTTGAAAACATATA
36272 ATATATGCAG
Statistics
Matches: 216, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
34 13 0.06
35 19 0.09
36 38 0.18
37 111 0.51
38 4 0.02
39 22 0.10
40 9 0.04
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (37 bp):
TTGAAAACATTTTTGAAAACATATATAATATATAGTT
Found at i:36433 original size:13 final size:13
Alignment explanation
Indices: 36404--36446 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
36394 TTGGTTTTCG
36404 TTTTTTATTTTTA
1 TTTTTTATTTTTA
36417 TTTTTTATTATTT-
1 TTTTTTATT-TTTA
*
36430 TTTTCT-TTTTTA
1 TTTTTTATTTTTA
36442 TTTTT
1 TTTTT
36447 CGATTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.12
12 6 0.23
13 14 0.54
14 3 0.12
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:36442 original size:31 final size:32
Alignment explanation
Indices: 36385--36446 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 32
36375 AAAACATATA
36385 TTTTTATATTTGGTTTTCGTTTTTTATTTTTAT
1 TTTTTATATTT-GTTTTCGTTTTTTATTTTTAT
36418 TTTTTATTATTT-TTTTC-TTTTTTATTTTT
1 TTTTTA-TATTTGTTTTCGTTTTTTATTTTT
36447 CGATTTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 12 0.43
32 5 0.18
33 6 0.21
34 5 0.18
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.81
Consensus pattern (32 bp):
TTTTTATATTTGTTTTCGTTTTTTATTTTTAT
Found at i:38237 original size:14 final size:13
Alignment explanation
Indices: 38215--38253 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
38205 TAAATTTTAA
38215 TTTATTTATTTGATC
1 TTTA-TTATTT-ATC
38230 TTTATTATTTATC
1 TTTATTATTTATC
38243 TTTGATTATTT
1 TTT-ATTATTT
38254 TTCAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 13 0.57
15 4 0.17
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (13 bp):
TTTATTATTTATC
Found at i:42880 original size:20 final size:20
Alignment explanation
Indices: 42798--42881 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
42788 AGCAGAACCC
*
42798 CAGGGGGGTATCGATTCCC-
1 CAGGGGGGAATCGATTCCCT
* *
42817 CTGTGGGGGAATCGGTTCCCCTT
1 CAG-GGGGGAATCGATT-CCC-T
* * *
42840 CAAAGGGGGAATCGGTACCCT
1 C-AGGGGGGAATCGATTCCCT
*
42861 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
42881 C
1 C
42882 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
19 2 0.04
20 27 0.54
21 5 0.10
22 3 0.06
23 13 0.26
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:50818 original size:46 final size:46
Alignment explanation
Indices: 50761--51037 Score: 412
Period size: 46 Copynumber: 6.0 Consensus size: 46
50751 ATGCCTTAAT
* * * *
50761 GCATCCTTTCATGACATAATGTATCCTTTTATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* *
50807 GCATCCATTCATGCCTTAATGCATCCTTTCATGTATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* * * *
50853 ACATCATTCCATGCCTTAATGCATCATTTCATGCACTTT-ATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCA-TTTCATTTATG
* *
50899 TCATCCTTTCATGCCTTAATGCACCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* *
50945 ACATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
50991 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
51037 G
1 G
51038 ATTCATTTTA
Statistics
Matches: 207, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 3 0.01
46 201 0.97
47 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.43
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
Found at i:70940 original size:15 final size:15
Alignment explanation
Indices: 70920--70950 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
70910 GCTATTTTTC
70920 CCTCTCAAGGGTAAT
1 CCTCTCAAGGGTAAT
70935 CCTCTCAAGGGTAAT
1 CCTCTCAAGGGTAAT
70950 C
1 C
70951 TTGTAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (15 bp):
CCTCTCAAGGGTAAT
Found at i:80297 original size:16 final size:18
Alignment explanation
Indices: 80276--80308 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
80266 TTTTGAAAAC
80276 TTTTGA-AAA-AATATGG
1 TTTTGAGAAACAATATGG
80292 TTTTGAGAAACAATATG
1 TTTTGAGAAACAATATG
80309 TATAGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.36
Consensus pattern (18 bp):
TTTTGAGAAACAATATGG
Found at i:80911 original size:198 final size:199
Alignment explanation
Indices: 80576--80973 Score: 716
Period size: 198 Copynumber: 2.0 Consensus size: 199
80566 TTTAGATGTT
80576 GTTTGCACGATTTAATGATTCCAACAGGTTTTAGAAGATATTTGATTCGAATTCCGATTAATATC
1 GTTTGCACGATTTAATGATTCCAACAGGTTTTAGAAGATATTTGATTCGAATTCCGATTAATATC
80641 GTTGATTTGAGGCAAAAATGGAGATTTGAGAAAAGTTGAGAGAGAACGGCAGAAGAGGGTTTGAG
66 GTTGATTTGAGGCAAAAATGGAGATTTGAGAAAAGTTGAGAGAGAACGGCAGAAGAGGGTTTGAG
80706 TATTTTGGGG-TTTGGGTGTTCTG-CCGATTT-ACAGAACCCCAGGGGGTATCGATT-CCATGTG
131 TATTTTGGGGTTTTGGGTGTTCTGCCCGATTTAACAGAACCCCAGGGGGTATCGATTCCCATGTG
80767 GGGG
196 GGGG
80771 GTTTGCACGATTTTAATGATTCCAACAGG-TTTAGAAGATGATATTTGATTCGAATTCCGATTAA
