Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003856.1 Hibiscus syriacus cultivar Beakdansim tig00008289_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: 822684
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:265191 original size:23 final size:22
Alignment explanation
Indices: 265163--265241 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
265153 TGCATGACCC
265163 GCATCGATGCACATTCAAGGCGT
1 GCATCGATGCACATTCAAGG-GT
* * * *
265186 GCATCGGTGCATCA-AC-ATGAT
1 GCATCGATGCA-CATTCAAGGGT
265207 G-ATCGATGCACATTCAAAGGGAT
1 GCATCGATGCACATTC-AAGGG-T
265230 GCATCGATGCAC
1 GCATCGATGCAC
265242 TGTTAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.05
20 9 0.21
21 2 0.05
22 4 0.10
23 13 0.31
24 12 0.29
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (22 bp):
GCATCGATGCACATTCAAGGGT
Found at i:265833 original size:48 final size:48
Alignment explanation
Indices: 265762--265858 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
265752 CTTCAATTCC
265762 ATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACT
1 ATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACT
265810 ATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACT
1 ATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACT
265858 A
1 A
265859 CCGAATGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (48 bp):
ATAATCAAAAAGTTGTTGTTTCATCCATAAAACTTGTGCACAACAACT
Found at i:270703 original size:64 final size:64
Alignment explanation
Indices: 270587--270712 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
270577 TTGAATGAAA
270587 AATAGGCTTGAAATGCACAAACTTAGGTTTGATTGCTTTCTCTTTGATTCTCTCTTGATTCTAC
1 AATAGGCTTGAAATGCACAAACTTAGGTTTGATTGCTTTCTCTTTGATTCTCTCTTGATTCTAC
270651 AATAGGCTTGAAATGCACAAACTTAGGTTTGA-TGC-TTCTCTTTGATTCTCTCTTGATTCTAC
1 AATAGGCTTGAAATGCACAAACTTAGGTTTGATTGCTTTCTCTTTGATTCTCTCTTGATTCTAC
270713 TTGCTTGTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 27 0.44
63 3 0.05
64 32 0.52
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (64 bp):
AATAGGCTTGAAATGCACAAACTTAGGTTTGATTGCTTTCTCTTTGATTCTCTCTTGATTCTAC
Found at i:271143 original size:65 final size:65
Alignment explanation
Indices: 270945--271154 Score: 196
Period size: 65 Copynumber: 3.3 Consensus size: 65
270935 ATGCACTAAG
* * * ** * *
270945 AGTGCATGGATGC-TCCAGTGCATTCGATGTTTCA-AAATAGCCA-GAGTGCATCGATGCATGGC
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AATCATCAGTGCATCGATGCATGGT
271007 T
65 T
* * * *
271008 AGTGCATCAATGCATCAAATGCATTCGATGTTTCATAAAAATCCTCAGTGCATCGGTGCATGGTA
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAATCATCAGTGCATCGATGCATGGTT
* ** * *
271073 AGTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCAT-GGTGCATCGATGCATGGA
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAAATCATCAGTGCATCGATGCATGG-
271136 TT
64 TT
* *
271138 GGTGCATCGTTGCATCA
1 AGTGCATCGATGCATCA
271155 CTCTGAAAAA
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
63 11 0.09
64 39 0.33
65 69 0.58
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAATCATCAGTGCATCGATGCATGGTT
Found at i:273479 original size:27 final size:26
Alignment explanation
Indices: 273423--273486 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
273413 TGCATGACCC
273423 CGTGCATCGATG---CACATTCAAGG
1 CGTGCATCGATGCATCACATTCAAGG
*
273446 CGTGCATCGGTGCATCACATTCAAAGG
1 CGTGCATCGATGCATCACATTC-AAGG
273473 -GATGCATCGATGCA
1 CG-TGCATCGATGCA
273487 CTATTAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 11 0.32
26 8 0.24
27 15 0.44
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (26 bp):
CGTGCATCGATGCATCACATTCAAGG
Found at i:279442 original size:65 final size:63
Alignment explanation
Indices: 279288--279453 Score: 174
Period size: 65 Copynumber: 2.6 Consensus size: 63
279278 AAATAGCCAG
* * *
279288 AGTGCATCGATGCATGGCTAGTGCATCAATGCATCAAATGCATTCGATGTTTTCATAAAATTTTC
1 AGTGCATCGATGCATGGTTAGTGCATCGATGCATCAAATGCATTCGA-GTATTCATAAAA-TTTC
* * * **
279353 AGTGCATCGGTGCATGGTAAGTGCATCGATGCATGAAATGCATTCGA-TATTCAATTTAA-TTC
1 AGTGCATCGATGCATGGTTAGTGCATCGATGCATCAAATGCATTCGAGTATTC-ATAAAATTTC
* *
279415 ATGGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 A--GTGCATCGATGCATGG-TTAGTGCATCGATGCATCA
279454 CTCTGAAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
62 4 0.05
63 4 0.05
64 19 0.23
65 57 0.68
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (63 bp):
AGTGCATCGATGCATGGTTAGTGCATCGATGCATCAAATGCATTCGAGTATTCATAAAATTTC
Found at i:282617 original size:19 final size:19
Alignment explanation
Indices: 282574--282624 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
282564 ATTAATTGAA
282574 CATCGAATGCA-T-TCCAAG
1 CATCG-ATGCACTCTCCAAG
* *
282592 CACCGATGCACTCTCCATG
1 CATCGATGCACTCTCCAAG
282611 CATCGATGCACTCT
1 CATCGATGCACTCT
282625 GAATATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 5 0.18
19 18 0.64
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (19 bp):
CATCGATGCACTCTCCAAG
Found at i:282665 original size:66 final size:62
Alignment explanation
Indices: 282572--282732 Score: 162
Period size: 66 Copynumber: 2.5 Consensus size: 62
282562 GAATTAATTG
* * * *** *
282572 AACATCGAATGCATTCCAAGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCAT--ATCGATGCAC-CAGAATATTTTTC-
282636 AA
62 -A
* **
282638 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATATCGATGCACCAGGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATATCGATGCACCAGAATATTTTTCA
*
282700 AGCATCGAAATGCATTTCATGCATCGATGCACA
1 AACATCG-AATGCATTTCATGCATCGATGCACA
282733 CTTGGTGCAC
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
62 7 0.09
63 28 0.35
64 15 0.19
66 31 0.38
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (62 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATATCGATGCACCAGAATATTTTTCA
Found at i:288753 original size:22 final size:22
Alignment explanation
Indices: 288702--288759 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
288692 GTTGTGCTTC
288702 ATGCACCGATGCAT--TTAACA
1 ATGCACCGATGCATCCTTAACA
* *
288722 ATGCATCGATGCATCCTTGAA-T
1 ATGCACCGATGCATCCTT-AACA
288744 ATGCACCGATGCATCC
1 ATGCACCGATGCATCC
288760 GTCGGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.41
22 17 0.53
23 2 0.06
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (22 bp):
ATGCACCGATGCATCCTTAACA
Found at i:291355 original size:19 final size:19
Alignment explanation
Indices: 291331--291369 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
291321 ATCGAAGCAT
291331 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
291350 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
291369 T
1 T
291370 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:291493 original size:63 final size:65
Alignment explanation
Indices: 291318--291478 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 65
291308 GAATTAATTG
* * * *
291318 AACATCGAA-GCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
291382 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
291445 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
291479 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
63 32 0.38
64 18 0.21
65 34 0.40
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:297114 original size:20 final size:21
Alignment explanation
Indices: 297085--297140 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
297075 TTTATGCTTC
*
297085 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
297105 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
297127 ATGCATCGATGCAT
1 ATGCATCGATGCAT
297141 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:298680 original size:21 final size:21
Alignment explanation
Indices: 298638--298681 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
298628 ACCCCGGGAG
*
298638 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
298659 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
298680 CT
1 CT
298682 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:299744 original size:19 final size:19
Alignment explanation
Indices: 299708--299758 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
299698 ATTAATTGAA
299708 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
299726 CA-CTGATGCACTCTCCATG
1 CATC-GATGCACTCTCCATG
299745 CATCGATGCACTCT
1 CATCGATGCACTCT
299759 GAATATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 18 0.62
20 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:299863 original size:64 final size:65
Alignment explanation
Indices: 299706--299866 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
299696 GAATTAATTG
* *** **
299706 AACATCGAATGCATTCCATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATC-GATGCACAAGCCATGCATCGATGCACTAGGAATATTTTCA
299770 A
65 A
* *
299771 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTAGG-CTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTAGGAATA-TTTTCA
299834 A
65 A
*
299835 AACGTCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
299867 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 33 0.39
65 50 0.60
66 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTAGGAATATTTTCAA
Found at i:300795 original size:43 final size:43
Alignment explanation
Indices: 300704--300787 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
300694 AAATGCCGCA
* * *
300704 AAAGATTAAGTTATTTAGTGGTGTTTATGAGACAAACACCACG
1 AAAGGTTAAGTCATTCAGTGGTGTTTATGAGACAAACACCACG
*
300747 AAAGGTTAAGTCATTCAGTGGTGTTTATGGGACAAACACCA
1 AAAGGTTAAGTCATTCAGTGGTGTTTATGAGACAAACACCA
300788 TTAAAGGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (43 bp):
AAAGGTTAAGTCATTCAGTGGTGTTTATGAGACAAACACCACG
Found at i:303823 original size:15 final size:15
Alignment explanation
Indices: 303788--303844 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
303778 TTAATGAAAG
*
303788 TAAATAAATAATAACAA
