Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006678.1 Hibiscus syriacus cultivar Beakdansim tig00016563_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: 1086949
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 5
Found at i:1697 original size:23 final size:23
Alignment explanation
Indices: 1671--1717 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1661 CAGAGATGTT
1671 TGAATCATAATATTGTGAATGGA
1 TGAATCATAATATTGTGAATGGA
1694 TGAATCATAATATTGTGAATGGA
1 TGAATCATAATATTGTGAATGGA
1717 T
1 T
1718 TAATTCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.36
Consensus pattern (23 bp):
TGAATCATAATATTGTGAATGGA
Found at i:6217 original size:24 final size:24
Alignment explanation
Indices: 6189--6242 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
6179 GCTATTTTGG
6189 TACCAATACTCAATGGGGTATCGA
1 TACCAATACTCAATGGGGTATCGA
6213 TACCAATACTCAATGGGGTATCGA
1 TACCAATACTCAATGGGGTATCGA
6237 TACCAA
1 TACCAA
6243 GGGGTAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (24 bp):
TACCAATACTCAATGGGGTATCGA
Found at i:7468 original size:36 final size:37
Alignment explanation
Indices: 7397--7468 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 37
7387 AATTATGCGA
* * *
7397 TTTAATTTGATTTTATATTTTATATTTTTAATTTGAT
1 TTTAATTTGAATTTAAATATTATATTTTTAATTTGAT
*
7434 TTTAATTT-AATTTAAATATTA-ATTTTATAGTTTGA
1 TTTAATTTGAATTTAAATATTATATTTT-TAATTTGA
7469 CCTAGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
35 5 0.17
36 17 0.57
37 8 0.27
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (37 bp):
TTTAATTTGAATTTAAATATTATATTTTTAATTTGAT
Found at i:18251 original size:2 final size:2
Alignment explanation
Indices: 18244--18276 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18234 ACCGACTATG
18244 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 T
18277 GTGTGTGCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19690 original size:20 final size:20
Alignment explanation
Indices: 19665--19706 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
19655 ATTGATCCAT
19665 TCACTCTGCAGATGCAACAA
1 TCACTCTGCAGATGCAACAA
19685 TCACTCTGCAGATGCAACAA
1 TCACTCTGCAGATGCAACAA
19705 TC
1 TC
19707 CATTCATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.21
Consensus pattern (20 bp):
TCACTCTGCAGATGCAACAA
Found at i:19717 original size:25 final size:24
Alignment explanation
Indices: 19659--19730 Score: 89
Period size: 25 Copynumber: 3.1 Consensus size: 24
19649 TAACGAATTG
19659 ATCCATTCACTCTGCAGATGCAACA
1 ATCCATTCA-TCTGCAGATGCAACA
19684 AT-CA--C-TCTGCAGATGCAACA
1 ATCCATTCATCTGCAGATGCAACA
*
19704 ATCCATTCATTCTGCAGATACAACA
1 ATCCATTCA-TCTGCAGATGCAACA
19729 AT
1 AT
19731 GTGATTGATG
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
20 17 0.41
21 2 0.05
22 1 0.02
23 1 0.02
24 2 0.05
25 18 0.44
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (24 bp):
ATCCATTCATCTGCAGATGCAACA
Found at i:21766 original size:96 final size:96
Alignment explanation
Indices: 21602--21795 Score: 253
Period size: 96 Copynumber: 2.0 Consensus size: 96
21592 GGGCTGTGGC
* * * * * * * *
21602 TGCTGAGCCGGAGGCATTGGGAATTGTTGATTAGGAGTCTCTTGAGTTTGGCCTGGCGGTGGGTA
1 TGCTGAGCAGGAGGCATTGAGAATTGCTGATTAGGAGTATCCTGAGATTGGCCGGGCGGTGGATA
*
21667 GTAAGCATCTCGCTGAGGAACAGAAGGAACT
66 GTAAGCATCTAGCTGAGGAACAGAAGGAACT
* * *
21698 TGCTGAGTAGGAGGCATTGAGAATTGCTGATTTGGAGTATCCTGAGATTGGCCGGGTGGTGGATA
1 TGCTGAGCAGGAGGCATTGAGAATTGCTGATTAGGAGTATCCTGAGATTGGCCGGGCGGTGGATA
* * *
21763 GTAAGCATCTAGTTGAGGGACAGGAGGAACT
66 GTAAGCATCTAGCTGAGGAACAGAAGGAACT
21794 TG
1 TG
21796 GTTCTGAGGG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.23, C:0.13, G:0.37, T:0.26
Consensus pattern (96 bp):
TGCTGAGCAGGAGGCATTGAGAATTGCTGATTAGGAGTATCCTGAGATTGGCCGGGCGGTGGATA
GTAAGCATCTAGCTGAGGAACAGAAGGAACT
Found at i:35218 original size:2 final size:2
Alignment explanation
Indices: 35211--35498 Score: 68
Period size: 2 Copynumber: 142.0 Consensus size: 2
35201 ACAAATCCTT
*
35211 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
35253 TA TT TA -A TA T- TA -A TA TA T- TT TA TA T- TA TA TCC T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * *
35290 TA CT- TA TA TT TA -A TA TT TA TA T- TC TT TA TA T- TA TA TA CTT
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
35330 TA TA CTA -A AA CTT TA TA TA TA TA TA TGC T- TA TA CTT TA TA CTA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA T-A TA TA TA -TA TA TA -TA
* * * *
35373 CA TA TA TA TA CTT TA TA GTT TA TA TA TA TA CT- TA TA CTT TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * ** *
35416 CTA TA TA TA TA CTT TA TA CTT TA AA GTA TA TA TA CC T- TA TA GTT
1 -TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA
*
35460 TA TA TA TA TA TA TA TA TA T- TA TA CTT TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
35499 CTTTATATTT
Statistics
Matches: 209, Mismatches: 41, Indels: 72
0.65 0.13 0.22
Matches are distributed among these distances:
1 16 0.08
2 170 0.81
3 23 0.11
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35298 original size:21 final size:20
Alignment explanation
Indices: 35210--35335 Score: 73
Period size: 21 Copynumber: 6.0 Consensus size: 20
35200 TACAAATCCT
*
35210 TTATATATATATATATATATAC
1 TTATAT-TATATCT-TATATAC
* *
35232 ATATA-TATAT-ATATATAC
1 TTATATTATATCTTATATAC
* *
35250 TTATATTTAATAT-TAATATATT
1 TTATA-TT-ATATCTTATATA-C
35272 TTATATTATATCCTTATATAC
1 TTATATTATAT-CTTATATAC
*
35293 TTATATTTAATAT-TTATATTC
1 TTATA-TT-ATATCTTATATAC
35314 TTTATATTATATACTT-TATAC
1 -TTATATTATAT-CTTATATAC
35335 T
1 T
35336 AAAACTTTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
18 11 0.13
20 15 0.18
21 29 0.35
22 24 0.29
23 4 0.05
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATTATATCTTATATAC
Found at i:35318 original size:43 final size:43
Alignment explanation
Indices: 35235--35335 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
35225 TATATACATA
35235 TATATA-TATATATACTTATATTTAATATTAATATATTTTATAT
1 TATATACT-TATATACTTATATTTAATATTAATATATTTTATAT
* *
35278 TATATCCTTATATACTTATATTTAATATTTATAT-TCTTTATAT
1 TATATACTTATATACTTATATTTAATATTAATATAT-TTTATAT
35321 TATATACTT-TATACT
1 TATATACTTATATACT
35336 AAAACTTTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 7 0.13
43 45 0.85
44 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (43 bp):
TATATACTTATATACTTATATTTAATATTAATATATTTTATAT
Found at i:35334 original size:7 final size:7
Alignment explanation
Indices: 35266--35505 Score: 73
Period size: 7 Copynumber: 34.6 Consensus size: 7
35256 TTAATATTAA
*
35266 TATATTT
1 TATACTT
35273 TATA-TT
1 TATACTT
*
35279 ATATCCTT
1 -TATACTT
35287 ATATAC-T
1 -TATACTT
35294 TATA-TT
1 TATACTT
35300 TAATA-TT
1 T-ATACTT
35307 TATATTCTT
1 TATA--CTT
35316 TATA-TT
1 TATACTT
35322 ATATACTT
1 -TATACTT
35330 TATAC-T
1 TATACTT
* *
35336 AAAACTT
1 TATACTT
35343 TATA-TAT
1 TATACT-T
35350 ATATA-TGCT
1 -TATACT--T
35359 TATACTT
1 TATACTT
*
35366 TATACTA
1 TATACTT
* *
35373 CATA-TA
1 TATACTT
35379 TATACTT
1 TATACTT
*
35386 TATAGTT
1 TATACTT
*
35393 TATA-TA
1 TATACTT
35399 TATAC-T
1 TATACTT
35405 TATACTT
1 TATACTT
35412 TATAC--
1 TATACTT
*
35417 TATA-TA
1 TATACTT
35423 TATACTT
1 TATACTT
35430 TATACTT
1 TATACTT
* *
35437 TAAAGTAT
1 TATACT-T
*
35445 ATATACCT
1 -TATACTT
*
35453 TATAGTT
1 TATACTT
*
35460 TATA-TA
1 TATACTT
*
35466 TATA-TA
1 TATACTT
35472 TATA-TAT
1 TATACT-T
35479 TATACTT
1 TATACTT
*
35486 TATAGTAT
1 TATACT-T
35494 ATATACTT
1 -TATACTT
35502 TATA
1 TATA
35506 TTTTTTTTAC
Statistics
Matches: 181, Mismatches: 26, Indels: 52
0.70 0.10 0.20
Matches are distributed among these distances:
5 4 0.02
6 49 0.27
7 89 0.49
8 23 0.13
9 16 0.09
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (7 bp):
TATACTT
Found at i:35362 original size:43 final size:40
Alignment explanation
Indices: 35210--35422 Score: 139
Period size: 43 Copynumber: 5.0 Consensus size: 40
35200 TACAAATCCT
* * *
35210 TTATATATATATATATATATACATATA-TATATA-TATATAC
1 TTATATTTA-ATATATATAT-CTTATATTATATACTTTATAC
* *
35250 TTATATTTAATATTAATATATTTTATATTATATCCTTATATAC
1 TTATATTTAATA-T-ATATATCTTATATTATATACTT-TATAC
*
35293 TTATATTTAATATTTATATTCTTTATATTATATACTTTATAC
1 TTATATTTAATATATATA-TC-TTATATTATATACTTTATAC
