Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006439.1 Hibiscus syriacus cultivar Beakdansim tig00015555_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: 467271
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1100 original size:263 final size:262
Alignment explanation
Indices: 591--1286 Score: 783
Period size: 263 Copynumber: 2.7 Consensus size: 262
581 GCAAATCAAA
*
591 CTCGATTCAATCTTCCCTG-AGAACAGTGGAATGAATCAACATTTCC--ATATCTAATTTTCCCT
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACA-TTCCTTATATCTGATTTTCCCT
* * *
653 CAAGAAAGCAGCATAACAGATCACTCTTTTTTCAGATTTGATCTTCCCTGAGGAACAGTGGAACA
65 CAAG-AAGCAGCAGAACAAATC-C-CTTTTTTCAGATTTGATCTTCCCTGAGTAACAGTGGAACA
* * * *
718 AGTCTGCCTCGATTCAATCTTCCTTGGAGAA-GTGGAATGAATCAATGTCCCCATATGATTTTCA
127 AGTCTGCCTCGATTCAATCTTCCCTGAAGAACATGGAATGAATCAACGTCCCCATATGATTTTCA
* * * * *
782 TTCAATAATAAACAACATATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTAGAACAA
192 CTCAAGAATAAACAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATAGAACAA
847 GTCTGC
257 GTCTGC
* * *
853 CTCGATTCAATATTCCCTGAAGAATAGT-GAATGAATC-A-ATTCCTTAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCTTATATCTGATTTTCCCTC
** ** * * *
915 AAGAATTAGCAGAACAAATCCCTATCCTTCAAGATTTGATCTTCCTTGAGTAATAATGGAACAAG
66 AAGAAGCAGCAGAACAAATCCCT-TTTTTC-AGATTTGATCTTCCCTGAGTAACAGTGGAACAAG
* *
980 -ATGCCTCGATTCAATCTTCCCTGAAGAACTATGGAATGAATCAACGTCCCCAGATCTGA-TTTC
129 TCTGCCTCGATTCAATCTTCCCTGAAGAAC-ATGGAATGAATCAACGTCCCC--ATATGATTTTC
* * * *
1043 CCT-AGGAATAAGCGTAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATGGAA
191 ACTCAAGAATAAAC--AACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATAGAA
* *
1107 TAAGTCTTC
254 CAAGTCTGC
* * * * *
1116 CTCAATTCAATCTTCTCT-AAGAACGGTGGAACGAATCAACATT--TTCATATATGATTTTCCCT
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCTT-ATATCTGATTTTCCCT
* * *
1178 C-AGAAGCAGTAGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTGAGTAACAGTGGAAGAA
65 CAAGAAGCAGCAGAACAAATCCCT-TTTTT-CAGATTTGATCTTCCCTGAGTAACAGTGGAACAA
* *
1242 GTCTGCCTCGATTC-ATCATCCCTGAAGAACAGTGGAATGAGTCAA
128 GTCTGCCTCGATTCAATCTTCCCTGAAGAACA-TGGAATGAATCAA
1287 ACTTTTCTCG
Statistics
Matches: 363, Mismatches: 53, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
258 2 0.01
259 34 0.09
260 44 0.12
261 45 0.12
262 40 0.11
263 167 0.46
264 28 0.08
265 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (262 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTCCTTATATCTGATTTTCCCTC
AAGAAGCAGCAGAACAAATCCCTTTTTTCAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGTC
TGCCTCGATTCAATCTTCCCTGAAGAACATGGAATGAATCAACGTCCCCATATGATTTTCACTCA
AGAATAAACAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATAGAACAAGTCT
GC
Found at i:1293 original size:132 final size:133
Alignment explanation
Indices: 591--1303 Score: 683
Period size: 132 Copynumber: 5.4 Consensus size: 133
581 GCAAATCAAA
* *
591 CTCGATTCAATCTTCCCTG-AGAACAGTGGAATGAATCAACATTTCCATATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTC-
* * * *
655 AGAAAGCAGCATAACAGATCACTCTTTTTTC-AGATTTGATCTTCCCTGAGGAACAGTGGAACAA
65 AG-AAGCAGCAGAACAGATCCCTC-TCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAA
719 GTCTGC
128 GTCTGC
* * * ** * **
725 CTCGATTCAATCTTCCTTGGAG-A-AGTGGAATGAATC-A-ATGTCCCCATATGATTTTCATTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
** * * * *
786 -ATAATA-AACAACATATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTAGAACAAGT
66 GA-AGCAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGT
849 CTGC
130 CTGC
* *
853 CTCGATTCAATATTCCCTGAAGAATAGT-GAATGAATC-A-A-TTCCTTAGATCTGATTTTCCCT
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCC--AGATCTGATTTTCCCT
** * * * * * *
914 CAAGAATTAGCAGAACAAATCCCTATCCTTCAAGATTTGATCTTCCTTGAGTAATAATGGAACAA
64 C-AGAAGCAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAA
*
979 G-ATGC
128 GTCTGC
* **
984 CTCGATTCAATCTTCCCTGAAGAACTA-TGGAATGAATCAACGTCCCCAGATCTGA-TTTCCCT-
1 CTCGATTCAATCTTCCCTGAAGAAC-AGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTC
** * * *
1046 AGGAATAAGC-GTAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTAAGTAACAATGGAATAA
65 A-GAAGCAGCAG-AACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAA
*
1110 GTCTTC
128 GTCTGC
* * * * * * *
1116 CTCAATTCAATCTTCTCT-AAGAACGGTGGAACGAATCAACATTTTCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
* * * * *
1180 GAAGCAGTAGAACATATCCCTCTTTTTCCAGATTTGATCTTCCCTGAGTAACAGTGGAAGAAGTC
66 GAAGCAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGTC
1245 TGC
131 TGC
* * *
1248 CTCGATTC-ATCATCCCTGAAGAACAGTGGAATGAGTCAAACTTTTCTC-GATCTGAT
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATC-AACATTTC-CAGATCTGAT
1304 CTACCTTGAA
Statistics
Matches: 472, Mismatches: 82, Indels: 51
0.78 0.14 0.08
Matches are distributed among these distances:
127 5 0.01
128 71 0.15
129 14 0.03
130 18 0.04
131 134 0.28
132 170 0.36
133 36 0.08
134 20 0.04
135 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTCA
GAAGCAGCAGAACAGATCCCTCTCTTTCAAGATTTGATCTTCCCTGAGTAACAGTGGAACAAGTC
TGC
Found at i:1493 original size:16 final size:16
Alignment explanation
Indices: 1468--1499 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1458 TTTTAACAAT
*
1468 ATTATTATTATTATTA
1 ATTATAATTATTATTA
1484 ATTATAATTATTATTA
1 ATTATAATTATTATTA
1500 CTTTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATAATTATTATTA
Found at i:3644 original size:129 final size:128
Alignment explanation
Indices: 3434--3791 Score: 390
Period size: 129 Copynumber: 2.8 Consensus size: 128
3424 ATCAATATTG
* * *
3434 AGAATAGT-ATATATTTTCATTTCG-TT-GAGTAATAAATGATTGCTTTTAAGGCATGAGAGGTC
1 AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGC-TTTAAGGTATGAGAGGTC
* * * * *
3496 ATTTATCATCAATTGGAAATAATTTGATATTA-CAATTTTCTCTCAAATTAATA-TTGATTTTAA
65 ATTTATC-TCGATTGGAAATAATTAGATATTATC-A-TTT-TCACAAATCAATATTTAATTTTAA
**
3559 GTG
126 GAC
* * * *
3562 GGGATAGTGATATCTCTTCATTTCGATTGGAG-CATAAATGACTGCTTTAAGGTATGAGAGGTCA
1 AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGGTCA
* * * * *
3626 TTTATTCTCGAGTAGAAATCATTAGATATTATCATTTTCACGAATCGATATTTAATTTTAAGAC
66 TTTA-TCTCGATTGGAAATAATTAGATATTATCATTTTCACAAATCAATATTTAATTTTAAGAC
* *
3690 AGAATAGTGATATCTCTTCATTTC-ATTTGAAGTAATAAATGATTGTTTTAAGGTATGAGAGGTC
1 AGAATAGTGATATCTCTTCATTTCGA-TTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGGTC
* *
3754 ATTTAT-TCGATTGGAAATAATTGGATATTATCGTTTTC
65 ATTTATCTCGATTGGAAATAATTAGATATTATCATTTTC
3792 TCTCTTAAAA
Statistics
Matches: 192, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
127 37 0.19
128 47 0.24
129 89 0.46
130 16 0.08
131 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (128 bp):
AGAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAGAGGTCA
TTTATCTCGATTGGAAATAATTAGATATTATCATTTTCACAAATCAATATTTAATTTTAAGAC
Found at i:10496 original size:22 final size:21
Alignment explanation
Indices: 10451--10496 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
10441 AAATATGATT
*
10451 ATAATTTTAATTATAATTAAA
1 ATAATTTTAATTATAAGTAAA
10472 ATAATTTT-ATTATTTAAGTAAA
1 ATAATTTTAATTA--TAAGTAAA
10494 ATA
1 ATA
10497 TAATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAATTTTAATTATAAGTAAA
Found at i:12374 original size:31 final size:31
Alignment explanation
Indices: 12338--12402 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
12328 TTATTTTTAA
*
12338 ATTTTA-TAAATTAAAATATTAAGAATATTAT
1 ATTTTATTAAAATAAAATATTAAGAA-ATTAT
* * *
12369 ATTTTATTAAAATAAATTTTTAATAAATTAT
1 ATTTTATTAAAATAAAATATTAAGAAATTAT
12400 ATT
1 ATT
12403 AATTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
ATTTTATTAAAATAAAATATTAAGAAATTAT
Found at i:12433 original size:21 final size:20
Alignment explanation
Indices: 12409--12478 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
12399 TATTAATTAT
12409 TTATGTATTAAAATATGAATA
1 TTAT-TATTAAAATATGAATA
* *
12430 TTA-TATTATTAATTAT-ATTGA
1 TTATTATTA--AAATATGAAT-A
*
12451 TTACTTATTAAAATAAGAATA
1 TTA-TTATTAAAATATGAATA
12472 TTATTAT
1 TTATTAT
12479 AATATTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
19 5 0.13
20 6 0.16
21 20 0.53
22 2 0.05
23 5 0.13
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (20 bp):
TTATTATTAAAATATGAATA
Found at i:12459 original size:23 final size:23
Alignment explanation
Indices: 12394--12460 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
12384 ATTTTTAATA
*
12394 AATTATATTAATTATTTATGTATT
1 AATTATATTGATTATTTAT-TATT
* *
12418 AA-AATA-TGAATATTATATTATT
1 AATTATATTGATTATT-TATTATT
*
12440 AATTATATTGATTACTTATTA
1 AATTATATTGATTATTTATTA
12461 AAATAAGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 12 0.35
23 14 0.41
24 8 0.24
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (23 bp):
AATTATATTGATTATTTATTATT
Found at i:12497 original size:26 final size:25
Alignment explanation
Indices: 12456--12510 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
12446 ATTGATTACT
*
12456 TATT-AAAATAAGAATATTATTATAA
1 TATTAAAAATAAAAATATTA-TATAA
*
12481 TATTAAAAATAAAAATATTATATTA
1 TATTAAAAATAAAAATATTATATAA
12506 TATTA
1 TATTA
12511 CATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TATTAAAAATAAAAATATTATATAA
Found at i:12594 original size:44 final size:41
Alignment explanation
Indices: 12468--12602 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 41