1 TAAATAAATAAT--GAA
*
303805 TAAATAAATATTGAA
1 TAAATAAATAATGAA
303820 TAAA-AAATAATGAGA
1 TAAATAAATAATGA-A
303835 -AAATAAATAA
1 TAAATAAATAA
303845 ATTAGAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 11 0.31
15 13 0.37
17 11 0.31
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (15 bp):
TAAATAAATAATGAA
Found at i:304939 original size:3 final size:3
Alignment explanation
Indices: 304931--304999 Score: 120
Period size: 3 Copynumber: 22.7 Consensus size: 3
304921 ATGATAGGTA
304931 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
304979 AAT AAT AAT ATAC AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AA
305000 ACACTTATCA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 61 0.97
4 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:305251 original size:35 final size:35
Alignment explanation
Indices: 305205--305275 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
305195 TACCGAACTG
305205 TTCTTGAGGTAATGATACCATAGGTGAGAGAAGTA
1 TTCTTGAGGTAATGATACCATAGGTGAGAGAAGTA
305240 TTCTTGAGGTAATGATACCATAGGTGAGAGAAGTA
1 TTCTTGAGGTAATGATACCATAGGTGAGAGAAGTA
305275 T
1 T
305276 CGATACTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (35 bp):
TTCTTGAGGTAATGATACCATAGGTGAGAGAAGTA
Found at i:306426 original size:29 final size:28
Alignment explanation
Indices: 306394--306477 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
306384 TATAAACCAG
* *
306394 TGTAGAATGAGGATGTGGATATAATCACA
1 TGTAGAATCAGGAAG-GGATATAATCACA
* * *
306423 TGTAGATTCAAGACAGGGATATAATCCCA
1 TGTAGAATCAGGA-AGGGATATAATCACA
* *
306452 TGCAGAATTAGGAAGAGGATATAATC
1 TGTAGAATCAGGAAG-GGATATAATC
306478 CTATGTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
28 2 0.05
29 41 0.93
30 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (28 bp):
TGTAGAATCAGGAAGGGATATAATCACA
Found at i:309565 original size:2 final size:2
Alignment explanation
Indices: 309558--309627 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
309548 ATGGTCATCG
309558 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
309600 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
309628 GTGTGTGTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:309632 original size:2 final size:2
Alignment explanation
Indices: 309627--309682 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
309617 TATATATATA
*
309627 TG TG TG TG TG TG TG TG TG TG TG TG TG TA 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
*
309669 TG TG TG TA TG TG TG
1 TG TG TG TG TG TG TG
309683 CACGCGCGCG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.04, C:0.00, G:0.46, T:0.50
Consensus pattern (2 bp):
TG
Found at i:310667 original size:17 final size:17
Alignment explanation
Indices: 310645--310698 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
310635 TCTGAAAACG
310645 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
* *
310662 AAAATAAATAAGTGAAAT
1 AAAATAAA-AAATAAAAT
*
310680 -AAATAAATAATATAAAT
1 AAAATAAAAAATA-AAAT
310697 AA
1 AA
310699 CTAAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 8 0.28
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:310672 original size:4 final size:4
Alignment explanation
Indices: 310646--310719 Score: 69
Period size: 4 Copynumber: 17.8 Consensus size: 4
310636 CTGAAAACGA
*
310646 AAAT AAA- AAAT AAAAT AAAAT AAAT AAGT GAAAT AAAT AAAT AATAT
1 AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT -AAAT AAAT AAAT AA-AT
* * *
310693 AAAT AACT AAAT ATAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
310720 AAACAATAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
3 3 0.05
4 39 0.67
5 16 0.28
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:310681 original size:13 final size:12
Alignment explanation
Indices: 310646--310719 Score: 69
Period size: 13 Copynumber: 5.9 Consensus size: 12
310636 CTGAAAACGA
310646 AAATAAA-AAAT
1 AAATAAATAAAT
310657 AAAATAAAATAAAT
1 -AAAT-AAATAAAT
*
310671 AAGTGAAATAAAT
1 AAAT-AAATAAAT
310684 AAATAATATAAAT
1 AAATAA-ATAAAT
* *
310697 AACTAAATATAT
1 AAATAAATAAAT
*
310709 AAAAAAATAAA
1 AAATAAATAAA
310720 AAACAATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
12 19 0.37
13 28 0.55
14 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (12 bp):
AAATAAATAAAT
Found at i:310703 original size:17 final size:16
Alignment explanation
Indices: 310658--310719 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
310648 ATAAAAAATA
310658 AAATAAAATAAATA-AGT
1 AAAT-AAATAAATATA-T
310675 GAAATAAATAAATAATAT
1 -AAATAAATAAAT-ATAT
*
310693 AAATAACTAAATATAT
1 AAATAAATAAATATAT
*
310709 AAAAAAATAAA
1 AAATAAATAAA
310720 AAACAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
16 13 0.33
17 19 0.49
18 6 0.15
19 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (16 bp):
AAATAAATAAATATAT
Found at i:310911 original size:39 final size:37
Alignment explanation
Indices: 310834--310966 Score: 128
Period size: 39 Copynumber: 3.6 Consensus size: 37
310824 TTTTCAAAAC
* * *
310834 TATATAATATATTTTCAAAAATCG--TTTTCAAAA-C
1 TATATAATATATTTTCAAAAACCGTTTTTTAAAAATA
*
310868 TATATAATATATTTTCAAAAAGCGATTTTTTAAAAAGTA
1 TATATAATATATTTTCAAAAACCG-TTTTTTAAAAA-TA
* * *
310907 TATATTATATGTTTTCAAAAACCGTTTTCTAAAAACTA
1 TATATAATATATTTTCAAAAACCGTTTTTTAAAAA-TA
* *
310945 TATATTATATTTTTTTCAAAAA
1 TATATAATA-TATTTTCAAAAA
310967 TATTTTCAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
34 23 0.27
37 8 0.10
38 21 0.25
39 32 0.38
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (37 bp):
TATATAATATATTTTCAAAAACCGTTTTTTAAAAATA
Found at i:310949 original size:38 final size:34
Alignment explanation
Indices: 310738--310983 Score: 160
Period size: 34 Copynumber: 6.8 Consensus size: 34
310728 AAAATTGTAC
* * *
310738 ATTTTCAAAATCGCTTTT-AAAAAATATATTATAT
1 ATTTTCAAAAACG-TTTTCAAAAACTATATAATAT
* * * *
310772 ATTTTCAAAATCATTTTC-GAAGCTATAATATATAT
1 ATTTTCAAAAACGTTTTCAAAAACTAT-ATA-ATAT
*
310807 ATGTTTCCACAAATTA-TTTTTC-AAAACTATATAATAT
1 AT-TTT-CA-AAA--ACGTTTTCAAAAACTATATAATAT
310844 ATTTTCAAAAATCGTTTTC-AAAACTATATAATAT
1 ATTTTCAAAAA-CGTTTTCAAAAACTATATAATAT
* *
310878 ATTTTCAAAAAGCGATTTTTTAAAAAGTATATATTATAT
1 ATTTTCAAAAA-CG--TTTTCAAAAACTATATA--ATAT
*
310917 GTTTTCAAAAACCGTTTTCTAAAAACTATATATTATATT
1 ATTTTCAAAAA-CGTTTTC-AAAAACTATATA--ATA-T
* **
310956 TTTTTCAAAAATATTTTCAAAAACTATA
1 ATTTTCAAAAACGTTTTCAAAAACTATA
310984 CTATATTAAT
Statistics
Matches: 175, Mismatches: 20, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
32 1 0.01
33 9 0.05
34 50 0.29
35 8 0.05
36 10 0.06
37 32 0.18
38 27 0.15
39 38 0.22
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (34 bp):
ATTTTCAAAAACGTTTTCAAAAACTATATAATAT
Found at i:314421 original size:19 final size:19
Alignment explanation
Indices: 314399--314440 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
314389 TATTGATTGC
314399 TTCTGCCCAAAATGATTTT
1 TTCTGCCCAAAATGATTTT
314418 TTCTGCCCAAAATGATTTT
1 TTCTGCCCAAAATGATTTT
314437 TTCT
1 TTCT
314441 AGGCTTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (19 bp):
TTCTGCCCAAAATGATTTT
Found at i:322413 original size:9 final size:8
Alignment explanation
Indices: 322379--322411 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
322369 TGAATATAAG
322379 TCTTTTTT
1 TCTTTTTT
322387 TCTTTTTT
1 TCTTTTTT
322395 TCTTTTTT
1 TCTTTTTT
322403 TCTTTTTT
1 TCTTTTTT
322411 T
1 T
322412 TCCTTGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:328694 original size:22 final size:22
Alignment explanation
Indices: 328666--328725 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
328656 TTTTACACAC
*
328666 AGTGTACCGATACACCCTTGAG
1 AGTGTACCGATGCACCCTTGAG
328688 AGTGTACCGATGCACCCTTGAG
1 AGTGTACCGATGCACCCTTGAG
*
328710 AGTGTATCGATGCACC
1 AGTGTACCGATGCACC
328726 TACGCTCCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (22 bp):
AGTGTACCGATGCACCCTTGAG
Found at i:335618 original size:20 final size:21
Alignment explanation
Indices: 335566--335626 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
335556 TTCCCCTGTG
335566 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
335589 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
*
335609 GGGAGG-ATCGATTCCCTC
1 GGG-GGAATCGGTTCCCTC
335627 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 16 0.44
21 4 0.11
22 3 0.08
23 13 0.36
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:341575 original size:11 final size:11
Alignment explanation
Indices: 341557--341586 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
341547 AAATACTTTG
341557 TAAAATTATTT
1 TAAAATTATTT
*
341568 TGAAATTATTT
1 TAAAATTATTT
341579 TAAAATTA
1 TAAAATTA
341587 AAACTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:341582 original size:22 final size:23
Alignment explanation
Indices: 341543--341586 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
341533 TTTGAAATGG
341543 TTTGAAATACTTTGTAAAATTAT
1 TTTGAAATACTTTGTAAAATTAT
341566 TTTGAAATTA-TTT-TAAAATTA
1 TTTGAAA-TACTTTGTAAAATTA
341587 AAACTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 10 0.50
24 2 0.10
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
TTTGAAATACTTTGTAAAATTAT
Found at i:343131 original size:2 final size:2
Alignment explanation
Indices: 343114--343192 Score: 99
Period size: 2 Copynumber: 39.0 Consensus size: 2
343104 TGTTATTCTT
* *
343114 TA TA GTA TA TA GTA TA TA TG TA GTA CA TA -A 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
343156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
343193 ACATACACAT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
1 2 0.03
2 60 0.88
3 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:344624 original size:11 final size:11
Alignment explanation
Indices: 344608--344651 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
344598 ATTATTTCAA
*
344608 TTATTTCATTT
