Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005548.1 Hibiscus syriacus cultivar Beakdansim tig00012858_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: 87475
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:3947 original size:2 final size:2
Alignment explanation
Indices: 3940--3976 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3930 TGAATTTGAT
3940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3977 TGTTGCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4188 original size:50 final size:51
Alignment explanation
Indices: 4129--4229 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 51
4119 AATTACTTAC
4129 CACTTAAACCAACTCGTAATAATTTCA-TTTTATTTTTATAATATTGTTAG
1 CACTTAAACCAACTCGTAATAATTTCATTTTTATTTTTATAATATTGTTAG
* *
4179 CACTTAAACCAACTCGTAGTAATTTCATTTTTATTTTTGTAATATTGTTAG
1 CACTTAAACCAACTCGTAATAATTTCATTTTTATTTTTATAATATTGTTAG
4230 TAACATTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 26 0.54
51 22 0.46
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.47
Consensus pattern (51 bp):
CACTTAAACCAACTCGTAATAATTTCATTTTTATTTTTATAATATTGTTAG
Found at i:5190 original size:21 final size:21
Alignment explanation
Indices: 5164--5205 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5154 TTATGAAACA
5164 ATCGATTACTTTGCTTAGGGT
1 ATCGATTACTTTGCTTAGGGT
5185 ATCGATTACTTTGCTTAGGGT
1 ATCGATTACTTTGCTTAGGGT
5206 GATAAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (21 bp):
ATCGATTACTTTGCTTAGGGT
Found at i:8429 original size:3 final size:3
Alignment explanation
Indices: 8421--8483 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
8411 AATTTAAATT
*
8421 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
8467 TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA
8484 ATACATTTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8528 original size:18 final size:18
Alignment explanation
Indices: 8505--8542 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8495 TTTACAGGCT
8505 AATCCTGAAGCCCACTAC
1 AATCCTGAAGCCCACTAC
* *
8523 AATCCTGAGGCCCAGTAC
1 AATCCTGAAGCCCACTAC
8541 AA
1 AA
8543 GCTAACCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (18 bp):
AATCCTGAAGCCCACTAC
Found at i:11773 original size:32 final size:32
Alignment explanation
Indices: 11729--11790 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
11719 TCCTACATAT
* *
11729 ACTAACTAATTTCTTTTCTTTTATTTGTGTAC
1 ACTAACTAATTTCGTTTATTTTATTTGTGTAC
* *
11761 ACTAACTTATTTCGTTTATTTTGTTTGTGT
1 ACTAACTAATTTCGTTTATTTTATTTGTGT
11791 CATTTTTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (32 bp):
ACTAACTAATTTCGTTTATTTTATTTGTGTAC
Found at i:12748 original size:14 final size:14
Alignment explanation
Indices: 12729--12768 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
12719 ATTCCTTTTT
12729 TTATTTATATTATA
1 TTATTTATATTATA
*
12743 TTATTTTTATTATA
1 TTATTTATATTATA
12757 TATATCTTATAT
1 T-TAT-TTATAT
12769 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:12856 original size:18 final size:18
Alignment explanation
Indices: 12833--12898 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
12823 ACTATGTATA
12833 TATATTTTTTCTTAATAT
1 TATATTTTTTCTTAATAT
* *
12851 TATATTTTATACGTTTATAT
1 TATATTTT-TTC-TTAATAT
*
12871 ATATATATTTTCTTAATAT
1 -TATATTTTTTCTTAATAT
*
12890 TCTATTTTT
1 TATATTTTT
12899 GTTTTTATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 15 0.39
19 8 0.21
20 8 0.21
21 7 0.18
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (18 bp):
TATATTTTTTCTTAATAT
Found at i:13014 original size:38 final size:36
Alignment explanation
Indices: 12962--13040 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 36
12952 CTATTACTTT
*
12962 TTTTTCTTAATATTATGTATATCT-TTATTTTTTATTTG
1 TTTTACTTAATATTA--TATATCTATTA-TTTTTATTTG
* *
13000 TTTTACTTAGTATTATATATTTATTATTTTTATTTG
1 TTTTACTTAATATTATATATCTATTATTTTTATTTG
13036 TTTTA
1 TTTTA
13041 GTAAATACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 21 0.57
37 3 0.08
38 13 0.35
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (36 bp):
TTTTACTTAATATTATATATCTATTATTTTTATTTG
Found at i:13190 original size:9 final size:10
Alignment explanation
Indices: 13159--13190 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
13149 TTTTTTAACA
13159 TTTTATTCA-
1 TTTTATTCAT
13168 TTTTATTCAT
1 TTTTATTCAT
13178 TTTTATT-AT
1 TTTTATTCAT
13187 TTTT
1 TTTT
13191 TACATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATTCAT
Found at i:13190 original size:19 final size:19
Alignment explanation
Indices: 13159--13208 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13149 TTTTTTAACA
13159 TTTTATTCATTTTATT-CAT-
1 TTTTATT-ATTTT-TTACATG
13178 TTTTATTATTTTTTACATG
1 TTTTATTATTTTTTACATG
*
13197 TTTTGTTATTTT
1 TTTTATTATTTT
13209 CCATTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 8 0.29
19 18 0.64
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTATTATTTTTTACATG
Found at i:16303 original size:26 final size:26
Alignment explanation
Indices: 16274--16323 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
16264 AATCAGAACA
*
16274 AAAAGAGAAAA-AGCAAAGAGAAAATT
1 AAAAGAGAAAATA-AAAAGAGAAAATT
16300 AAAAGAGAAAATAAAAAGAGAAAA
1 AAAAGAGAAAATAAAAAGAGAAAA
16324 AAACAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (26 bp):
AAAAGAGAAAATAAAAAGAGAAAATT
Found at i:16335 original size:13 final size:13
Alignment explanation
Indices: 16273--16336 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
16263 CAATCAGAAC
16273 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
** *
16286 GCAAAGAGAAAAT
1 AAAAAGAGAAAAA
* *
16299 TAAAAGAGAAAAT
1 AAAAAGAGAAAAA
16312 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
16325 AACAAAG-GAAAA
1 AA-AAAGAGAAAA
16337 TTGAAGAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 39 0.91
14 4 0.09