1 GTTTGCACGA-TTTAATGATTCCAACAGGTTTTAG-A-A-GATATTTGATTCGAATTCCGATTAA
80835 TATCGTTGATTTGAGGCAAAAATGGAGATTTGAGAAAAGTTGAGAGAGAACGGCAGAAGAGGGTT
62 TATCGTTGATTTGAGGCAAAAATGGAGATTTGAGAAAAGTTGAGAGAGAACGGCAGAAGAGGGTT
*
80900 TGAGTATTTTGGGGTTTTGGGTGTTCTGCCCGATTTAACAGAACCCCAGGGGGTATCGATTCCCC
127 TGAGTATTTTGGGGTTTTGGGTGTTCTGCCCGATTTAACAGAACCCCAGGGGGTATCGATTCCCA
80965 TGTGGGGG
192 TGTGGGGG
80973 G
1 G
80974 AATCGGTTCC
Statistics
Matches: 194, Mismatches: 1, Indels: 9
0.95 0.00 0.04
Matches are distributed among these distances:
195 15 0.08
196 19 0.10
197 1 0.01
198 104 0.54
199 13 0.07
200 7 0.04
201 24 0.12
202 11 0.06
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (199 bp):
GTTTGCACGATTTAATGATTCCAACAGGTTTTAGAAGATATTTGATTCGAATTCCGATTAATATC
GTTGATTTGAGGCAAAAATGGAGATTTGAGAAAAGTTGAGAGAGAACGGCAGAAGAGGGTTTGAG
TATTTTGGGGTTTTGGGTGTTCTGCCCGATTTAACAGAACCCCAGGGGGTATCGATTCCCATGTG
GGGG
Found at i:80973 original size:21 final size:22
Alignment explanation
Indices: 80947--81008 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
80937 ACAGAACCCC
*
80947 AGGGGGTATCGATTCCC-C-TG
1 AGGGGGGATCGATTCCCTCATG
* *
80967 TGGGGGGAATCGGTTCCCTCATG
1 AGGGGGG-ATCGATTCCCTCATG
80990 AGGGGGGATCGATTCCCTC
1 AGGGGGGATCGATTCCCTC
81009 TACACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.15
21 9 0.26
22 12 0.35
23 8 0.24
ACGTcount: A:0.15, C:0.24, G:0.37, T:0.24
Consensus pattern (22 bp):
AGGGGGGATCGATTCCCTCATG
Found at i:90732 original size:17 final size:17
Alignment explanation
Indices: 90710--90744 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
90700 ATCACCGGTG
*
90710 GACTCGGAACGATGCAA
1 GACTCGAAACGATGCAA
90727 GACTCGAAACGATGCAA
1 GACTCGAAACGATGCAA
90744 G
1 G
90745 GAACACGATG
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:0.37, C:0.23, G:0.29, T:0.11
Consensus pattern (17 bp):
GACTCGAAACGATGCAA
Found at i:95078 original size:17 final size:17
Alignment explanation
Indices: 95056--95089 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
95046 GTCGAAAAAC
95056 AAAAAATATGACTTTTT
1 AAAAAATATGACTTTTT
95073 AAAAAATATGACTTTTT
1 AAAAAATATGACTTTTT
95090 GGTCAATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
AAAAAATATGACTTTTT
Found at i:100146 original size:62 final size:62
Alignment explanation
Indices: 100073--100212 Score: 176
Period size: 62 Copynumber: 2.3 Consensus size: 62
100063 TTTCATTCTT
* * * ** *
100073 TTTTACAAAAT-GTTATTTTAATTATTTTGGGTATAAATTGCCCAATACATTTCTATATGATA
1 TTTTACTAAATGGTTATATGAATTATTTTGCATATAAACTGCCCAATACATTT-TATATGATA
* *
100135 TTTTACTAAATGGTT-TATGGATTATTTTGCATATAAACTGCCCAATGCATTTTATATGATA
1 TTTTACTAAATGGTTATATGAATTATTTTGCATATAAACTGCCCAATACATTTTATATGATA
*
100196 TTTTACTACATGGTTAT
1 TTTTACTAAATGGTTAT
100213 GGATGATTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 23 0.34
62 41 0.61
63 3 0.04
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (62 bp):
TTTTACTAAATGGTTATATGAATTATTTTGCATATAAACTGCCCAATACATTTTATATGATA
Found at i:101608 original size:18 final size:18
Alignment explanation
Indices: 101582--101618 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
101572 GTAATAAAGT
101582 TAATAATAATCCTCCTAC
1 TAATAATAATCCTCCTAC
*
101600 TAATGATAATCCTCCTAC
1 TAATAATAATCCTCCTAC
101618 T
1 T
101619 CAGCCTGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (18 bp):
TAATAATAATCCTCCTAC
Found at i:105262 original size:25 final size:25
Alignment explanation
Indices: 105228--105277 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
105218 CTCATGCGTA
*
105228 CAATCACAGGTTAACATTCTAACAT
1 CAATCACAGGTTAACATTATAACAT
105253 CAATCACAGGTTAACATTATAACAT
1 CAATCACAGGTTAACATTATAACAT
105278 TCTCCCCGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (25 bp):
CAATCACAGGTTAACATTATAACAT
Found at i:109774 original size:25 final size:25
Alignment explanation
Indices: 109737--109785 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
109727 CTCATGTATA
109737 CAATCACGTGTTAACATTCTAACAT
1 CAATCACGTGTTAACATTCTAACAT
109762 CAATCACAG-GTTAACATTCTAACA
1 CAATCAC-GTGTTAACATTCTAACA
109786 CTCTATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (25 bp):
CAATCACGTGTTAACATTCTAACAT
Found at i:113198 original size:36 final size:38
Alignment explanation
Indices: 113142--113212 Score: 94
Period size: 36 Copynumber: 1.9 Consensus size: 38
113132 TATTTTCATA
113142 ATAATATTATTTAATATTTAA-ATATATTTACTAATAAT
1 ATAATATTATTTAATATTTAATAT-TATTTACTAATAAT
* *
113180 ATAATATTA-TT-ATTTTTAATATTATTTTCTAAT
1 ATAATATTATTTAATATTTAATATTATTTACTAAT
113213 GCTTATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 17 0.57
37 4 0.13
38 9 0.30
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (38 bp):
ATAATATTATTTAATATTTAATATTATTTACTAATAAT