1 TTATTTTATTT
*
344619 TTATTTTATTA
1 TTATTTTATTT
344630 TTATTTTTATTT
1 TTA-TTTTATTT
344642 TTATTATTAT
1 TTATT-TTAT
344652 ATAATTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 14 0.50
12 14 0.50
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:344643 original size:18 final size:18
Alignment explanation
Indices: 344615--344665 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 18
344605 CAATTATTTC
344615 ATTTTTA-TTTTATTATT
1 ATTTTTATTTTTATTATT
344632 ATTTTTATTTTTATTATT
1 ATTTTTATTTTTATTATT
344650 ATATAATTTATTTTTA
1 AT-T--TTTATTTTTA
344666 CTCGATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 1 0.03
21 10 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTATTTTTATTATT
Found at i:344650 original size:21 final size:22
Alignment explanation
Indices: 344607--344665 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
344597 TATTATTTCA
*
344607 ATTA-TTTCATTTTTATTTTATT
1 ATTATTTTTATTTTTA-TTTATT
344629 ATTATTTTTATTTTTA-TTATT
1 ATTATTTTTATTTTTATTTATT
*
344650 A-TATAATTTATTTTTA
1 ATTAT-TTTTATTTTTA
344666 CTCGATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 16 0.48
22 4 0.12
23 10 0.30
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
ATTATTTTTATTTTTATTTATT
Found at i:344665 original size:6 final size:6
Alignment explanation
Indices: 344615--344665 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
344605 CAATTATTTC
* *
344615 ATTTTT A-TTTT ATTATT ATTTTT ATTTTT ATTATTAT ATAATTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT-TT-T AT-TTTT ATTTTT
344665 A
1 A
344666 CTCGATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 5 0.14
6 22 0.59
7 5 0.14
8 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:345566 original size:30 final size:30
Alignment explanation
Indices: 345532--345593 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
345522 TTATTTTTAT
345532 CATCTGCATCATTTAAAAGAGGTGTTGATC
1 CATCTGCATCATTTAAAAGAGGTGTTGATC
345562 CATCTGCATCATTTAAAAGAGGTGTTGATC
1 CATCTGCATCATTTAAAAGAGGTGTTGATC
345592 CA
1 CA
345594 CCAAAAACGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (30 bp):
CATCTGCATCATTTAAAAGAGGTGTTGATC
Found at i:347171 original size:95 final size:95
Alignment explanation
Indices: 347052--347306 Score: 352
Period size: 95 Copynumber: 2.7 Consensus size: 95
347042 TATAATATTA
* * *
347052 TATAA-ATACAATAAAGCTTCAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGACTTTATGG
1 TATAATATACAACAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGG
*
347116 ATAAGATTCAGCTAGCTTGATAAAAGTGAT
66 ATAAGATTCAGCTAGCCTGATAAAAGTGAT
* *
347146 TATAATATACAACAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGTCTTTATGG
1 TATAATATACAACAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGG
* *
347211 ATAATATTCAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCTGATAAAAGTGAT
** * *
347241 TATAATAT-CTATACAATGATATTGAGTTGTCCCTCTATAGCAATTGGTTAAACGCCCCGGCTTT
1 TATAATATAC-A-ACAA--AGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTT
347305 AT
62 AT
347307 AGATCCAACT
Statistics
Matches: 144, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
94 6 0.04
95 90 0.62
96 4 0.03
98 44 0.31
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (95 bp):
TATAATATACAACAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATGG
ATAAGATTCAGCTAGCCTGATAAAAGTGAT
Found at i:348586 original size:84 final size:83
Alignment explanation
Indices: 348414--349131 Score: 737
Period size: 84 Copynumber: 8.6 Consensus size: 83
348404 CTATTGGCAG
* * * * * * * * *
348414 CATAACTCAAGGCGAGAAAGTTTATCTGTCAGCCAAGACCTTTGAGTTAGATTATC-CTCAGCTC
1 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTA-CGCTCAGCTC
* *
348478 AAAGGCACAACATTTGCAG
65 AAAGGCACATCATTTGCAA
* * * *
348497 CATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAATACATTCGAGTTCGACTACGCTCAGCTC
1 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACGCTCAGCTC
* *
348562 CAAGGCACATCATTTGTAA
65 AAAGGCACATCATTTGCAA
* * ** * * *
348581 TATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTAAAGTTCAAATATGCTCAGCTC
1 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACGCTCAGCTC
* * *
348646 TAAGGCACATCATTTGTAG
65 AAAGGCACATCATTTGCAA
* * * * * *
348665 CATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAAGAACTTCGAGTTTGATTACACTCAGCTC
1 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACGCTCAGCTC
* *
348730 AAAGGCACAACATCTG-AA
65 AAAGGCACATCATTTGCAA
* * * *
348748 GCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGTCCTTCGAGTTCGACTACGCTCAGTT
1 -CATAGCTCAAGGCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACGCTCAGCT
* * *
348813 CCAAGGCACATCATTTGTAG
64 CAAAGGCACATCATTTGCAA
* * * *
348833 CATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCA
1 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCA
348898 AAGGCACATCATTTGCAA
66 AAGGCACATCATTTGCAA
* * * * *
348916 CATAACTCAATGCTAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGAATACGCTCAGCTCA
1 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCA
*
348981 AAGGCACATCATTTGCAG
66 AAGGCACATCATTTGCAA
** * *
348999 CATAGCTCAAGGCAAGAAGGGCAATCTG-C--CAAAGACCTTCAAGTTCGATTACACTCAGCTCA
1 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCA
*
349061 AAGGCATATCATTTG-AA
66 AAGGCACATCATTTGCAA
* * * * ** * * *
349078 GAATAGCTCAATGCAAGAAAGGCTATCTGTTAACAAATACATTCGAGTTTGATT
1 -CATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATT
349132 CCATTCAGCT
Statistics
Matches: 535, Mismatches: 92, Indels: 16
0.83 0.14 0.02
Matches are distributed among these distances:
79 1 0.00
80 68 0.13
82 1 0.00
83 189 0.35
84 275 0.51
85 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (83 bp):
CATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCA
AAGGCACATCATTTGCAA
Found at i:348728 original size:168 final size:167
Alignment explanation
Indices: 348412--349106 Score: 814
Period size: 168 Copynumber: 4.2 Consensus size: 167
348402 AACTATTGGC
* * * * * * * * * *
348412 AGCATAACTCAAGGCGAGAAAGTTTATCTGTCAGC-CAAGACCTTTGAGTTAGATTATC-CTCAG
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAATA-CGCTCAG
* * *
348475 CTCAAAGGCACAACATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAA-ATACAT
65 CTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGA-AC-T
* * *
348539 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTA
128 TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG-A
* * ** * *
348580 A-TATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTAAAGTTCAAATATGCTCAGC
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAATACGCTCAGC
* * *
348644 TCTAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAAGAACTTC
66 TCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGAACTTC
* * *
348709 GAGTTTGATTACACTCAGCTCAAAGGCACAACATCTGA
130 GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGA
* * * *
348747 AGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAAAGTCCTTCGAGTTCGACTACGCTCAGT
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAATACGCTCAGC
* * * *
348812 TCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCG
66 TCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGAACTTCG
348877 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
131 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTG-A
* * * *
348915 A-CATAACTCAATGCTAGAAGGGTTATCTACCAAC-AAAGACCTTCGAGTTCGAATACGCTCAGC
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAATACGCTCAGC
* * ** * *
348978 TCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCAATCTG-C--CAAAGACCTTCA
66 TCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGAACTTCG
*
349040 AGTTCGATTACACTCAGCTCAAAGGCATATCATTTGA
131 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGA
* * * *
349077 AGAATAGCTCAATGCAAGAAAGGCTATCTG
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTG
349107 TTAACAAATA
Statistics
Matches: 455, Mismatches: 65, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
162 2 0.00
163 68 0.15
165 1 0.00
166 69 0.15
167 99 0.22
168 210 0.46
169 5 0.01
170 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (167 bp):
AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGAATACGCTCAGC
TCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGAACTTCG
AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGA
Found at i:349650 original size:19 final size:20
Alignment explanation
Indices: 349626--349665 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
349616 TTACGTGTTA
349626 ATTTAT-GT-TATATGCTATT
1 ATTTATAGTATATATG-TATT
349645 ATTTATAGTATATATGTATT
1 ATTTATAGTATATATGTATT
349665 A
1 A
349666 CATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 7 0.37
21 6 0.32
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTTATAGTATATATGTATT
Found at i:349684 original size:20 final size:21
Alignment explanation
Indices: 349661--349714 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
349651 AGTATATATG
349661 TATTACATAATATAT-ACATA
1 TATTACATAATATATAACATA
349681 TATT--ATAATTATATAACATA
1 TATTACATAA-TATATAACATA
*
349701 TATCACATACATAT
1 TATTACATA-ATAT
349715 TTTTCTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 4 0.14
19 5 0.18
20 12 0.43
22 6 0.21
23 1 0.04
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTACATAATATATAACATA
Found at i:351133 original size:25 final size:25
Alignment explanation
Indices: 351084--351134 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
351074 AGACAATTAG
*
351084 TATTATTATTTCTATTATTTCATTT
1 TATTATTATTTCTATTAATTCATTT
351109 TATTATTATTAT-TATATAATT-ATTT
1 TATTATTATT-TCTAT-TAATTCATTT
351134 T
1 T
351135 TTACTCGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTATTATTTCTATTAATTCATTT
Found at i:351145 original size:20 final size:18
Alignment explanation
Indices: 351122--351171 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