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Found at i:16520 original size:69 final size:69
Alignment explanation
Indices: 16409--16546 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
16399 GATTCAAACT
*
16409 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
16474 TCAA
66 TCAA
* *
16478 ATGAGATTGATCAAGCACAATCATTTCCGAATCATTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
16543 TCAA
66 TCAA
16547 GAGATAGAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCAAAGATCATAGAGCA
TCAA
Found at i:18239 original size:106 final size:106
Alignment explanation
Indices: 18111--18327 Score: 281
Period size: 106 Copynumber: 2.0 Consensus size: 106
18101 ATATCGTGCC
* * *
18111 ACTCGAGACAACACAAGTTCAACTCCACAAAGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGCTCAACTCCACAAAGAAGGGACGACTGGCTGTCAACAAACAATTTCCC
*
18176 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * **
18217 ACTCGAGAGAGCACACGCTCAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGCTCAACTCCACAAAGAAGGGACGACTGGCTGTCAACAAACAATTTCCC
* * * * *
18282 AGTTCCAGAGCCAATTTTAACTTCACGGTGGAGGATATTGG
66 AATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
18323 ACTCG
1 ACTCG
18328 GAACAATACA
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGCTCAACTCCACAAAGAAGGGACGACTGGCTGTCAACAAACAATTTCCC
AATTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:18572 original size:67 final size:66
Alignment explanation
Indices: 18463--18595 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 66
18453 ACAGTTTCCA
** *
18463 AGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCTCCTAAAAC-AAATTTTGTCTCCCTTGAGA
1 AGTTTCCCTTGAAACAAAATCTTCAAATTTATTTCTCCTAAAACAAAATTTTATCTCCCTTGAGA
18527 C
66 C
* *
18528 AGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTC-CCTTAAAACAAAATTTTATTTCCCTTG
1 AGTTTCCCTTG-AA-ACAAAATCTTCAAATTTATTTCTCC-TAAAACAAAATTTTATCTCCCTTG
18592 AGAC
63 AGAC
18596 CATTTTTCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
65 10 0.17
66 4 0.07
67 26 0.44
68 19 0.32
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (66 bp):
AGTTTCCCTTGAAACAAAATCTTCAAATTTATTTCTCCTAAAACAAAATTTTATCTCCCTTGAGA
C
Found at i:19514 original size:110 final size:110
Alignment explanation
Indices: 19316--19522 Score: 290
Period size: 110 Copynumber: 1.9 Consensus size: 110
19306 GCTTCCCAGT
* * *
19316 TTCAGAGTCAATTTCAACTTCACAGCGAGGAATATTGGACTCAAGACAACACAAGCTCAGCTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAGGAATATTGAACTCAAGACAACAAAAGCTCAACTTCA
*
19381 CAACGAAGGGGCAACTGATTGTCAACAAACAACTTTTTAGTTTCA
66 CAACGAAGGGGCAACTGACTGTCAACAAACAACTTTTTAGTTTCA
* * * *
19426 TTCAGAGTCAATTTCAACTTCACAGTGAATG-ATATTGAACTCAAGATAACAAAAGCTCAATTTC
1 TTCAGAGTCAATTTCAACTTCACAGCG-AGGAATATTGAACTCAAGACAACAAAAGCTCAACTTC
* ** *
19490 ACAGCGAAGGGGTGACTGGCTGTCAACAAACAA
65 ACAACGAAGGGGCAACTGACTGTCAACAAACAA
19523 TTTCCCGATT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 82 0.98
111 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (110 bp):
TTCAGAGTCAATTTCAACTTCACAGCGAGGAATATTGAACTCAAGACAACAAAAGCTCAACTTCA
CAACGAAGGGGCAACTGACTGTCAACAAACAACTTTTTAGTTTCA
Found at i:20920 original size:4 final size:4
Alignment explanation
Indices: 20913--20963 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
20903 TTTTTCATTA
* *
20913 TATT TATT TATT TATT TACTA TATT CATT T-TT TATT TATAT TATAT TATT
1 TATT TATT TATT TATT TA-TT TATT TATT TATT TATT TAT-T TAT-T TATT
20963 T
1 T
20964 TTATTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 3 0.08
4 25 0.62
5 12 0.30
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:20924 original size:20 final size:19
Alignment explanation
Indices: 20901--20978 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 19
20891 CTTATATATA
20901 TATTTTTCATTATATTTATT
1 TATTTTT-ATTATATTTATT
* *
20921 TATTTATTTACTATATTCATT
1 TA-TT-TTTATTATATTTATT
*
20942 T-TTTAT-TTATA-TTATAT
1 TATTTTTATTATATTTAT-T
*
20959 TATTTTTATTATATATATT
1 TATTTTTATTATATTTATT
20978 T
1 T
20979 TATATCATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
16 3 0.07
17 6 0.13
18 6 0.13
19 9 0.20
20 5 0.11
21 13 0.29
22 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTTATTATATTTATT
Found at i:20937 original size:21 final size:19
Alignment explanation
Indices: 20911--20978 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
20901 TATTTTTCAT
20911 TATATTTATTTATTTATTTA
1 TATATTTATTT-TTTATTTA
*
20931 CTATATTCATTTTTTATTTA
1 -TATATTTATTTTTTATTTA
20951 TATTATATTA-TTTTTATTATA
1 TA-TAT-TTATTTTTTATT-TA
20972 TATATTT
1 TATATTT
20979 TATATCATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.10
20 22 0.52
21 16 0.38
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TATATTTATTTTTTATTTA
Found at i:20953 original size:38 final size:39
Alignment explanation
Indices: 20892--21003 Score: 103
Period size: 40 Copynumber: 2.9 Consensus size: 39
20882 ATTTCGTCCC
20892 TTATATATA-T-ATTTTTCATTATATT-TATT-TATTTA
1 TTATATATATTCATTTTTCATTATATTATATTATATTTA
* *
20927 TT-TACTATATTCATTTTTTATTTATATTATATTATTTTTA
1 TTATA-TATATTCATTTTTCA-TTATATTATATTATATTTA
*
20967 TTATATATATT--TTATATCATTATATATATATGTATAT
1 TTATATATATTCATT-TTTCATTATAT-TATAT-TATAT
21004 GTATAGATGT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
34 2 0.03
35 6 0.10
36 1 0.02
37 7 0.11
38 15 0.24
39 12 0.19
40 17 0.27
41 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (39 bp):
TTATATATATTCATTTTTCATTATATTATATTATATTTA
Found at i:20963 original size:14 final size:14
Alignment explanation
Indices: 20944--20995 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
20934 TATTCATTTT
20944 TTATTTATATTATA
1 TTATTTATATTATA
*
20958 TTATTTTTATTATA
1 TTATTTATATTATA
20972 TATATTT-TA-TATCA
1 T-TATTTATATTAT-A
*
20986 TTATATATAT
1 TTATTTATAT
20996 ATGTATATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 7 0.22
14 20 0.62
15 5 0.16
