Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008906.1 Hibiscus syriacus cultivar Beakdansim tig00112193_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: 133755
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2412 original size:29 final size:27
Alignment explanation
Indices: 2338--2397 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
2328 GAGTTCCTGG
*
2338 GTGGTGGCGGGGCTTGGAATTGCAGGC
1 GTGGTGGCGGGGCTTGGAGTTGCAGGC
2365 GTGGTGGCGGGGCTTGGAGTTGCA-GC
1 GTGGTGGCGGGGCTTGGAGTTGCAGGC
2391 GTGGTGG
1 GTGGTGG
2398 GCGTGGGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.08, C:0.13, G:0.55, T:0.23
Consensus pattern (27 bp):
GTGGTGGCGGGGCTTGGAGTTGCAGGC
Found at i:12546 original size:27 final size:26
Alignment explanation
Indices: 12510--12562 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
12500 ATATTAATAA
12510 AAAAATAAAA-AAATATATTTAATTTTT
1 AAAAATAAAACAAA-AT-TTTAATTTTT
12537 AAAAATAAAACTAAAATTTTAATTTT
1 AAAAATAAAAC-AAAATTTTAATTTT
12563 AAATGTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 19 0.79
28 2 0.08
29 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAAATAAAACAAAATTTTAATTTTT
Found at i:18478 original size:24 final size:24
Alignment explanation
Indices: 18450--18514 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
18440 AAAAATTCAA
18450 AAGCTCGATTAAAGCTCGAGACTC
1 AAGCTCGATTAAAGCTCGAGACTC
*
18474 AAGCTCGATTGAAGCTCGAGACTC
1 AAGCTCGATTAAAGCTCGAGACTC
*
18498 AAGCTCGATTCAAGCTC
1 AAGCTCGATTAAAGCTC
18515 AATGGGTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (24 bp):
AAGCTCGATTAAAGCTCGAGACTC
Found at i:18479 original size:13 final size:13
Alignment explanation
Indices: 18461--18505 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
18451 AGCTCGATTA
18461 AAGCTCGAGACTC
1 AAGCTCGAGACTC
* *
18474 AAGCTC--GATTG
1 AAGCTCGAGACTC
18485 AAGCTCGAGACTC
1 AAGCTCGAGACTC
18498 AAGCTCGA
1 AAGCTCGA
18506 TTCAAGCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.35
13 17 0.65
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (13 bp):
AAGCTCGAGACTC
Found at i:18510 original size:11 final size:11
Alignment explanation
Indices: 18450--18514 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
18440 AAAAATTCAA
*
18450 AAGCTCGATTA
1 AAGCTCGATTC
*
18461 AAGCTCGAGACTC
1 AAGCTC--GATTC
*
18474 AAGCTCGATTG
1 AAGCTCGATTC
*
18485 AAGCTCGAGACTC
1 AAGCTC--GATTC
18498 AAGCTCGATTC
1 AAGCTCGATTC
18509 AAGCTC
1 AAGCTC
18515 AATGGGTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 25 0.58
13 18 0.42
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (11 bp):
AAGCTCGATTC
Found at i:19734 original size:2 final size:2
Alignment explanation
Indices: 19727--19780 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
19717 GTGTACAAAC
19727 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
19769 AT AT AT AT AT AT
1 AT AT AT AT AT AT
19781 TTCTCAGAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20342 original size:11 final size:12
Alignment explanation
Indices: 20326--20354 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20316 TATTGTTTGG
20326 ATTTTTTA-TTT
1 ATTTTTTATTTT
20337 ATTTTTTATTTT
1 ATTTTTTATTTT
20349 ATTTTT
1 ATTTTT
20355 CTACGTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:20559 original size:11 final size:11
Alignment explanation
Indices: 20543--20603 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
20533 ATTATAAAAA
20543 TTTTAATATAT
1 TTTTAATATAT
20554 TTTTAA-A-AT
1 TTTTAATATAT
20563 TTTATAAT-TAT
1 TTT-TAATATAT
*** *
20574 CAATAATGTAT
1 TTTTAATATAT
20585 TTTTAATATAT
1 TTTTAATATAT
20596 TTTTAATA
1 TTTTAATA
20604 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 26 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:26343 original size:2 final size:2
Alignment explanation
Indices: 26334--26387 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
26324 CTCAAATCCG
26334 TA TA -A 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
26375 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
26388 GCACATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29400 original size:22 final size:22
Alignment explanation
Indices: 29372--29416 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
29362 AGACAAGGCA
*
29372 TGATTTTGAATAGTTTGAACAG
1 TGATTTTGAATAGTCTGAACAG
29394 TGATTTTGAATAGTCTGAACAG
1 TGATTTTGAATAGTCTGAACAG
29416 T
1 T