* *
35335 TAAAACTTTATATATATATATGCTTATACTTTATACTACATATATATAC
1 TTATA-TTTA-ATATATATAT-CTTATA--TTATA-TAC-T-T-TATAC
*
35384 TTTATAGTTT-ATATATATA-CTTATACTT-TATACTATATA
1 -TTATA-TTTAATATATATATCTTATA-TTATATACTTTATA
35423 TATACTTTAT
Statistics
Matches: 140, Mismatches: 16, Indels: 34
0.74 0.08 0.18
Matches are distributed among these distances:
39 3 0.02
40 17 0.12
41 15 0.11
42 12 0.09
43 44 0.31
44 11 0.08
45 7 0.05
46 9 0.06
47 1 0.01
48 10 0.07
49 5 0.04
50 6 0.04
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (40 bp):
TTATATTTAATATATATATCTTATATTATATACTTTATAC
Found at i:35463 original size:67 final size:65
Alignment explanation
Indices: 35359--35494 Score: 179
Period size: 67 Copynumber: 2.1 Consensus size: 65
35349 TATATATGCT
* *
35359 TATACTTTATACTACATATATATACTTTATAGTTTATATATATACT-TATACT-TTATACTATAT
1 TATACTTTATACTAAATATATATACCTTATAGTTTATATATATA-TATATA-TATTATACTATAT
35422 A-
64 AG
*
35423 TATACTTTATACTTTAAAGTATATATACCTTATAGTTTATATATATATATATATATTATACTTTA
1 TATACTTTATAC--TAAA-TATATATACCTTATAGTTTATATATATATATATATATTATACTATA
35488 TAG
63 TAG
35491 TATA
1 TATA
35495 TATACTTTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
64 12 0.19
66 5 0.08
67 42 0.67
68 4 0.06
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (65 bp):
TATACTTTATACTAAATATATATACCTTATAGTTTATATATATATATATATATTATACTATATAG
Found at i:39983 original size:2 final size:2
Alignment explanation
Indices: 39971--40047 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
39961 GGTATACAAG
*
39971 TA TA CA TA TA TA TA TA TA TA TA 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
40013 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 T
40048 GTTTCCAAGA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:43343 original size:38 final size:37
Alignment explanation
Indices: 43300--43425 Score: 137
Period size: 37 Copynumber: 3.4 Consensus size: 37
43290 TATTTAACCT
* * *
43300 ATTTATATTCGATTGAAATAGGAATACATTATTTATAA
1 ATTTATATTCAATT-AAATAAGAATATATTATTTATAA
** * *
43338 ATTTATATTTTATTAAATAAAAATATATTATTTTTAA
1 ATTTATATTCAATTAAATAAGAATATATTATTTATAA
* *
43375 ATTTATATTCAATTAAAATAAGAAAATATTA-TTACAA
1 ATTTATATTCAATT-AAATAAGAATATATTATTTATAA
*
43412 ATTTATAATCAATT
1 ATTTATATTCAATT
43426 GGAATATAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
37 48 0.65
38 26 0.35
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (37 bp):
ATTTATATTCAATTAAATAAGAATATATTATTTATAA
Found at i:46386 original size:31 final size:31
Alignment explanation
Indices: 46322--46389 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
46312 GTTAATCTTT
* * *
46322 AGTGACTACATCTTAATTAAATAAAAACAAA
1 AGTGACTAAATCTAAATTAAAGAAAAACAAA
* **
46353 AGTGCCTAAATCTAAATTAAAGAAAAATGAA
1 AGTGACTAAATCTAAATTAAAGAAAAACAAA
46384 AGTGAC
1 AGTGAC
46390 CTTATATTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (31 bp):
AGTGACTAAATCTAAATTAAAGAAAAACAAA
Found at i:46622 original size:32 final size:29
Alignment explanation
Indices: 46561--46662 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 29
46551 CCTTTTCATT
* * *
46561 TAAGTACCTAAAGAATTTTTTGGTTAAAA
1 TAAGTACCTAAAGATTTTTTTTGTCAAAA
46590 TAAGTACCTAAAGTGACTTTTTTTTGTCAAAA
1 TAAGTACCTAAA--GA-TTTTTTTTGTCAAAA
* * * *
46622 TAAGTACGTAAAAATATTTTATGTCAAAA
1 TAAGTACCTAAAGATTTTTTTTGTCAAAA
*
46651 TAGGTACCTAAA
1 TAAGTACCTAAA
46663 CTATTCAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
29 35 0.57
30 1 0.02
31 2 0.03
32 23 0.38
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (29 bp):
TAAGTACCTAAAGATTTTTTTTGTCAAAA
Found at i:46808 original size:30 final size:28
Alignment explanation
Indices: 46747--46819 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
46737 TGAAAAAATT
*
46747 AAATACTTTAGGTACATATTTTGATAAA
1 AAATACTTTAGGTACATATTTTGAAAAA
* *
46775 AAATACTTTATGTACGTATTTTGACCAAAA
1 AAATACTTTAGGTACATATTTTGA--AAAA
*
46805 AAATATTTTAGGTAC
1 AAATACTTTAGGTAC
46820 TTAAATGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 22 0.58
30 16 0.42
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (28 bp):
AAATACTTTAGGTACATATTTTGAAAAA
Found at i:52397 original size:18 final size:18
Alignment explanation
Indices: 52374--52411 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
52364 TATTCGGGAG
52374 ATCATTTTGTAACTTTTA
1 ATCATTTTGTAACTTTTA
52392 ATCATTTTGTAACTTTTA
1 ATCATTTTGTAACTTTTA
52410 AT
1 AT
52412 AGTCGGAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (18 bp):
ATCATTTTGTAACTTTTA
Found at i:55413 original size:20 final size:21
Alignment explanation
Indices: 55368--55413 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
55358 GCCTTTGCTG
* *
55368 CTCTTCTTCTTCTTCCTGCTC
1 CTCTTCTTCTTCTTACAGCTC
*
55389 C-CTTCTTC-TCTTACAGGTC
1 CTCTTCTTCTTCTTACAGCTC
55408 CTCTTC
1 CTCTTC
55414 CACTTCTCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.43
20 11 0.52
21 1 0.05
ACGTcount: A:0.04, C:0.41, G:0.07, T:0.48
Consensus pattern (21 bp):
CTCTTCTTCTTCTTACAGCTC
Found at i:57694 original size:20 final size:20
Alignment explanation
Indices: 57600--57928 Score: 387
Period size: 20 Copynumber: 16.4 Consensus size: 20
57590 GATTTTCCAT
* ** *
57600 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
57620 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
57640 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
57660 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
57680 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
57700 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
57720 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
57740 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
57760 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
57780 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
57800 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
57820 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
57840 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
*** *
57860 AATCGCAACGAAAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
57880 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
57900 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
57920 AATCACAAC
1 AATCGCAAC
57929 ACTTAAATTT
Statistics
Matches: 271, Mismatches: 30, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
19 4 0.01
20 263 0.97
21 4 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:58650 original size:24 final size:24
Alignment explanation
Indices: 58611--58657 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
58601 AAATTTGGTC
58611 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
58635 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
58658 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:61026 original size:34 final size:32
Alignment explanation
Indices: 60973--61042 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
60963 CCTTACAAAC
*
60973 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
61005 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
61039 TCCC
1 TCCC
61043 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:61519 original size:34 final size:34
Alignment explanation
Indices: 61479--61562 Score: 134
Period size: 34 Copynumber: 2.5 Consensus size: 34
61469 AAACCATGCA
61479 GGGGGAATCTGTACCCGGGGAATCGATA-CCCCT
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
* *
61512 GGGGGGAATCTGTTCCAGGGGAATCGATACCCCCT
1 -GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
61547 GGGGGAATCTGTACCC
1 GGGGGAATCTGTACCC
61563 CTGGACAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 40 0.89
35 5 0.11
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.19
Consensus pattern (34 bp):
GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
Found at i:68165 original size:11 final size:11
Alignment explanation
Indices: 68149--68176 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
68139 ATGTCAAGTA
68149 AAAATGGTAAG
1 AAAATGGTAAG
68160 AAAATGGTAAG
1 AAAATGGTAAG
68171 AAAATG
1 AAAATG
68177 TCAAGTAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (11 bp):
AAAATGGTAAG
Found at i:69297 original size:34 final size:32
Alignment explanation