12458 TTAAAATAAG
* *
12468 AATATTATTATAATATTAA-AAATAAAAATATTATATT-AT
1 AATATTATTTTAAAATTAATAAATAAAAATATTATATTAAT
* * *
12507 ATTA-CATTTTAAAATT-ATAAATAAATAAATTTTATATATTTAAT
1 AATATTATTTTAAAATTAATAAAT-AA-AAA-TAT-TATA-TTAAT
12551 AATATTATTTTATGAAATTAATAAATAAAAATAATTATATTAAT
1 AATATTATTTTA--AAATTAATAAATAAAAAT-ATTATATTAAT
12595 AAT-TTATT
1 AATATTATT
12603 ATATATCTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
37 1 0.01
38 13 0.17
39 5 0.07
40 3 0.04
41 2 0.03
42 4 0.05
43 7 0.09
44 13 0.17
45 11 0.14
46 4 0.05
47 7 0.09
48 6 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (41 bp):
AATATTATTTTAAAATTAATAAATAAAAATATTATATTAAT
Found at i:12650 original size:23 final size:23
Alignment explanation
Indices: 12623--12667 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12613 AAAACAGAAA
*
12623 TATAATATCATATATTATTATAC
1 TATAATATAATATATTATTATAC
* *
12646 TATAATTTAATATATTTTTATA
1 TATAATATAATATATTATTATA
12668 ATACTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TATAATATAATATATTATTATAC
Found at i:12682 original size:23 final size:23
Alignment explanation
Indices: 12663--12713 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
12653 TAATATATTT
12663 TTATAATACTAAAATGTATAATA
1 TTATAATACTAAAATGTATAATA
* *
12686 TTATATTATTAAAAT-TATTAATA
1 TTATAATACTAAAATGTA-TAATA
*
12709 ATATA
1 TTATA
12714 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TTATAATACTAAAATGTATAATA
Found at i:12714 original size:23 final size:21
Alignment explanation
Indices: 12672--12725 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
12662 TTTATAATAC
*
12672 TAAAATGTATAATATTATATTAT
1 TAAAAT-TATAATAATATATT-T
12695 TAAAATTATTAATAATATATTT
1 TAAAATTA-TAATAATATATTT
12717 TAATAATTA
1 TAA-AATTA
12726 ATATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAAATTATAATAATATATTT
Found at i:12721 original size:13 final size:15
Alignment explanation
Indices: 12693--12733 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
12683 ATATTATATT
*
12693 ATTAAAATTATTAATA
1 ATTAATATT-TTAATA
12709 A-T-ATATTTTAATA
1 ATTAATATTTTAATA
12722 ATTAATATTTTA
1 ATTAATATTTTA
12734 TTAAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 9 0.41
16 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTAATATTTTAATA
Found at i:12766 original size:40 final size:40
Alignment explanation
Indices: 12691--12766 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
12681 TAATATTATA
* *
12691 TTATTAAAATTATTAATAATATATTTTAATAATTAATATT
1 TTATTAAAATTAGTAATAATATATATTAATAATTAATATT
*
12731 TTATTAAAATT-GTACTAAATAGTATATTAAT-ATTAA
1 TTATTAAAATTAGTAAT-AATA-TATATTAATAATTAA
12767 ATATATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
39 3 0.10
40 20 0.65
41 8 0.26
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (40 bp):
TTATTAAAATTAGTAATAATATATATTAATAATTAATATT
Found at i:17046 original size:31 final size:31
Alignment explanation
Indices: 17008--17107 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
16998 TTATTTTTTT
17008 GGGTCGGGTTTCTAATTCATATATTCGGGTC
1 GGGTCGGGTTTCTAATTCATATATTCGGGTC
** * *
17039 GGGTCGGG--TGAAACTT--TATTTTGGTATGGTC
1 GGGTCGGGTTTCTAA-TTCATATATTCG---GGTC
* *
17070 GGGTCGGATTTCTAATTCATATATTTGGGTC
1 GGGTCGGGTTTCTAATTCATATATTCGGGTC
17101 GGGTCGG
1 GGGTCGG
17108 ATGAAACTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
28 6 0.12
29 3 0.06
30 2 0.04
31 30 0.58
32 2 0.04
33 3 0.06
34 6 0.12
ACGTcount: A:0.16, C:0.13, G:0.33, T:0.38
Consensus pattern (31 bp):
GGGTCGGGTTTCTAATTCATATATTCGGGTC
Found at i:17101 original size:62 final size:62
Alignment explanation
Indices: 17008--17136 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 62
16998 TTATTTTTTT
* *
17008 GGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTAT-GGTC
1 GGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTT-GTATGGGTC
* *
17070 GGGTCGGATTTCTAATTCATATATTTGGGTCGGGTCGGATGAAACTTTATTTTGTTTGGGTC
1 GGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTATGGGTC
17132 GGGTC
1 GGGTC
17137 AGGTTTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 3 0.05
62 59 0.95
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (62 bp):
GGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTATGGGTC
Found at i:17128 original size:31 final size:31
Alignment explanation
Indices: 17034--17136 Score: 95
Period size: 31 Copynumber: 3.3 Consensus size: 31
17024 TCATATATTC
* *
17034 GGGTCGGGTCGGGTGAAACTTTATTTTGGTAT
1 GGGTCGGGTCGGATGAAACTTTATTTT-GTTT
** * * *
17066 -GGTCGGGTCGGATTTCTAA-TTCA-TATATTT
1 GGGTCGGGTCGGA--TGAAACTTTATTTTGTTT
17096 GGGTCGGGTCGGATGAAACTTTATTTTGTTT
1 GGGTCGGGTCGGATGAAACTTTATTTTGTTT
17127 GGGTCGGGTC
1 GGGTCGGGTC
17137 AGGTTTTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
29 3 0.06
30 5 0.09
31 40 0.74
32 3 0.06
33 3 0.06
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.39
Consensus pattern (31 bp):
GGGTCGGGTCGGATGAAACTTTATTTTGTTT
Found at i:17182 original size:33 final size:33
Alignment explanation
Indices: 17127--17206 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
17117 TATTTTGTTT
*
17127 GGGTCGGGTCAGG-TTTTTTAAGTGTGATATTC
1 GGGTCGGGTCGGGTTTTTTTAAGTGTGATATTC
*
17159 GGGTCAGGTCGGGTTTTTTTAAGTGTGATATTC
1 GGGTCGGGTCGGGTTTTTTTAAGTGTGATATTC
17192 GGGTCGGGTCGGGTT
1 GGGTCGGGTCGGGTT
17207 CGGGTTTAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 11 0.25
33 33 0.75
ACGTcount: A:0.12, C:0.10, G:0.39, T:0.39
Consensus pattern (33 bp):
GGGTCGGGTCGGGTTTTTTTAAGTGTGATATTC
Found at i:17704 original size:17 final size:18
Alignment explanation
Indices: 17682--17728 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
17672 TATGGAATTG
*
17682 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
17699 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
17717 GATTCTAATTCC
1 GATTCCAATTCC
17729 CTCATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:27205 original size:21 final size:21
Alignment explanation
Indices: 27180--27222 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27170 CAAACAACCG
* *
27180 AAAACGTGTCATAGAGACAGA
1 AAAACGTATCATAAAGACAGA
*
27201 AAAACGTATCATAAAGGCAGA
1 AAAACGTATCATAAAGACAGA
27222 A
1 A
27223 GAATCGTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.21, T:0.14
Consensus pattern (21 bp):
AAAACGTATCATAAAGACAGA
Found at i:28400 original size:60 final size:59
Alignment explanation
Indices: 28331--28456 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 59
28321 TTTCATCAGT
* *
28331 AAACTATGAC-TATCATTCTAAATTAATCATCC-AACTTTTGAACATTTCAATTTCATCTCC
1 AAACTATGACAT-TCATTCTAAATTAATC-CCCAAACTTTTGAACATTCCAATTTCATC-CC
* ** * *
28391 AAACTATGACATTTATTCTAAATTGGTCCCCAAACTTTTGGACATTCCAATTTTATCCC
1 AAACTATGACATTCATTCTAAATTAATCCCCAAACTTTTGAACATTCCAATTTCATCCC
28450 AAACTAT
1 AAACTAT
28457 ATGTATATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
59 11 0.19
60 45 0.79
61 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (59 bp):
AAACTATGACATTCATTCTAAATTAATCCCCAAACTTTTGAACATTCCAATTTCATCCC
Found at i:28632 original size:60 final size:60
Alignment explanation
Indices: 28568--28734 Score: 201
Period size: 60 Copynumber: 2.8 Consensus size: 60
28558 TATTTGGATG
* ** * * **
28568 AATTTGGGGATGAAATTGGAATATTTAAAAGTTTGGGGACTAATTTGGAAAGTGTTTCAT
1 AATTTAGGGATGAAATTGGAATATTTAAAAGTTTAAGGACTAATTTAGAAAGAGAGTCAT
* * *
28628 AATTTAGGGATGAAATTAGG-ATGTCTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCAT
1 AATTTAGGGATGAAATT-GGAATATTTAAAAGTTTAAGGACTAATTTAGAAAGAGAGTCAT
* * *
28688 AATTTAGGGATGAAATTGGAATATTCAAAAGTTTAAGAACCAATTTA
1 AATTTAGGGATGAAATTGGAATATTTAAAAGTTTAAGGACTAATTTA
28735 AAATGAAGGT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
59 2 0.02
60 86 0.96
61 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (60 bp):
AATTTAGGGATGAAATTGGAATATTTAAAAGTTTAAGGACTAATTTAGAAAGAGAGTCAT
Found at i:32212 original size:2 final size:2
Alignment explanation
Indices: 32205--32328 Score: 248
Period size: 2 Copynumber: 62.0 Consensus size: 2
32195 TAAGTTTGGC
32205 AT AT AT 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
32247 AT AT AT 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
32289 AT AT 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
32329 CTACATTCTG
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 122 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32371 original size:22 final size:22
Alignment explanation
Indices: 32346--32397 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
32336 CTGCAAAAAA
32346 GATAGATTCTCTTTTCAAAGAT
1 GATAGATTCTCTTTTCAAAGAT
*
32368 GATAGATTCTCTTTTCAAAGGT
1 GATAGATTCTCTTTTCAAAGAT
*
32390 GAGAGATT
1 GATAGATT
32398 TATTGGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (22 bp):
GATAGATTCTCTTTTCAAAGAT
Found at i:33191 original size:83 final size:83
Alignment explanation
Indices: 33052--33216 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
33042 CAAAAACAAG
*
33052 AGCAAAAGCAAATCTGAACTCCACGAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGA-AAT
1 AGCAAAAGCAAATCTGAACTCCACAAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGAA-
33116 CTTCACGAAAGAGTAGTGC
65 CTTCACGAAAGAGTAGTGC
*
33135 AGCAAAAGCAAATCTGAACTCCACAAAAGAGTAGTGGAACATATTTTTCAGCAAAGTATGAGAAC
1 AGCAAAAGCAAATCTGAACTCCACAAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGAAC
*