29417 CCCAAGACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (22 bp):
TGATTTTGAATAGTCTGAACAG
Found at i:31549 original size:25 final size:25
Alignment explanation
Indices: 31516--31568 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
31506 ATTAGCATCT
* *
31516 TTATGAAGATAATTAATTGCGTTAA
1 TTATGAAGAAAATTAATTGCGTCAA
* *
31541 TTATTAAGAAAATTAATTGTGTCAA
1 TTATGAAGAAAATTAATTGCGTCAA
31566 TTA
1 TTA
31569 AATATATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (25 bp):
TTATGAAGAAAATTAATTGCGTCAA
Found at i:38300 original size:31 final size:31
Alignment explanation
Indices: 38262--38355 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
38252 CCCGAAGGAC
* * *
38262 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
38293 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
38324 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
38355 C
1 C
38356 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:39184 original size:21 final size:21
Alignment explanation
Indices: 39160--39204 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
39150 TGTTGTTCGT
* *
39160 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
39181 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
39202 TTG
1 TTG
39205 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:42393 original size:31 final size:31
Alignment explanation
Indices: 42355--42448 Score: 97
Period size: 31 Copynumber: 3.0 Consensus size: 31
42345 CCCGAAGGAC
* *
42355 CAGTCCATAGATTCCGAAGAACCTAGGTAAT
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
*
42386 CAGTCCATATG-TCCCGAA-AGACATAGGTAAA
1 CAGTCCATA-GATTCCGAAGA-ACATAGGTAAA
42417 CAGTCCAT--ATGTCCTGAAGAACATAGGTAAA
1 CAGTCCATAGAT-TCC-GAAGAACATAGGTAAA
42448 C
1 C
42449 CCTCGACCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
29 1 0.02
30 3 0.06
31 47 0.89
32 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAGAACATAGGTAAA
Found at i:43282 original size:21 final size:21
Alignment explanation
Indices: 43258--43302 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
43248 TGTTGTTCGT
* *
43258 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
43279 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
43300 TTG
1 TTG
43303 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:45245 original size:32 final size:34
Alignment explanation
Indices: 45188--45255 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 34
45178 AATCAACGTG
*
45188 ATCTTAAATTGACATCAACATTAAGAGTCATTATA
1 ATCTTAAATTGA-ATCAACATTAAGAATCATTATA
*
45223 ATCTTAAATTG-AT-AACATTAAGAATTATTATA
1 ATCTTAAATTGAATCAACATTAAGAATCATTATA
45255 A
1 A
45256 AATCGTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 18 0.58
33 2 0.06
35 11 0.35
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (34 bp):
ATCTTAAATTGAATCAACATTAAGAATCATTATA
Found at i:48615 original size:15 final size:18
Alignment explanation
Indices: 48580--48618 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
48570 AGGCAGTGCT
48580 ACAACATTCAGGAGAGCA
1 ACAACATTCAGGAGAGCA
*
48598 ACAACATTCAGGAGAACA
1 ACAACATTCAGGAGAGCA
48616 ACA
1 ACA
48619 GATCAAGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.18, T:0.10
Consensus pattern (18 bp):
ACAACATTCAGGAGAGCA
Found at i:50098 original size:24 final size:24
Alignment explanation
Indices: 50068--50115 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
50058 TTTCATTAAG
50068 AATAATTCAAGCAAATTTACGCAT
1 AATAATTCAAGCAAATTTACGCAT
* * *
50092 AATAATTTAAGTAAATTTATGCAT
1 AATAATTCAAGCAAATTTACGCAT
50116 TCTTTTGACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.35
Consensus pattern (24 bp):
AATAATTCAAGCAAATTTACGCAT
Found at i:55808 original size:13 final size:13
Alignment explanation
Indices: 55790--55820 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55780 CGGTGTTCGT
55790 CCGCCGCCAGCCA
1 CCGCCGCCAGCCA
*
55803 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
55816 CCGCC
1 CCGCC
55821 TTCAGTGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.65, G:0.26, T:0.00
Consensus pattern (13 bp):
CCGCCGCCAGCCA
Found at i:56017 original size:15 final size:15
Alignment explanation
Indices: 55993--56024 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
55983 CCTCGGTAAG
55993 TTTCTCTTCTTTCTT
1 TTTCTCTTCTTTCTT
*
56008 TTTCTTTTCTTTCTT
1 TTTCTCTTCTTTCTT
56023 TT
1 TT
56025 CAGTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTCTTCTTTCTT
Found at i:56549 original size:3 final size:3
Alignment explanation
Indices: 56541--56606 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
56531 TTAATATATT
*
56541 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56589 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
56607 ATCAATATGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57064 original size:113 final size:113
Alignment explanation
Indices: 56864--57490 Score: 888
Period size: 113 Copynumber: 5.5 Consensus size: 113
56854 GCTCTTGATG
* *
56864 AGTTCTTCTCATTATGAACTTCTTCATCCTTTTTTC-GATGAGTTCTTCTCATTATGAACTTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCC-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* * * * * *
56928 CTAG-AAGAGTTGATCCATCAAGTGATGGATTTGA-GCAAAA-ATCTGAACA
65 CTGGAAAG-GCTGATCCATCAATTGAT-GATTTCAGGTAAAAGGT-TGAACA
* * * * ***
56977 AATTCTTCTAATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * * * *
57042 TGGAAAAGCTAATCTATCAAGTGATAGATTTGA-GCAAAAGGTTGAACA
66 TGGAAAGGCTGATCCATCAATTGAT-GATTTCAGGTAAAAGGTTGAACA
* * *
57090 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACTTTTTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
57155 TGGAAAGGCTGATCCATCAATTGATGAATTT-AGGTAAAAGGTTGAACA
66 TGGAAAGGCTGATCCATCAATTGATG-ATTTCAGGTAAAAGGTTGAACA
*
57203 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
57268 TGGAAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACA
66 TGGAAAGGCTGATCCATCAATTGATGATTTCAGGTAAAAGGTTGAACA
*
57316 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
57381 TGGAAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACA
66 TGGAAAGGCTGATCCATCAATTGATGATTTCAGGTAAAAGGTTGAACA
* *
57429 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGGACTTT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
57491 TTCTTCATTC
Statistics
Matches: 472, Mismatches: 36, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
112 10 0.02
113 459 0.97
114 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAGGCTGATCCATCAATTGATGATTTCAGGTAAAAGGTTGAACA
Found at i:57473 original size:40 final size:40
Alignment explanation
Indices: 57428--57529 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
57418 AAGGTTGAAC
*
57428 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGAT
* * * *
57468 GAGTTCTTCTTATTATGGACTTTTTCTTCATTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGAT
*
57508 AAATTCTTCTCATTATGAACTT
1 AAGTTCTTCTCATTATGAACTT
57530 TCTCTGGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.49
Consensus pattern (40 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGAT
Found at i:57729 original size:40 final size:40
Alignment explanation
Indices: 57682--57788 Score: 187
Period size: 40 Copynumber: 2.7 Consensus size: 40
57672 AAGGTTGAAC
57682 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* *
57722 GAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
*
57762 AAATTCTTCTCATTATGAACTTTTTCT
1 AAATTCTTCTCATTATGAACTTCTTCT
57789 GGAAAAACTG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.21, C:0.23, G:0.07, T:0.49
Consensus pattern (40 bp):
AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:57767 original size:254 final size:260
Alignment explanation
Indices: 57203--57813 Score: 783
Period size: 254 Copynumber: 2.3 Consensus size: 260
57193 AGGTTGAACA
** *
57203 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTC
* * * *
57268 TGGAAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGA
66 TGGAAAAGCT-ATCCAT-AATTGATGAA-T-AGCTAAAAGGTCGAACAAATTCTTCTCATTATGA
* *
57333 ACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGCTGATCCAT
127 AC-T-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGGAAAGGCTAATCCAT
* *** *
57398 CAATTGATGAATTCAGGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTT
190 CAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
57463 CAGATG
255 CAGATG
* * * *
57469 AGTTCTTCTTATTATGGACTTTTTCTTCATTCTTCAGATAAATTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTC
* * *
57534 TGGAAAAG-T-T-GAT-GTTGATTAA-A-CT-AAA-GTCGAACAAATTCTTCTCATTATGAAC-T
66 TGGAAAAGCTATCCATAATTGATGAATAGCTAAAAGGTCGAACAAATTCTTCTCATTATGAACTT
* * * *
57590 TCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTAATCCATCA
131 TCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TACTCTGGAAAGGCTAATCCATCA
*
57654 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