Indices: 69244--69313 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
69234 CCTTACAAAC
* *
69244 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
*
69276 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
69310 TCCC
1 TCCC
69314 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:69795 original size:34 final size:34
Alignment explanation
Indices: 69750--69833 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 34
69740 AAACCATGCA
*
69750 GGGGGAATCTGTACCCGGGGAATCGATA-CTCCT
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
* *
69783 GGGGGAAATCTGTTCCAGGGGAATCGATACCCCCT
1 GGGGG-AATCTGTACCCGGGGAATCGATACCCCCT
*
69818 AGGGGAATCTGTACCC
1 GGGGGAATCTGTACCC
69834 CCTGGACAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
33 5 0.12
34 30 0.70
35 8 0.19
ACGTcount: A:0.23, C:0.25, G:0.32, T:0.20
Consensus pattern (34 bp):
GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
Found at i:69823 original size:19 final size:19
Alignment explanation
Indices: 69799--69836 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
69789 AATCTGTTCC
69799 AGGGGAATC-GATACCCCCT
1 AGGGGAATCTG-TACCCCCT
69818 AGGGGAATCTGTACCCCCT
1 AGGGGAATCTGTACCCCCT
69837 GGACAATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.18
Consensus pattern (19 bp):
AGGGGAATCTGTACCCCCT
Found at i:74041 original size:15 final size:15
Alignment explanation
Indices: 74023--74058 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
74013 ATCAATGCGA
74023 CTATATACAATTGTT
1 CTATATACAATTGTT
74038 CTATATACAATTGTT
1 CTATATACAATTGTT
74053 CTATAT
1 CTATAT
74059 TTGCAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (15 bp):
CTATATACAATTGTT
Found at i:77893 original size:35 final size:35
Alignment explanation
Indices: 77847--77922 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
77837 AAAACAATCC
* *
77847 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
77882 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
77917 TCAATT
1 TCAATT
77923 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:78465 original size:130 final size:130
Alignment explanation
Indices: 78319--78566 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
78309 TATTTATATA
* **
78319 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
78384 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
78449 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
78514 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
78567 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:78597 original size:130 final size:129
Alignment explanation
Indices: 78333--78597 Score: 318
Period size: 130 Copynumber: 2.0 Consensus size: 129
78323 ATTTGGTCCT
* ** *
78333 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * * ** *
78398 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAATAAGT-CA
78463 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
78528 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAATAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAATAAGT
78592 -A
128 CA
78593 AAATT
1 AAATT
78598 TGGGTCTTGG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 100 0.88
132 9 0.08
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAATAAGTCA
Found at i:79106 original size:35 final size:35
Alignment explanation
Indices: 79058--79133 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
79048 AAAACAGTCC
* *
79058 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* **
79093 TTAATTTCATTCTAAACCTTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
79128 TCAATT
1 TCAATT
79134 AAATTCAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:79687 original size:130 final size:130
Alignment explanation
Indices: 79528--79775 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
79518 TATTTATATA
* * ** *
79528 ATCAATTTGGTCCTAAATTCAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTG
* *
79593 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
79658 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTG
* * *
79723 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
79776 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:79806 original size:130 final size:129
Alignment explanation
Indices: 79542--79806 Score: 291
Period size: 130 Copynumber: 2.0 Consensus size: 129
79532 ATTTGGTCCT
* * ** * *
79542 AAATTCAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTGTTAACACATGATCA
* *** * * **** *
79607 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
79672 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTGTTAACACATGATCA
* * * *
79737 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
79801 -A
128 CA
79802 AAATT
1 AAATT
79807 TGGGTCTTGG
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 98 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTAACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:80269 original size:17 final size:17
Alignment explanation
Indices: 80243--80275 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
80233 ATTTCTTATT
80243 AAAAATAAAT-ATTCAA
1 AAAAATAAATGATTCAA
80259 AAAATATAAATGATTCA
1 AAAA-ATAAATGATTCA
80276 TACATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAATAAATGATTCAA
Found at i:80832 original size:28 final size:27
Alignment explanation
Indices: 80801--80863 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
80791 AGTTGATACA
*
80801 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
80829 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
80857 ATATTTT
1 ATATTTT
80864 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:80964 original size:16 final size:18
Alignment explanation
Indices: 80943--80976 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
80933 ATTTCTTATT
80943 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
80959 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
80977 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:81670 original size:16 final size:18
Alignment explanation
Indices: 81649--81682 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
81639 ATTTCTTATT
81649 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
81665 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
81683 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:81695 original size:706 final size:705
Alignment explanation
Indices: 80038--82147 Score: 3993
Period size: 706 Copynumber: 3.0 Consensus size: 705
80028 TTTTACAATA
80038 AAAAAAATTATATTTGATAAATTGTTTGATAGATTTAATATA-TTTTTAAATATTAGTTGATACA
1 AAAAAAATTATATTTGATAAATTGTTTGATAGATTTAATATATTTTTTAAATATTAGTTGATACA
80102 ATA-TTTAAAAGAATAAATTTAAGATTTATATATTTTTAAACTAAATTTAATAATTATATTTTTC
66 ATATTTTAAAAGAATAAATTTAAGATTTATATATTTTTAAACTAAATTTAATAATTATATTTTTC
80166 ATATTTATAATTCATGATTATATATATAATCTTAAGTTGAGTATTTCTAATATAATTAATAATTT
131 ATATTTATAATTCATGATTATATATATAATCTTAAGTTGAGTATTTCTAATATAATTAATAATTT
80231 TAATTTCTTATTAAAAAT-AAATATTCAAAAAATATAAATGATTCATACATT-A-ATATGAATAT
196 TAATTTCTTATTAAAAATAAAATATTCAAAAAATATAAATGATTCATACATTAATATATGAATAT
80293 A-TTTTTT-TTTATACATCTAAATATAATATACATTTATAT-AATATATTTTTATTCGTATATTG
261 ATTTTTTTATTTATACATCTAAATATAATATACATTTATATAAATATATTTTTATTCGTATATTG
*
80355 AAATATTTTGATTAAATTATAAACATATTTTAAATACTAGTTTATACAAGAAAAATAAAATATAT
326 AAATATTTTGATTAAAATATAAACATATTTTAAATACTAGTTTATACAAGAAAAATAAAATATAT
*
80420 CAAAAATATAAATGATTCATACATTTAAATATAAATTGAATCAATTATATTTTCTATACATCTAT
391 CAAAAATATAAATGATTCATACATTTAAATATAAATTGAATCATTTATATTTTCTATACATCTAT
80485 ATTTAATAAGAAAATAAAATTATTGGGGGACTGTTTTGCAAGTTTTAAAAGTTGGGGACCTAAAT
456 ATTTAATAAGAAAATAAAATTATTGGGGGACTGTTTTGCAAGTTTTAAAAGTTGGGGACCTAAAT
80550 TCAAGTGCCTGAAAAGTTCAATGACCGTTTATATAATTTACCCTAATTTTCTAACAGTGATTTAA
521 TCAAGTGCCTGAAAAGTTCAATGACCGTTTATATAATTTACCCTAATTTTCTAACAGTGATTTAA
* *
80615 GTTGGGGGATCATATTGCAAACAGAATAAATGTTGGGGGACTGTATTGCAAGTTTTAAAAGTTAG
586 GTTGGGGGATCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGCAAGTTTTAAAAGTTGG
80680 GGGACCTAAATGCAAGCTTCAGAAATGTTCAGTGACCATTACTATACTTTACCCT
651 GGGACCTAAATGCAAGCTTCAGAAATGTTCAGTGACCATTACTATACTTTACCCT
80735 AAAAAATATTATATTTGATAAATTGTTTGATAGATTTAATATATTTTTTAAATATTAGTTGATAC
1 AAAAAA-ATTATATTTGATAAATTGTTTGATAGATTTAATATATTTTTTAAATATTAGTTGATAC