351112 TATTATTATT
351122 ATATAATTATTTTTTACTC
1 ATATAATTATTTTTTAC-C
351141 GATAT-ATT-TTTATTTACC
1 -ATATAATTATTT-TTTACC
351159 ATATAA-TATTTTT
1 ATATAATTATTTTT
351172 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 8 0.30
20 4 0.15
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (18 bp):
ATATAATTATTTTTTACC
Found at i:353856 original size:95 final size:95
Alignment explanation
Indices: 353731--353986 Score: 338
Period size: 95 Copynumber: 2.7 Consensus size: 95
353721 TATAATATTA
* * * *
353731 TATAA-ATACAATAAAGCTTCAGCTGGCCCTCTAAAGCAATTGGTTAAACGCCCCAACTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCATCTTTATGG
*
353795 ATAAGATTCAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCTGATAAAGATGAT
* * *
353825 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGTCTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCATCTTTATGG
* *
353890 ATAATATTCAGCTAGCCTGATAAAGATTAT
66 ATAAGATTCAGCTAGCCTGATAAAGATGAT
* * * * *
353920 AATATCTATACAATAATA--TTGAGTTGTCCATCTATAGCAATTGGTTAAACGCCCCCTCTTTAT
1 TATA-ATATACAATAA-AGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCATCTTTAT
353983 GGAT
64 GGAT
353987 CCAGCTAGCC
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
94 5 0.03
95 127 0.89
96 10 0.07
97 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (95 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCATCTTTATGG
ATAAGATTCAGCTAGCCTGATAAAGATGAT
Found at i:356146 original size:95 final size:95
Alignment explanation
Indices: 356033--356292 Score: 380
Period size: 95 Copynumber: 2.7 Consensus size: 95
356023 TATAATATTA
*
356033 TATAA-ATACAATAAAGCTTCAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGACTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGACTTTATGG
*
356097 ATAAGATTCATCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCTGATAAAGGTGAT
* * *
356127 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGTCTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGACTTTATGG
*
356192 ATAATATTCAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCTGATAAAGGTGAT
* * * *
356222 TATAATAT-CTATACAATGATATTGAGTTGTCCCTCTATAGCAATTGGTTAAATGCCCCGGCTTT
1 TATAATATACAATA-AA-G--CTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGACTTT
356286 ATGGATA
62 ATGGATA
356293 CAGCTAGCCA
Statistics
Matches: 150, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
94 9 0.06
95 93 0.62
96 1 0.01
98 47 0.31
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (95 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGACTTTATGG
ATAAGATTCAGCTAGCCTGATAAAGGTGAT
Found at i:357568 original size:84 final size:84
Alignment explanation
Indices: 357430--358078 Score: 734
Period size: 84 Copynumber: 7.8 Consensus size: 84
357420 TCTGTCAGCC
* * * * * * *
357430 AAGACCTTTGAGTTAGATTACTCTCAGCTCAAAGGCACAACATTTGTAGCATAGCTCAAGGCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
357495 AAGGGTTATCTACCAACAA
66 AAGGGTTATCTACCAACAA
* * * * ** *
357514 AATACATTCGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAATATAGCTCAAGGAAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
* *
357579 AAGGGTTATTTGCCAACAA
66 AAGGGTTATCTACCAACAA
** * * * * * *
357598 AAGACCTTAAAGTTCAACTATGCTCAGCTCTAAGGCACATCATTTGCAACATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
* *
357663 AAGGGTTATATGCCAACAA
66 AAGGGTTATCTACCAACAA
* * * * * * *
357682 AAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGGACAACATCTACAGCATAGCTCAAGGCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
* *
357747 AAGGGCTATCTTCCAACAA
66 AAGGGTTATCTACCAACAA
* * * *
357766 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTGCAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
**
357831 AAGGGTTATCTGTCAAC-A
66 AAGGGTTATCTACCAACAA
* * * * * * *
357849 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAACATAACTCAATGCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
357914 AAGGGTTATCTACCAAC-A
66 AAGGGTTATCTACCAACAA
* *
357932 AAGATCTTCGAGTTCGAATACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
357997 AAGGGTTATCTA-C--C-A
66 AAGGGTTATCTACCAACAA
* * * * * * * *
358012 AAGACCTTCAAGTTCGATTACACTTAGCTCAAAGGTACATCATTTGAAGCGTAGCTCAAGGGAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
358077 AA
66 AA
358079 AGGCTATTTG
Statistics
Matches: 478, Mismatches: 87, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
80 60 0.13
82 1 0.00
83 144 0.30
84 273 0.57
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (84 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
AAGGGTTATCTACCAACAA
Found at i:357887 original size:83 final size:83
Alignment explanation
Indices: 357392--358131 Score: 723
Period size: 84 Copynumber: 8.9 Consensus size: 83
357382 GAAACTATTG
* * * * * * * * *
357392 GCAGCATAACTCAAGTCGAGAAAGGTTATCTGTCAGCCAAGACCTTTGAGTTAGATTACTCTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
357457 CTCAAAGGCACAACATTT
66 CTCAAAGGCACATCATTT
* * ** * * * *
357475 GTAGCATAGCTCAAGGCGAGAAGGGTTATCTACCAACAAAATACATTCGAGTTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
* *
357540 GCTCCAAGGAACATCATTT
65 GCTCAAAGGCACATCATTT
** * * * ** * * **
357559 GCAATATAGCTCAAGGAAAGAAGGGTTATTTGCCAACAAAAGACCTTAAAGTTCAACTATGCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
*
357624 GCTCTAAGGCACATCATTT
65 GCTCAAAGGCACATCATTT
* * * * *
357643 GCAACATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCA
* * * *
357708 GTTCAAAGGGACAACATCT
65 GCTCAAAGGCACATCATTT
* * * *
357727 ACAGCATAGCTCAAGGCAAGAAGGGCTATCT-TCCAACAAAAGACCTTCGAGTTCGACTACGCTC
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGT-CAAC-AAAGACCTTCGAGTTCGATTACACTC
* *
357791 AGCTCCAAGGCACATTATTT
64 AGCTCAAAGGCACATCATTT
* *
357811 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
357876 CTCAAAGGCACATCATTT
66 CTCAAAGGCACATCATTT
* * * * * ** * * *
357894 GTAACATAACTCAATGCTAGAAGGGTTATCTACCAACAAAGATCTTCGAGTTCGAATACGCTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
357959 CTCAAAGGCACATCATTT
66 CTCAAAGGCACATCATTT
* * *
357977 GCAGCATAGCTCAAGGCAAGAAGGGTTATC--T-ACCAAAGACCTTCAAGTTCGATTACACTTAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
358039 CTCAAAGGTACATCATTT
66 CTCAAAGGCACATCATTT
* * * * * * * * * * * *
358057 GAAGCGTAGCTCAAGGGAAGAAAGGCTATTTGTCAGCAAATACATTCGAGTTTGATTCCATTCAG
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
358122 CTCAAGGGCA
66 CTCAAAGGCA
358132 TGTCAAATTT
Statistics
Matches: 543, Mismatches: 108, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
80 66 0.12
82 1 0.00
83 203 0.37
84 272 0.50
85 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (83 bp):
GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
CTCAAAGGCACATCATTT
Found at i:359012 original size:20 final size:21
Alignment explanation
Indices: 358989--359042 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
358979 AGTATATATG
358989 TATTACATAATATAT-ACATA
1 TATTACATAATATATAACATA
359009 TATT--ATAATTATATAACATA
1 TATTACATAA-TATATAACATA
*
359029 TATCACATACATAT
1 TATTACATA-ATAT
359043 TTTTCTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 4 0.14
19 5 0.18
20 12 0.43
22 6 0.21
23 1 0.04
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTACATAATATATAACATA
Found at i:363252 original size:95 final size:94
Alignment explanation
Indices: 363088--363338 Score: 317
Period size: 95 Copynumber: 2.6 Consensus size: 94
363078 TATATAAAAA
* * * *
363088 TAATAAAGCTTCAGATGTCCCTCTAAATCAATTGGTTAAACGCCATAGCTTTATGGATAAGATTC
1 TAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCC-TAGCTTTATGGATAAGATTC
363153 AGCTAGCCAGATAAAGGTGATTATAATATAC
65 AGCTAGCCAGATAAAGGTGATTATAATAT-C
* *
363184 -AATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACTCT-GTCTTTATGGATAATATT
1 TAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGC-CTAG-CTTTATGGATAAGATT
*
363247 CAGCTAGCCTGATAAAGGTGATTATAATATC
64 CAGCTAGCCAGATAAAGGTGATTATAATATC
** * *
363278 TATATAATGATATTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGAT
1 TA-ATAA--AGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCT-AGCTTTATGGAT
363339 CCAGCTAGCC
Statistics
Matches: 136, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
94 2 0.01
95 83 0.61
96 5 0.04
97 2 0.01
98 43 0.32
99 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (94 bp):
TAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTAGCTTTATGGATAAGATTCA
GCTAGCCAGATAAAGGTGATTATAATATC
Found at i:364698 original size:7 final size:7
Alignment explanation
Indices: 364688--364712 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
364678 TGTTATTATT
364688 TATAGTA
1 TATAGTA
364695 TATAGTA
1 TATAGTA
364702 TATAGTA
1 TATAGTA
364709 TATA
1 TATA
364713 TGCATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
TATAGTA
Found at i:368934 original size:95 final size:94
Alignment explanation
Indices: 368753--369010 Score: 331
Period size: 95 Copynumber: 2.7 Consensus size: 94
368743 TATAATATTA
* ** * * *
368753 TATAA-ATACAATAAAGCTTCAACTGTCCCTCTAAAACAATTGGTTAAAGGCCCGGCTTTATGGA
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAGCCCCGGCTTTATGGA
368817 TAAGATTCAGCTAGCCTCATAAAGGTGAT
66 TAAGATTCAGCTAGCCTCATAAAGGTGAT
*
368846 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGGTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAA-GCCCCGGCTTTATGG
* *
368911 ATAATATTCAGCTAGCCTGATAAAGGTGAT
65 ATAAGATTCAGCTAGCCTCATAAAGGTGAT
* * * *
368941 TATAATAT-CTATACAATGATATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCACAGGCTTT
1 TATAATATACAATA-AA-G--CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAA-GCCCCGGCTTT
369005 ATGGAT
61 ATGGAT
369011 CCAGATAACC
Statistics
Matches: 144, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
93 5 0.03
94 42 0.29
95 51 0.35
96 1 0.01
98 45 0.31