Found at i:113687 original size:26 final size:26
Alignment explanation
Indices: 113644--113704 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
113634 AATAATAAAC
* * * *
113644 TATATTAATTATATTAATAATTTATTA
1 TATATT-ATTAAAATAATAATATAATA
113671 TATATTATTAAAATAATAATATAATA
1 TATATTATTAAAATAATAATATAATA
*
113697 TATTTTAT
1 TATATTAT
113705 ATTATATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATTATTAAAATAATAATATAATA
Found at i:114663 original size:127 final size:127
Alignment explanation
Indices: 114492--114742 Score: 398
Period size: 127 Copynumber: 2.0 Consensus size: 127
114482 ACTTAATTTT
* * * *
114492 GGTGGTCAATTTTAAAATATTGCAAAAACTGTTTCCAGATTCGAAATCCCTAGAAAGCTTAGGTA
1 GGTGGTCAATTTGAAAATAATGCAAAAACTGTTTCCAGATTCGAAATCCCTAGAAAGCTCAGGGA
* *
114557 TCAACTGACAATTAGA-TCAAAAATTCTTTAAATAATATTCTCACTCTTCTTCCTCCACCAGC
66 TCAACTGACAATTAGACT-AAAAATTATTTAAATAATATTCTCACTCTTCTTCCCCCACCAGC
*
114619 GGTGGTCAATTTGAAAATAATG-AAAAACTTGTTTCCAGATTCGAAATCCCTAGAAATCTCAGGG
1 GGTGGTCAATTTGAAAATAATGCAAAAAC-TGTTTCCAGATTCGAAATCCCTAGAAAGCTCAGGG
*
114683 ATCAACTGACAATTAGACTAAAAATTATTTAAATACTATTCTCACTCTTCTTCCCCCACC
65 ATCAACTGACAATTAGACTAAAAATTATTTAAATAATATTCTCACTCTTCTTCCCCCACC
114743 CCCGCACGGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
126 6 0.05
127 107 0.94
128 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (127 bp):
GGTGGTCAATTTGAAAATAATGCAAAAACTGTTTCCAGATTCGAAATCCCTAGAAAGCTCAGGGA
TCAACTGACAATTAGACTAAAAATTATTTAAATAATATTCTCACTCTTCTTCCCCCACCAGC
Found at i:120155 original size:3 final size:3
Alignment explanation
Indices: 120142--120182 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
120132 TACCATGCAG
*
120142 TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
120183 TTAAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:121039 original size:16 final size:16
Alignment explanation
Indices: 121014--121050 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
121004 AGTGAATGTA
*
121014 TGTCTGTAAAGTAGAC
1 TGTCTATAAAGTAGAC
121030 TGTCTATAAAGTAGAC
1 TGTCTATAAAGTAGAC
121046 TGTCT
1 TGTCT
121051 TGTAATGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (16 bp):
TGTCTATAAAGTAGAC
Found at i:124338 original size:21 final size:22
Alignment explanation
Indices: 124272--124344 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
124262 TAAGAGATAT
**
124272 AGAAAAAACACACCAAAAAGAA-
1 AGAAAAAACACAAGAAAAA-AAG
* *
124294 AGTAAAAACAGAAGAAAAAAAG
1 AGAAAAAACACAAGAAAAAAAG
* *
124316 AGAGAAAACACAA-AAAAATAG
1 AGAAAAAACACAAGAAAAAAAG
124337 AGAAAAAA
1 AGAAAAAA
124345 GATAAAACAG
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 16 0.39
22 25 0.61
ACGTcount: A:0.74, C:0.10, G:0.14, T:0.03
Consensus pattern (22 bp):
AGAAAAAACACAAGAAAAAAAG
Found at i:124351 original size:19 final size:19
Alignment explanation
Indices: 124305--124390 Score: 79
Period size: 19 Copynumber: 4.5 Consensus size: 19
124295 GTAAAAACAG
124305 AAGAAAAAAAGAGAGAAAA
1 AAGAAAAAAAGAGAGAAAA
* * *
124324 CACAAAAAAATAGAGAAAA
1 AAGAAAAAAAGAGAGAAAA
*
124343 AAGATAAAACAGA-AGAAAA
1 AAGA-AAAAAAGAGAGAAAA
*
124362 TGAGAAAAAAAGA-AG-AAA
1 -AAGAAAAAAAGAGAGAAAA
124380 AAGAAGAAAAA
1 AAGAA-AAAAA
124391 AGAAAATAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
17 4 0.07
18 8 0.15
19 33 0.61
20 9 0.17
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (19 bp):
AAGAAAAAAAGAGAGAAAA
Found at i:124384 original size:28 final size:28
Alignment explanation
Indices: 124306--124396 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
124296 TAAAAACAGA
* *
124306 AGAAAAAAAGAGAGAAAACACAAAAAAAT
1 AGAAAAAAAGAGAGAAAA-AGAAGAAAAT
* *
124335 AGAGAAAAAAGATA-AAACAGAAGAAAAT
1 AGA-AAAAAAGAGAGAAAAAGAAGAAAAT
*
124363 GAGAAAAAAAGA-AGAAAAAGAAGAAAAA
1 -AGAAAAAAAGAGAGAAAAAGAAGAAAAT
124391 AGAAAA
1 AGAAAA
124397 TAGACAGATC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.13
28 28 0.53
29 9 0.17
30 9 0.17
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (28 bp):
AGAAAAAAAGAGAGAAAAAGAAGAAAAT
Found at i:124391 original size:19 final size:19
Alignment explanation
Indices: 124298--124394 Score: 69
Period size: 19 Copynumber: 4.9 Consensus size: 19
124288 AAAGAAAGTA
124298 AAAACAGAAGAAAAAAAGAGAG
1 AAAA-AGAAG-AAAAAAGA-AG
*
124320 AAAACACAA-AAAAATAG-AG
1 AAAA-AGAAGAAAAA-AGAAG
124339 -AAAA-AAGATAAAACAGAAG
1 AAAAAGAAGA-AAAA-AGAAG
*
124358 AAAATG-AGAAAAAAAGAAG
1 AAAAAGAAG-AAAAAAGAAG
124377 AAAAAGAAGAAAAAAGAA
1 AAAAAGAAGAAAAAAGAA
124395 AATAGACAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 9 0.14
19 23 0.37
20 16 0.25
21 3 0.05
22 8 0.13
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.03
Consensus pattern (19 bp):
AAAAAGAAGAAAAAAGAAG
Found at i:126475 original size:43 final size:43