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:21317 original size:17 final size:17
Alignment explanation
Indices: 21273--21319 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
21263 TATGTACACA
21273 TTATTTTTATT-CCATTT
1 TTATTTTT-TTACCATTT
* *
21290 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACCATTT
21308 TTATTTTTTTAC
1 TTATTTTTTTAC
21320 TCCATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTTTTTACCATTT
Found at i:25187 original size:4 final size:4
Alignment explanation
Indices: 25180--25221 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
25170 ATACATCAAA
* *
25180 ACAT ACAT ACAT ACAT ATAG ACAT ACAT ACAT --AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
25222 GATACATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
4 30 0.94
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:25193 original size:20 final size:20
Alignment explanation
Indices: 25168--25212 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
25158 ATTGAGAAAA
25168 ACATACATCA-AAACATACAT
1 ACATACAT-ATAAACATACAT
*
25188 ACATACATATAGACATACAT
1 ACATACATATAAACATACAT
25208 ACATA
1 ACATA
25213 TACATACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.22
Consensus pattern (20 bp):
ACATACATATAAACATACAT
Found at i:25212 original size:16 final size:16
Alignment explanation
Indices: 25184--25214 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25174 ATCAAAACAT
25184 ACATACATACATATAG
1 ACATACATACATATAG
25200 ACATACATACATATA
1 ACATACATACATATA
25215 CATACATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (16 bp):
ACATACATACATATAG
Found at i:25556 original size:37 final size:37
Alignment explanation
Indices: 25515--25628 Score: 133
Period size: 37 Copynumber: 3.1 Consensus size: 37
25505 TTTGGGGGTG
* *
25515 TTTTTCTTGAAACAAATTTTTGTCTCGCTTGAGATAA
1 TTTTTCTTAAAACAAATTTTTGTCTCGCTTGAGACAA
* *
25552 TTTTTCTCAAAA-ACAATTTTTGTCTCGTTTGAGACAA
1 TTTTTCTTAAAACA-AATTTTTGTCTCGCTTGAGACAA
* * * *
25589 TTTCTCTAAAAACAAA-TGTTGTCTCACTTGAGACAA
1 TTTTTCTTAAAACAAATTTTTGTCTCGCTTGAGACAA
25625 TTTT
1 TTTT
25629 CCAAATTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
36 21 0.32
37 43 0.66
38 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTTTCTTAAAACAAATTTTTGTCTCGCTTGAGACAA
Found at i:25611 original size:36 final size:37
Alignment explanation
Indices: 25524--25627 Score: 138
Period size: 36 Copynumber: 2.8 Consensus size: 37
25514 GTTTTTCTTG
* *
25524 AAACAAATTTTTGTCTCGCTTGAGATAATTTTTCTCAA
1 AAACAAA-TTTTGTCTCGCTTGAGACAATTTCTCTCAA
* *
25562 AAACAATTTTTGTCTCGTTTGAGACAATTTCTCT-AA
1 AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCAA
* *
25598 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAATTTTGTCTCGCTTGAGACAATTT
25628 TCCAAATTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 28 0.48
37 24 0.41
38 6 0.10
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (37 bp):
AAACAAATTTTGTCTCGCTTGAGACAATTTCTCTCAA
Found at i:25689 original size:32 final size:32
Alignment explanation
Indices: 25653--25724 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
25643 TGTTTCACTG
* *
25653 GAAACAAACATCATCTTTGAGTC-GTTTCTTTT
1 GAAACAAA-AGCATCTTTGAGTCTATTTCTTTT
*
25685 GAAAC-AAAGGATCTTTGAGTCTATTTCTTTT
1 GAAACAAAAGCATCTTTGAGTCTATTTCTTTT
25716 GAAACAAAA
1 GAAACAAAA
25725 CTTTGTCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.34
31 15 0.43
32 8 0.23
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (32 bp):
GAAACAAAAGCATCTTTGAGTCTATTTCTTTT
Found at i:25701 original size:30 final size:31
Alignment explanation
Indices: 25665--25723 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
25655 AACAAACATC
*
25665 ATCTTTGAGTC-GTTTCTTTTGAAACAAAGG
1 ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
25695 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAA
25724 ACTTTGTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAAGG
Found at i:25922 original size:63 final size:63
Alignment explanation
Indices: 25795--25919 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 63
25785 AAATGAAAAA
* * *
25795 AATCTTTGAGTATGTTTCTTTGATAATAAATTTTTTCTCTTTTGAGAAAGTTTCTTTTGAAAG
1 AATCTTTGAGTATGTTTCTTTGATAAAAAATTTTGTCTCTTTTGAGAAAGTTCCTTTTGAAAG
* *
25858 AATCTTTGAGTATGTTTCTTTGGA-AACAAAATTTTGTCTCTTTTTAGACAGTTCCTTTTGAA
1 AATCTTTGAGTATGTTTCTTT-GATAA-AAAATTTTGTCTCTTTTGAGAAAGTTCCTTTTGAA
25920 GAAAAAACTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 23 0.42
64 32 0.58
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.49
Consensus pattern (63 bp):
AATCTTTGAGTATGTTTCTTTGATAAAAAATTTTGTCTCTTTTGAGAAAGTTCCTTTTGAAAG
Found at i:25960 original size:66 final size:64
Alignment explanation
Indices: 25788--25973 Score: 178
Period size: 66 Copynumber: 2.9 Consensus size: 64
25778 TAAAACAAAA
* * * * * *
25788 TGAAAAAAATCTTTGAGTATGTTTCTTTGATAA-TAAATTTTTTCTCTTTTGAGAAAGTTTCTTT
1 TGAAAAAAA-CTTTAAGTATGTTTCTTTGAAAACAAAAGTTTGTCTCTTTTGAGAAAGTTCCTTT
* * * * * * *
25852 TGAAAGAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTTTTTAGACAGTTCCTTT
1 TGAAAAAAACTTTAAGTATGTTTCTTTGAAAACAAAAGTTTGTCTCTTTTGAGAAAGTTCCTTT
* * *
25916 TGAAGAAAAAACTTTAAGTCTGTTT-TTATGAAAACAAAGGTTTGTCTCTTTTAAGAAA
1 TG-A-AAAAAACTTTAAGTATGTTTCTT-TGAAAACAAAAGTTTGTCTCTTTTGAGAAA
25974 ATTTCTCTTA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
63 21 0.21
64 35 0.35
65 3 0.03
66 41 0.41
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (64 bp):
TGAAAAAAACTTTAAGTATGTTTCTTTGAAAACAAAAGTTTGTCTCTTTTGAGAAAGTTCCTTT
Found at i:26086 original size:30 final size:29
Alignment explanation
Indices: 26020--26100 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 29
26010 AAAACCTATT
26020 TTTGAGTTTGTTTCTCTTT-AAATAAAAGTC
1 TTTGAG-TTGTTTCT-TTTGAAATAAAAGTC
* *
26050 TGTGAGTTGTTTCTTTTGAAATAAAAATTC
1 TTTGAGTTGTTTCTTTTGAAAT-AAAAGTC
26080 TTTGAGTCTGTTTCTTTTGAA
1 TTTGAGT-TGTTTCTTTTGAA