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (94 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAGCCCCGGCTTTATGGA
TAAGATTCAGCTAGCCTCATAAAGGTGAT
Found at i:370296 original size:84 final size:83
Alignment explanation
Indices: 370130--370588 Score: 422
Period size: 84 Copynumber: 5.5 Consensus size: 83
370120 GAAAGTATTG
* *** * *
370130 GCAGCATAACTCAAGGCGAGAAA-GGTTATCTGTC-AGTGAAGACCTTCGAGTTAGATTACCCTC
1 GCAGCATAACTCAAGGCGA-AAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTA-ACTACGCTC
*
370193 AGCTCAAAGGCACAACATTT
64 AGCTCAAAGGCACATCATTT
* *
370213 GCAGCATAGCTCAAGGCGAAAAGGGTTATCTGCCAACAAAAGACATTCGAGATTAACTACGCTCA
1 GCAGCATAACTCAAGGCGAAAAGGGTTATCTGCCAACAAAAGACCTTCGAG-TTAACTACGCTCA
*
370278 GCTCTAAGGCA-ATTCATTT
65 GCTCAAAGGCACA-TCATTT
* ** * * * ** *
370297 GTAATATAGCTCAAGGC-AAGAAGGGTCATTTGCCAACAAAAGACCTTAAAGTTCAACTATGCTC
1 GCAGCATAACTCAAGGCGAA-AAGGGTTATCTGCCAACAAAAGACCTTCGAGTT-AACTACGCTC
* * *
370361 AGTTCTAAGGCACATTATTT
64 AGCTCAAAGGCACATCATTT
* * * * * *
370381 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACACA
1 GCAGCATAACTCAAGGCGAAAAGGGTTATCTGCCAACAAAAGACCTTCGAGTT-AACTACGCTCA
* *
370446 GCTCAAAGGCACAACATCT
65 GCTCAAAGGCACATCATTT
* * * * * ** *
370465 GTAGCATAGCTCAAGGCGAGAAGGGCTATCCGCCAACAAAAGACCTTCGAGGTCGACTACGTTCA
1 GCAGCATAACTCAAGGCGAAAAGGGTTATCTGCCAACAAAAGACCTTCGA-GTTAACTACGCTCA
*
370530 GCTCCAAGGCACATCATTT
65 GCTCAAAGGCACATCATTT
** * * *
370549 ATAGCATAACTCAAGGCTATAAGGGTTATCTGTCAACAAA
1 GCAGCATAACTCAAGGCGAAAAGGGTTATCTGCCAACAAA
370589 TACATTCGAG
Statistics
Matches: 307, Mismatches: 60, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
82 3 0.01
83 33 0.11
84 264 0.86
85 7 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (83 bp):
GCAGCATAACTCAAGGCGAAAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTAACTACGCTCAG
CTCAAAGGCACATCATTT
Found at i:370476 original size:168 final size:168
Alignment explanation
Indices: 370190--370623 Score: 498
Period size: 168 Copynumber: 2.6 Consensus size: 168
370180 TTAGATTACC
* * *
370190 CTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAAGGCGAAAAGGGTTATCTGCCAACAAAAG
1 CTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAAG
* * * * * * *
370255 ACATTCGAGATT-AACTACGCTCAGCTCTAAGGCAATTCATTTGTAATATAGCTCAAGGCAAGAA
66 ACATTCGAG-TTCGATTACACTCAGCTCAAAGGCAATACATCTGTAACATAGCTCAAGGCAAGAA
** * *
370319 GGG-TCATTTGCCAACAAAAGACCTTAAAGTTCAACTATG
130 GGGCT-ATCCGCCAACAAAAGACCTTAAAGGTCAACTACG
* * * *
370358 CTCAGTTCTAAGGCACATTATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAG
1 CTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAAG
* * * *
370423 ACCTTCGAGTTCGATTACACACAGCTCAAAGGCACA-ACATCTGTAGCATAGCTCAAGGCGAGAA
66 ACATTCGAGTTCGATTACACTCAGCTCAAAGGCA-ATACATCTGTAACATAGCTCAAGGCAAGAA
** *
370487 GGGCTATCCGCCAACAAAAGACCTTCGAGGTCGACTACG
130 GGGCTATCCGCCAACAAAAGACCTTAAAGGTCAACTACG
* * ** * * *
370526 TTCAGCTCCAAGGCACATCATTTATAGCATAACTCAAGGCTATAAGGGTTATCTGTCAAC-AAAT
1 CTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAAG
* * *
370590 ACATTCGAGTTCGATTTCATTCAGCTCAAGGGCA
66 ACATTCGAGTTCGATTACACTCAGCTCAAAGGCA
370624 TGTCAAATTT
Statistics
Matches: 224, Mismatches: 39, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
167 34 0.15
168 188 0.84
169 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (168 bp):
CTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAAAAGGGTTATCTGCCAACAAAAG
ACATTCGAGTTCGATTACACTCAGCTCAAAGGCAATACATCTGTAACATAGCTCAAGGCAAGAAG
GGCTATCCGCCAACAAAAGACCTTAAAGGTCAACTACG
Found at i:372625 original size:9 final size:8
Alignment explanation
Indices: 372612--372652 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 8
372602 ACAATTAGTA
372612 TTATTATT
1 TTATTATT
372620 TCTATTATT
1 T-TATTATT
*
372629 TTATTTTT
1 TTATTATT
372637 TTATTATT
1 TTATTATT
372645 ATTATTAT
1 -TTATTAT
372653 ATAATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (8 bp):
TTATTATT
Found at i:373625 original size:20 final size:21
Alignment explanation
Indices: 373567--373628 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
373557 TCAATACACT
*
373567 ATGATAGTGTACCGATGCATTC
1 ATGA-AGTGTACCGATACATTC
*
373589 ATTGAATGTGTATCGATACATTC
1 A-TGAA-GTGTACCGATACATTC
*
373612 A-GGAGTGTACCGATACA
1 ATGAAGTGTACCGATACA
373629 CTGGTCGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 12 0.35
21 2 0.06
22 2 0.06
23 18 0.53
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (21 bp):
ATGAAGTGTACCGATACATTC
Found at i:375608 original size:20 final size:22
Alignment explanation
Indices: 375583--375623 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
375573 TATATATGGT
375583 TTTGATT-A-TTTTTAATTTGG
1 TTTGATTAATTTTTTAATTTGG
375603 TTTGATTAATTTTTTAATTTG
1 TTTGATTAATTTTTTAATTTG
375624 AACTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (22 bp):
TTTGATTAATTTTTTAATTTGG
Found at i:377985 original size:20 final size:23
Alignment explanation
Indices: 377953--378000 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
377943 TTATATATAT
377953 ATTTGGTTTTGATT-A-TTTTTA
1 ATTTGGTTTTGATTAATTTTTTA
377974 ATTTGG-TTTGATTAATTTTTTA
1 ATTTGGTTTTGATTAATTTTTTA
377996 ATTTG
1 ATTTG
378001 AACTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.28
21 7 0.28
22 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (23 bp):
ATTTGGTTTTGATTAATTTTTTA
Found at i:380358 original size:19 final size:19
Alignment explanation
Indices: 380334--380382 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
380324 GAATGCAATT
380334 AGTGTATCGATGCACCTGG
1 AGTGTATCGATGCACCTGG
380353 AGTGTATCGATGCACCTGG
1 AGTGTATCGATGCACCTGG
*
380372 AGTGTACCGAT
1 AGTGTATCGAT
380383 ACACTAGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (19 bp):
AGTGTATCGATGCACCTGG
Found at i:381479 original size:17 final size:17
Alignment explanation
Indices: 381457--381489 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
381447 TAATACACAT
381457 TTATATTATTT-TTTTAA
1 TTATATT-TTTATTTTAA
381474 TTATATTTTTATTTTA
1 TTATATTTTTATTTTA
381490 GATTCCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTTTTATTTTAA
Found at i:382789 original size:55 final size:55
Alignment explanation
Indices: 382677--382790 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 55
382667 AAGTCACAAC
* * * *
382677 AACAATGAGTTCAAATCACATGAAGCTCTAATCTATATCGAACATCCATCCTGAG
1 AACAACGAGTTAAAATCACATGAAGCTCTAATCTATATCGAACATCCACCCTAAG
* *
382732 AACAACGAGTTAAAATCACAAT-AAGCTCTAATCTATGT-TAACATCTCACCCTAAG
1 AACAACGAGTTAAAATCAC-ATGAAGCTCTAATCTATATCGAACATC-CACCCTAAG
382787 AACA
1 AACA
382791 CTGGTTCATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
54 6 0.12
55 43 0.84
56 2 0.04
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.25
Consensus pattern (55 bp):
AACAACGAGTTAAAATCACATGAAGCTCTAATCTATATCGAACATCCACCCTAAG
Found at i:383312 original size:118 final size:118
Alignment explanation
Indices: 383104--383333 Score: 442
Period size: 118 Copynumber: 1.9 Consensus size: 118
383094 GGACGAAGGG
* *
383104 CATGATTCACTGGCCATGTCCATTTCTGTTTGCCAATTCATGGAAGATCGCTTTTCAAGGACTGT
1 CATGATTCACTGGCCATGTCCATTTCTGTCTGCCAATTCAAGGAAGATCGCTTTTCAAGGACTGT
383169 TGTTGACACTGGTTGTTTCACAGGCACCAAAGCATTAGGCATGGAGGTTCGTC
66 TGTTGACACTGGTTGTTTCACAGGCACCAAAGCATTAGGCATGGAGGTTCGTC
383222 CATGATTCACTGGCCATGTCCATTTCTGTCTGCCAATTCAAGGAAGATCGCTTTTCAAGGACTGT
1 CATGATTCACTGGCCATGTCCATTTCTGTCTGCCAATTCAAGGAAGATCGCTTTTCAAGGACTGT
383287 TGTTGACACTGGTTGTTTCACAGGCACCAAAGCATTAGGCATGGAGG
66 TGTTGACACTGGTTGTTTCACAGGCACCAAAGCATTAGGCATGGAGG
383334 GTTTTCCTCT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (118 bp):
CATGATTCACTGGCCATGTCCATTTCTGTCTGCCAATTCAAGGAAGATCGCTTTTCAAGGACTGT
TGTTGACACTGGTTGTTTCACAGGCACCAAAGCATTAGGCATGGAGGTTCGTC
Found at i:384793 original size:75 final size:75
Alignment explanation
Indices: 384708--384888 Score: 197
Period size: 75 Copynumber: 2.4 Consensus size: 75
384698 GGGCTGTCGA
* ** *
384708 GTTGACTCATTATGC-TCCATGATTATGCTTTTAACACCA-ACGAAA-GAGACCTTCTGGTTCAA
1 GTTGATTCATTAT-CTTCCATGATTAACCTTCTAACACCAGA--AAATGAGACCTTCTGGTTCAA
384770 ACCAACCTCTGGG
63 ACCAACCTCTGGG
* * * * *
384783 GTTGATTCATTATCTTCCATGATTAACCTTCTAACATCAGAAAATGAGACCTTTTGTTTTAAAGC
1 GTTGATTCATTATCTTCCATGATTAACCTTCTAACACCAGAAAATGAGACCTTCTGGTTCAAACC
384848 AACCTCTGGG
66 AACCTCTGGG
* * *
384858 GTTGATTCCTTGTCTTCCATGGTTAAACCTT
1 GTTGATTCATTATCTTCCATGATT-AACCTT
384889 TTATATCAGA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
74 4 0.04
75 79 0.88
76 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (75 bp):
GTTGATTCATTATCTTCCATGATTAACCTTCTAACACCAGAAAATGAGACCTTCTGGTTCAAACC
AACCTCTGGG
Found at i:395486 original size:23 final size:23
Alignment explanation
Indices: 395455--395498 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
395445 TTGTATGTAT
*
395455 GACACGTTTTCATCTGTCTTTAC
1 GACACGTTTTCATATGTCTTTAC
* *
395478 GACATGTTTTCTTATGTCTTT
1 GACACGTTTTCATATGTCTTT
395499 TTAGTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (23 bp):
GACACGTTTTCATATGTCTTTAC
Found at i:412776 original size:2 final size:2
Alignment explanation
Indices: 412769--412808 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
412759 CAATAACATC
412769 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
412809 TATCCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:418276 original size:22 final size:21
Alignment explanation
Indices: 418243--418299 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
418233 AATATTTTTA
* *
418243 TTTTAA-TATAAAATATTATTT
1 TTTTAACT-TAAAAAATTATAT
418264 TGTTTAACTTAAAAAATTATAT
1 T-TTTAACTTAAAAAATTATAT
418286 TTTTAA--TAAAAAAT
1 TTTTAACTTAAAAAAT
418300 CAACGCAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 8 0.25
21 6 0.19
22 17 0.53
23 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTTAACTTAAAAAATTATAT
Found at i:420535 original size:18 final size:18