33200 TTCACGGAAGAGTAGTG
66 TTCACGAAAGAGTAGTG
33217 GAGTTATCCA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
83 76 0.97
84 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (83 bp):
AGCAAAAGCAAATCTGAACTCCACAAAAGAGTAGTGGAACAGATTTTTCAGCAAAGTATGAGAAC
TTCACGAAAGAGTAGTGC
Found at i:35976 original size:18 final size:18
Alignment explanation
Indices: 35941--35978 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
35931 TATTTTAGTC
*
35941 ATTAATTATTATTATAAT
1 ATTAATTATTAGTATAAT
35959 ATTAATTA-TAGTATTAAT
1 ATTAATTATTAGTA-TAAT
35977 AT
1 AT
35979 ACTTTTATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTAATTATTAGTATAAT
Found at i:36090 original size:21 final size:20
Alignment explanation
Indices: 36048--36091 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
36038 TTAATAGTAT
*
36048 TTATGTTAAATATTTATTAA
1 TTATGTTAAATATTTATAAA
* *
36068 TTATTTTAAATTATTTGTAAA
1 TTATGTTAAA-TATTTATAAA
36089 TTA
1 TTA
36092 AATTAAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATGTTAAATATTTATAAA
Found at i:40054 original size:17 final size:20
Alignment explanation
Indices: 40013--40051 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
40003 AAATATGATT
40013 ATAATTTTAATTATAATTAAA
1 ATAATTTTAATTAT-ATTAAA
40034 ATAATTTT-ATTAT-TTAAA
1 ATAATTTTAATTATATTAAA
40052 TAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATTTTAATTATATTAAA
Found at i:40058 original size:22 final size:21
Alignment explanation
Indices: 40013--40058 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
40003 AAATATGATT
*
40013 ATAATTTTAATTATAATTAAA
1 ATAATTTTAATTATAAATAAA
40034 ATAATTTT-ATTATTTAAATAAA
1 ATAATTTTAATTA--TAAATAAA
40056 ATA
1 ATA
40059 TAATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAATTTTAATTATAAATAAA
Found at i:40867 original size:33 final size:35
Alignment explanation
Indices: 40829--40895 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
40819 TCATTAAACC
* *
40829 ATTTTAT-ATTTTCAATTTTGTAAAAAAT-TATAA
1 ATTTTATGAATTTAAATTTTGTAAAAAATATATAA
* *
40862 ATTTTATGAATTTAAATTTTTTTAAAAATATATA
1 ATTTTATGAATTTAAATTTTGTAAAAAATATATA
40896 TATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.25
34 17 0.61
35 4 0.14
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (35 bp):
ATTTTATGAATTTAAATTTTGTAAAAAATATATAA
Found at i:40894 original size:2 final size:2
Alignment explanation
Indices: 40889--40916 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
40879 TTTTTTAAAA
40889 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
40917 TAACTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41070 original size:16 final size:18
Alignment explanation
Indices: 41049--41093 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
41039 AACATTCCAA
41049 ATAATCTTATTC-C-CTG
1 ATAATCTTATTCTCACTG
41065 ATAATCTTACATTCTCACTG
1 ATAATCTT--ATTCTCACTG
41085 ATAATCTTA
1 ATAATCTTA
41094 CATTATGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 5 0.20
19 1 0.04
20 11 0.44
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.42
Consensus pattern (18 bp):
ATAATCTTATTCTCACTG
Found at i:41786 original size:18 final size:18
Alignment explanation
Indices: 41754--41788 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41744 GCAACAAATT
**
41754 TTTTTTTTTTGAAATTCA
1 TTTTTTTTTACAAATTCA
41772 TTTTTTTTTACAAATTC
1 TTTTTTTTTACAAATTC
41789 TAATTCTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTTTTTACAAATTCA
Found at i:42604 original size:23 final size:24
Alignment explanation
Indices: 42545--42612 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
42535 AAATAAAATT
* *
42545 TTTATAAATTATATTAATTACTTA
1 TTTATTAATTATATGAATTACTTA
*
42569 TTTATTAA-AATATGAA-TA-TTA
1 TTTATTAATTATATGAATTACTTA
*
42590 TATTATTAATTATATTAATTACT
1 T-TTATTAATTATATGAATTACT
42613 ATTAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.11
22 9 0.26
23 12 0.34
24 9 0.26
25 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (24 bp):
TTTATTAATTATATGAATTACTTA
Found at i:42823 original size:23 final size:23
Alignment explanation
Indices: 42788--42832 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
42778 AAAACAGAAA
*
42788 TATAATATCATATATTATTATAC
1 TATAATATAATATATTATTATAC
* * *
42811 TATAATTTAATATGTTTTTATA
1 TATAATATAATATATTATTATA
42833 ATATTAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (23 bp):
TATAATATAATATATTATTATAC
Found at i:42886 original size:13 final size:14
Alignment explanation
Indices: 42868--42896 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
42858 TTTAAAATTA
42868 TTAATAAT-ATATT
1 TTAATAATAATATT
42881 TTAATAATAATATT
1 TTAATAATAATATT
42895 TT
1 TT
42897 TATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATAATAATATT
Found at i:42890 original size:16 final size:15
Alignment explanation
Indices: 42869--42898 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42859 TTAAAATTAT
42869 TAATAATATATTTTAA
1 TAATAATAT-TTTTAA
42885 TAATAATATTTTTA
1 TAATAATATTTTTA
42899 TTAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATAATATTTTTAA
Found at i:44065 original size:28 final size:28
Alignment explanation
Indices: 44020--44076 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
44010 CTCTCCGTTT
* *
44020 ACATTATGTCGTCGAGCTAGTGCTTGAA
1 ACATTATGTCGTCAAGCTAATGCTTGAA
* *
44048 ACATTGTGTTGTCAAGCTAATGCTTGAA
1 ACATTATGTCGTCAAGCTAATGCTTGAA
44076 A
1 A
44077 ATAAACGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (28 bp):
ACATTATGTCGTCAAGCTAATGCTTGAA
Found at i:44316 original size:60 final size:59
Alignment explanation
Indices: 44212--44324 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 59
44202 AATCAAGTGA
* *
44212 CCATTTTATAACTTTTAATAGTAATGGGACTCAAGAAAACAACATCATATAGTTCAATGT
1 CCATTTTATAACTTTTAATAGTAA-GAGACTCAACAAAACAACATCATATAGTTCAATGT
* * * *
44272 CCATTTTATAACTTTTAATAGTCGAA-AGATTTAACAAAATAACATCTTATAGT
1 CCATTTTATAACTTTTAATAGT--AAGAGACTCAACAAAACAACATCATATAGT
44325 CGGGGATCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 43 0.96
62 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (59 bp):
CCATTTTATAACTTTTAATAGTAAGAGACTCAACAAAACAACATCATATAGTTCAATGT
Found at i:46148 original size:31 final size:31
Alignment explanation
Indices: 46110--46209 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
46100 TTATTTTTTT
46110 GGGTCGGGTTTCTAATTCATATATTCGGGTC
1 GGGTCGGGTTTCTAATTCATATATTCGGGTC
** * *
46141 GGGTCGGG--TGAAACTT--TATTTTGGTATGGTC
1 GGGTCGGGTTTCTAA-TTCATATATTCG---GGTC
* *
46172 GGGTCGGATTTCTAATTCATATATTTGGGTC
1 GGGTCGGGTTTCTAATTCATATATTCGGGTC
46203 GGGTCGG
1 GGGTCGG
46210 ATGAAACTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
28 6 0.12
29 3 0.06
30 2 0.04
31 30 0.58
32 2 0.04
33 3 0.06
34 6 0.12
ACGTcount: A:0.16, C:0.13, G:0.33, T:0.38
Consensus pattern (31 bp):
GGGTCGGGTTTCTAATTCATATATTCGGGTC
Found at i:46203 original size:62 final size:62
Alignment explanation
Indices: 46110--46238 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 62
46100 TTATTTTTTT
* *
46110 GGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGTAT-GGTC
1 GGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTT-GTATGGGTC
* *
46172 GGGTCGGATTTCTAATTCATATATTTGGGTCGGGTCGGATGAAACTTTATTTTGTTTGGGTC
1 GGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTATGGGTC
46234 GGGTC
1 GGGTC
46239 AGGTTTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 3 0.05
62 59 0.95
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (62 bp):
GGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTATGGGTC
Found at i:46230 original size:31 final size:31
Alignment explanation
Indices: 46136--46238 Score: 95
Period size: 31 Copynumber: 3.3 Consensus size: 31
46126 TCATATATTC
* *
46136 GGGTCGGGTCGGGTGAAACTTTATTTTGGTAT
1 GGGTCGGGTCGGATGAAACTTTATTTT-GTTT
** * * *
46168 -GGTCGGGTCGGATTTCTAA-TTCA-TATATTT
1 GGGTCGGGTCGGA--TGAAACTTTATTTTGTTT
46198 GGGTCGGGTCGGATGAAACTTTATTTTGTTT
1 GGGTCGGGTCGGATGAAACTTTATTTTGTTT
46229 GGGTCGGGTC
1 GGGTCGGGTC
46239 AGGTTTTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
29 3 0.06
30 5 0.09
31 40 0.74
32 3 0.06
33 3 0.06
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.39
Consensus pattern (31 bp):
GGGTCGGGTCGGATGAAACTTTATTTTGTTT
Found at i:46284 original size:33 final size:33
Alignment explanation
Indices: 46229--46308 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
46219 TATTTTGTTT
*
46229 GGGTCGGGTCAGG-TTTTTTAAGTGTGATATTC
1 GGGTCGGGTCGGGTTTTTTTAAGTGTGATATTC
*
46261 GGGTCAGGTCGGGTTTTTTTAAGTGTGATATTC
1 GGGTCGGGTCGGGTTTTTTTAAGTGTGATATTC
46294 GGGTCGGGTCGGGTT
1 GGGTCGGGTCGGGTT
46309 CGGGTTTAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 11 0.25
33 33 0.75
ACGTcount: A:0.12, C:0.10, G:0.39, T:0.39
Consensus pattern (33 bp):
GGGTCGGGTCGGGTTTTTTTAAGTGTGATATTC
Found at i:46804 original size:17 final size:18
Alignment explanation
Indices: 46782--46828 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
46772 TATGGAATTG
*
46782 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
46799 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
46817 GATTCTAATTCC
1 GATTCCAATTCC
46829 CTCATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:47797 original size:12 final size:12
Alignment explanation
Indices: 47780--47810 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
47770 TGCATCATGC