26101 CCAAAGTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.07
29 12 0.27
30 17 0.38
31 13 0.29
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.51
Consensus pattern (29 bp):
TTTGAGTTGTTTCTTTTGAAATAAAAGTC
Found at i:26235 original size:94 final size:94
Alignment explanation
Indices: 26059--26243 Score: 257
Period size: 94 Copynumber: 2.0 Consensus size: 94
26049 CTGTGAGTTG
* * *
26059 TTTCTTTTGAAATAAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGTTTTGTTTCTCTTAAGA
1 TTTCTTTTGAAACAAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGA
26124 CAATTTCGTGAAAAAAAAATCTTTGAGACA
66 CAATTTCGTG-AAAAAAAATCTTTGAGACA
* * *
26154 TTTCTTTTGAAACCAAAA-TCTTTGAGTTTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGA
1 TTTCTTTTGAAACAAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGA
* * *
26218 CAGTTTTCTTG-AGAAAAATCTTTGAG
66 CA-ATTTCGTGAAAAAAAATCTTTGAG
26244 TCTGTTCCTT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 14 0.17
94 44 0.55
95 22 0.28
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (94 bp):
TTTCTTTTGAAACAAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGA
CAATTTCGTGAAAAAAAATCTTTGAGACA
Found at i:26255 original size:94 final size:94
Alignment explanation
Indices: 26043--26259 Score: 253
Period size: 94 Copynumber: 2.3 Consensus size: 94
26033 CTCTTTAAAT
* * * *
26043 AAAAGTCTGTGAGT-TGTTTCTTTTGAAATAAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAG
1 AAAAATCTTTGAGTCTG-TTCTTTTGAAACAAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAG
*
26107 TTTTGTTTCTCTTAAGACAATTTCGTGAAAA
65 TTTTGTCTCTCTTAAGACAATTTCGTG-AAA
* * *
26138 AAAAATCTTTGAGACAT-TTCTTTTGAAACCAAAA-TCTTTGAGTTTGTTTCTTTTGAAACAAAG
1 AAAAATCTTTGAGTC-TGTTCTTTTGAAACAAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAG
* * * *
26201 TTTTGTCTCTCTTGAGACAGTTTTCTTG-AG
65 TTTTGTCTCTCTTAAGACA-ATTTCGTGAAA
26231 AAAAATCTTTGAGTCTGTTCCTTTTGAAA
1 AAAAATCTTTGAGTCTGTT-CTTTTGAAA
26260 AATCTTTGAG
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
92 1 0.01
93 17 0.16
94 53 0.51
95 32 0.31
97 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (94 bp):
AAAAATCTTTGAGTCTGTTCTTTTGAAACAAAAATTCTTTGAGTCTGTTTCTTTTGAAACAAAGT
TTTGTCTCTCTTAAGACAATTTCGTGAAA
Found at i:26732 original size:133 final size:132
Alignment explanation
Indices: 26483--26979 Score: 629
Period size: 133 Copynumber: 3.7 Consensus size: 132
26473 AATCATTATC
* * * * * * *
26483 CCTAAAGATGGCTAGAACTCTTCATCATGTATGAGCCGTGTCATCTCCTGACCAGGTCTCTTAAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATC-CCCGACCAGATCTCCTCAT
* * * * * *
26548 CACGTAGGAGCCATGTCACCCCTAGATAACCAGACGTCCTCATCACATAGGAACCGTGTTATCGC
65 CACGTAGGAGTCGTGTCACCCCTAGATAACCAG-CGTCCTCATCGCGTAGGAACCGAGTTATCAC
26613 CCTT
129 CCTT
* *
26617 CCTAAAGATGGCCATAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCCTCGTC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCCTCATC
* * *
26682 GCGTAGGAGTCGTGTCAACCATAGATAACCAGCTGTCCTCATCGCGTAGGAACCGAGTTATCACC
66 ACGTAGGAGTCGTGTCACCCCTAGATAACCAGC-GTCCTCATCGCGTAGGAACCGAGTTATCACC
*
26747 ATT
130 CTT
* * *
26750 CCTAAAGATGACCAGAACTCTTCATCACATATGAGTCGTGTCATCCCCGACCAGATCTCTTCATC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCCTCATC
*
26815 ACGTATGAG-CTGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
66 ACGTAGGAGTC-GTGTCACCCCTAGATAACCAG-CGTCCTCATCGCGTAGGAACCGAGTTATCAC
*
26879 GCTT
129 CCTT
* * *
26883 ACTAAAGATGGCCAAGAACTCTTTATCACGTATGAG-CAGTGTCATCCCTCGACCAGATTTCCTC
1 CCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGTC-GTGTCATCCC-CGACCAGATCTCCTC
* * * *
26947 ATCACGTAGGAATTGTGTCACCCTTAGACAACC
63 ATCACGTAGGAGTCGTGTCACCCCTAGATAACC
26980 CGAACTCTTC
Statistics
Matches: 315, Mismatches: 41, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
132 2 0.01
133 201 0.64
134 72 0.23
135 40 0.13
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (132 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCCTCATC
ACGTAGGAGTCGTGTCACCCCTAGATAACCAGCGTCCTCATCGCGTAGGAACCGAGTTATCACCC
TT
Found at i:26813 original size:39 final size:38
Alignment explanation
Indices: 26759--26835 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
26749 TCCTAAAGAT
26759 GACCAGAACTCTTCATCACATATGAG-TCGTGTCATCCCC
1 GACCAGAACTCTTCATCACATATGAGCT-GTGTCA-CCCC
* *
26798 GACCAGATCTCTTCATCACGTATGAGCTGTGTCACCCC
1 GACCAGAACTCTTCATCACATATGAGCTGTGTCACCCC
26836 TAGATAACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 4 0.11
39 30 0.86
40 1 0.03
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (38 bp):
GACCAGAACTCTTCATCACATATGAGCTGTGTCACCCC
Found at i:27184 original size:3 final size:3
Alignment explanation
Indices: 27176--27254 Score: 115
Period size: 3 Copynumber: 26.0 Consensus size: 3
27166 TAATTTAATT
*
27176 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
27222 TTA TATA TTA GTA TTA TTA TTA TTA TT- TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27255 ATACATTTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
2 2 0.03
3 61 0.88
4 6 0.09
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:27217 original size:19 final size:18
Alignment explanation
Indices: 27177--27248 Score: 117
Period size: 19 Copynumber: 3.9 Consensus size: 18
27167 AATTTAATTT
*
27177 TATTATTATTATTATTAT
1 TATTATTATTATTATTAG
27195 TATTATTATTATATATTAG
1 TATTATTATTAT-TATTAG
27214 TATTATTATTATATATTAG
1 TATTATTATTAT-TATTAG
27233 TATTATTATTATTATT
1 TATTATTATTATTATT
27249 TTATTAATAC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
18 16 0.31
19 36 0.69
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTATTATTATTATTAG
Found at i:30956 original size:19 final size:19
Alignment explanation
Indices: 30932--30970 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30922 AAATAGTGGG
30932 AGTAAAGTGGAACCAAAAC
1 AGTAAAGTGGAACCAAAAC
30951 AGTAAAGTGGAACCAAAAC
1 AGTAAAGTGGAACCAAAAC
30970 A
1 A