Alignment explanation
Indices: 126412--126594 Score: 222
Period size: 43 Copynumber: 4.3 Consensus size: 43
126402 GAAACCATAC
* * *
126412 TTGAGGGACCATTGTGATATGTAGGGGTTCCTTGATGACAAGC
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAGT
* * *
126455 TCGAGGGACCATCGTGATATGAAGGGGTTCCTTGAGGATAAGT
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAGT
* * * * *
126498 TTGAGGGACTATCATGATATGTAGGGGTTCTTTGAAGACAAGA
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAGT
* * * * *
126541 TTGAGGGACCATTGTGATATTTAAGGATTCCTTGAGGATAAGT
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAGT
126584 TTGAGGGACCA
1 TTGAGGGACCA
126595 GGTTTCTTAA
Statistics
Matches: 116, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.30
Consensus pattern (43 bp):
TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAGT
Found at i:126558 original size:86 final size:86
Alignment explanation
Indices: 126412--126594 Score: 260
Period size: 86 Copynumber: 2.1 Consensus size: 86
126402 GAAACCATAC
** * *
126412 TTGAGGGACCATTGTGATATGTAGGGGTTCCTTGATGACAAGCTCGAGGGACCATCGTGATA-TG
1 TTGAGGGACCATCATGATATGTAGGGGTTCCTTGAAGACAAGATCGAGGGACCATCGTGATATTG
*
126476 AAGGGGTTCCTTGAGGATAAGT
66 AA-GGATTCCTTGAGGATAAGT
* * * * *
126498 TTGAGGGACTATCATGATATGTAGGGGTTCTTTGAAGACAAGATTGAGGGACCATTGTGATATTT
1 TTGAGGGACCATCATGATATGTAGGGGTTCCTTGAAGACAAGATCGAGGGACCATCGTGATATTG
126563 AAGGATTCCTTGAGGATAAGT
66 AAGGATTCCTTGAGGATAAGT
126584 TTGAGGGACCA
1 TTGAGGGACCA
126595 GGTTTCTTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 82 0.96
87 3 0.04
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.30
Consensus pattern (86 bp):
TTGAGGGACCATCATGATATGTAGGGGTTCCTTGAAGACAAGATCGAGGGACCATCGTGATATTG
AAGGATTCCTTGAGGATAAGT
Found at i:126723 original size:42 final size:42
Alignment explanation
Indices: 126605--126730 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 42
126595 GGTTTCTTAA
* * * *
126605 AGAAAAACTTGAGAGACCATTGTGATATGTA-GGGTTTCTTG
1 AGAACAACTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
* *
126646 AGGACAAGTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
1 AGAACAA-CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
*
126689 ATGAAC-ACTTGAGGGACCAACGTGATATGTAGGGGTTCCTTG
1 A-GAACAACTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
126731 GTGACAACTA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 5 0.07
42 54 0.74
43 11 0.15
44 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (42 bp):
AGAACAACTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
Found at i:126823 original size:22 final size:22
Alignment explanation
Indices: 126797--126840 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
126787 CGGGCCATCA
126797 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
126819 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
126841 ATAATTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (22 bp):
GTAAGTCTTTCGAGCATGATGC
Found at i:126892 original size:42 final size:42
Alignment explanation
Indices: 126820--126907 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
126810 GCATGATGCG
* * *
126820 TAAGTCTTTCGAGCATGATGCATAATTCATTCAGGCCATCTA
1 TAAGTCTTTCGAGCATGATACATAAGTCATTCAGGCCATCCA
* ** * *
126862 TAAGTCTTTCGAGTATGATATTTAAGTCATTCGGGTCATCCA
1 TAAGTCTTTCGAGCATGATACATAAGTCATTCAGGCCATCCA
126904 TAAG
1 TAAG
126908 AACTTCAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATACATAAGTCATTCAGGCCATCCA
Found at i:127160 original size:90 final size:90
Alignment explanation
Indices: 126884--127193 Score: 493
Period size: 90 Copynumber: 3.5 Consensus size: 90
126874 GTATGATATT
* * * * *
126884 TAAGTCATTCGGGTCATCCATAAGAACTTCAATGCAGGATATTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
126949 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
*
126974 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGTAGGATGTTTTCAAATG-GATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
*
127038 AAGCCTTCGGGGTTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
* *
127063 TAAGTCCTTTTGGCCCA-CCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAA-AAA
1 TAAGTCC-TTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA-TTTAAGAAA
127126 CTAAGCCTTCGGGGGTTTCTTGATTTG
64 CTAAGCCTTCGGGGGTTTCTTGATTTG
127153 TAAGTCCTTCGGGCCATCCATAAGACCTTCAG-GCAGGATGT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
127194 GTAAGTCCTT
Statistics
Matches: 203, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
89 93 0.46
90 105 0.52
91 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (90 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
AAGCCTTCGGGGGTTTCTTGATTTG
Found at i:127212 original size:42 final size:41
Alignment explanation