80800 AATATTTTAAAAGAATAAATTTAAGATTTATATATTTTTAAACTAAATTTAATAATTATATTTTT
65 AATATTTTAAAAGAATAAATTTAAGATTTATATATTTTTAAACTAAATTTAATAATTATATTTTT
80865 CATATTTATAATTCATGATTATATATATAATCTTAAGTTGAGTATTTCTAATATAATTAATAATT
130 CATATTTATAATTCATGATTATATATATAATCTTAAGTTGAGTATTTCTAATATAATTAATAATT
80930 TTAATTTCTTATTAAAAATAAAATATTCAAAAAATATAAATGATTCATACATTAATATATGAATA
195 TTAATTTCTTATTAAAAATAAAATATTCAAAAAATATAAATGATTCATACATTAATATATGAATA
80995 TATTTTTTTATTTATACATCTAAATATAACTATACATTTATATAAATATATTTTTATTCGTATAT
260 TATTTTTTTATTTATACATCTAAATATAA-TATACATTTATATAAATATATTTTTATTCGTATAT
81060 TGAAATATTTTGATTAAAATATAAACATATTTTAAATACTAGTTTATACAAGAAAAATAAAATAT
324 TGAAATATTTTGATTAAAATATAAACATATTTTAAATACTAGTTTATACAAGAAAAATAAAATAT
* *
81125 ATCCAAAATATAAATGATTCATGCATTTAAATATAAATTGAATCATTTATATTTTCTATACATCT
389 ATCAAAAATATAAATGATTCATACATTTAAATATAAATTGAATCATTTATATTTTCTATACATCT
81190 ATATTTAATAAGAAAATAAAATTATTGGGGGACTGTTTTGCAAGTTTTAAAAGTTGGGGACCTAA
454 ATATTTAATAAGAAAATAAAATTATTGGGGGACTGTTTTGCAAGTTTTAAAAGTTGGGGACCTAA
*
81255 ATTCAAGTGCCTGAAAAGTTCAATGACCATTTATATAATTTACCCTAATTTTCTAACAGTGATTT
519 ATTCAAGTGCCTGAAAAGTTCAATGACCGTTTATATAATTTACCCTAATTTTCTAACAGTGATTT
81320 AAGTTGGGGGATCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGCAAGTTTTAAAAGTT
584 AAGTTGGGGGATCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGCAAGTTTTAAAAGTT
* *
81385 GGGGGACCTAAATGCAAGCTTTAGAAATGTTCAGTGACAATTACTATACTTTACCCT
649 GGGGGACCTAAATGCAAGCTTCAGAAATGTTCAGTGACCATTACTATACTTTACCCT
81442 AAAAAAATTATATTTGATAAATTGTTTGATAGATTTAATATATTTTTTAAATATTAGTTGATACA
1 AAAAAAATTATATTTGATAAATTGTTTGATAGATTTAATATATTTTTTAAATATTAGTTGATACA
*
81507 ATATTTTAAAAGAATAAATTAAAGATTTATATATTTTTAAACTAAATTTAATAATTATATTTTTC
66 ATATTTTAAAAGAATAAATTTAAGATTTATATATTTTTAAACTAAATTTAATAATTATATTTTTC
81572 ATATTTATAATTCATGATTATATATATAATCTTAAGTTGAGTATTTCTAATATAATTAATAATTT
131 ATATTTATAATTCATGATTATATATATAATCTTAAGTTGAGTATTTCTAATATAATTAATAATTT
81637 TAATTTCTTATTAAAAATAAAATATTCAAAAAATATAAATGATTCATACATTAATATATGAATAT
196 TAATTTCTTATTAAAAATAAAATATTCAAAAAATATAAATGATTCATACATTAATATATGAATAT
81702 ATTTTTTTATTTATACATCTAAATATAAATATACATTTATATAAATATATTTTTATTCGTATATT
261 ATTTTTTTATTTATACATCTAAATAT-AATATACATTTATATAAATATATTTTTATTCGTATATT
* *
81767 GAAATATTCTGATTAAAATATAAACATATTTTAAATACTAATTTATACAAGAAAAATAAAATATA
325 GAAATATTTTGATTAAAATATAAACATATTTTAAATACTAGTTTATACAAGAAAAATAAAATATA
81832 TCAAAAATATAAATGATTCATACATTTAAATATAAATTGAATCATTTATATTTTCTATACATCTA
390 TCAAAAATATAAATGATTCATACATTTAAATATAAATTGAATCATTTATATTTTCTATACATCTA
81897 TATTTAATAAGAAAATAAAATTATTGGGGGACTGTTTTGCAAGTTTTAAAAGTTGGGGACCTAAA
455 TATTTAATAAGAAAATAAAATTATTGGGGGACTGTTTTGCAAGTTTTAAAAGTTGGGGACCTAAA
*
81962 TTCAAGTGCCTGAAAAGTTCAATGACCGTTTATATAATTTACCCTAATTTTCTAACACTGATTTA
520 TTCAAGTGCCTGAAAAGTTCAATGACCGTTTATATAATTTACCCTAATTTTCTAACAGTGATTTA
*
82027 AGTTGGGGGACCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGCAAGTTTTAAAAGTTG
585 AGTTGGGGGATCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGCAAGTTTTAAAAGTTG
* *
82092 AGGGACCTAAATGCAAACTTCAGAAATGTTCAGTGACCATTACTATACTTTACCCT
650 GGGGACCTAAATGCAAGCTTCAGAAATGTTCAGTGACCATTACTATACTTTACCCT
82148 TAATATTATG
Statistics
Matches: 1381, Mismatches: 21, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
697 6 0.00
698 36 0.03
699 25 0.02
700 144 0.10
701 33 0.02
702 1 0.00
703 11 0.01
704 6 0.00
705 19 0.01
706 698 0.51
707 402 0.29
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (705 bp):
AAAAAAATTATATTTGATAAATTGTTTGATAGATTTAATATATTTTTTAAATATTAGTTGATACA
ATATTTTAAAAGAATAAATTTAAGATTTATATATTTTTAAACTAAATTTAATAATTATATTTTTC
ATATTTATAATTCATGATTATATATATAATCTTAAGTTGAGTATTTCTAATATAATTAATAATTT
TAATTTCTTATTAAAAATAAAATATTCAAAAAATATAAATGATTCATACATTAATATATGAATAT
ATTTTTTTATTTATACATCTAAATATAATATACATTTATATAAATATATTTTTATTCGTATATTG
AAATATTTTGATTAAAATATAAACATATTTTAAATACTAGTTTATACAAGAAAAATAAAATATAT
CAAAAATATAAATGATTCATACATTTAAATATAAATTGAATCATTTATATTTTCTATACATCTAT
ATTTAATAAGAAAATAAAATTATTGGGGGACTGTTTTGCAAGTTTTAAAAGTTGGGGACCTAAAT
TCAAGTGCCTGAAAAGTTCAATGACCGTTTATATAATTTACCCTAATTTTCTAACAGTGATTTAA
GTTGGGGGATCATATTGCAAACGGAATAAATGTTGGGGGACTGTATTGCAAGTTTTAAAAGTTGG
GGGACCTAAATGCAAGCTTCAGAAATGTTCAGTGACCATTACTATACTTTACCCT
Found at i:88761 original size:20 final size:21
Alignment explanation
Indices: 88736--88828 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
88726 TTTTCCCAAT
*
88736 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
88756 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
88777 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
88797 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
88818 TCGCAATGCGA
1 TCGCAATGCGA
88829 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:88781 original size:41 final size:41
Alignment explanation
Indices: 88736--88828 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
88726 TTTTCCCAAT
88736 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
88777 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
88818 TCGCAATGCGA
1 TCGCAATGCGA
88829 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:88841 original size:41 final size:41
Alignment explanation
Indices: 88755--88889 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
88745 GAATAAGTAA
* *
88755 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
88796 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
88837 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
88878 TTCGCAACGCGA
1 ATCGCAACGCGA
88890 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:88842 original size:20 final size:20
Alignment explanation
Indices: 88817--88931 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
88807 AATTGGGAAA
*
88817 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
88837 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
88858 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
88878 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
88898 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
88918 TTCGCAACGCGATA
1 ATCGCAACGCGATA
88932 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:88890 original size:41 final size:41
Alignment explanation
Indices: 88814--88951 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
88804 GCGAATTGGG
* * *
88814 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
88855 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
88897 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
88936 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
88952 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:89147 original size:22 final size:22
Alignment explanation
Indices: 89119--89162 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
89109 CACTCTCTCA
89119 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
89141 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
89163 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:89471 original size:20 final size:20
Alignment explanation
Indices: 89417--89475 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
89407 GCAATTATCT
**
89417 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
89437 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
89457 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
89476 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:90815 original size:18 final size:18
Alignment explanation
Indices: 90794--90838 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
90784 TCCACTTCGG
*
90794 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
90812 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
90830 GAGCCATCA
1 GAGCCATCA
90839 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:91368 original size:19 final size:20
Alignment explanation
Indices: 91314--91380 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
91304 TAGTTTACTT
* *
91314 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
91334 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
91354 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
91373 TCGCAACG
1 TCGCAACG
91381 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:91388 original size:14 final size:14
Alignment explanation