Alignment explanation
Indices: 420512--420550 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
420502 ATTAACATAC
420512 ACCGAATTTTTTCCCAAT
1 ACCGAATTTTTTCCCAAT
420530 ACCGAATTTTTTCCCAAT
1 ACCGAATTTTTTCCCAAT
420548 ACC
1 ACC
420551 CCAGGCGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.31, G:0.05, T:0.36
Consensus pattern (18 bp):
ACCGAATTTTTTCCCAAT
Found at i:421822 original size:22 final size:22
Alignment explanation
Indices: 421797--421840 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
421787 TTACCATTAT
421797 TTTTA-GTAAGTTTTTAAATTTA
1 TTTTATGT-AGTTTTTAAATTTA
*
421819 TTTTATGTATTTTTTAAATTTA
1 TTTTATGTAGTTTTTAAATTTA
421841 AGTTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTATGTAGTTTTTAAATTTA
Found at i:426683 original size:21 final size:21
Alignment explanation
Indices: 426659--426704 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
426649 AATTCGTCTT
426659 TTCAACAATATATCAACTCAA
1 TTCAACAATATATCAACTCAA
*** *
426680 TTCAGTGATATATCACCTCAA
1 TTCAACAATATATCAACTCAA
426701 TTCA
1 TTCA
426705 GTGATGTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (21 bp):
TTCAACAATATATCAACTCAA
Found at i:426705 original size:21 final size:21
Alignment explanation
Indices: 426666--426715 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
426656 CTTTTCAACA
426666 ATATATCAACTCAATTCAGTG
1 ATATATCAACTCAATTCAGTG
*
426687 ATATATCACCTCAATTCAGTG
1 ATATATCAACTCAATTCAGTG
*
426708 ATGTATCA
1 ATATATCA
426716 GACCATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (21 bp):
ATATATCAACTCAATTCAGTG
Found at i:429211 original size:3 final size:3
Alignment explanation
Indices: 429203--429243 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
429193 GCTCTCTCAA
429203 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
429244 GCATATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:433892 original size:24 final size:24
Alignment explanation
Indices: 433865--433950 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
433855 TTCAAGTTAA
433865 GTATCATATCAGAATCCAGGTCAT
1 GTATCATATCAGAATCCAGGTCAT
*
433889 GTATCATATCAGAATCCATGTCA-
1 GTATCATATCAGAATCCAGGTCAT
* *
433912 ATATCAGATCAGAATCCAGGTCAT
1 GTATCATATCAGAATCCAGGTCAT
*
433936 GTATCATAACAGAAT
1 GTATCATATCAGAAT
433951 TCAAATTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 20 0.37
24 34 0.63
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (24 bp):
GTATCATATCAGAATCCAGGTCAT
Found at i:436221 original size:36 final size:35
Alignment explanation
Indices: 436147--436222 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 35
436137 CGTCACGTCT
* *
436147 AGTAAGGCCTTGAGCACACAACCGAGGAACCGATA
1 AGTAAGGCCCTGAGCACACAACCGAGGAACCGACA
* **
436182 AGTAAGGCCCCTGAGCACACATCCGAGGAACCTCCA
1 AGTAAGG-CCCTGAGCACACAACCGAGGAACCGACA
436218 AGTAA
1 AGTAA
436223 TCTTCTTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 7 0.20
36 28 0.80
ACGTcount: A:0.36, C:0.29, G:0.24, T:0.12
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAACCGAGGAACCGACA
Found at i:436327 original size:24 final size:24
Alignment explanation
Indices: 436300--436390 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
436290 CATAATTCAA
*
436300 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
436324 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
436348 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
436371 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAAT
436391 TCAAATTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:436370 original size:47 final size:48
Alignment explanation
Indices: 436300--436390 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
436290 CATAATTCAA
* * *
436300 GTCAAGTATCATATCAGAATCCAGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
*
436348 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAAT
436391 TCAAATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:438702 original size:18 final size:18
Alignment explanation
Indices: 438679--438731 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
438669 ACGAGCAACA
438679 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
438697 GGTCAAC---T--GGTCG
1 GGTCAACGGGTCGGGTCG
*
438710 GGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
438728 GGTC
1 GGTC
438732 GGGTCATGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
13 11 0.39
15 1 0.04
16 1 0.04
18 15 0.54
ACGTcount: A:0.13, C:0.21, G:0.47, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:438708 original size:13 final size:13
Alignment explanation
Indices: 438690--438737 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
438680 GTCAACGGGT
438690 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
* *
438703 CTGGTCGGGTAAA
1 CGGGTCGGGTCAA
438716 CGGGTCGGGT---
1 CGGGTCGGGTCAA
438726 CGGGTCGGGTCA
1 CGGGTCGGGTCA
438738 TGACCGGTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 10 0.33
13 20 0.67
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:439205 original size:32 final size:32
Alignment explanation
Indices: 439169--439234 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
439159 TTCCTCGGTT
439169 GACAACGAACACGATGGTGGTTTCGGCTCGTC
1 GACAACGAACACGATGGTGGTTTCGGCTCGTC
439201 GACAACGAACACGATGGTGGTTTCGGCTCGTC
1 GACAACGAACACGATGGTGGTTTCGGCTCGTC
439233 GA
1 GA
439235 TCGGAGGTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (32 bp):
GACAACGAACACGATGGTGGTTTCGGCTCGTC
Found at i:446353 original size:105 final size:105
Alignment explanation
Indices: 446166--446378 Score: 365
Period size: 105 Copynumber: 2.0 Consensus size: 105
446156 GAAGAGATAA
* * *
446166 TAATCGGCAACATGTTATTATTACCCAAGTAAGCATATTTGAGATGTAAGGGCAAGGGTTTTAAT
1 TAATCGACAACATGTTATTATCACCCAAGTAAGCATATTTGAGATATAAGGGCAAGGGTTTTAAT
446231 TCTAATGTAGGTGCATGTTGTAGAGAAGGTTTTGGTAGAG
66 TCTAATGTAGGTGCATGTTGTAGAGAAGGTTTTGGTAGAG
*
446271 TAATCGACAATATGTTATTATCACCCAAGTAAGCATATTTGAGATATGAA-GGCAAGGGTTTTAA
1 TAATCGACAACATGTTATTATCACCCAAGTAAGCATATTTGAGATAT-AAGGGCAAGGGTTTTAA
*
446335 TTCTAATGTAGGTTCATGTTGTAGAGAAGGTTTTGGTAGAG
65 TTCTAATGTAGGTGCATGTTGTAGAGAAGGTTTTGGTAGAG
446376 TAA
1 TAA
446379 ATTTCTCAAA
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
105 100 0.98
106 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (105 bp):
TAATCGACAACATGTTATTATCACCCAAGTAAGCATATTTGAGATATAAGGGCAAGGGTTTTAAT
TCTAATGTAGGTGCATGTTGTAGAGAAGGTTTTGGTAGAG
Found at i:457215 original size:19 final size:21
Alignment explanation
Indices: 457164--457212 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
457154 GTTTTAACTT
457164 TTTATATATTTTGAAAATTTC
1 TTTATATATTTTGAAAATTTC
*
457185 TTTATATATTTTGAAATTTTC
1 TTTATATATTTTGAAAATTTC
457206 TTTATAT
1 TTTATAT
457213 TTTCTATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTATATATTTTGAAAATTTC
Found at i:460869 original size:20 final size:19
Alignment explanation
Indices: 460830--460890 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
460820 AAATCGAAAT
*
460830 GCGAAAGTCAAAATTACAAC
1 GCGAAAGTC-AAATTGCAAC
460850 GCGAAAGTCAAATTCGCAAC
1 GCGAAAGTCAAATT-GCAAC
* *
460870 ACGAATAGTTAAATTGCAAC
1 GCGAA-AGTCAAATTGCAAC
460890 G
1 G
460891 ATTATATGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 22 0.63
21 8 0.23
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (19 bp):
GCGAAAGTCAAATTGCAAC
Found at i:460907 original size:40 final size:40
Alignment explanation
Indices: 460863--460941 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
460853 AAAGTCAAAT
* ** *
460863 TCGCAACACGAATAGTTAAATTGCAACGATTATATGTAAC
1 TCGCAACACGAATAGGTAAATCACAACGATAATATGTAAC
*
460903 TCGCAACGCGAATAGGTAAATCACAACGATAATATGTAA
1 TCGCAACACGAATAGGTAAATCACAACGATAATATGTAA
460942 ATCACAACGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (40 bp):
TCGCAACACGAATAGGTAAATCACAACGATAATATGTAAC
Found at i:460929 original size:20 final size:20
Alignment explanation
Indices: 460906--460951 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
460896 ATGTAACTCG
460906 CAACGCGAATAGGTAAATCA
1 CAACGCGAATAGGTAAATCA
** *
460926 CAACGATAATATGTAAATCA
1 CAACGCGAATAGGTAAATCA
460946 CAACGC
1 CAACGC
460952 AAAATCTCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (20 bp):
CAACGCGAATAGGTAAATCA
Found at i:460950 original size:40 final size:40
Alignment explanation
Indices: 460866--460951 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
460856 GTCAAATTCG
* * ** * * *
460866 CAACACGAATAGTTAAATTGCAACGATTATATGTAACTCG
1 CAACGCGAATAGGTAAATCACAACGATAATATGTAAATCA
460906 CAACGCGAATAGGTAAATCACAACGATAATATGTAAATCA
1 CAACGCGAATAGGTAAATCACAACGATAATATGTAAATCA
460946 CAACGC
1 CAACGC
460952 AAAATCTCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (40 bp):
CAACGCGAATAGGTAAATCACAACGATAATATGTAAATCA
Found at i:461180 original size:117 final size:123
Alignment explanation
Indices: 461030--461281 Score: 354
Period size: 126 Copynumber: 2.1 Consensus size: 123
461020 AACGAAAATC
* * *
461030 GCGTTGCTATTTTCCAAATTCGCAACGCGAATAGGTAAATCGCAATGATAAAATGTAAAT-C-A-
1 GCGTTGCGATTTTCCAAATTCGCAACGCAAATAGGTAAATCGCAACGATAAAATGTAAATCCAAC
* *
461092 C-AA-C-GCAAATTCGCAACTTAAATTTCGCAACGCTAATTACCGATATAGGTAATTA
66 CAAATCTCCAAATTCGCAACTCAAATTTCGCAACGCTAATTACCGATATAGGTAATTA
* *
461147 GCGTTGCGATTTTCCAAATTCGCAATGCAAATAGGTAAATCGCAACGATAATATGTAAATCGCAA
1 GCGTTGCGATTTTCCAAATTCGCAACGCAAATAGGTAAATCGCAACGATAAAATGTAAATC-CAA
* *
461212 CGCAAATTCTCCAAATTCGCAACTCGAATTTCGCAACGCTGATTACCGATATAGGTAATTA
65 C-CAAA-TCTCCAAATTCGCAACTCAAATTTCGCAACGCTAATTACCGATATAGGTAATTA
461273 GCGTTGCGA
1 GCGTTGCGA
461282 AAACAAAATT
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
117 55 0.47
119 1 0.01
120 1 0.01
122 1 0.01
123 2 0.02
125 1 0.01
126 56 0.48
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (123 bp):
GCGTTGCGATTTTCCAAATTCGCAACGCAAATAGGTAAATCGCAACGATAAAATGTAAATCCAAC