30971 TACCCATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (19 bp):
AGTAAAGTGGAACCAAAAC
Found at i:35113 original size:78 final size:78
Alignment explanation
Indices: 34956--35119 Score: 179
Period size: 78 Copynumber: 2.1 Consensus size: 78
34946 AGTGCTGCCA
* *
34956 TCTTTTCTTGCAATGCCTGTGCAAGGGCATCTGAGGCATCACCTTTAGTCTCACCAGTATTTACA
1 TCTTTTCTTACAATGCCTGTGCAAGGGCATCTGAGGCATAACCTTTAGTCTCACCAGTATTTACA
* **
35021 TCCAGCATGCCCC
66 TACAGCAAACCCC
* * * * *
35034 TCTTTTCTTACAATGCCTTTGCAAGGGCTTCTGAGGCATTAAGC-TTAGTCTCAGCGGTATTTGA
1 TCTTTTCTTACAATGCCTGTGCAAGGGCATCTGAGGCA-TAACCTTTAGTCTCACCAGTATTT-A
*
35098 -ATAGAGCAAATCCCTC
64 CATACAGCAAA-CCC-C
35114 TCTTTT
1 TCTTTT
35120 ACCTCATCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 57 0.80
79 7 0.10
80 7 0.10
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (78 bp):
TCTTTTCTTACAATGCCTGTGCAAGGGCATCTGAGGCATAACCTTTAGTCTCACCAGTATTTACA
TACAGCAAACCCC
Found at i:41090 original size:14 final size:14
Alignment explanation
Indices: 41071--41112 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
41061 TTTAGATTTT
*
41071 TTAAAATTACATTA
1 TTAAAAATACATTA
*
41085 TTAAAAATATATTA
1 TTAAAAATACATTA
41099 --AAAAATACATTA
1 TTAAAAATACATTA
41111 TT
1 TT
41113 GATAATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:41468 original size:25 final size:26
Alignment explanation
Indices: 41440--41488 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
41430 AAAAATTATT
41440 TATCTAATGA-AAAATATTTAATATA
1 TATCTAATGATAAAATATTTAATATA
* *
41465 TATCTAATGATAATATTTTTAATA
1 TATCTAATGATAAAATATTTAATA
41489 ACTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (26 bp):
TATCTAATGATAAAATATTTAATATA
Found at i:41629 original size:5 final size:5
Alignment explanation
Indices: 41615--41652 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
41605 TTTATTTGAC
* *
41615 AATA- AATAT AATAT AATAT AATAT AATAA AATAA AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
41653 AAAATATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (5 bp):
AATAT
Found at i:41961 original size:5 final size:5
Alignment explanation
Indices: 41953--41988 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
41943 GAGAAGACTC
*
41953 AGAAG AGAAG AGAAG AGAAG GGAAG AGAAG AGAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
41989 TGAGCAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:45205 original size:36 final size:37
Alignment explanation
Indices: 45164--45242 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
45154 AACTATCAAG
*
45164 ATATTTGTCATC-TTGTATAAATTTGGATATGTTGTC
1 ATATTTGTCATCTTTGTATAAATTTAGATATGTTGTC
* *
45200 ATATTTGTCATCTTTTTATAAATTTAGATGTGTTGTC
1 ATATTTGTCATCTTTGTATAAATTTAGATATGTTGTC
45237 ATATTT
1 ATATTT
45243 TGTAAACTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 12 0.31
37 27 0.69
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (37 bp):
ATATTTGTCATCTTTGTATAAATTTAGATATGTTGTC
Found at i:47217 original size:61 final size:60
Alignment explanation
Indices: 47131--47274 Score: 152
Period size: 60 Copynumber: 2.4 Consensus size: 60
47121 TGAGGTGACG
* * *
47131 AAAGGCGCAT-CCCGGGAATGCGCTTTA-C-TTAGTTTTATGCTGAGTTGGATGCCACGTGTA
1 AAAGGCGCATCCCCGGAAACGCGCTTTACCTTTA--TTT-TGCTGAGTTAGATGCCACGTGTA
* * * *
47191 AAAGGCGTATCCCCGGAAACGCGCTTTACCTTTATTTTGCTGATTTAGTTGCCACGTGTG
1 AAAGGCGCATCCCCGGAAACGCGCTTTACCTTTATTTTGCTGAGTTAGATGCCACGTGTA
*
47251 AAAGGTGCATCCCC-GAAGACGCGC
1 AAAGGCGCATCCCCGGAA-ACGCGC
47275 CTTTCATTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
59 3 0.04
60 46 0.65
61 18 0.25
62 1 0.01
63 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (60 bp):
AAAGGCGCATCCCCGGAAACGCGCTTTACCTTTATTTTGCTGAGTTAGATGCCACGTGTA
Found at i:49995 original size:25 final size:23
Alignment explanation
Indices: 49967--50031 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 23
49957 ATCTATAAAA
49967 ATATTTTATTATATTA-TATATAT
1 ATATTTTATTATATTATTA-ATAT
49990 ATATATTTATTATTATTATTAATAT
1 ATAT-TTTATTA-TATTATTAATAT
*
50015 AT-TTTTATTTTATTATT
1 ATATTTTATTATATTATT
50032 TTTGCAGCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 7 0.18
23 10 0.26
24 8 0.21
25 11 0.29
26 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
ATATTTTATTATATTATTAATAT
Found at i:50014 original size:19 final size:21
Alignment explanation
Indices: 49973--50030 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
49963 AAAAATATTT
49973 TATTA-TATTA-TATATATATA
1 TATTATTATTATTAT-TATATA
49993 TATTTATTATTATTATTA-ATA
1 TA-TTATTATTATTATTATATA
*
50014 TATTTTTATT-TTATTAT
1 TATTATTATTATTATTAT
50031 TTTTGCAGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 6 0.18
20 9 0.27
21 8 0.24
22 7 0.21
23 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTATTATTATTATTATATA
Found at i:50148 original size:32 final size:33
Alignment explanation
Indices: 50081--50150 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
50071 TTCAAAAAAT
* * * *
50081 AAACCAACGTATTTGAGTCCTATTGAAACATTA
1 AAACCAACATATTTGAATCATATTGAAACACTA
*
50114 AAACTAACATATTTGAATCATATT-AAACACTA
1 AAACCAACATATTTGAATCATATTGAAACACTA
50146 AAACC
1 AAACC
50151 GAAACATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.29
Consensus pattern (33 bp):
AAACCAACATATTTGAATCATATTGAAACACTA
Found at i:50350 original size:25 final size:26
Alignment explanation
Indices: 50287--50353 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
50277 TTTTTATTTC
* *
50287 ATTTTTTATTTATTTACTTTATATAT
1 ATTTTTTATTTCTTTAATTTATATAT
*
50313 AATTTTTATTTTCTCTTAATTT-TA-AT
1 ATTTTTTA-TTTCT-TTAATTTATATAT
50339 ATTTTTTATTTCTTT
1 ATTTTTTATTTCTTT
50354 TTACATTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 2 0.06
25 5 0.14
26 16 0.46
27 6 0.17
28 6 0.17
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (26 bp):
ATTTTTTATTTCTTTAATTTATATAT
Found at i:52338 original size:64 final size:64
Alignment explanation