Indices: 91369--91426 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
91359 ATGCGAAATG
91369 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
91383 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
91399 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
91415 AAAATCGCAACG
1 AAAATCGCAACG
91427 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:91411 original size:32 final size:33
Alignment explanation
Indices: 91353--91443 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
91343 GGAAATGGCT
*
91353 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
91386 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
91418 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
91444 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:91437 original size:19 final size:19
Alignment explanation
Indices: 91314--91448 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
91304 TAGTTTACTT
* **
91314 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
91334 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
91354 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
91373 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
91387 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
91405 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
91419 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
91438 TCGCAATGCGA
1 TCGCAACGCGA
91449 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:91479 original size:14 final size:14
Alignment explanation
Indices: 91460--91517 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
91450 TTGTGTTTCG
91460 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
91474 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
91490 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
91506 CGTTGTGATTTT
1 CGTTGCGATTTT
91518 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:91494 original size:32 final size:33
Alignment explanation
Indices: 91455--91533 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
91445 GCGATTTGTG
91455 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
91487 TTTCGCGTTGCGATTTTGTCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
91520 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
91534 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:91552 original size:20 final size:19
Alignment explanation
Indices: 91518--91569 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
91508 TTGTGATTTT
*
91518 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
91537 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
91557 CATTTCGCGTTGC
1 CATTTCGCGTTGC
91570 AATTTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:93460 original size:14 final size:14
Alignment explanation
Indices: 93441--93476 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
93431 ATTGTTTAAT
93441 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
93455 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
93469 TGATTTGT
1 TGATTTGT
93477 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:93615 original size:19 final size:19
Alignment explanation
Indices: 93593--93660 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
93583 ATCGCAACGA
93593 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
93612 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
93631 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
93645 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
93661 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:93704 original size:20 final size:20
Alignment explanation
Indices: 93679--93736 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
93669 TCGCATTGCG
*
93679 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
93699 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
93719 ATTTTCGCATTGCGATAG
1 ATTTTCGCGTTGCGATAG
93737 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:94819 original size:24 final size:24
Alignment explanation
Indices: 94792--94845 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
94782 GTATTCGAAA
* *
94792 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
94816 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
94840 TTTGAT
1 TTTGAT
94846 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:95037 original size:12 final size:12
Alignment explanation
Indices: 95020--95044 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95010 ATATAATCCT
95020 GAAGAAGAAAAA
1 GAAGAAGAAAAA
95032 GAAGAAGAAAAA
1 GAAGAAGAAAAA
95044 G
1 G
95045 TCACCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:97355 original size:19 final size:19
Alignment explanation
Indices: 97333--97430 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
97323 GGAAATTACT
97333 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
97352 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
97366 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
97385 ATCGCAA--CG--A-GGTA
1 ATCGCAATGCGAAATGAAA
97399 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
97418 ATCGCAACGCGAA
1 ATCGCAATGCGAA
97431 TTTGCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:97375 original size:33 final size:33
Alignment explanation
Indices: 97333--97426 Score: 172
Period size: 33 Copynumber: 2.8 Consensus size: 33
97323 GGAAATTACT
97333 ATCGCAATGCGAAATGAAAATCGCAACGAGAG-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAG-GTA
97366 ATCGCAATGCGAAATGAAAATCGCAACGAGGTA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGTA
97399 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
97427 CGAATTTGCG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 1 0.02
33 59 0.98
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGGTA
Found at i:97458 original size:19 final size:19
Alignment explanation
Indices: 97430--97495 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
97420 CGCAACGCGA
97430 ATTT-GCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
97448 ATTTCGCGTTGTGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
97465 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
97481 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
97496 AGTACTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
14 9 0.24
16 3 0.08
17 3 0.08
18 4 0.11
19 18 0.49
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:97621 original size:14 final size:14
Alignment explanation
Indices: 97602--97638 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
97592 TATCAATTAA
97602 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
97616 ACAAATCACCTTTT
1 ACAAATCAACTTTT
97630 ACAAATCAA
1 ACAAATCAA
97639 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:99060 original size:21 final size:21
Alignment explanation
Indices: 98994--99060 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
98984 GTGAATCGGG
*
98994 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
99014 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
99036 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
99057 CTCT
1 CTCT
99061 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:99079 original size:42 final size:41
Alignment explanation
Indices: 98994--99116 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
98984 GTGAATCGGG
* * * * *
98994 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
99036 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
99078 CTCTTCAACGATAGGAGTGAACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
99117 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:101165 original size:20 final size:19
Alignment explanation
Indices: 101120--101178 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
101110 TCTTTTGGTT
101120 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
101139 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
101160 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
101179 TAGAATCGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:101188 original size:14 final size:14
Alignment explanation
Indices: 101169--101205 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
101159 GGAAATGACT
*
101169 ATCGCAACGATAGA