CAAATCTCCAAATTCGCAACTCAAATTTCGCAACGCTAATTACCGATATAGGTAATTA
Found at i:461191 original size:20 final size:20
Alignment explanation
Indices: 461166--461218 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
461156 TTTTCCAAAT
*
461166 TCGCAATGCAAATAGGTAAA
1 TCGCAACGCAAATAGGTAAA
*
461186 TCGCAACG-ATAATATGTAAA
1 TCGCAACGCA-AATAGGTAAA
461206 TCGCAACGCAAAT
1 TCGCAACGCAAAT
461219 TCTCCAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACGCAAATAGGTAAA
Found at i:461331 original size:126 final size:125
Alignment explanation
Indices: 461097--461464 Score: 443
Period size: 126 Copynumber: 2.9 Consensus size: 125
461087 AATCACAACG
** *** *
461097 CAAATTCGCAACTTAAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGATTTTCC
1 CAAATTCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGA-AAACA
** * *** **
461162 AAATTCGCAATGCAAATAGGT-AAA-TCGCAACGATAATATGTAAATCGCAACGCAAATTCTC
65 AAATTCGCGTTGC-GATTTTTCAAATTCGCAACGCGAATA-GTAAATCGCAACGCAAATTCTC
*
461223 CAAATTCGCAACTCGAATTTCGCAACGCTGATTACCGATATAGGTAATTAGCGTTGCGAAAACAA
1 CAAATTCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAAACAA
*
461288 AATTCGCGTTGCGATTTTTCAAATTCGCAACGCGAATAGGTAAATCGCAACGCGAATTCTC
66 AATTCGCGTTGCGATTTTTCAAATTCGCAACGCGAATA-GTAAATCGCAACGCAAATTCTC
* * * * ** *
461349 CAAATTCGTAACTCGAATTTCGCAACACCAATTACCAATATAGGTAATTAGTATTGCGAAAACGA
1 CAAATTCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAAACAA
* * * *
461414 AATTCCCGTTGCGATTTTCCAAATTTGCAACGCGAACAGTAAATCGCAACG
66 AATTCGCGTTGCGATTTTTCAAATTCGCAACGCGAATAGTAAATCGCAACG
461465 ATAATATGTA
Statistics
Matches: 211, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
124 3 0.01
125 28 0.13
126 180 0.85
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (125 bp):
CAAATTCGCAACTCGAATTTCGCAACGCTAATTACCGATATAGGTAATTAGCGTTGCGAAAACAA
AATTCGCGTTGCGATTTTTCAAATTCGCAACGCGAATAGTAAATCGCAACGCAAATTCTC
Found at i:461705 original size:21 final size:21
Alignment explanation
Indices: 461679--461728 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
461669 AAAATGAAAT
461679 TCGCGTTGCGATTTTGGAGAA
1 TCGCGTTGCGATTTTGGAGAA
*
461700 TCGCGTTGCGATTTTGGATAA
1 TCGCGTTGCGATTTTGGAGAA
461721 TCGCGTTG
1 TCGCGTTG
461729 TGTAAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATTTTGGAGAA
Found at i:461787 original size:20 final size:20
Alignment explanation
Indices: 461762--461816 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
461752 TTTTCCAAAT
461762 TCGCAACGTGAATAGATAAA
1 TCGCAACGTGAATAGATAAA
* * *
461782 TCGCAACAATAATATATATAAA
1 TCGCAAC-GTGA-ATAGATAAA
*
461804 TCGCAACGCGAAT
1 TCGCAACGTGAAT
461817 TCTCCAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 9 0.33
21 3 0.11
22 15 0.56
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (20 bp):
TCGCAACGTGAATAGATAAA
Found at i:461992 original size:40 final size:42
Alignment explanation
Indices: 461947--462041 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 42
461937 TCGATAATTA
*
461947 GCGTTGCGAATTTGAC-T-TCTGT-GTTTCGATTTACATATTC
1 GCGTTGCGAATTTGACATAT-TATCGTTTCGATTTACATATTC
*
461987 GCGTTGCG-ATTT-ACATATTATCGTTTCGATTTACCTATTC
1 GCGTTGCGAATTTGACATATTATCGTTTCGATTTACATATTC
462027 GCGTTGCGAATTTGA
1 GCGTTGCGAATTTGA
462042 AAAATCGCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
38 2 0.04
39 7 0.15
40 34 0.71
41 4 0.08
42 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (42 bp):
GCGTTGCGAATTTGACATATTATCGTTTCGATTTACATATTC
Found at i:461998 original size:20 final size:20
Alignment explanation
Indices: 461973--462035 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
461963 TTCTGTGTTT
461973 CGATTTACATATTCGCGTTG
1 CGATTTACATATTCGCGTTG
** *
461993 CGATTTACATATTATCGTTT
1 CGATTTACATATTCGCGTTG
*
462013 CGATTTACCTATTCGCGTTG
1 CGATTTACATATTCGCGTTG
462033 CGA
1 CGA
462036 ATTTGAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (20 bp):
CGATTTACATATTCGCGTTG
Found at i:464528 original size:23 final size:24
Alignment explanation
Indices: 464502--464549 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
464492 ATGGTGCCAA
464502 GCACGCT-GATATGCTAGTGCATG
1 GCACGCTAGATATGCTAGTGCATG
* *
464525 GCACGCTAGATTTGCTCGTGCATG
1 GCACGCTAGATATGCTAGTGCATG
464549 G
1 G
464550 TAGCCACTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.27
Consensus pattern (24 bp):
GCACGCTAGATATGCTAGTGCATG
Found at i:469233 original size:23 final size:24
Alignment explanation
Indices: 469207--469254 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
469197 ATGGTGCCAA
469207 GCACGCTA-ATATGCTAGTGCATG
1 GCACGCTAGATATGCTAGTGCATG
* *
469230 GCACGCTAGATTTGCTCGTGCATG
1 GCACGCTAGATATGCTAGTGCATG
469254 G
1 G
469255 TAGCCACTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (24 bp):
GCACGCTAGATATGCTAGTGCATG
Found at i:471330 original size:27 final size:27
Alignment explanation
Indices: 471212--471330 Score: 69
Period size: 27 Copynumber: 4.1 Consensus size: 27
471202 ATATTATTTT
* *
471212 TTTTATCAAAAATATT-AATATTAAGTA
1 TTTTATCAAAAATATTAAAAAATAA-TA
* * * *
471239 CTTTATCAGAAATGTTAAAAAATATTAATG
1 TTTTATCAAAAATATT-AAAAA-A-TAATA
* * * *
471269 TTTTAAGTAAAAAATAATAATTTAAATAATT
1 TTTT-A-TCAAAAATATTAA--AAAATAATA
471300 TTTTATCAAAAATATTAAAAAATAATA
1 TTTTATCAAAAATATTAAAAAATAATA
471327 TTTT
1 TTTT
471331 TATAATATTT
Statistics
Matches: 67, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
27 24 0.36
29 14 0.21
30 5 0.07
31 14 0.21
32 8 0.12
33 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (27 bp):
TTTTATCAAAAATATTAAAAAATAATA
Found at i:471733 original size:21 final size:21
Alignment explanation
Indices: 471705--471757 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
471695 CTGACTATCG
471705 CATTGCGATTTCCCAAATTCA
1 CATTGCGATTTCCCAAATTCA
* * * *
471726 CGTTGCGATTTTCCTAATTCG
1 CATTGCGATTTCCCAAATTCA
471747 CATTGCGATTT
1 CATTGCGATTT
471758 ACGTAACGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (21 bp):
CATTGCGATTTCCCAAATTCA
Found at i:471792 original size:21 final size:21
Alignment explanation
Indices: 471768--471831 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
471758 ACGTAACGCG
471768 ATTACGTAAATCGCAATGCGA
1 ATTACGTAAATCGCAATGCGA
* *
471789 ATTAGGAAAATCGCAATGCGA
1 ATTACGTAAATCGCAATGCGA
471810 A-TACGTAAATCGCAATGCGA
1 ATTACGTAAATCGCAATGCGA
471830 AT
1 AT
471832 CTGACTATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 18 0.47
21 20 0.53
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (21 bp):
ATTACGTAAATCGCAATGCGA
Found at i:471821 original size:20 final size:20
Alignment explanation
Indices: 471765--471831 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
471755 TTTACGTAAC
*
471765 GCGATTACGTAAATCGCAAT
1 GCGAATACGTAAATCGCAAT
* *
471785 GCGAATTAGGAAAATCGCAAT
1 GCGAA-TACGTAAATCGCAAT
471806 GCGAATACGTAAATCGCAAT
1 GCGAATACGTAAATCGCAAT
471826 GCGAAT
1 GCGAAT
471832 CTGACTATCG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 23 0.56
21 18 0.44
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (20 bp):
GCGAATACGTAAATCGCAAT
Found at i:472052 original size:22 final size:22
Alignment explanation
Indices: 472027--472092 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
472017 GGCGACATCC
472027 GTCCTCATCTCCGACGAAATCA
1 GTCCTCATCTCCGACGAAATCA
* *
472049 GTCCCCATCTCCGACGATATCA
1 GTCCTCATCTCCGACGAAATCA
*
472071 GT-CTCCATCTCCGGCGAAATCA
1 GTCCT-CATCTCCGACGAAATCA
472093 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCTCATCTCCGACGAAATCA
Found at i:472410 original size:19 final size:19
Alignment explanation
Indices: 472385--472474 Score: 110
Period size: 19 Copynumber: 4.6 Consensus size: 19
472375 TTCTAAACTT
*
472385 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACG-AAATG
472405 -AAATCGCAACACGAAATG
1 AAAATCGCAACACGAAATG
** *
472423 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-A-CGAAATG
472444 AAAATCGCAACACGAAATG
1 AAAATCGCAACACGAAATG
472463 AAAATCGCAACA
1 AAAATCGCAACA
472475 AGATAATCGC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.08
19 38 0.63
20 2 0.03
21 15 0.25
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACACGAAATG
Found at i:472452 original size:40 final size:38
Alignment explanation
Indices: 472386--472474 Score: 67
Period size: 40 Copynumber: 2.3 Consensus size: 38
472376 TCTAAACTTA
* *
472386 AAATCGCAACATGAAAATG-AAATCGCAACACG-AAATG
1 AAATCGCAACACG-AAATGAAAATCGCAACATGAAAATG
* * *
472423 ACTATCGCAACGAGAGAAATGAAAATCGCAACACG-AAATG
1 A-AATCGCAAC-A-CGAAATGAAAATCGCAACATGAAAATG
472463 AAAATCGCAACA
1 -AAATCGCAACA
472475 AGATAATCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
37 1 0.02
38 8 0.18
39 7 0.16
40 27 0.61
41 1 0.02
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (38 bp):
AAATCGCAACACGAAATGAAAATCGCAACATGAAAATG
Found at i:472541 original size:14 final size:14
Alignment explanation
Indices: 472522--472610 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
472512 TTTCATTTCG
472522 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
472536 CGTTGCGATTTGCATTTCG
1 CGTTGCGA-TT-C---TCT
*
472555 CGTTGCGATTATCT
1 CGTTGCGATTCTCT
*
472569 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
472588 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
472602 CGTTGCGAT
1 CGTTGCGAT
472611 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 29 0.49
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.34
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:472552 original size:33 final size:33
Alignment explanation
Indices: 472505--472631 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
472495 CAAAATCGCA
*
472505 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTGCATTTCGCGTTGCGATTCTCTCG
*
472538 TTGCGATTTGCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTGCATTTCGCGTTGCGATTCTCTCG
* *
472571 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