47780 ATACTTCACTAT
1 ATACTTCACTAT
47792 ATACTTCACTAT
1 ATACTTCACTAT
47804 ATACTTC
1 ATACTTC
47811 TTCGAGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (12 bp):
ATACTTCACTAT
Found at i:57199 original size:2 final size:2
Alignment explanation
Indices: 57192--57223 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57182 ATAACATCTA
57192 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
57224 TTAAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57530 original size:60 final size:59
Alignment explanation
Indices: 57430--57600 Score: 152
Period size: 60 Copynumber: 2.8 Consensus size: 59
57420 AGTATGTCAC
* * * **
57430 TCATTATAAATTGATCTCTAAACTTTT-AAATGTTCAAATTTCATCAGTAAACTATGA-CT
1 TCATTCTAAATTGATCACCAAACTTTTGAAAT-TTC-AATTTCATCACCAAACTATGACCT
* * *
57489 ATCATTTTAAATT-ACTCATCAAACTTTTGAATATTTCAATTTCATCTCCAAACTATGACCT
1 -TCATTCTAAATTGA-TCACCAAACTTTTGAA-ATTTCAATTTCATCACCAAACTATGACCT
* * *
57550 TTATTCTAAATTGATCCCCAAACTTTTTGAACATTCCAATTTCATC-CCAAA
1 TCATTCTAAATTGATCACCAAAC-TTTTGAA-ATTTCAATTTCATCACCAAA
57601 TTATACGTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
59 1 0.01
60 61 0.66
61 28 0.30
62 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (59 bp):
TCATTCTAAATTGATCACCAAACTTTTGAAATTTCAATTTCATCACCAAACTATGACCT
Found at i:57871 original size:60 final size:59
Alignment explanation
Indices: 57719--57888 Score: 187
Period size: 60 Copynumber: 2.8 Consensus size: 59
57709 CTTGGATGAA
* * * * * *
57719 TTTGGGGATGCAATTGGAATATTAAAAGTTCAAGGACCAATTTGGAAAGAGTGTCATAG
1 TTTGGGGATGAAATTAGAATATTAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
* * * * *
57778 TTTAGGGATAAAATTAGGATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAG
1 TTTGGGGATGAAATTAGAATATT-AAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
* * * *
57838 TTTGGGGATGAAATTATAATATTAAAAATTTTAAGAACCAATTTAAAATGA
1 TTTGGGGATGAAATTAGAATATT-AAAAGTTTAAGGACCAATTTAGAATGA
57889 AGTTTATAAT
Statistics
Matches: 89, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
59 17 0.19
60 72 0.81
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.32
Consensus pattern (59 bp):
TTTGGGGATGAAATTAGAATATTAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAG
Found at i:58114 original size:2 final size:2
Alignment explanation
Indices: 58107--58185 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
58097 CATACGGTAA
58107 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
58149 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
58186 TATATATATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:58190 original size:2 final size:2
Alignment explanation
Indices: 58185--58240 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
58175 ACACACACAC
58185 AT AT AT 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
58227 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
58241 TTGTGTGTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58870 original size:30 final size:30
Alignment explanation
Indices: 58798--58871 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
58788 AAATGGATTT
* * *
58798 AGTTTAGTGA-CAAATTATAAGATTTTAAA
1 AGTTTAGGGACCAAAGTATAAGATTTAAAA
*
58827 AGTTT-GGTAACCAAAGTATAA-ACTTTAAAA
1 AGTTTAGG-GACCAAAGTATAAGA-TTTAAAA
58857 AGTTTAGGGACCAAA
1 AGTTTAGGGACCAAA
58872 ATGGTAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.03
29 7 0.19
30 26 0.72
31 2 0.06
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (30 bp):
AGTTTAGGGACCAAAGTATAAGATTTAAAA
Found at i:61287 original size:38 final size:38
Alignment explanation
Indices: 61224--61343 Score: 109
Period size: 38 Copynumber: 3.2 Consensus size: 38
61214 TTCGAGACAT
* *** *
61224 ATGATAGGTCATTCGGGATGTAGATGAAATCATTCGGG
1 ATGATAGGACATTCGGGACACAGATGAAATCATTCAGG
* * *
61262 ATGATAGGTAC-TTCGGGACACAGATGATATCCTTTAGG
1 ATGATAGG-ACATTCGGGACACAGATGAAATCATTCAGG
* * * *
61300 ATGATAGGCCATTCGGGACACAGTTGACATCCTTCAGG
1 ATGATAGGACATTCGGGACACAGATGAAATCATTCAGG
61338 AT-ATAG
1 ATGATAG
61344 ATTTCACATG
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
37 5 0.07
38 62 0.91
39 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (38 bp):
ATGATAGGACATTCGGGACACAGATGAAATCATTCAGG
Found at i:63471 original size:23 final size:23
Alignment explanation
Indices: 63440--63501 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
63430 CGAGTCCATG
* *
63440 TCAAGTATCATATAAAATTCAGA
1 TCAAATATCATATAAAATCCAGA
* *
63463 TCAAATATCATATCAAATCCAGG
1 TCAAATATCATATAAAATCCAGA
* *
63486 TCAAAAATCAGATAAA
1 TCAAATATCATATAAA
63502 CTATTTATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (23 bp):
TCAAATATCATATAAAATCCAGA
Found at i:64223 original size:29 final size:29
Alignment explanation
Indices: 64191--64287 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 29
64181 CATTTTACAC
64191 AAATAGCACCATTTTCGAATTAATTCCCA
1 AAATAGCACCATTTTCGAATTAATTCCCA
** *** * * *
64220 AAATATTATTTTTTTCGAA-AAATTACTA
1 AAATAGCACCATTTTCGAATTAATTCCCA
64248 AAATAGCACCCA-TTTCGAATTAATTCCCA
1 AAATAGCA-CCATTTTCGAATTAATTCCCA
64277 AAATAGCACCA
1 AAATAGCACCA
64288 AAACCGATTA
Statistics
Matches: 50, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
28 22 0.44
29 28 0.56
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (29 bp):
AAATAGCACCATTTTCGAATTAATTCCCA
Found at i:64373 original size:17 final size:16
Alignment explanation
Indices: 64333--64380 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
64323 GTCAACGTCA
*
64333 CGGGTCGGGTCAACGGT
1 CGGGTC-GGTAAACGGT
64350 C-GGTCGGTAAACTGGT
1 CGGGTCGGTAAAC-GGT
64366 CGGGTCGGTAAACGG
1 CGGGTCGGTAAACGG
64381 GTAACGGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.21
16 10 0.36
17 12 0.43
ACGTcount: A:0.17, C:0.21, G:0.44, T:0.19
Consensus pattern (16 bp):
CGGGTCGGTAAACGGT
Found at i:64417 original size:11 final size:10
Alignment explanation
Indices: 64394--64446 Score: 65
Period size: 9 Copynumber: 5.3 Consensus size: 10
64384 ACGGGTCGTG
64394 ACCGGTC-AA
1 ACCGGTCAAA
64403 ACCGGTCAAAA
1 ACCGGTC-AAA
64414 ACCGGTTCAAA
1 ACCGG-TCAAA
*
64425 ACCGGT-TAA
1 ACCGGTCAAA
64434 ACCGGTCAAA
1 ACCGGTCAAA
64444 ACC
1 ACC
64447 AGTTTCCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 15 0.39
10 6 0.16
11 15 0.39
12 2 0.05
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.13
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:64425 original size:12 final size:11
Alignment explanation
Indices: 64401--64446 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
64391 GTGACCGGTC
64401 AAACCGG-TCAA
1 AAACCGGTTC-A
64412 AAACCGGTTCA
1 AAACCGGTTCA
64423 AAACCGGTT--
1 AAACCGGTTCA
64432 AAACCGG-TCA
1 AAACCGGTTCA
64442 AAACC
1 AAACC
64447 AGTTTCCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 5 0.16
11 17 0.53
12 2 0.06
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.13
Consensus pattern (11 bp):
AAACCGGTTCA
Found at i:66655 original size:170 final size:170
Alignment explanation
Indices: 66374--66713 Score: 664
Period size: 170 Copynumber: 2.0 Consensus size: 170
66364 TCCACAGTAT
66374 ACTCCGAACTCGATCCTTGCTTAACTTGTTCAATAATGAAAGCAACGAGTTATCAAGGAGTTGTT
1 ACTCCGAACTCGATCCTTGCTTAACTTGTTCAATAATGAAAGCAACGAGTTATCAAGGAGTTGTT
66439 TAGCCTTAATCTCCTCGGCCAAAGTAGGTTTAACCTGTAACTCTGCTAACAAACTATTATCATCA
66 TAGCCTTAATCTCCTCGGCCAAAGTAGGTTTAACCTGTAACTCTGCTAACAAACTATTATCATCA
66504 AATAAGCTCAAGTTGGC-AATAAGGCTCTGAGGTCTGATA
131 AATAAGCTCAAGTTGGCAAATAAGGCTCTGAGGTCTGATA
66543 ACTCCGAACTCGATCCTTGCTTAACTTGTTCAATAATGGAAAGCAACGAGTTATCAAGGAGTTGT
1 ACTCCGAACTCGATCCTTGCTTAACTTGTTCAATAAT-GAAAGCAACGAGTTATCAAGGAGTTGT
66608 TTAGCCTTAATCTCCTCGGCCAAAGTAGGTTTAACCTGTAACTCTGCTAACAAACTATTATCATC
65 TTAGCCTTAATCTCCTCGGCCAAAGTAGGTTTAACCTGTAACTCTGCTAACAAACTATTATCATC
66673 AAATAAGCTCAAGTTGGCAAATAAGGCTCTGAGGTCTGATA
130 AAATAAGCTCAAGTTGGCAAATAAGGCTCTGAGGTCTGATA
66714 TCGCCTTACG
Statistics
Matches: 169, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
169 37 0.22
170 110 0.65
171 22 0.13
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (170 bp):
ACTCCGAACTCGATCCTTGCTTAACTTGTTCAATAATGAAAGCAACGAGTTATCAAGGAGTTGTT
TAGCCTTAATCTCCTCGGCCAAAGTAGGTTTAACCTGTAACTCTGCTAACAAACTATTATCATCA
AATAAGCTCAAGTTGGCAAATAAGGCTCTGAGGTCTGATA
Found at i:70479 original size:24 final size:24
Alignment explanation
Indices: 70447--70510 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
70437 AGAGTCCATG
* *
70447 TCAAGTATCATATAAAAATTCAGA
1 TCAAATATCATATAAAAATCCAGA
* * *
70471 TCAAATATCATATCAGAATCCAGG
1 TCAAATATCATATAAAAATCCAGA
* *
70495 TCAAAAATCAGATAAA
1 TCAAATATCATATAAA
70511 CTATTTATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (24 bp):
TCAAATATCATATAAAAATCCAGA
Found at i:71231 original size:28 final size:29
Alignment explanation
Indices: 71199--71320 Score: 83
Period size: 28 Copynumber: 4.3 Consensus size: 29
71189 ACATTTTACA
71199 CAAATAGCA-CCATTTTCGAATTAATTCC
1 CAAATAGCACCCATTTTCGAATTAATTCC
** **** *
71227 CAAATATTATTTTTTTTCGAA--AATTACT
1 CAAATAGCACCCATTTTCGAATTAATT-CC
*
71255 AAAATAGCACCCA-TTTCGAATTAATTCC
1 CAAATAGCACCCATTTTCGAATTAATTCC
****
71283 CAAATAGCA-CCAAAACCGAATTAATTCC
1 CAAATAGCACCCATTTTCGAATTAATTCC
71311 CAGAATAGCA
1 CA-AATAGCA
71321 TCGGTCAACG
Statistics
Matches: 70, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
27 14 0.20
28 37 0.53
29 19 0.27
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (29 bp):