1 ATCGCAACGAGAGA
101183 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
101197 ATCGCAACG
1 ATCGCAACG
101206 CGAAATGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:101251 original size:19 final size:19
Alignment explanation
Indices: 101229--101279 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
101219 GCGACCAGAC
101229 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
101248 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
101267 AATCGCAATGCGA
1 AATCGCAACGCGA
101280 TTTTTGTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:101253 original size:33 final size:33
Alignment explanation
Indices: 101182--101256 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
101172 GCAACGATAG
* * *
101182 AATCGCAACGAGAGAATCGCAACGCGAAATGAC
1 AATCGCAACCAGACAATCGCAACGCGAAATGAA
* *
101215 TATCGCGACCAGACAATCGCAACGCGAAATGAA
1 AATCGCAACCAGACAATCGCAACGCGAAATGAA
101248 AATCGCAAC
1 AATCGCAAC
101257 GCGAAATGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.27, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACCAGACAATCGCAACGCGAAATGAA
Found at i:101311 original size:19 final size:19
Alignment explanation
Indices: 101275--101319 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
101265 AAAATCGCAA
*
101275 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
101294 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
101313 TGCGATT
1 TGCGATT
101320 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.24, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:101936 original size:20 final size:20
Alignment explanation
Indices: 101911--101964 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
101901 GATTTTTTAT
101911 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
101931 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
101951 TATCGCATTGCGAT
1 TATCGCATTGCGAT
101965 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:102075 original size:21 final size:21
Alignment explanation
Indices: 102035--102075 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
102025 ACTGTATACC
**
102035 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
102056 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
102076 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:103289 original size:12 final size:12
Alignment explanation
Indices: 103258--103302 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
103248 AGCCCCGGTT
103258 ACCCGATTACCCG
1 ACCCGA-TACCCG
* *
103271 CCCCGATATCCG
1 ACCCGATACCCG
103283 ACCCGATACCCG
1 ACCCGATACCCG
103295 ACCCGATA
1 ACCCGATA
103303 AATATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 23 0.82
13 5 0.18
ACGTcount: A:0.24, C:0.47, G:0.16, T:0.13
Consensus pattern (12 bp):
ACCCGATACCCG
Found at i:103320 original size:2 final size:2
Alignment explanation
Indices: 103313--103438 Score: 81
Period size: 2 Copynumber: 67.5 Consensus size: 2
103303 AATATTAAAA
103313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
103354 -T A- AT AA AT -T AA AT TT AA AT -T AA AT -T AA AT -T AA AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
103390 AT AT AT AT AT AT AT AT AT A- AT AT TT AT AT AT TT A- AT TT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
103430 AT AT AT AT A
1 AT AT AT AT A
103439 CCCGGCCCAA
Statistics
Matches: 93, Mismatches: 22, Indels: 18
0.70 0.17 0.14
Matches are distributed among these distances:
1 9 0.10
2 84 0.90
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:103365 original size:5 final size:5
Alignment explanation
Indices: 103357--103386 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
103347 ATAATATTAA
103357 TAAAT TAAATT TAAAT TAAAT TAAAT TAAA
1 TAAAT TAAA-T TAAAT TAAAT TAAAT TAAA
103387 AATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:114290 original size:30 final size:30
Alignment explanation
Indices: 114254--114313 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
114244 GAAGTGAATT
114254 CGTATTCTATAACAGGATTAAATCTTTGAA
1 CGTATTCTATAACAGGATTAAATCTTTGAA
114284 CGTATTCTATAACAGGATTAAATCTTTGAA
1 CGTATTCTATAACAGGATTAAATCTTTGAA
114314 GAAATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (30 bp):
CGTATTCTATAACAGGATTAAATCTTTGAA
Found at i:114979 original size:32 final size:31
Alignment explanation
Indices: 114925--115018 Score: 82
Period size: 32 Copynumber: 2.9 Consensus size: 31
114915 GAGTTTCGAA
* *
114925 TTTGGATATTATAATATGAAAATTAATTTATG
1 TTTGAATAATATAATAT-AAAATTAATTTATG
* * **
114957 TTTAGAATAAT-TAATTTTAAAATAAAAGTATG
1 TTT-GAATAATATAA-TATAAAATTAATTTATG
*
114989 TTTGATTAATATAATATAAAATTAACTTTA
1 TTTGAATAATATAATATAAAATTAA-TTTA
115019 AAATAAACTA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
31 15 0.32
32 25 0.53
33 7 0.15
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.45
Consensus pattern (31 bp):
TTTGAATAATATAATATAAAATTAATTTATG
Found at i:117247 original size:30 final size:31
Alignment explanation
Indices: 117188--117247 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
117178 TATATAAGCT
117188 ATGTGATAAAGTGATGGAACATGATATGTTC
1 ATGTGATAAAGTGATGGAACATGATATGTTC
*
117219 ATGTGATAAAG-GTATGGAA-ATTATATGTT
1 ATGTGATAAAGTG-ATGGAACATGATATGTT
117248 TATACAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (31 bp):
ATGTGATAAAGTGATGGAACATGATATGTTC
Found at i:117500 original size:23 final size:23
Alignment explanation
Indices: 117432--117500 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
117422 CAATCTTATA
* *
117432 TGGCACTACGGTGCAATTATATG
1 TGGCACTTCGGTGCAATTATACG
* * *
117455 CGACACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTATACG
*
117478 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCAATTATACG
117501 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTATACG
Found at i:130325 original size:19 final size:19
Alignment explanation
Indices: 130303--130341 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
130293 TTAATTATAT
130303 ATTAATAAAATAATAAAAA
1 ATTAATAAAATAATAAAAA
* *
130322 ATTATTAAAATGATAAAAA
1 ATTAATAAAATAATAAAAA
130341 A
1 A
130342 AATCATGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
ATTAATAAAATAATAAAAA
Found at i:139346 original size:21 final size:21
Alignment explanation
Indices: 139295--139347 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
139285 ATTATGACTA
139295 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
139316 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
139337 TCGCAATGCGA
1 TCGCAATGCGA
139348 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:139362 original size:20 final size:21
Alignment explanation
Indices: 139337--139388 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
139327 TTTTCCCAAT
*
139337 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
139357 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
139378 TCGCAATGCGA
1 TCGCAATGCGA
139389 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:139465 original size:20 final size:20
Alignment explanation
Indices: 139422--139470 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
139412 TACAAAATCG
* * * *
139422 CAACGCGATTCTGACTTTCG
1 CAACGAGATTCTAACTATCC
139442 CAACGAGATTCTAACTATCC
1 CAACGAGATTCTAACTATCC
139462 CAACGAGAT
1 CAACGAGAT
139471 AATACAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (20 bp):
CAACGAGATTCTAACTATCC
Found at i:140023 original size:20 final size:20
Alignment explanation
Indices: 139998--140058 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
139988 GACATTCATT
139998 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAAAA
*
140018 TGACTATCGCAACACGAAAA
1 TGACTATCGCAACGCGAAAA
* *
140038 TGGCTATCGCAACGAGAAAA
1 TGACTATCGCAACGCGAAAA
140058 T
1 T
140059 TGCAACGCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (20 bp):
TGACTATCGCAACGCGAAAA
Found at i:141195 original size:20 final size:20
Alignment explanation
Indices: 141147--141205 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
141137 AATAGTTTCT
* *
141147 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
141167 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
141187 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