Indices: 127151--127264 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 41
127141 TTTCTTGATT
* *
127151 TGTAAGTCCTTCGGGCCATCCATAAGACCTTC-AGGCAGGATG
1 TGTAAGTCCTTC-AGCCATCCATAAGACCTTCGA-GCAAGATG
* * * *
127193 TGTAAGTCCTTCATACCATCTATAAGTCTTTCGAGCAAGATG
1 TGTAAGTCCTTCA-GCCATCCATAAGACCTTCGAGCAAGATG
*
127235 -ATAAGTCCTTCGAGCCATCCATAAGACCTT
1 TGTAAGTCCTTC-AGCCATCCATAAGACCTT
127265 AGGGTAGGGT
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
41 23 0.40
42 34 0.59
43 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TGTAAGTCCTTCAGCCATCCATAAGACCTTCGAGCAAGATG
Found at i:127811 original size:43 final size:43
Alignment explanation
Indices: 127749--128004 Score: 336
Period size: 43 Copynumber: 6.0 Consensus size: 43
127739 AGAAACCACA
**
127749 CTTGAGGGACCATTATGATATGTAGGGGTTCCTTGATGACAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
* *
127792 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
* * * *
127835 TTTGAGGGACTATCGTGATATGTAGGGGTTCTTTGAAGACAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
* * * * *
127878 ATTGAGGGACTATCGTGATATGTAAGGGTTCTTTGAGGACAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
* *
127921 TTTGAGGGACCATGGTGATATGTAGGGGTTCCTTGATGAACAA-
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATG-ACAAG
* *
127964 -TTGAGGGACCAACGTGATATGTAGGGGTTCCTTGGTGACAA
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAA
128005 CTAAGAAACT
Statistics
Matches: 191, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 4 0.02
42 34 0.18
43 149 0.78
44 4 0.02
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.30
Consensus pattern (43 bp):
CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
Found at i:128119 original size:22 final size:22
Alignment explanation
Indices: 128064--128111 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
128054 CGAGCCATCA
128064 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
128086 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
128108 GTAA
1 GTAA
128112 TTTATTCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (22 bp):
GTAAGTCTTTCGAGCATGATGC
Found at i:128161 original size:42 final size:42
Alignment explanation
Indices: 128087--128174 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
128077 GCATGATGCG
* * *
128087 TAAGTCTTTCGAGCATGATGCGTAATTTATTCGGGCCATCTA
1 TAAGTCTTTCGAGCATGATGCGTAAGTCATTCGGGCCATCCA
** *
128129 TAAGTCTTTCGAGCATGATGTTTAAGTCATTCGGGTCATCCA
1 TAAGTCTTTCGAGCATGATGCGTAAGTCATTCGGGCCATCCA
128171 TAAG
1 TAAG
128175 AACTTCAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATGCGTAAGTCATTCGGGCCATCCA
Found at i:128304 original size:90 final size:90
Alignment explanation
Indices: 128151--128461 Score: 491
Period size: 90 Copynumber: 3.5 Consensus size: 90
128141 GCATGATGTT
* * * * *
128151 TAAGTCATTCGGGTCATCCATAAGAACTTCAATGCAGGATATTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
*
128216 AAGCCTTCGGGGGTTTCTTAATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
* *
128241 TAAGTCCTTCGGACCATCCATAAGATCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
128306 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
* *
128331 TAAGTCCTTCTGGCCAACCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAA-AAAC
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA-TTTAAGAAAC
*
128395 TAAGCCTTCGGGGTTTTCTTGATTTG
65 TAAGCCTTCGGGGGTTTCTTGATTTG
*
128421 TAAGTCCTTCGGGCCATCCATAAGACCTTCAG-ACAGGATGT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
128462 GTAAGTCCTT
Statistics
Matches: 205, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
89 8 0.04
90 192 0.94
91 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (90 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
AAGCCTTCGGGGGTTTCTTGATTTG
Found at i:128521 original size:41 final size:42
Alignment explanation
Indices: 128421--128532 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
128411 TCTTGATTTG
* * *
128421 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGACAGGATGTG
1 TAAGTCCTTCGAGCCATCCATAAGACCTTCAGACAAGATGTA
* * * *
128463 TAAGTCCTTC-ATACCATCTATAAGTCTTTC-GAGCAAGATG-A
1 TAAGTCCTTCGA-GCCATCCATAAGACCTTCAGA-CAAGATGTA
128504 TAAGTCCTTCGAGCCATCCATAAGACCTT
1 TAAGTCCTTCGAGCCATCCATAAGACCTT
128533 AGGGTAGGGT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
41 25 0.45
42 31 0.55
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (42 bp):
TAAGTCCTTCGAGCCATCCATAAGACCTTCAGACAAGATGTA
Found at i:129078 original size:43 final size:43
Alignment explanation
Indices: 129017--129265 Score: 331
Period size: 43 Copynumber: 5.8 Consensus size: 43
129007 AGAAACCACA
* * *
129017 CTTGAGGGACCATTGTGATATGTAGAGGTTCCTTGATGACAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAG
* *
129060 CTTGAGGGACCATCGTGATATGTAGGGTTTCCTTGAGGATAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAG
* * * *
129103 TTTGAGGGACTATCGTGATATGTAGGGGTTCTTTGAAGACAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAG
* * * *
129146 ATTGAGGGACTATCGCGATATGTAAGGGTTCCTTGAGGACAAG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAG
* *
129189 TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAACAA-
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGA-GGACAAG
*
129232 -TTGAGGGACCAACGTGATATGTAGGGGTTCCTTG
1 CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
129266 GTGATAACTA
Statistics
Matches: 183, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
42 33 0.18
43 145 0.79
44 5 0.03
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (43 bp):
CTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGACAAG
Found at i:129360 original size:22 final size:22
Alignment explanation
Indices: 129332--129379 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
129322 CGAGCCATCA
129332 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
129354 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
129376 GTAA
1 GTAA
129380 TTTATTCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (22 bp):
GTAAGTCTTTCGAGCATGATGC
Found at i:129442 original size:42 final size:42
Alignment explanation
Indices: 129355--129442 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
129345 GCATGATGCG
* * *
129355 TAAGTCTTTCGAGCATGATGCGTAATTTATTCAGGCCATCTA
1 TAAGTCTTTCGAGCATGATGCGTAAGTCATTCAGGCCATCCA
** * *
129397 TAAGTCTTTCGAGCATGATGTTTAAGTCATTCGGGTCATCCA
1 TAAGTCTTTCGAGCATGATGCGTAAGTCATTCAGGCCATCCA
129439 TAAG
1 TAAG
129443 AACTTCAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATGCGTAAGTCATTCAGGCCATCCA
Found at i:129572 original size:90 final size:90
Alignment explanation
Indices: 129419--129729 Score: 536
Period size: 90 Copynumber: 3.5 Consensus size: 90
129409 GCATGATGTT
* * * * *
129419 TAAGTCATTCGGGTCATCCATAAGAACTTCAATGCAGGATATTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
129484 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
129509 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
129574 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
* *
129599 TAAGTCCTTCTGGCCAACCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAA-AAAC
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA-TTTAAGAAAC
129663 TAAGCCTTCGGGGGTTTCTTGATTTG
65 TAAGCCTTCGGGGGTTTCTTGATTTG
129689 TAAGTCCTTCGGGCCATCCATAAGACCTTCAG-GCAGGATGT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
129730 GTAAGTCCTT
Statistics
Matches: 211, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
89 9 0.04
90 197 0.93
91 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (90 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
AAGCCTTCGGGGGTTTCTTGATTTG
Found at i:129748 original size:42 final size:41
Alignment explanation
Indices: 129687--129798 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
129677 TTTCTTGATT
* *
129687 TGTAAGTCCTTCGGGCCATCCATAAGACCTTC-AGGCAGGATG
1 TGTAAGTCCTTC-AGCCATCCATAAGACCTTCGA-GCAAGATG
* * * *
129729 TGTAAGTCCTTCATACCATCTATAAGTCTTTCGAGCAAGATG
1 TGTAAGTCCTTCA-GCCATCCATAAGACCTTCGAGCAAGATG
*
129771 -ATAAGTCCTTCGAGCCATCCATAAGACC
1 TGTAAGTCCTTC-AGCCATCCATAAGACC
129799 GTAGGGTAGG
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
41 21 0.38
42 34 0.61
43 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
TGTAAGTCCTTCAGCCATCCATAAGACCTTCGAGCAAGATG
Found at i:130324 original size:21 final size:21
Alignment explanation
Indices: 130300--130368 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
130290 GGGACTATTG
130300 TGATATGTAGGGGTTCCTTGA
1 TGATATGTAGGGGTTCCTTGA
* * * *
130321 TGATAAGCTTGAGGG-ACCATCG-
1 TGATATG-TAG-GGGTTCC-TTGA
130343 TGATATGTAGGGGTTCCTTGA
1 TGATATGTAGGGGTTCCTTGA
*
130364 GGATA
1 TGATA
130369 AGTTTGAGGG
Statistics
Matches: 34, Mismatches: 9, Indels: 10
0.64 0.17 0.19
Matches are distributed among these distances:
20 5 0.15
21 14 0.41
22 10 0.29
23 5 0.15
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.32
Consensus pattern (21 bp):
TGATATGTAGGGGTTCCTTGA
Found at i:130346 original size:43 final size:43
Alignment explanation
Indices: 130286--130533 Score: 338
Period size: 43 Copynumber: 5.8 Consensus size: 43
130276 GAAACCAGAC
* * * *
130286 TTGAGGGACTATTGTGATATGTAGGGGTTCCTTGATGATAAGC
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATAAGA
*
130329 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATAAGT
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATAAGA
* * * *
130372 TTGAGGGACTATCGTGATATGTAGGGGTTCTTTGAAGACAAGA
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATAAGA
* * *
130415 TTGAGGGACTATCGTGATATGTAAGGGTTCCTTGAGGATAAGT
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATAAGA
* *
130458 TTGAGGGACCATCATGATATGTAGGGGTTCCTTGATGA-ACA-A
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATA-AGA
*
130500 TTGAGGGACCAACGTGATATGTAGGGGTTCCTTG
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTG
130534 GTGACAACTA
Statistics
Matches: 183, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
42 33 0.18
43 150 0.82
ACGTcount: A:0.25, C:0.11, G:0.33, T:0.31
Consensus pattern (43 bp):
TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAGGATAAGA
Found at i:130431 original size:86 final size:85
Alignment explanation
Indices: 130286--130533 Score: 381
Period size: 86 Copynumber: 2.9 Consensus size: 85
130276 GAAACCAGAC
* *
130286 TTGAGGGACTATTGTGATATGTAGGGGTTCCTTGATGATAAGCTTGAGGGACCATCGTGATATGT
1 TTGAGGGACTATCGTGATATGTAGGGGTTCCTTGATGA-AAGATTGAGGGACCATCGTGATATGT
130351 AGGGGTTCCTTGAGGATAAGT
65 AGGGGTTCCTTGAGGATAAGT
* * *
130372 TTGAGGGACTATCGTGATATGTAGGGGTTCTTTGAAGACAAGATTGAGGGACTATCGTGATATGT
1 TTGAGGGACTATCGTGATATGTAGGGGTTCCTTGATGA-AAGATTGAGGGACCATCGTGATATGT
*
130437 AAGGGTTCCTTGAGGATAAGT
65 AGGGGTTCCTTGAGGATAAGT
* * *
130458 TTGAGGGACCATCATGATATGTAGGGGTTCCTTGATGAACA-ATTGAGGGACCAACGTGATATGT
1 TTGAGGGACTATCGTGATATGTAGGGGTTCCTTGATGAA-AGATTGAGGGACCATCGTGATATGT
130522 AGGGGTTCCTTG
65 AGGGGTTCCTTG
130534 GTGACAACTA
Statistics
Matches: 147, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
85 33 0.22
86 114 0.78
ACGTcount: A:0.25, C:0.11, G:0.33, T:0.31
Consensus pattern (85 bp):
TTGAGGGACTATCGTGATATGTAGGGGTTCCTTGATGAAAGATTGAGGGACCATCGTGATATGTA
GGGGTTCCTTGAGGATAAGT
Found at i:130655 original size:22 final size:22
Alignment explanation
Indices: 130600--130647 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
130590 CGAGCCATCA
130600 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
130622 GTAAGTCTTTCGAGCATGATGC
1 GTAAGTCTTTCGAGCATGATGC
130644 GTAA
1 GTAA
130648 TTTATTCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (22 bp):
GTAAGTCTTTCGAGCATGATGC
Found at i:130697 original size:42 final size:42
Alignment explanation
Indices: 130623--130710 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
130613 GCATGATGCG
* * *
130623 TAAGTCTTTCGAGCATGATGCGTAATTTATTCGGGCCATCTA
1 TAAGTCTTTCGAGCATGATGCGTAAGTCATTCGGGCCATCCA
** *
130665 TAAGTCTTTCGAGCATGATGTTTAAGTCATTCGGGTCATCCA
1 TAAGTCTTTCGAGCATGATGCGTAAGTCATTCGGGCCATCCA
130707 TAAG
1 TAAG
130711 AACTTCAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATGCGTAAGTCATTCGGGCCATCCA
Found at i:130840 original size:90 final size:90
Alignment explanation
Indices: 130687--130997 Score: 502
Period size: 90 Copynumber: 3.5 Consensus size: 90
130677 GCATGATGTT
* * * * *
130687 TAAGTCATTCGGGTCATCCATAAGAACTTCAATGCAGGATATTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
130752 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
*
130777 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGTAGGATGTTTTCAAATGAGATTTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
*
130842 AAGCCTTCGGGGTTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
* *
130867 TAAGTCCTTTTGGCCCA-CCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAA-AAA
1 TAAGTCC-TTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA-TTTAAGAAA
130930 CTAAGCCTTCGGGGGTTTCTTGATTTG
64 CTAAGCCTTCGGGGGTTTCTTGATTTG
130957 TAAGTCCTTCGGGCCATCCATAAGACCTTCAG-GCAGGATGT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
130998 GTAAGTCCTT
Statistics
Matches: 205, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
89 16 0.08
90 177 0.86
91 12 0.06
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (90 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACT
AAGCCTTCGGGGGTTTCTTGATTTG
Found at i:131016 original size:42 final size:41
Alignment explanation
Indices: 130955--131068 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 41
130945 TTTCTTGATT
* *
130955 TGTAAGTCCTTCGGGCCATCCATAAGACCTTC-AGGCAGGATG
1 TGTAAGTCCTTC-AGCCATCCATAAGACCTTCGA-GCAAGATG
* ** * *
130997 TGTAAGTCCTTCATACCATCTGTAAGTCTTTCGAGCAAGATG
1 TGTAAGTCCTTCA-GCCATCCATAAGACCTTCGAGCAAGATG
*
131039 -ATAAGTCCTTCGAGCCATCCATAAGACCTT
1 TGTAAGTCCTTC-AGCCATCCATAAGACCTT
131069 AGGGTAGGGT
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
41 22 0.39
42 33 0.59
43 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
TGTAAGTCCTTCAGCCATCCATAAGACCTTCGAGCAAGATG
Found at i:131331 original size:36 final size:36
Alignment explanation
Indices: 131251--131360 Score: 125
Period size: 36 Copynumber: 3.0 Consensus size: 36
131241 TAAAAAACAA
*
131251 AAATTTTGTCTCAT-TTGAGACAATGTTT-ACTCGAAAC