CAAATAGCACCCATTTTCGAATTAATTCC
Found at i:71355 original size:13 final size:12
Alignment explanation
Indices: 71323--71365 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
71313 GAATAGCATC
*
71323 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
71337 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
71350 GGTCAACGGTCG
1 GGTCAACGGTCG
71362 GGTC
1 GGTC
71366 GGGTAACTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 7 0.26
15 4 0.15
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:71383 original size:16 final size:16
Alignment explanation
Indices: 71343--71387 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
71333 CAACGGTCAA
71343 CGGGTCGGGTCAACGGT
1 CGGGTCGGGT-AACGGT
71360 CGGGTCGGGTAACTGGT
1 CGGGTCGGGTAAC-GGT
71377 C-GGTCGGGTAA
1 CGGGTCGGGTAA
71388 ACGGGTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (16 bp):
CGGGTCGGGTAACGGT
Found at i:71423 original size:9 final size:9
Alignment explanation
Indices: 71409--71455 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
71399 GGTCGTGACC
71409 GTCAAACCG
1 GTCAAACCG
71418 GTCAAAACCG
1 GTC-AAACCG
71428 GTTCAAAACCG
1 G-TC-AAACCG
*
71439 GTTAAACCG
1 GTCAAACCG
71448 GTCAAACC
1 GTCAAACC
71456 AGTTTCCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 16 0.47
10 8 0.24
11 10 0.29
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (9 bp):
GTCAAACCG
Found at i:71435 original size:11 final size:10
Alignment explanation
Indices: 71412--71453 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
71402 CGTGACCGTC
71412 AAACCGGTCA
1 AAACCGGTCA
71422 AAACCGGTTCA
1 AAACCGG-TCA
*
71433 AAACCGGT-T
1 AAACCGGTCA
71442 AAACCGGTCA
1 AAACCGGTCA
71452 AA
1 AA
71454 CCAGTTTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
10 10 0.36
11 10 0.36
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.14
Consensus pattern (10 bp):
AAACCGGTCA
Found at i:73746 original size:9 final size:9
Alignment explanation
Indices: 73723--73802 Score: 96
Period size: 9 Copynumber: 8.9 Consensus size: 9
73713 ATAAAAACAA
73723 AAGAAAAAG
1 AAGAAAAAG
73732 AA-AAAAAG
1 AAGAAAAAG
73740 AAGAAAAAAG
1 AAG-AAAAAG
73750 AAGAAAAAG
1 AAGAAAAAG
73759 AAGAAAAA-
1 AAGAAAAAG
73767 ATAGAAAAAG
1 A-AGAAAAAG
73777 AAGAAAAA-
1 AAGAAAAAG
73785 ATAGAAAAA-
1 A-AGAAAAAG
73794 ATAGAAAAA
1 A-AGAAAAA
73803 AAACATAAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
8 10 0.15
9 46 0.70
10 10 0.15
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:73746 original size:27 final size:27
Alignment explanation
Indices: 73716--73822 Score: 114
Period size: 27 Copynumber: 3.9 Consensus size: 27
73706 AGAAGGCATA
73716 AAAACAAAAGAAAAAGAA-AAAAAGA-AG
1 AAAA-AAAAGAAAAAGAAGAAAAA-ATAG
73743 AAAAAAGAAGAAAAAGAAGAAAAAATAG
1 AAAAAA-AAGAAAAAGAAGAAAAAATAG
*
73771 AAAAAGAAGAAAAA-ATAGAAAAAATAG
1 AAAAAAAAGAAAAAGA-AGAAAAAATAG
*
73798 AAAAAAAACATAAAA-AATGAAAAAA
1 AAAAAAAAGA-AAAAGAA-GAAAAAA
73823 ATATGAGAGA
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
26 3 0.04
27 44 0.62
28 24 0.34
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (27 bp):
AAAAAAAAGAAAAAGAAGAAAAAATAG
Found at i:73772 original size:18 final size:18
Alignment explanation
Indices: 73734--73803 Score: 106
Period size: 18 Copynumber: 3.8 Consensus size: 18
73724 AGAAAAAGAA
*
73734 AAAAAGAAGAAAAAAGAAG
1 AAAAAGAAGAAAAAA-TAG
73753 AAAAAGAAGAAAAAATAG
1 AAAAAGAAGAAAAAATAG
73771 AAAAAGAAGAAAAAATAG
1 AAAAAGAAGAAAAAATAG
73789 AAAAA-ATAGAAAAAA
1 AAAAAGA-AGAAAAAA
73804 AACATAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
17 1 0.02
18 33 0.67
19 15 0.31
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAAGAAGAAAAAATAG
Found at i:75084 original size:30 final size:31
Alignment explanation
Indices: 75050--75124 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
75040 AAATAGATTT
*
75050 AGTTTAGTGACCAAAT-TATAAGA-TTTTAAA
1 AGTTTAGTGACCAAATGTATAA-ACTTTGAAA
75080 AGTTT-GTTGACC-AATGTATAAACTTTGAAA
1 AGTTTAG-TGACCAAATGTATAAACTTTGAAA
*
75110 AGTTTAGAGACCAAA
1 AGTTTAGTGACCAAA
75125 ATGGTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
29 5 0.13
30 30 0.79
31 3 0.08
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (31 bp):
AGTTTAGTGACCAAATGTATAAACTTTGAAA
Found at i:76909 original size:20 final size:20
Alignment explanation
Indices: 76893--76947 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
76883 TGGTTCAGTT
76893 TAGACGAGATCGGTTCAGGC
1 TAGACGAGATCGGTTCAGGC
* *
76913 TGGATGAGATCGGTTCAGGC
1 TAGACGAGATCGGTTCAGGC
* * *
76933 TGGACCAGTTCGGTT
1 TAGACGAGATCGGTT
76948 TGGTTCGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.25
Consensus pattern (20 bp):
TAGACGAGATCGGTTCAGGC
Found at i:78744 original size:37 final size:38
Alignment explanation
Indices: 78688--78771 Score: 102
Period size: 37 Copynumber: 2.2 Consensus size: 38
78678 TTGACAAAAG
*
78688 TAAACGAACGAGTGAATAAACGA-GCTTGTTCATG-ACA
1 TAAATGAACGAGTGAATAAAC-ATGCTTGTTCATGAACA
* *
78725 TAAATGAACGAGTCG-ATAAACATGCTTGTTCGTGAACT
1 TAAATGAACGAGT-GAATAAACATGCTTGTTCATGAACA
78763 TAAATGAAC
1 TAAATGAAC
78772 TGAACACTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 1 0.02
37 28 0.68
38 12 0.29
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (38 bp):
TAAATGAACGAGTGAATAAACATGCTTGTTCATGAACA
Found at i:80132 original size:64 final size:65
Alignment explanation
Indices: 80026--80149 Score: 189
Period size: 64 Copynumber: 1.9 Consensus size: 65
80016 AATGCATTTT
*
80026 ATGCATCGATGCACTAAGGATTTTATGGAAACATCGAATGCATTTTATGCATCGATGCACAGACC
1 ATGCATCGATGCACTAAGGATTTTATGGAAACATCAAATGCATTTTATGCATCGATGCACAGACC
* * *
80091 ATGCATCGATGCACTCAGGCTTGTT-T-GAAACATCAAATGCATTTTATGCATTGATGCAC
1 ATGCATCGATGCACTAAGGATT-TTATGGAAACATCAAATGCATTTTATGCATCGATGCAC
80150 CCTTAGTGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
64 31 0.57
65 21 0.39
66 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (65 bp):
ATGCATCGATGCACTAAGGATTTTATGGAAACATCAAATGCATTTTATGCATCGATGCACAGACC
Found at i:80165 original size:64 final size:63
Alignment explanation
Indices: 80026--80172 Score: 174
Period size: 64 Copynumber: 2.3 Consensus size: 63
80016 AATGCATTTT
*
80026 ATGCATCGATGCACTAAGGATTTTATGGAAACATCGAATGCATTTTATGCATCGATGCACAGACC
1 ATGCATCGATGCACTAAGGATTTTATGGAAACATCAAATGCATTTTATGCATCGATGCAC--ACC
* * *
80091 ATGCATCGATGCACTCAGGCTTGTT-T-GAAACATCAAATGCATTTTATGCATTGATGCAC-CC
1 ATGCATCGATGCACTAAGGATT-TTATGGAAACATCAAATGCATTTTATGCATCGATGCACACC
*
80152 TTAGTGCACCGATGCACTAAG
1 --A-TGCATCGATGCACTAAG
80173 TGTTTCAACG
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
61 2 0.03
63 1 0.01
64 46 0.64
65 21 0.29
66 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (63 bp):
ATGCATCGATGCACTAAGGATTTTATGGAAACATCAAATGCATTTTATGCATCGATGCACACC
Found at i:82950 original size:13 final size:13
Alignment explanation
Indices: 82932--82960 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
82922 GAATAAGAAA
82932 CATATACATGGTG
1 CATATACATGGTG
82945 CATATACATGGTG
1 CATATACATGGTG
82958 CAT
1 CAT
82961 TTAGATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (13 bp):
CATATACATGGTG
Found at i:85733 original size:23 final size:23
Alignment explanation
Indices: 85703--85751 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
85693 TGGTAGTTGG
*
85703 TTTAATGG-ATGTTTAAACTTTAT
1 TTTAATGGTATATTT-AACTTTAT
*
85726 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
85749 TTT
1 TTT
85752 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:92365 original size:17 final size:17
Alignment explanation
Indices: 92343--92377 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
92333 TGGAGAGATA
*
92343 TTTTTTGATTTTGTTTC
1 TTTTTTAATTTTGTTTC
*
92360 TTTTTTAATTTTTTTTC
1 TTTTTTAATTTTGTTTC
92377 T
1 T
92378 GACACTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (17 bp):
TTTTTTAATTTTGTTTC
Found at i:92576 original size:20 final size:20
Alignment explanation
Indices: 92518--92579 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
92508 CTCTTAAATA
*
92518 TTTAACTTTT-TCTTTTCTC
1 TTTAACTTTTATTTTTTCTC
* * *
92537 TTTCATCCTTAATATTTTTCTC
1 TTT-AACTTTTAT-TTTTTCTC
92559 TTTAACTTTTATTTTTTCTC
1 TTTAACTTTTATTTTTTCTC
92579 T
1 T
92580 CATTTCTTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 3 0.09
20 13 0.39
21 7 0.21
22 10 0.30
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTAACTTTTATTTTTTCTC
Found at i:95874 original size:23 final size:23
Alignment explanation
Indices: 95848--95896 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
95838 TAGTGGTTGG
*
95848 TTTAATGG-ATGTTTAAACTTTAT
1 TTTAATGGTATATTT-AACTTTAT
*
95871 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
95894 TTT
1 TTT
95897 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:97820 original size:44 final size:44
Alignment explanation
Indices: 97757--97853 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
97747 TTGTGCATAA
* *
97757 TGCATCGATACACTATGAA-GTGCATCGAAGCACCCCTATGAATG
1 TGCATCGATACACCATGAAGGTGCACCGAAGCACCCCT-TGAATG
* *
97801 TGCATCGATACACCATGAAGGTGCACCGATGCACTCCTTGAATG
1 TGCATCGATACACCATGAAGGTGCACCGAAGCACCCCTTGAATG
97845 TGCATCGAT
1 TGCATCGAT
97854 GCACTCATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 33 0.69
45 15 0.31
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAGGTGCACCGAAGCACCCCTTGAATG