Indices: 52264--52437 Score: 194
Period size: 64 Copynumber: 2.7 Consensus size: 64
52254 TTGTTTGAAT
* * ** *
52264 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCAAATGCAA-T
52327 C-
63 CG
* * *
52328 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCAAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCAAATGCAATCG
**
52392 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAAAAATAATA
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATA
52438 CTACATCGAA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
63 2 0.02
64 86 0.92
65 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCAAATGCAATCG
Found at i:52814 original size:12 final size:12
Alignment explanation
Indices: 52796--52831 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
52786 TATATATGTT
52796 CATGTGATATGA
1 CATGTGATATGA
*
52808 TATGTGATATGA
1 CATGTGATATGA
52820 CATGTGATATGA
1 CATGTGATATGA
52832 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:52882 original size:29 final size:29
Alignment explanation
Indices: 52847--52920 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
52837 TGATATGAAG
52847 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
52876 TGACATGAGCTACATAATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
52905 GGACATGAG-TACATGA
1 TGACATGAGCTACATGA
52921 ACATATGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 6 0.14
29 36 0.86
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.18
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:53168 original size:22 final size:22
Alignment explanation
Indices: 53140--53195 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
53130 GGATGTAGGG
53140 GTCCTACGGGACATATATAATA
1 GTCCTACGGGACATATATAATA
53162 GTCCTACGGGACATATATAATA
1 GTCCTACGGGACATATATAATA
53184 GTCCTACGGGAC
1 GTCCTACGGGAC
53196 GAATACTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (22 bp):
GTCCTACGGGACATATATAATA
Found at i:53974 original size:37 final size:36
Alignment explanation
Indices: 53921--53994 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
53911 CATTAAACCT
*
53921 TTTTATATTTTAAATTTTGTAAA-AAAATTATATAAA
1 TTTTATAATTTAAATTTTGTAAAGAAAA-TATATAAA
*
53957 TTTTATGAATTTAAATTTTTTAAAGAAAATATATAAA
1 TTTTAT-AATTTAAATTTTGTAAAGAAAATATATAAA
53994 T
1 T
53995 ATTTTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 6 0.18
37 24 0.71
38 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (36 bp):
TTTTATAATTTAAATTTTGTAAAGAAAATATATAAA
Found at i:59237 original size:2 final size:2
Alignment explanation
Indices: 59230--59259 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59220 TAAAATTTTA
59230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59260 TTTAAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60611 original size:9 final size:9
Alignment explanation
Indices: 60594--60662 Score: 75
Period size: 9 Copynumber: 7.3 Consensus size: 9
60584 CTGCTGGAAA
60594 ACCGGTTTG
1 ACCGGTTTG
*
60603 ACCGTTTTG
1 ACCGGTTTG
60612 AACCGGTTTG
1 -ACCGGTTTG
*
60622 ACCGGTCTG
1 ACCGGTTTG
60631 AACCGGTTTG
1 -ACCGGTTTG
*
60641 ACCGGTCTG
1 ACCGGTTTG
*
60650 AACCGGGTTG
1 -ACCGGTTTG
60660 ACC
1 ACC
60663 CGACCCGACC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 27 0.54
10 23 0.46
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:60617 original size:19 final size:19
Alignment explanation
Indices: 60593--60662 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
60583 GCTGCTGGAA
* *
60593 AACCGGTTTGACCGTTTTG
1 AACCGGTTTGACCGGTCTG
60612 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
60631 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
60650 AACCGGGTTGACC
1 AACCGGTTTGACC
60663 CGACCCGACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:60678 original size:17 final size:17
Alignment explanation
Indices: 60656--60696 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
60646 TCTGAACCGG
60656 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
60673 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
60690 GTTGACC
1 GTTGACC
60697 GTTGACCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:61617 original size:31 final size:32
Alignment explanation
Indices: 61570--61650 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
61560 TGTGACTCTT
* * *
61570 AGGTAGGCTCTGCGGCCCTGAGAT-TATTCTC
1 AGGTAGGCCCTACGGCCCTAAGATGTATTCTC
* * *
61601 GGGTAGGCCCTACGGCCCTAAGATGTGTTCTT
1 AGGTAGGCCCTACGGCCCTAAGATGTATTCTC
*
61633 AGGTAGGCCCCACGGCCC
1 AGGTAGGCCCTACGGCCC
61651 CGTAATCTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 20 0.49
32 21 0.51
ACGTcount: A:0.16, C:0.30, G:0.31, T:0.23
Consensus pattern (32 bp):
AGGTAGGCCCTACGGCCCTAAGATGTATTCTC
Found at i:61640 original size:32 final size:31
Alignment explanation
Indices: 61566--61650 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
61556 CTAATGTGAC
* * *
61566 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATTAT
** *
61597 TCTCGGGTAGGCCCTACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-TAT
*
61629 TCTTAGGTAGGCCCCACGGCCC
1 TCTTAGGTAGGCCCTACGGCCC
61651 CGTAATCTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 23 0.52
32 21 0.48
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.26
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATTAT
Found at i:65154 original size:29 final size:29
Alignment explanation
Indices: 65055--65424 Score: 166
Period size: 30 Copynumber: 12.6 Consensus size: 29
65045 TTAATTTTAC
*
65055 ATCTTAACATTAAAAATGTA--TTATTTTT
1 ATCTTAAC-TTAAAAATATATTTTATTTTT
* * * *
65083 ATATTAACTTATTAAATATATCTTATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTTTT
* * * *
65113 GTCTCAACCTAAAAAAATATTTTATTTTT
1 ATCTTAACTTAAAAATATATTTTATTTTT
* * *
65142 ATTTTAACTTAAAAATATA-TTAAGTCTTT
1 ATCTTAACTTAAAAATATATTTTA-TTTTT
* *
65171 ATCTTAGCTTAAAAATATATTTTATTCTT