1 AAATTTTGTCTC-TCTTGAGAC-A-GTTTCACTTGAAAC
* * *
131288 GAGTTTTGTCTCTCGTGAGACAGTTTCACTTGAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAAC
* *
131324 AAATTTTGTCTTTCTTGAGACAGTTTCTCTTGAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAAC
131360 A
1 A
131361 CAAAATCTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
35 4 0.06
36 42 0.68
37 16 0.26
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.39
Consensus pattern (36 bp):
AAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAAC
Found at i:131402 original size:29 final size:27
Alignment explanation
Indices: 131338--131426 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 27
131328 TTTGTCTTTC
*
131338 TTGAGACAGTTTCTCTTGAAACACAAAATCT
1 TTGA-ACAGTTTCCCTTG-AA-ACAAAAT-T
131369 TTGAACCAGTTTCCCTTGAAACAAAATT
1 TTGAA-CAGTTTCCCTTGAAACAAAATT
* *
131397 GTTGAATATATTTCCCTTGAAACAAAATT
1 -TTGAACA-GTTTCCCTTGAAACAAAATT
131426 T
1 T
131427 GTCTCCCTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.06
29 31 0.60
30 3 0.06
31 15 0.29
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (27 bp):
TTGAACAGTTTCCCTTGAAACAAAATT
Found at i:133091 original size:16 final size:17
Alignment explanation
Indices: 133070--133107 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
133060 CTCCCCCTTA
133070 CTTT-AACACTTCTCCC
1 CTTTAAACACTTCTCCC
*
133086 CTTTAAAACACTTTTCCC
1 CTTT-AAACACTTCTCCC
133104 CTTT
1 CTTT
133108 TTTGTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
18 15 0.79
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (17 bp):
CTTTAAACACTTCTCCC
Found at i:134861 original size:23 final size:20
Alignment explanation
Indices: 134808--134869 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 20
134798 AGAACCCATT
134808 GGGGGTATCGATTCCCTCAA
1 GGGGGTATCGATTCCCTCAA
* *
134828 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGTATCGATTCCC--TC-AA
134852 GGGGGTATCGATTCCCTC
1 GGGGGTATCGATTCCCTC
134870 TGTCAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 2 0.06
21 14 0.41
23 14 0.41
24 4 0.12
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (20 bp):
GGGGGTATCGATTCCCTCAA
Found at i:140765 original size:91 final size:91
Alignment explanation
Indices: 140609--140785 Score: 309
Period size: 91 Copynumber: 1.9 Consensus size: 91
140599 CACTCGAGGG
** *
140609 ATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAATAAGCTCAT
1 ATCAACATTTTCAGTAAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGCTCAT
140674 AATGAGAAGAACTTGTTCAACCTTGA
66 AATGAGAAGAACTTGTTCAACCTTGA
* *
140700 ATCAATATTTTCAGTAAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTTCAGTAAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGCTCAT
140765 AATGAGAAGAACTTGTTCAAC
66 AATGAGAAGAACTTGTTCAAC
140786 ATTAGCTCGA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.25
Consensus pattern (91 bp):
ATCAACATTTTCAGTAAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGCTCAT
AATGAGAAGAACTTGTTCAACCTTGA
Found at i:140912 original size:230 final size:230
Alignment explanation
Indices: 140509--140927 Score: 703
Period size: 230 Copynumber: 1.8 Consensus size: 230
140499 GTTTTCAACA
* * *
140509 CATCCAATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTAGCTTGATTCATCGC
1 CATCCAATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACATTAGCTCGATTCATCAC
* * * *
140574 ATATGGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACATTTTCAGTGGAGAGTTCATAATG
66 ATATAGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACATTCTCAGTAGAAAGTTCATAATG
** *
140639 AGAAGAACTCATCCAATGAGGGAGAATAAGCTCATAATGAGAAGAACTTGTTCAACCTTGAATCA
131 AGAAGAACTCATCCAATGAGAAAGAAGAAGCTCATAATGAGAAGAACTTGTTCAACCTTGAATCA
140704 ATATTTTCAGTAAAGAGTTCATAATGAGAAGAACT
196 ATATTTTCAGTAAAGAGTTCATAATGAGAAGAACT
*
140739 CATCCAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTAGCTCGATTCATCAC
1 CATCCAATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACATTAGCTCGATTCATCAC
*
140804 ATATAGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACATTCTCAGTAGAAAGTTTATAATG
66 ATATAGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACATTCTCAGTAGAAAGTTCATAATG
* * *
140869 AGAAGAATTCATCCGATGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
131 AGAAGAACTCATCCAATGAGAAAGAAGAAGCTCATAATGAGAAGAACTTGTTCAACCTT
140928 AACTTGTTTC
Statistics
Matches: 174, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
230 174 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (230 bp):
CATCCAATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACATTAGCTCGATTCATCAC
ATATAGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACATTCTCAGTAGAAAGTTCATAATG
AGAAGAACTCATCCAATGAGAAAGAAGAAGCTCATAATGAGAAGAACTTGTTCAACCTTGAATCA
ATATTTTCAGTAAAGAGTTCATAATGAGAAGAACT
Done.