Found at i:97847 original size:23 final size:23
Alignment explanation
Indices: 97772--97859 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
97762 CGATACACTA
* *
97772 TGAA-GTGCATCGAAGCACCCCT
1 TGAATGTGCATCGATGCACTCCT
* *
97794 ATGAATGTGCATCGAT--ACACCA
1 -TGAATGTGCATCGATGCACTCCT
* *
97816 TGAAGGTGCACCGATGCACTCCT
1 TGAATGTGCATCGATGCACTCCT
97839 TGAATGTGCATCGATGCACTC
1 TGAATGTGCATCGATGCACTC
97860 ATCTGTGCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
21 13 0.25
22 4 0.08
23 27 0.51
24 9 0.17
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (23 bp):
TGAATGTGCATCGATGCACTCCT
Found at i:100628 original size:64 final size:64
Alignment explanation
Indices: 100474--100628 Score: 208
Period size: 64 Copynumber: 2.4 Consensus size: 64
100464 ACACCCCATT
* *
100474 TCGAATGCATTTTATGCATCGATACACTGCCATGCATCGATGCACTAAGAATTTTATGGAAACA
1 TCGAATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTAAGAATTTTATGGAAACA
*
100538 TCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAAG-CTTGTT-T-GAAA
1 TCGAATGCATTTTATGCATCGATGCACAG-CCATGCATCGATGCACT-AAGAATT-TTATGGAAA
*
100600 TA
63 CA
* *
100602 TCGAATGTATTTTATGCATCGGTGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
100629 GCATCGATGC
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
64 57 0.70
65 20 0.24
66 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTAAGAATTTTATGGAAACA
Found at i:100657 original size:19 final size:19
Alignment explanation
Indices: 100633--100698 Score: 114
Period size: 19 Copynumber: 3.5 Consensus size: 19
100623 GTGCACGCAT
* *
100633 CGATGCACCCTTAGTGCAC
1 CGATGCACTCTTAGTACAC
100652 CGATGCACTCTTAGTACAC
1 CGATGCACTCTTAGTACAC
100671 CGATGCACTCTTAGTACAC
1 CGATGCACTCTTAGTACAC
100690 CGATGCACT
1 CGATGCACT
100699 AAGTGTTCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (19 bp):
CGATGCACTCTTAGTACAC
Found at i:103731 original size:60 final size:58
Alignment explanation
Indices: 103635--103757 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 58
103625 CACATGTCCT
* * *
103635 CAAAGTATGACTTATTTTAAATTGGTCCCTAAAC-TTTTAAATGTTTCAATTTCATACC
1 CAAACTATGACTTATTCTAAATTGGTCCCTAAACTTTTTAAACGTTTCAATTTCAT-CC
* *
103693 CAAACTATGACCTTCATTCTAAATTGGTGCCC-AAACTTTTTGAACGTTTCAATTTTATCC
1 CAAACTATGA-CTT-ATTCTAAATTGGT-CCCTAAACTTTTTAAACGTTTCAATTTCATCC
103753 CAAAC
1 CAAAC
103758 GGTACGTATA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
58 9 0.16
59 3 0.05
60 23 0.41
61 21 0.38
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (58 bp):
CAAACTATGACTTATTCTAAATTGGTCCCTAAACTTTTTAAACGTTTCAATTTCATCC
Found at i:108931 original size:30 final size:30
Alignment explanation
Indices: 108897--108971 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
108887 AAAAAATGAA
108897 AGTTTAGGTACTAAAACATATCAAATTGAT
1 AGTTTAGGTACTAAAACATATCAAATTGAT
*
108927 AGTTTAGGTACTAAAACGTATCAAATTGAT
1 AGTTTAGGTACTAAAACATATCAAATTGAT
108957 AGTTTAGGTACTAAA
1 AGTTTAGGTACTAAA
108972 TTCATTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (30 bp):
AGTTTAGGTACTAAAACATATCAAATTGAT
Found at i:110678 original size:12 final size:12
Alignment explanation
Indices: 110646--110685 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
110636 TTCAAAGAAA
110646 TTAAAA-TTA-T
1 TTAAAATTTATT
*
110656 TT-AAATCTATT
1 TTAAAATTTATT
110667 TTAAAATTTATT
1 TTAAAATTTATT
110679 TTAAAAT
1 TTAAAAT
110686 ATGGATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 3 0.12
10 4 0.16
11 3 0.12
12 15 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAAATTTATT
Found at i:110697 original size:22 final size:22
Alignment explanation
Indices: 110672--110969 Score: 402
Period size: 22 Copynumber: 13.6 Consensus size: 22
110662 CTATTTTAAA
110672 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
110694 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
** *
110715 AAATATATTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
110737 ATTTATTTAAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* ***
110759 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
* *
110781 AATTATTTAAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* ***
110803 ATTTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
110825 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
110847 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
110869 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
110891 ATTTATTTTAAAATATGTATTG
1 ATTTATTTTAAAATATGGATTG
**
110913 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
110934 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
110957 ATTTATTTTAAAA
1 ATTTATTTTAAAA
110970 AATTTATTAT
Statistics
Matches: 235, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
21 17 0.07
22 217 0.92
23 1 0.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:111775 original size:20 final size:20
Alignment explanation
Indices: 111741--111780 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
111731 ATTTATTTTT
*
111741 CAATAATAAGTAATATTATA
1 CAATAATAAGTAATAATATA
111761 CAATAATAA-TAAATAATATA
1 CAATAATAAGT-AATAATATA
111781 TTAAATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
CAATAATAAGTAATAATATA
Found at i:111865 original size:17 final size:18
Alignment explanation
Indices: 111829--111868 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
111819 AATAGATCAT
111829 AAATTGACAACAACAACA
1 AAATTGACAACAACAACA
111847 AAATTGA-AACCAA-AACA
1 AAATTGACAA-CAACAACA
111864 AAATT
1 AAATT
111869 TAAGCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.62, C:0.17, G:0.05, T:0.15
Consensus pattern (18 bp):
AAATTGACAACAACAACA
Found at i:114075 original size:60 final size:59
Alignment explanation
Indices: 113973--114119 Score: 154
Period size: 60 Copynumber: 2.4 Consensus size: 59
113963 AATGAAGGGT
* * **
113973 AAAGTACACAAATGGTCCTCTGACTATATGACAATGCTTTGTTGAGTCCCTTAACTATTA
1 AAAGTACA-AAATGGTCCTCTGACTATATGACAATGATTTGTTCAGTCCCGCAACTATTA
* * * * *
114033 AAAGCTACAAAATGGTCCTTTGACTATA-GAGTATTGATTTGTTCAGTCCCGCGACTATTG
1 AAAG-TACAAAATGGTCCTCTGACTATATGA-CAATGATTTGTTCAGTCCCGCAACTATTA
114093 AAAGTTACAAAATGGTCACTC-GACTAT
1 AAAG-TACAAAATGGTC-CTCTGACTAT
114120 TCATATGTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.03
60 65 0.89
61 6 0.08
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (59 bp):
AAAGTACAAAATGGTCCTCTGACTATATGACAATGATTTGTTCAGTCCCGCAACTATTA
Found at i:116644 original size:29 final size:30
Alignment explanation
Indices: 116611--116686 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
116601 GGTGATAGAG
* *
116611 TTTAGGGGGTTAACTT-AAATTTTAAAAAA
1 TTTAGAGGGTTAAATTAAAATTTTAAAAAA
* *
116640 TTTAGAGGTTTAAATTAAAATTTTCAAAAA
1 TTTAGAGGGTTAAATTAAAATTTTAAAAAA
* *
116670 TTTTGAAGGGTTCAATT
1 TTTAG-AGGGTTAAATT
116687 TATAGTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 13 0.34
30 16 0.42
31 9 0.24
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (30 bp):
TTTAGAGGGTTAAATTAAAATTTTAAAAAA
Found at i:117201 original size:20 final size:20
Alignment explanation
Indices: 117152--117206 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
117142 AAAACAGTTT
*
117152 TTTAGCGGTATTTTTCAGTCA
1 TTTAGCGGCA-TTTTCAGTCA
* *
117173 TATAACGGCATTTTCAGTCA
1 TTTAGCGGCATTTTCAGTCA
*
117193 TTTAGCGGCGTTTT
1 TTTAGCGGCATTTT
117207 TATGTGCCGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTAGCGGCATTTTCAGTCA
Found at i:120806 original size:19 final size:20
Alignment explanation
Indices: 120784--120821 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
120774 AGGAATATGT
*
120784 ATTTGTAAATTAA-ATATAC
1 ATTTGAAAATTAAGATATAC
120803 ATTTGAAAATTAAGATATA
1 ATTTGAAAATTAAGATATA
120822 TCTGTGGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (20 bp):
ATTTGAAAATTAAGATATAC
Found at i:123062 original size:43 final size:43
Alignment explanation
Indices: 122707--123103 Score: 419
Period size: 43 Copynumber: 9.2 Consensus size: 43
122697 GTTAAAGTTC
* * *
122707 GCGGCGTTTTTTCACAAAAAAAGCCGCAATAGGTATTGATATTTA
1 GCGGCG-TTTTTCA-TAAAAACGCCGCAATAGGTGTTGATATTTA
* * *
122752 GCGGCGTTTGT-GTGACAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCAT-AAAAACGCCGCAATAGGTGTTGATATTTA
* * *
122795 GCGGCGTTTGTCATAAAAATGCGGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
122838 GCGGCGTTTGTT-ATAAAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTT-TTCATAAAAACGCCGCAATAGGTGTTGATATTTA
* *
122881 GCGGCGTTTTTCATAAAAATGTCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
** * * *
122924 GCGGTATTTGTCATAAAAACACCGCAATAGGTGTTAATATTTA
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
* * * *
122967 GCAGCGTTTTTCAAAAAAACGCCGCAATAGGT-TATGGTGTTTA
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGT-TGATATTTA
* * * *
123010 GCTGCGTTTTTCGCT-AAAACGCCGCAGTAGGTGTTGATATTTT
1 GCGGCGTTTTTC-ATAAAAACGCCGCAATAGGTGTTGATATTTA
* * * * * *
123053 GCGGCGTTTTT--TCACAAACGTCGCAGTAGGTATTGATGTTTT
1 GCGGCGTTTTTCAT-AAAAACGCCGCAATAGGTGTTGATATTTA
123095 GCGGCGTTT
1 GCGGCGTTT
123104 CTGCTAAAAC
Statistics
Matches: 300, Mismatches: 43, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.00
42 36 0.12
43 250 0.83
44 7 0.02
45 6 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
Found at i:123499 original size:21 final size:21
Alignment explanation
Indices: 123475--123588 Score: 138