1 TTGCGATTTGCATTTCGCGTTGCGATTCTCTCG
*
472604 TTGCGA-TAGTCATTTCCGCGTTGCGATT
1 TTGCGATTTG-CATTT-CGCGTTGCGATT
472632 TTCATTCTCT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
32 1 0.01
33 72 0.86
34 11 0.13
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (33 bp):
TTGCGATTTGCATTTCGCGTTGCGATTCTCTCG
Found at i:472618 original size:66 final size:70
Alignment explanation
Indices: 472505--472660 Score: 223
Period size: 66 Copynumber: 2.2 Consensus size: 70
472495 CAAAATCGCA
* *
472505 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTGCATTT-CGCGTTGCGA-TT-A-
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATGTGCATTTCCGCGTTGCGATTTCAT
472566 TCTCG
66 TCTCG
472571 TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATAGT-CATTTCCGCGTTGCGATTTTC
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGAT-GTGCATTTCCGCGTTGCGA-TTTC
472635 ATTCTCTCG
64 A-T-TCTCG
472644 TTGCGATTTTCATTTCA
1 TTGCGATTTTCATTTCA
472661 ACCAAAAGAC
Statistics
Matches: 80, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
66 44 0.55
67 11 0.14
69 2 0.03
70 1 0.01
73 22 0.28
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (70 bp):
TTGCGATTTTCATTTCACGTTGCGATTCTCTCGTTGCGATGTGCATTTCCGCGTTGCGATTTCAT
TCTCG
Found at i:474310 original size:94 final size:93
Alignment explanation
Indices: 474119--474494 Score: 616
Period size: 94 Copynumber: 4.1 Consensus size: 93
474109 TAGATTGCTT
* *
474119 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
474180 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
474209 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
474274 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
474303 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
474368 ATTTATCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
474397 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
474462 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
474490 AGTAA
1 AGTAA
474495 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
90 35 0.13
92 3 0.01
93 28 0.10
94 206 0.76
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:474671 original size:19 final size:19
Alignment explanation
Indices: 474585--474665 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
474575 TCTTTTGGTT
*
474585 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
474604 GAGAATGAAAATCGCAATGC
1 GA-AATGAAAATCGCAACGC
474624 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
474643 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
474662 GAAA
1 GAAA
474666 CCAAAAATCG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 41 0.71
20 17 0.29
ACGTcount: A:0.49, C:0.17, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:474673 original size:39 final size:39
Alignment explanation
Indices: 474591--474683 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
474581 GGTTGAAATG
* * **
474591 AAAATCGCAACGAGAGAATGAAAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAGAATGAAAATCGCAACGCGAAACA
474630 AAAATCGCAACGCGA-AATGAAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAGAATGAAAATCGCAACGCGAAA-CA
*
474669 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
474684 TTTTAATTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.42
39 28 0.58
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (39 bp):
AAAATCGCAACGCGAGAATGAAAATCGCAACGCGAAACA
Found at i:474701 original size:19 final size:19
Alignment explanation
Indices: 474679--474799 Score: 108
Period size: 19 Copynumber: 6.5 Consensus size: 19
474669 AAAATCGCAA
* *
474679 TGCGATTTTAATTTCGCAT
1 TGCGATTTTCATTTCGCGT
*
474698 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCGT
*
474712 TGCGATTTTTATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
474731 TGCGATTTTCATTCTCTCGT
1 TGCGATTTTCATT-TCGCGT
474751 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
** *
474770 TGCGATAGTCATTTTTCACGT
1 TGCGATTTTCA--TTTCGCGT
474791 TGCGATTTT
1 TGCGATTTT
474800 AAGTTCCAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
14 6 0.07
16 6 0.07
17 6 0.07
19 32 0.39
20 18 0.22
21 14 0.17
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.48
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:474726 original size:33 final size:33
Alignment explanation
Indices: 474679--474775 Score: 113
Period size: 39 Copynumber: 2.8 Consensus size: 33
474669 AAAATCGCAA
*
474679 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
*
474712 TGCGATTTTTATTTCGCGTTGCGATTTTCATTCTCTCGT
1 TGCGATTTTAATTTCGCGTTGCG------ATTCTCTCGT
*
474751 TGCGATTTTCATTTCGCGTTGCGAT
1 TGCGATTTTAATTTCGCGTTGCGAT
474776 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
33 23 0.42
39 32 0.58
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (33 bp):
TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
Found at i:474753 original size:20 final size:19
Alignment explanation
Indices: 474709--474799 Score: 110
Period size: 19 Copynumber: 4.6 Consensus size: 19
474699 GCGATTCTCT
*
474709 CGTTGCGATTTTTATTTCG
1 CGTTGCGATTTTCATTTCG
*
474728 CGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
474748 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
** *
474767 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA--TTTCG
474788 CGTTGCGATTTT
1 CGTTGCGATTTT
474800 AAGTTCCAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 29 0.48
20 18 0.30
21 14 0.23
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:474756 original size:39 final size:39
Alignment explanation
Indices: 474702--474799 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
474692 TCGCATTGCG
* **
474702 ATTCTCTCGTTGCGATTTTTATTTCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
474741 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
* *
474780 ATTTTTCACGTTGCGATTTT
1 A-TTCTCTCGTTGCGATTTT
474800 AAGTTCCAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 37 0.70
40 16 0.30
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.49
Consensus pattern (39 bp):
ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
Found at i:475276 original size:21 final size:21
Alignment explanation
Indices: 475252--475318 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
475242 TCATTCCTCG
475252 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
475273 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
475294 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
475315 AGAG
1 AGAG
475319 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:475276 original size:42 final size:42
Alignment explanation
Indices: 475200--475318 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
475190 GACTCACCTG
* * * * * * *
475200 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
475242 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
475284 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
475319 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:476672 original size:13 final size:13
Alignment explanation
Indices: 476634--476673 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
476624 TTATTTTTTA
476634 TTGTTTAATTGAT
1 TTGTTTAATTGAT
**
476647 TTGTAAAATTTGAT
1 TTGTTTAA-TTGAT
476661 TTGTTTAATTGAT
1 TTGTTTAATTGAT
476674 GTGACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (13 bp):
TTGTTTAATTGAT
Found at i:476825 original size:19 final size:19
Alignment explanation
Indices: 476803--476933 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
476793 CGAAACTAAA
*
476803 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
476822 TTCGCTTTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
476838 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
476855 TTCGCATTGCGA--TT-A-
1 TTCGCATTGCGATTTTCAT
*
476870 -TCTCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
476888 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
476904 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
476921 TTCGCATTGCGAT
1 TTCGCATTGCGAT
476934 AGTCATTTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
14 22 0.25
16 16 0.18
17 16 0.18
19 34 0.39
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:476849 original size:33 final size:33
Alignment explanation
Indices: 476807--476933 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
476797 ACTAAATTCG
* *
476807 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
476840 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
476873 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
476906 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
476934 AGTCATTTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:476939 original size:19 final size:19
Alignment explanation
Indices: 476873--476960 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
476863 GCGATTATCT
**
476873 CATTGCGATTTTCATTTCG
1 CATTGCGATAGTCATTTCG
*
476892 CATTGCGAT--TC-TCTCG
1 CATTGCGATAGTCATTTCG
**
476908 --TTGCGATTTTCATTTCG
1 CATTGCGATAGTCATTTCG
476925 CATTGCGATAGTCATTTC-
1 CATTGCGATAGTCATTTCG
*
476943 CACGTTGCGATAGACATT
1 CA--TTGCGATAGTCATT
476961 AAGATGATTG
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.12
16 6 0.11
17 6 0.11
18 2 0.04
19 23 0.40
20 13 0.23
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (19 bp):
CATTGCGATAGTCATTTCG
Found at i:476999 original size:20 final size:20
Alignment explanation
Indices: 476927--476999 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
476917 TCATTTCGCA
**
476927 TTGCGATAGTCATTTCCACG
1 TTGCGATAGTCATTTCCGTG
* **
476947 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
476967 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
476988 TTGCGATAGTCA
1 TTGCGATAGTCA
477000 AATGAATGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 12 0.30
22 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Done.