1 ATCTTAACTTAAAAATATATTTTATTTTT
* ** * * *
65200 ATCTTAAATTGTTACATAAATTATA-TTTT
1 ATCTTAACTT-AAAAATATATTTTATTTTT
* * * * **
65229 AACTTAA-ATAATTAAACATATTTCATTCCT
1 ATCTTAACTTAA--AAATATATTTTATTTTT
* * * * * *
65259 ACCTTAAATTATTAAATATAATTAATTATT
1 ATCTTAACTTA-AAAATATATTTTATTTTT
* * *
65289 ATTTTAACTTAAAACATATCTTTTATTCTT
1 ATCTTAACTTAAAA-ATATATTTTATTTTT
*
65319 ATCTTAACTTAAGAATATATTTT-TATTTT
1 ATCTTAACTTAAAAATATATTTTAT-TTTT
* * *
65348 AAC-T-ACATTAATATATTTTATTTTA-TTTT
1 ATCTTAAC-TTAA-A-AATATATTTTATTTTT
* *
65377 ATCTTAAC-TACAAAAAATATATTATATTTT
1 ATCTTAACTTA-AAAATATATTTTAT-TTTT
*
65407 ATCTTAAATTAAAAATAT
1 ATCTTAACTTAAAAATAT
65425 TATCAAAATA
Statistics
Matches: 245, Mismatches: 74, Indels: 44
0.67 0.20 0.12
Matches are distributed among these distances:
27 5 0.02
28 30 0.12
29 100 0.41
30 104 0.42
31 6 0.02
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (29 bp):
ATCTTAACTTAAAAATATATTTTATTTTT
Found at i:65384 original size:34 final size:35
Alignment explanation
Indices: 65339--65408 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
65329 AAGAATATAT
* ** *
65339 TTTTATTTTAACTAC-ATTAATATATTTTATTTTA
1 TTTTATCTTAACTACAAAAAATATATTATATTTTA
65373 TTTTATCTTAACTACAAAAAATATATTATATTTTA
1 TTTTATCTTAACTACAAAAAATATATTATATTTTA
65408 T
1 T
65409 CTTAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 14 0.45
35 17 0.55
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (35 bp):
TTTTATCTTAACTACAAAAAATATATTATATTTTA
Found at i:65520 original size:29 final size:29
Alignment explanation
Indices: 65431--65564 Score: 117
Period size: 29 Copynumber: 4.5 Consensus size: 29
65421 ATATTATCAA
* * *
65431 AATAAAATATAAATATTTAAGTTAAGATAAG
1 AATAAAATAT--ATTTTTAAATTAAAATAAG
* * **
65462 AATTAATTATATTTTTTAAATTTAGGATAAG
1 AATAAAATATA-TTTTTAAA-TTAAAATAAG
*
65493 ATTAAAATATATTTTTAAATTAAAATAAG
1 AATAAAATATATTTTTAAATTAAAATAAG
* **
65522 AATAAAATATACTTTTAGGTTACAAA-AAG
1 AATAAAATATATTTTTAAATTA-AAATAAG
65551 AATAAAATATATTT
1 AATAAAATATATTT
65565 AATAAGTTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
29 43 0.51
30 17 0.20
31 25 0.29
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.39
Consensus pattern (29 bp):
AATAAAATATATTTTTAAATTAAAATAAG
Found at i:67753 original size:34 final size:33
Alignment explanation
Indices: 67705--67770 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
67695 TGAATAATAT
*
67705 TTTATTATAAAATATATTTTC-ATTAAT-TAAAA
1 TTTATTATAAAATAT-TTATCAATTAATCTAAAA
67737 TTTATATATAAAAATATTTATCAATTAATCTAAA
1 TTTAT-TAT-AAAATATTTATCAATTAATCTAAA
67771 TACATAAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 5 0.17
33 7 0.24
34 13 0.45
35 4 0.14
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (33 bp):
TTTATTATAAAATATTTATCAATTAATCTAAAA
Found at i:69283 original size:2 final size:2
Alignment explanation
Indices: 69274--69331 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
69264 TCGTATACAA
69274 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69315 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
69332 CATACATGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70897 original size:2 final size:2
Alignment explanation
Indices: 70890--70915 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
70880 TCAATAATTA
70890 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
70916 TTGTTGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84478 original size:59 final size:60
Alignment explanation
Indices: 84355--84478 Score: 137
Period size: 59 Copynumber: 2.1 Consensus size: 60
84345 CAAAGAAGGA
* * ** *
84355 AAAAATATAAAAATGTTAAAAGAAGAAAAACAAAACAAAAGAAAAATGTAAATTTCAGAG
1 AAAAATATAAAAATGTTAAAAGAAGAAAAACAAAACAAAAGAAAAATGGAAAATAAAAAG
* * *
84415 AAAAATATAAAAA-GTTAAAAG-AGAAAATATAAAACAAAA-AAAAGTGGGAAAATAAAAAT
1 AAAAATATAAAAATGTTAAAAGAAGAAAA-ACAAAACAAAAGAAAAAT-GGAAAATAAAAAG
84474 AAAAA
1 AAAAA
84479 GGTTAAATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 11 0.20
59 30 0.56
60 13 0.24
ACGTcount: A:0.70, C:0.03, G:0.11, T:0.15
Consensus pattern (60 bp):
AAAAATATAAAAATGTTAAAAGAAGAAAAACAAAACAAAAGAAAAATGGAAAATAAAAAG
Found at i:85591 original size:24 final size:23
Alignment explanation
Indices: 85546--85591 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
85536 TAAACACATG
**
85546 AATATAATTAAATTATGCTATAT
1 AATATAATTAAATTATAATATAT
85569 AATATAATTAAAATTATAATATA
1 AATATAATT-AAATTATAATATA
85592 ATTTGTGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AATATAATTAAATTATAATATAT
Found at i:86500 original size:243 final size:246
Alignment explanation
Indices: 86162--86851 Score: 1126
Period size: 248 Copynumber: 2.8 Consensus size: 246
86152 GTAAATGATG
* *
86162 TGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTGAC-AT-ACCC-TCATAGCCTTGA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAATAACCCTTC-TAGACTTGA
** *
86223 GTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATA
65 GTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATA
*
86288 GCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTAAGCGTAGTCGAACTCAAA
130 GCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTAAGCGTAGTCGAACTCAAA
*
86353 GGT-TTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC-AA-ATA
195 GGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGATGCAAAGATA
86402 TGCC-TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGACTTGA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGAC-AATAACCCTTCTAGACTTGA
* *
86466 GTTATGTTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTAGATA
65 GTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATA
*
86531 GCTATTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTAAGCGTAGTCGAACTCAAA
130 GCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTAAGCGTAGTCGAACTCAAA
86596 GGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGATGCAAATGATA
195 GGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGATGCAAA-GATA
* *
86649 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAGATAAACCTTCTAGACTTGA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACA-ATAACCCTTCTAGACTTGA
*
86714 GTTATGCTGTGAATGATATTCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATA
65 GTTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATA
* * * * *
86779 GCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGTTGAGCGTAGTCGAACTCGAA
130 GCTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTAAGCGTAGTCGAACTCAAA
86844 GGTCTTTT
195 GGTCTTTT
86852 CACAGATACC
Statistics
Matches: 418, Mismatches: 21, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
239 29 0.07
240 12 0.03
242 2 0.00
243 138 0.33
244 42 0.10
245 2 0.00
247 8 0.02
248 185 0.44
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (246 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAATAACCCTTCTAGACTTGAG
TTATGCTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAG
CTCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTAAGCGTAGTCGAACTCAAAG
GTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGATGCAAAGATA
Found at i:86663 original size:164 final size:159
Alignment explanation
Indices: 86375--86694 Score: 390
Period size: 164 Copynumber: 2.0 Consensus size: 159
86365 CAGACAACCC
* * * *
86375 TTCTAGACTTAAGTTGTGCTGCAAATATGCCTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
1 TTCTAGACTTAAGCTATGCTGCAAATATGCCTGGAGCTAAGCGTAGTCGAACTCAAAGGTCTTTG
* * * ** *
86440 GTGACAAATAACCCTTCTAGACTTGAGTTATGTTGTGAATGATATGCCCTCGAAGCTGAGTGTAA
66 GTGACAAACAACCCTTCTAGACTTAAGTTATGATGCAAATGATATGCCCTCGAAGCTGAGCGTAA
**
86505 TCGAACTCGGGGGTCTTTGGTAGATAGCTA
131 TCGAACTCGAAGGTCTTTGGT-GATAGCTA
* *
86535 TTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTAAGCGTAGTCGAACTCAAAGGTC
1 TTCTAGACTTAAGCTATGCTGCAAAT-A--TGCC-TGGAGCTAAGCGTAGTCGAACTCAAAGGTC
* * * * * *
86600 TTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGATGCAAATGATATG-CCTTGGAGCTGAG
62 -TTTGGTGACAAACAACCCTTCTAGACTTAAGTTATGATGCAAATGATATGCCCTCGAAGCTGAG
*
86664 CGTAGTCGAACTCGAAGGTCTTTGGTGATAG
126 CGTAATCGAACTCGAAGGTCTTTGGTGATAG
86695 ATAAACCTTC
Statistics
Matches: 134, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
160 23 0.17
161 1 0.01
163 9 0.07
164 60 0.45
165 41 0.31
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (159 bp):
TTCTAGACTTAAGCTATGCTGCAAATATGCCTGGAGCTAAGCGTAGTCGAACTCAAAGGTCTTTG
GTGACAAACAACCCTTCTAGACTTAAGTTATGATGCAAATGATATGCCCTCGAAGCTGAGCGTAA
TCGAACTCGAAGGTCTTTGGTGATAGCTA
Found at i:86775 original size:164 final size:163
Alignment explanation
Indices: 86144--87132 Score: 1042
Period size: 161 Copynumber: 6.1 Consensus size: 163
86134 CTTGCTTTGG
* *
86144 GCTATGTTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTGAC--A
1 GCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGA
* * *
86206 T-ACCCTCATAGCCTTGAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
66 TAACCTTC-TAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
*
86270 GAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAA
130 GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
* * * * * * *
86304 GCTATGCTGCAAATGATGTGTCGTTGAGCTAAGCGTAGTCGAACTCAAAGGTTTTTGTTGGCAGA
1 GCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGA
* * * * * * *
86369 CAACCCTTCTAGACTTAAGTTGTGCTG-CAA--ATATG-CCT-GGAGCTGAGCGTAGTCGAACTC
66 TAA-CCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
* * * * *
86429 GAAGGTCTTTGGTGACAAATAACCCTTCTAGACTTGA
130 GAGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAA
* * ** * * * * * **
86466 GTTATGTTGTGAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGT---AG
1 GCTATGCTGCAAATGATGTGCCTTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAG
* * * * * * * * * * * *
86528 ATAGCTATTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTAAGCGTAGTCGAACT
65 ATAAC-CTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* * * * *
86592 CAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAA
129 CGAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAA
* * * * * *
86631 GTTGTGATGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAGA
1 GCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGA
* *
86696 TAAACCTTCTAGACTTGAGTTATGCTGTGAATGATATTCCCTCGAAGCTGAGTGTAATCGAACTC
66 T-AACCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
*
86761 GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
130 GAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
* *
86795 GCTATGCTGCAAATGATGTGCCTTTGAGTTGAGCGTAGTCGAACTCGAAGGTCTTT--TCACAGA
1 GCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGA
* * *
86858 TACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
66 TAACCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
* *
86923 GGGGTCTTTGGCAGATAGCCCTTCTCGAATTAA
131 AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
*
86956 GCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAG
1 GCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAG
* * *
87021 ATAACCCTTCTAGCCTTGAGTTAT-ATGT-AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
65 ATAA-CCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* *
87084 CGGGGGACTTT-GCAGATAGCCCTTCTCGACTTAA
129 CGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
87118 GCTATGCTTGCAAAT
1 GCTATGC-TGCAAAT
87133 AGTTTGTTTA
Statistics
Matches: 697, Mismatches: 103, Indels: 55
0.82 0.12 0.06
Matches are distributed among these distances:
159 29 0.04
160 72 0.10
161 157 0.23
162 73 0.10
163 84 0.12
164 157 0.23
165 64 0.09
166 1 0.00
167 35 0.05
168 25 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (163 bp):
GCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGA
TAACCTTCTAGACTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCG
AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
Done.