141206 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:141487 original size:20 final size:21
Alignment explanation
Indices: 141462--141510 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
141452 TCTGAGAGAT
141462 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
141482 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
141504 GAAGATG
1 GGAGATG
141511 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:141496 original size:22 final size:22
Alignment explanation
Indices: 141469--141512 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
141459 GATGGAGATA
*
141469 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGAAGATGGG
*
141491 GACGGATTTCGTCGAAGATGGG
1 GACGGATTTCGCCGAAGATGGG
141513 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGAAGATGGG
Found at i:141769 original size:20 final size:20
Alignment explanation
Indices: 141705--141763 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
141695 GTATTATCTC
*
141705 GTTGCGAAAGGCAGTATCGT
1 GTTGCGAAAGTCAGTATCGT
*
141725 GTTGCGAAAGTAAGTATCGT
1 GTTGCGAAAGTCAGTATCGT
141745 GTTGCGAAAGTCAGTATCG
1 GTTGCGAAAGTCAGTATCG
141764 CATTGCAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGT
Found at i:141798 original size:41 final size:41
Alignment explanation
Indices: 141679--141816 Score: 129
Period size: 41 Copynumber: 3.4 Consensus size: 41
141669 CGCTTTGAAA
* * * *
141679 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGGCAGT
1 ATCGCATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
** * * *
141720 ATCGTGTTGCGAA---AGTAAGTATCGTGTTGCGAAAGTCAGT
1 ATCGCATTGC-AATTTTGT-ATTATCGCGTTGCGAAAGTCAGT
* *
141760 ATCGCATTGCAATTTTGTATTATCGCGTTGCGATAGTCAAT
1 ATCGCATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
141801 ATCGCATTGCGATTTT
1 ATCGCATTGCAATTTT
141817 CCAAATTCGC
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
39 4 0.05
40 27 0.36
41 42 0.55
42 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:141805 original size:20 final size:20
Alignment explanation
Indices: 141699--141812 Score: 72
Period size: 20 Copynumber: 5.7 Consensus size: 20
141689 GATTATGTAT
* * *
141699 TATCTCGTTGCGAAAGGCAG
1 TATCGCGTTGCGAAAGTCAA
*
141719 TATCGTGTTGCGAAAGT-AA
1 TATCGCGTTGCGAAAGTCAA
* *
141738 GTATCGTGTTGCGAAAGTCAG
1 -TATCGCGTTGCGAAAGTCAA
* * *
141759 TATCGCATTGC-AATTTTGT-AT
1 TATCGCGTTGCGAA---AGTCAA
*
141780 TATCGCGTTGCGATAGTCAA
1 TATCGCGTTGCGAAAGTCAA
*
141800 TATCGCATTGCGA
1 TATCGCGTTGCGA
141813 TTTTCCAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
19 5 0.07
20 53 0.73
21 12 0.16
22 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAA
Found at i:141832 original size:41 final size:41
Alignment explanation
Indices: 141746--141834 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
141736 AAGTATCGTG
* ** * *
141746 TTGCGAAAGTCAGTATCGCATTGCAATTTTGTATTATCGCG
1 TTGCGAAAGTCAATATCGCATTGCAATTTTCAAATATCGCA
* *
141787 TTGCGATAGTCAATATCGCATTGCGATTTTCCAAAT-TCGCA
1 TTGCGAAAGTCAATATCGCATTGCAATTTT-CAAATATCGCA
141828 TTGCGAA
1 TTGCGAA
141835 TTGGGAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 37 0.95
42 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
TTGCGAAAGTCAATATCGCATTGCAATTTTCAAATATCGCA
Found at i:141847 original size:21 final size:20
Alignment explanation
Indices: 141823--141875 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
141813 TTTTCCAAAT
141823 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
***
141844 TCGCAACACGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
141865 TCGCATTGCGA
1 TCGCATTGCGA
141876 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:152026 original size:14 final size:14
Alignment explanation
Indices: 152003--152036 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
151993 ATGCTTCATC
*
152003 GCATTCACGTTGCT
1 GCATTTACGTTGCT
152017 GCATTTACGTTGCT
1 GCATTTACGTTGCT
152031 GCATTT
1 GCATTT
152037 CTGGTTTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.41
Consensus pattern (14 bp):
GCATTTACGTTGCT
Found at i:153634 original size:20 final size:21
Alignment explanation
Indices: 153609--153717 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
153599 TTTTCCCAAT
*
153609 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
153629 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
153650 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
153670 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
153691 TCGCAATGCGATAATAA-AAAA
1 TCGCAATGCGA-ATTAAGAAAA
153712 TCGCAA
1 TCGCAA
153718 CGAGATACTT
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
20 27 0.39
21 41 0.59
22 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:153654 original size:41 final size:41
Alignment explanation
Indices: 153609--153719 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 41
153599 TTTTCCCAAT
153609 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
153650 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
153691 TCGCAATGCGATAATAA-AAAATCGCAACG
1 TCGCAATGCG--AATAAGTAAATCGCAACG
153720 AGATACTTAC
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
41 51 0.76
42 11 0.16
43 5 0.07
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:153737 original size:20 final size:20
Alignment explanation
Indices: 153712--153764 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
153702 TAATAAAAAA
* *
153712 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTAACTT
153732 TCGCAACGCGATACTAACTT
1 TCGCAACGCGATACTAACTT
153752 TCGCAACGCGATA
1 TCGCAACGCGATA
153765 ATACATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTAACTT
Found at i:153980 original size:22 final size:22
Alignment explanation
Indices: 153952--153995 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
153942 CACTCTCTCA
153952 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
153974 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
153996 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:154268 original size:20 final size:20
Alignment explanation
Indices: 154239--154302 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
154229 GCGATTTTAG
*
154239 TTTCGCGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
154259 TTTCGTGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
**
154279 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATAGTCAT
154299 TTTC
1 TTTC
154303 AGAAACTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAT
Found at i:155641 original size:18 final size:18
Alignment explanation
Indices: 155620--155664 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
155610 TCCACTTCGG
*
155620 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
155638 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
155656 GAGCCATCA
1 GAGCCATCA
155665 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:156177 original size:14 final size:14
Alignment explanation
Indices: 156158--156215 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
156148 TTGTGTTTCG
156158 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
156172 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
156188 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
156204 CGTTGCGATTTT
1 CGTTGCGATTTT
156216 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:156192 original size:32 final size:33
Alignment explanation
Indices: 156153--156231 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
156143 GCGATTTGTG
156153 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
156185 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
156218 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
156232 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:156230 original size:19 final size:17
Alignment explanation
Indices: 156153--156231 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
156143 GCGATTTGTG
156153 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
156169 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
156185 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
156201 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
156218 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
156232 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:156238 original size:19 final size:20