Period size: 21 Copynumber: 5.4 Consensus size: 21
123465 GCTGATATGT
123475 TGCTTCTCTCTGTGCTACCGC
1 TGCTTCTCTCTGTGCTACCGC
123496 TGCTTCTCTCTGTGCTACCGC
1 TGCTTCTCTCTGTGCTACCGC
* * *
123517 TGCTTCTCTTTGTGTTGCCGC
1 TGCTTCTCTCTGTGCTACCGC
* *
123538 TGCTTCTCTCTGTGCTGCCAC
1 TGCTTCTCTCTGTGCTACCGC
* * * * *
123559 TACTTCTTTCTCTGCTTCCGT
1 TGCTTCTCTCTGTGCTACCGC
123580 TGCTTCTCT
1 TGCTTCTCT
123589 GGCTGCTTCT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.04, C:0.35, G:0.18, T:0.44
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTACCGC
Found at i:123615 original size:21 final size:21
Alignment explanation
Indices: 123475--123617 Score: 81
Period size: 21 Copynumber: 6.8 Consensus size: 21
123465 GCTGATATGT
* * *
123475 TGCTTCTCTCTGTGCTACCGC
1 TGCTGCTCTCTCTGCTTCCGC
* * *
123496 TGCTTCTCTCTGTGCTACCGC
1 TGCTGCTCTCTCTGCTTCCGC
* * *
123517 TGCTTCTCTTTGTG-TTGCCGC
1 TGCTGCTCTCTCTGCTT-CCGC
* * * *
123538 TGCTTCTCTCTGTGCTGCCAC
1 TGCTGCTCTCTCTGCTTCCGC
* * * *
123559 TACTTCTTTCTCTGCTTCCGT
1 TGCTGCTCTCTCTGCTTCCGC
* ** *
123580 TGCTTCTCTGGCTGCTTCTGC
1 TGCTGCTCTCTCTGCTTCCGC
123601 TGCTGCTCTCTCTGCTT
1 TGCTGCTCTCTCTGCTT
123618 TCCTTGCTTC
Statistics
Matches: 100, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
20 1 0.01
21 98 0.98
22 1 0.01
ACGTcount: A:0.03, C:0.35, G:0.19, T:0.43
Consensus pattern (21 bp):
TGCTGCTCTCTCTGCTTCCGC
Found at i:123625 original size:21 final size:21
Alignment explanation
Indices: 123567--123625 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
123557 ACTACTTCTT
*
123567 TCTCTGC-TTCCGTTGCTTCTC
1 TCTCTGCTTTCC-TTGCTGCTC
** *
123588 TGGCTGCTTCTGC-TGCTGCTC
1 TCTCTGCTT-TCCTTGCTGCTC
123609 TCTCTGCTTTCCTTGCT
1 TCTCTGCTTTCCTTGCT
123626 TCATTTTTCG
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 1 0.04
23 2 0.07
ACGTcount: A:0.00, C:0.36, G:0.19, T:0.46
Consensus pattern (21 bp):
TCTCTGCTTTCCTTGCTGCTC
Found at i:132284 original size:41 final size:42
Alignment explanation
Indices: 132211--132304 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 42
132201 TAAATTATAA
* *
132211 CGACGTTTATTACGAAAATACCACTAACGGAGAAAACAATTG
1 CGACGTTTATTACGAAAAAACCACTAAAGGAGAAAACAATTG
*
132253 CGACGTTTATTAC-AAAAAACCACTAAAGGAGAATACAATTG
1 CGACGTTTATTACGAAAAAACCACTAAAGGAGAAAACAATTG
* *
132294 TGGCGTTTATT
1 CGACGTTTATT
132305 TAAAAACGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 34 0.72
42 13 0.28
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (42 bp):
CGACGTTTATTACGAAAAAACCACTAAAGGAGAAAACAATTG
Found at i:132732 original size:41 final size:41
Alignment explanation
Indices: 132635--132755 Score: 188
Period size: 41 Copynumber: 2.9 Consensus size: 41
132625 CGTTTATACA
* * **
132635 AAAAACGCCACTATTGATTAACACTATTATGGTGTTTTTTCT
1 AAAAACGCCACTATTGATTAACACTATTACGGCG-TTTGCCT
132677 AAAAACGCCACTATTGATTAACACTATTACGGCGTTTGCCT
1 AAAAACGCCACTATTGATTAACACTATTACGGCGTTTGCCT
*
132718 AAAAACTCCACTATTGATTAACACTATTACGGCGTTTG
1 AAAAACGCCACTATTGATTAACACTATTACGGCGTTTG
132756 AGGAATAAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 42 0.57
42 32 0.43
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (41 bp):
AAAAACGCCACTATTGATTAACACTATTACGGCGTTTGCCT
Found at i:134464 original size:83 final size:81
Alignment explanation
Indices: 134336--134606 Score: 323
Period size: 83 Copynumber: 3.3 Consensus size: 81
134326 TATAGTGGTG
* *
134336 TTTGTATAAAAACGCCGCTAAAGTACTCCTCTGTTGCGACGTTTGTTGAAAAAAGGCCACTGTAG
1 TTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGACGTTTGTTGAAAAAA--CCACTATAG
*
134401 ATTAACCCTATTGCGGCA
64 ATTAACCCTATTACGGCA
* * * *
134419 TTTGTATAAAAATGCCGCTAAAGTACTACTATGTTGCGACATTTGTTGAAAAACACCACTATATA
1 TTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGACGTTTGTTGAAAAA-ACCACTATAGA
* *
134484 TGAACCCTATTATGGCA
65 TTAACCCTATTACGGCA
* * * *
134501 TTTATATAAAAACACCGCTAACA-TATTACTCTGTT-CTGGCGTTTGTTGAAAAAATACCACTAT
1 TTTGTATAAAAACGCCGCTAA-AGTACTACTCTGTTGC-GACGTTTGTTG-AAAAA-ACCACTAT
*
134564 AGATTAACCCTATTACGGCG
62 AGATTAACCCTATTACGGCA
*
134584 TTTG-ATAAAAACGTCGCTAAAGT
1 TTTGTATAAAAACGCCGCTAAAGT
134607 TATTATTTTA
Statistics
Matches: 159, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
81 2 0.01
82 74 0.47
83 82 0.52
84 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (81 bp):
TTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGACGTTTGTTGAAAAAACCACTATAGAT
TAACCCTATTACGGCA
Found at i:134471 original size:41 final size:41
Alignment explanation
Indices: 134343--134472 Score: 111
Period size: 41 Copynumber: 3.1 Consensus size: 41
134333 GTGTTTGTAT
* *
134343 AAAAACGCCGCTAAAGTACTCCTCTGTTGCGACGTTTGTTG
1 AAAAACGCCGCTAAAGTACTACTCTGTTGCGACATTTGTTG
* * ** * * * *
134384 AAAAAAGGCCACTGTAG-ATTAACCCTATTGCGGCATTTGTAT-
1 -AAAAACGCCGCTAAAGTACT-ACTCTGTTGCGACATTTGT-TG
* *
134426 AAAAATGCCGCTAAAGTACTACTATGTTGCGACATTTGTTG
1 AAAAACGCCGCTAAAGTACTACTCTGTTGCGACATTTGTTG
134467 AAAAAC
1 AAAAAC
134473 ACCACTATAT
Statistics
Matches: 64, Mismatches: 20, Indels: 9
0.69 0.22 0.10
Matches are distributed among these distances:
40 1 0.02
41 34 0.53
42 28 0.44
43 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGTACTACTCTGTTGCGACATTTGTTG
Found at i:134503 original size:41 final size:39
Alignment explanation
Indices: 134458--134595 Score: 96
Period size: 41 Copynumber: 3.4 Consensus size: 39
134448 TATGTTGCGA
134458 CATTTGTTGAAAAACACCACTATATATGAACCCTATTATGG
1 CATTTGTT-AAAAACACCACTATATAT-AACCCTATTATGG
* * * * * * *
134499 CATTTATATAAAAACACCGCTAACATATTACTCTGTTCTGG
1 CATTTGT-TAAAAACACCACT-ATATATAACCCTATTATGG
* * * *
134540 CGTTTGTTGAAAAAATACCACTATAGATTAACCCTATTACGG
1 CATTTGTT--AAAAACACCACTATATA-TAACCCTATTATGG
* *
134582 CGTTTGATAAAAAC
1 CATTTGTTAAAAAC
134596 GTCGCTAAAG
Statistics
Matches: 72, Mismatches: 20, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
40 6 0.08
41 34 0.47
42 32 0.44
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (39 bp):
CATTTGTTAAAAACACCACTATATATAACCCTATTATGG
Found at i:134611 original size:83 final size:83
Alignment explanation
Indices: 134336--134606 Score: 334
Period size: 82 Copynumber: 3.3 Consensus size: 83
134326 TATAGTGGTG
* ** *
134336 TTTGTATAAAAACGCCGCTAAAGTACTCCTCTGTTGCGACGTTTGTTGAAAAAAGGCCACTGTAG
1 TTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGACGTTTGTTGAAAAAACACCACTATAG
*
134401 ATTAACCCTATTGCGGCA
66 ATTAACCCTATTACGGCA
* * * *
134419 TTTGTATAAAAATGCCGCTAAAGTACTACTATGTTGCGACATTTGTTG-AAAAACACCACTATAT
1 TTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGACGTTTGTTGAAAAAACACCACTATAG
* *
134483 ATGAACCCTATTATGGCA
66 ATTAACCCTATTACGGCA
* * * * *
134501 TTTATATAAAAACACCGCTAACA-TATTACTCTGTT-CTGGCGTTTGTTGAAAAAATACCACTAT
1 TTTGTATAAAAACGCCGCTAA-AGTACTACTCTGTTGC-GACGTTTGTTGAAAAAACACCACTAT
*
134564 AGATTAACCCTATTACGGCG
64 AGATTAACCCTATTACGGCA
*
134584 TTTG-ATAAAAACGTCGCTAAAGT
1 TTTGTATAAAAACGCCGCTAAAGT
134607 TATTATTTTA
Statistics
Matches: 158, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
81 2 0.01
82 79 0.50
83 77 0.49
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (83 bp):
TTTGTATAAAAACGCCGCTAAAGTACTACTCTGTTGCGACGTTTGTTGAAAAAACACCACTATAG
ATTAACCCTATTACGGCA
Found at i:135260 original size:21 final size:22
Alignment explanation
Indices: 135225--135288 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
135215 AAATTCTTTG
135225 AGAAAGTTGAAAGAAAATGATA
1 AGAAAGTTGAAAGAAAATGATA
* * *
135247 A-AAAGTAGAGAGAAAATGGTTA
1 AGAAAGTTGAAAGAAAAT-GATA
*
135269 AGAAAGTTGATAGAAAATGA
1 AGAAAGTTGAAAGAAAATGA
135289 GAGAATTCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 14 0.41
22 6 0.18
23 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (22 bp):
AGAAAGTTGAAAGAAAATGATA
Found at i:135283 original size:23 final size:23
Alignment explanation
Indices: 135225--135287 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
135215 AAATTCTTTG
135225 AGAAAGTTGAAAGAAAAT-GATA
1 AGAAAGTTGAAAGAAAATGGATA
* * *
135247 A-AAAGTAGAGAGAAAATGGTTA
1 AGAAAGTTGAAAGAAAATGGATA
*
135269 AGAAAGTTGATAGAAAATG
1 AGAAAGTTGAAAGAAAATG
135288 AGAGAATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 14 0.41
22 5 0.15
23 15 0.44
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (23 bp):
AGAAAGTTGAAAGAAAATGGATA
Found at i:135782 original size:23 final size:22
Alignment explanation
Indices: 135723--135783 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
135713 AAATTGATTG
135723 TATGACACATTTTCATTTACCTT
1 TATGACACATTTTC-TTTACCTT
* * *
135746 TATG-CACGTTTTCTTATGCTTT
1 TATGACACATTTTCTT-TACCTT
135768 TATGACACATTTTCTT
1 TATGACACATTTTCTT
135784 CTTTATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 16 0.50
23 14 0.44
ACGTcount: A:0.21, C:0.20, G:0.08, T:0.51
Consensus pattern (22 bp):
TATGACACATTTTCTTTACCTT
Found at i:136706 original size:25 final size:25
Alignment explanation
Indices: 136673--136730 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
136663 TCCATATATC
* *
136673 ATATTAGAAATATACAATAAATTAG
1 ATATCAGAAATATACAATAAATCAG
*
136698 ATATCAGAAATATAGAATAAATCAG
1 ATATCAGAAATATACAATAAATCAG
136723 ATATCAGA
1 ATATCAGA
136731 TAAACTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (25 bp):
ATATCAGAAATATACAATAAATCAG
Found at i:137852 original size:29 final size:30
Alignment explanation
Indices: 137791--137846 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