Alignment explanation
Indices: 156216--156259 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
156206 TTGCGATTTT
*
156216 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTACGATAGC
* *
156235 CATTTCCGCGTTACGATAGT
1 CATTTCCGCATTACGATAGC
156255 CATTT
1 CATTT
156260 TGCGTTGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:158157 original size:14 final size:14
Alignment explanation
Indices: 158138--158173 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
158128 ATTGTTTAAT
158138 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
158152 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
158166 TGATTTGT
1 TGATTTGT
158174 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:158295 original size:19 final size:19
Alignment explanation
Indices: 158271--158338 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
158261 ATCGCAACGA
158271 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
158290 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
158309 GAAAATCGCAA-G-G--A-
1 GAAAATCGCAATGCGAAAT
158323 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
158339 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 2 0.04
16 1 0.02
17 1 0.02
18 1 0.02
19 30 0.65
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:158414 original size:20 final size:20
Alignment explanation
Indices: 158366--158414 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
158356 GATTTTCTCA
*
158366 TTGCGATAACCATTTTCGCG
1 TTGCGATAGCCATTTTCGCG
158386 TTGCGATAGCCATTTTCGCG
1 TTGCGATAGCCATTTTCGCG
158406 TTGCGATAG
1 TTGCGATAG
158415 TCAAATGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (20 bp):
TTGCGATAGCCATTTTCGCG
Found at i:159525 original size:24 final size:24
Alignment explanation
Indices: 159469--159527 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
159459 AGTCAGTATT
* *
159469 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
159493 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
159517 CGAATTTTGAT
1 CGAAATTTGAT
159528 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:162059 original size:33 final size:33
Alignment explanation
Indices: 162017--162142 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
162007 GGAAATTACT
162017 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
162050 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
162082 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
162116 ATCGCAATGCGAAATGAAAATCGCAAC
1 ATCGCAATGCGAAATGAAAATCGCAAC
162143 ACGAATTTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:162124 original size:66 final size:66
Alignment explanation
Indices: 162018--162142 Score: 241
Period size: 66 Copynumber: 1.9 Consensus size: 66
162008 GAAATTACTA
162018 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
162083 T
66 T
*
162084 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAAC
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAC
162143 ACGAATTTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.15
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
T
Found at i:162325 original size:14 final size:14
Alignment explanation
Indices: 162306--162342 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
162296 CATCAATTAA
162306 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
162320 ACAAATCACCTTTT
1 ACAAATCAACTTTT
162334 ACAAATCAA
1 ACAAATCAA
162343 TTAAACAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:163769 original size:21 final size:21
Alignment explanation
Indices: 163703--163769 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
163693 GTGAATTGGG
*
163703 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
163723 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
163745 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
163766 CTCT
1 CTCT
163770 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:163788 original size:42 final size:41
Alignment explanation
Indices: 163703--163825 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
163693 GTGAATTGGG
* * * * *
163703 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
163745 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * ** *
163787 CTCTTCAACGATAGGAGTAGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
163826 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:165905 original size:33 final size:33
Alignment explanation
Indices: 165848--165945 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 33
165838 ACGAGATAAT
*
165848 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
165882 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
165915 GACAATCGCAACGCGAAATGAAAATCGCAAC
1 GAGAATCGCAACGCGAAATGACTATCGCAAC
165946 TGCGAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:165940 original size:19 final size:19
Alignment explanation
Indices: 165823--165988 Score: 127
Period size: 20 Copynumber: 9.1 Consensus size: 19
165813 TCTTTTTGTT
*
165823 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
165842 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
165862 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
165880 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
165896 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
165914 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
165929 GAAATGAAAATCGCAACTGC
1 GAAATGAAAATCGCAAC-GC
* *
165949 GAAATAAAAATCGCAACAC
1 GAAATGAAAATCGCAACGC
*
165968 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
165987 GA
1 GA
165989 TTTTGGTTTC
Statistics
Matches: 117, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 41 0.35
20 45 0.38
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:166018 original size:20 final size:19
Alignment explanation
Indices: 165984--166051 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
165974 AAAATCGCAA
**
165984 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
166003 TGCGAATTTTTATTTCGCGT
1 TGCG-ATTTTTATTTCGCGT
**
166023 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
166043 TGCGATTTT
1 TGCGATTTT
166052 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.29
20 29 0.71
ACGTcount: A:0.12, C:0.16, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:166594 original size:20 final size:20
Alignment explanation
Indices: 166566--166618 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
166556 GCGCTATGTA
166566 AATCACGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
*
166586 AATCGCGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
* *
166606 TATCTCGTTGCGA
1 AATCACGTTGCGA
166619 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCACGTTGCGAAAGTCAG
Found at i:166652 original size:20 final size:20
Alignment explanation
Indices: 166627--166680 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
166617 GATTTTGTAT
166627 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
166647 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
166667 TATCGCATTGCGAT
1 TATCGCATTGCGAT
166681 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:166699 original size:61 final size:61
Alignment explanation
Indices: 166571--166701 Score: 147
Period size: 61 Copynumber: 2.1 Consensus size: 61
166561 ATGTAAATCA
* * * * * ** *
166571 CGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCG
1 CGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
* * *
166632 CATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCG
1 CGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCG
166693 CGTTGCGAT
1 CGTTGCGAT
166702 TTACTTATTC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 55 0.96
62 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
CGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
Found at i:166824 original size:21 final size:21
Alignment explanation
Indices: 166778--166830 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
166768 AACTATCGCA
*
166778 TTGCAAAAATGCAACGCGAAT
1 TTGCGAAAATGCAACGCGAAT
166799 TTGCGAAAATGCAACGCGAAT
1 TTGCGAAAATGCAACGCGAAT
*
166820 TTGCGATAATG
1 TTGCGAAAATG
166831 GAGATCGCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (21 bp):
TTGCGAAAATGCAACGCGAAT
Done.