137781 ATTTGGATCC
* * *
137791 AAATTTAATCAAAATTTCACTTTGGTCCCT
1 AAATTAAATCAAAATTTCAATTTAGTCCCT
137821 AAATTAAATCAAAA-TTCAATTTAGTC
1 AAATTAAATCAAAATTTCAATTTAGTC
137847 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (30 bp):
AAATTAAATCAAAATTTCAATTTAGTCCCT
Found at i:139288 original size:23 final size:23
Alignment explanation
Indices: 139262--139313 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
139252 AATACCATCA
139262 TGATCCAAAGTATACTCTAAACT
1 TGATCCAAAGTATACTCTAAACT
*
139285 TGATCTAAAGTATACTCTAAACT
1 TGATCCAAAGTATACTCTAAACT
139308 TGATCC
1 TGATCC
139314 TTACTCTGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (23 bp):
TGATCCAAAGTATACTCTAAACT
Found at i:144931 original size:21 final size:21
Alignment explanation
Indices: 144898--144937 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
144888 TTCTACGTGG
*
144898 TCCTTCGGGACATATATGTAA
1 TCCTTCGGAACATATATGTAA
*
144919 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
144938 GGTACTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:146180 original size:2 final size:2
Alignment explanation
Indices: 146173--146203 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
146163 ACGATAAATT
*
146173 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
146204 CGAAAACCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:146626 original size:39 final size:39
Alignment explanation
Indices: 146572--146726 Score: 179
Period size: 39 Copynumber: 4.0 Consensus size: 39
146562 GTACACCCAA
* * *
146572 TAAGGGCTTACCCTGTGCACAAAGCAGAGGTGTCTGCGG
1 TAAGGTCTTACCCTGTGCACAAAGCAGAGGAGCCTGCGG
* * * *
146611 TAAGGTCTTATCCTGTGCACAAAGAAGAGGAGCCTACAG
1 TAAGGTCTTACCCTGTGCACAAAGCAGAGGAGCCTGCGG
* * *
146650 TAAGGACTTACCCTGAGCACAAAGCCA-AGGAGTCTGCGG
1 TAAGGTCTTACCCTGTGCACAAAG-CAGAGGAGCCTGCGG
* *
146689 TAAGGTCTTATCCTTTG-ACAAAGCAGAGGAGCCTGCGG
1 TAAGGTCTTACCCTGTGCACAAAGCAGAGGAGCCTGCGG
146727 AAAGCGGTAA
Statistics
Matches: 95, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
37 2 0.02
38 17 0.18
39 75 0.79
40 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (39 bp):
TAAGGTCTTACCCTGTGCACAAAGCAGAGGAGCCTGCGG
Found at i:146701 original size:78 final size:77
Alignment explanation
Indices: 146572--146722 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 77
146562 GTACACCCAA
* * *
146572 TAAGGGCTTACCCTGTGCACAAAGCAGAGGTGTCTGCGGTAAGGTCTTATCCTGTGCACAAAGAA
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGCGGTAAGGTCTTATCCTGTG-ACAAAGAA
146637 GAGGAGCCTACAG
65 GAGGAGCCTACAG
* *
146650 TAAGGACTTACCCTGAGCACAAAGCCA-AGGAGTCTGCGGTAAGGTCTTATCCTTTGACAAAGCA
1 TAAGGACTTACCCTGAGCACAAAG-CAGAGGAGTCTGCGGTAAGGTCTTATCCTGTGACAAAGAA
146714 GAGGAGCCT
65 GAGGAGCCT
146723 GCGGAAAGCG
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
77 16 0.24
78 49 0.73
79 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.21
Consensus pattern (77 bp):
TAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGCGGTAAGGTCTTATCCTGTGACAAAGAAG
AGGAGCCTACAG
Found at i:150569 original size:24 final size:24
Alignment explanation
Indices: 150539--150611 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
150529 ATACATGACT
*
150539 TGAATTCTATTCTGATTTCTGAT-
1 TGAATTCTGTTCTGATTTCTGATA
* *
150562 TTAGATTCTGTTCTGATATCTGATA
1 TGA-ATTCTGTTCTGATTTCTGATA
*
150587 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
150611 T
1 T
150612 CTCCATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.05
24 38 0.90
25 2 0.05
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:154221 original size:24 final size:24
Alignment explanation
Indices: 154194--154281 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
154184 ATTTTCGACT
*
154194 TGAATTCTGTTCTGATACATGACC
1 TGAATTCTGTTCTGATACATGATC
* * *
154218 TGAATTTTGTTCTGATTTC-TGATT
1 TGAATTCTGTTCTGA-TACATGATC
* *
154242 TGGATTCTGTTCTGATATATGATC
1 TGAATTCTGTTCTGATACATGATC
*
154266 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
154282 TTCTAATATC
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 1 0.02
24 48 0.94
25 2 0.04
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATACATGATC
Found at i:154249 original size:48 final size:49
Alignment explanation
Indices: 154180--154285 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 49
154170 AAATATTTTA
*
154180 TCTGATTT-TCGACTTGAATTCTGTTCTGATACATGACCTGAATTTTGT
1 TCTGATTTCTCGACTTGAATTCTGTTCTGATACATGACCTGAATTCTGT
* * * *
154228 TCTGATTTCT-GATTTGGATTCTGTTCTGATATATGATCTGAATTCTGT
1 TCTGATTTCTCGACTTGAATTCTGTTCTGATACATGACCTGAATTCTGT
*
154276 TTTGATTTCT
1 TCTGATTTCT
154286 AATATCTCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 50 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (49 bp):
TCTGATTTCTCGACTTGAATTCTGTTCTGATACATGACCTGAATTCTGT
Found at i:154465 original size:2 final size:2
Alignment explanation
Indices: 154460--154538 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
154450 TATATATATA
154460 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
154502 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
154539 TTTAAAAAGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:156767 original size:2 final size:2
Alignment explanation
Indices: 156731--156996 Score: 177
Period size: 2 Copynumber: 139.5 Consensus size: 2
156721 ATATTTTAAT
* * *
156731 TA TA TA CTA TA GTA TT TA TG TA GTA TA TGA TA TA TA T- TA TA GTC
1 TA TA TA -TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA -TA
*
156775 T- TA TA CA T- TA TA GTA T- TA TA TA T- TA TA GTA T- TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
156814 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA T- TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
156855 T- TA TA TA T- TA TA T- TA TA T- TA TA TA T- TA TA -A TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
156890 TT TA T- TA TA CA T- TA TA TA GT- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
156930 T- TA TA GTA TA TA TT TA GTA T- TA TA TA TA T- TA TA TA GT- TA
1 TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
*
156969 TA T- TT TA TA TA T- TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
156997 TAGTATTATA
Statistics
Matches: 214, Mismatches: 13, Indels: 74
0.71 0.04 0.25
Matches are distributed among these distances:
1 25 0.12
2 168 0.79
3 21 0.10
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:156784 original size:15 final size:15
Alignment explanation
Indices: 156729--157007 Score: 192
Period size: 15 Copynumber: 18.5 Consensus size: 15
156719 CTATATTTTA
*
156729 ATTATATACTATAGT
1 ATTATATATTATAGT
* *
156744 ATTTATGTAGTATA-T
1 A-TTATATATTATAGT
156759 GA-TATATATTATAGT
1 -ATTATATATTATAGT
* *
156774 CTTATACATTATAGT
1 ATTATATATTATAGT
156789 ATTATATATTATAGT
1 ATTATATATTATAGT
156804 ATTATATA-TATA-T
1 ATTATATATTATAGT
*
156817 ATATATATATATATATT
1 AT-TATATAT-TATAGT
156834 ATATATATATTATAGT
1 AT-TATATATTATAGT
*
156850 A-TATAT-TATATATT
1 ATTATATAT-TATAGT
156864 A-TATTATATTATA-T
1 ATTA-TATATTATAGT
**
156878 ATTATA-ATATATTTT
1 ATTATATAT-TATAGT
*
156893 ATTATACATTATA-T
1 ATTATATATTATAGT
156907 AGTTATATA-TATA-T
1 A-TTATATATTATAGT
156921 ATATATATATTATAGT
1 AT-TATATATTATAGT
*
156937 ATATATTTAGTATTATATAT
1 AT-TA--TA-TATTATA-GT
156957 ATTATATAGTTATA-T
1 ATTATATA-TTATAGT
*
156972 TTTATATATTATA-T
1 ATTATATATTATAGT
156986 ATTATATA-TATTAGT
1 ATTATATATTA-TAGT
157001 ATTATAT
1 ATTATAT
157008 TATGAGTGTT
Statistics
Matches: 222, Mismatches: 16, Indels: 52
0.77 0.06 0.18
Matches are distributed among these distances:
13 9 0.04
14 68 0.31
15 81 0.36
16 32 0.14
17 18 0.08
18 2 0.01
19 9 0.04
20 3 0.01
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (15 bp):
ATTATATATTATAGT
Found at i:157005 original size:29 final size:29
Alignment explanation
Indices: 156770--157007 Score: 186
Period size: 29 Copynumber: 8.4 Consensus size: 29
156760 ATATATATTA
* *
156770 TAGTCTTATACATTATAGTATTATATAT-T
1 TAGTATTATATATTATA-TATTATATATAT
156799 ATAGTATTATATA-TATATATATATATATAT
1 -TAGTATTATATATTATATAT-TATATATAT
*
156829 ATATTATATATATATTATAGTATATATTATATAT
1 -TAGTAT-TATATATTATA-TAT-TA-TATATAT
156863 TA-TA-T-TATATTATATATTATAATATAT
1 TAGTATTATATATTATATATTAT-ATATAT
* *
156890 T-TTATTATACATTATATAGTTATATATA-
1 TAGTATTATATATTATATA-TTATATATAT
*
156918 TA-TA-TATATA-TATTATAGTATATAT-T
1 TAGTATTATATATTA-TATATTATATATAT
156944 TAGTATTATATA-TAT-TA-TATAGT-TA-
1 TAGTATTATATATTATATATTATA-TATAT
*
156969 TA-TTTTATATATTATATATTATATATAT
1 TAGTATTATATATTATATATTATATATAT
156997 TAGTATTATAT
1 TAGTATTATAT
157008 TATGAGTGTT
Statistics
Matches: 176, Mismatches: 8, Indels: 49
0.76 0.03 0.21
Matches are distributed among these distances:
24 8 0.05
25 10 0.06
26 18 0.10
27 29 0.16
28 20 0.11
29 42 0.24
30 22 0.12
31 6 0.03
32 6 0.03
33 8 0.05
34 7 0.04
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
TAGTATTATATATTATATATTATATATAT
Found at i:158207 original size:7 final size:7
Alignment explanation
Indices: 158197--158237 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
158187 TTTTGTTTAG
158197 ATTTTTT
1 ATTTTTT
158204 ATTTTTT
1 ATTTTTT
158211 A-TTTTT
1 ATTTTTT
158217 ATTTTTT
1 ATTTTTT
158224 -TATTTTT
1 AT-TTTTT
158231 ATTTTTT
1 ATTTTTT
158238 GGTAATATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 7 0.23
7 23 0.74
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Done.