192 AATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
57719 GATG
257 GATG
*
57723 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTTTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTC
* *
57788 TGGAAAAACTGATCCATCAAATGATG
66 TGGAAAAGCT-ATCCAT-AATTGATG
57814 GATTTGAATC
Statistics
Matches: 299, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
251 16 0.05
254 192 0.64
255 6 0.02
256 1 0.00
257 2 0.01
258 2 0.01
260 11 0.04
262 2 0.01
263 1 0.00
265 1 0.00
266 65 0.22
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (260 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTATCCATAATTGATGAATAGCTAAAAGGTCGAACAAATTCTTCTCATTATGAACTT
TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGGAAAGGCTAATCCATCAAATG
ATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:58250 original size:22 final size:22
Alignment explanation
Indices: 58225--58279 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
58215 CATAAAGTTT
*
58225 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
58247 TCATCTTTAAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
58269 TCATCTTTGAA
1 TCATCTTTGAA
58280 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:63367 original size:23 final size:23
Alignment explanation
Indices: 63341--63409 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
63331 CTTGATTTAA
63341 TTTTTTTCTTTTTCTTTTTTGTT-
1 TTTTTTTCTTTTTCTTTTTT-TTC
**
63364 TTTTTTTCTTTCCCTTTTTTTTC
1 TTTTTTTCTTTTTCTTTTTTTTC
63387 TTTTTTCCTCTTTTTTCTTTTTT
1 TTTTTT--TC-TTTTTCTTTTTT
63410 CCTTTCTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 2 0.05
23 24 0.63
25 2 0.05
26 10 0.26
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (23 bp):
TTTTTTTCTTTTTCTTTTTTTTC
Found at i:63369 original size:17 final size:17
Alignment explanation
Indices: 63349--63414 Score: 82
Period size: 17 Copynumber: 4.0 Consensus size: 17
63339 AATTTTTTTC
*
63349 TTTTTCTTTTTT-GTTT
1 TTTTTCTTTTTTCCTTT
* *
63365 TTTTT-TCTTTCCCTTT
1 TTTTTCTTTTTTCCTTT
*
63381 TTTTTCTTTTTTCCTCT
1 TTTTTCTTTTTTCCTTT
63398 TTTTTCTTTTTTCCTTT
1 TTTTTCTTTTTTCCTTT
63415 CTTTGCTGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 4 0.10
16 13 0.32
17 24 0.59
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTCCTTT
Found at i:63383 original size:18 final size:18
Alignment explanation
Indices: 63362--63409 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
63352 TTCTTTTTTG
*
63362 TTTTTTTTTCTTTCC-CT
1 TTTTTTTTTTTTTCCTCT
63379 TTTTTTTCTTTTTTCCTCT
1 TTTTTTT-TTTTTTCCTCT
63398 TTTTTCTTTTTT
1 TTTTT-TTTTTT
63410 CCTTTCTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 11 0.41
20 2 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTTTTCCTCT
Found at i:63429 original size:22 final size:22
Alignment explanation
Indices: 63404--63447 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
63394 CTCTTTTTTC
63404 TTTTTTCCTTTCTTTGCTGGAT
1 TTTTTTCCTTTCTTTGCTGGAT
* *
63426 TTTTTTTCTTTCTTTGTTGGAT
1 TTTTTTCCTTTCTTTGCTGGAT
63448 GAGTATAATA
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:0.05, C:0.14, G:0.14, T:0.68
Consensus pattern (22 bp):
TTTTTTCCTTTCTTTGCTGGAT
Found at i:63741 original size:2 final size:2
Alignment explanation
Indices: 63734--63769 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
63724 ACAACAAAGG
63734 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
63770 TAAAGGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69724 original size:13 final size:13
Alignment explanation
Indices: 69706--69736 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
69696 CGGTGTTCGT
69706 CCGCCGCCAGCCA
1 CCGCCGCCAGCCA
*
69719 CCGCCGCCGGCCA
1 CCGCCGCCAGCCA
69732 CCGCC
1 CCGCC
69737 TTCGGTGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.65, G:0.26, T:0.00
Consensus pattern (13 bp):
CCGCCGCCAGCCA
Found at i:70464 original size:3 final size:3
Alignment explanation
Indices: 70456--70548 Score: 159
Period size: 3 Copynumber: 31.0 Consensus size: 3
70446 TTAATATATT
*
70456 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
70504 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
70549 ATCAATATGG
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:71161 original size:21 final size:21
Alignment explanation
Indices: 71132--71218 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
71122 AATATGTAAA
71132 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
71153 TCGCGTTGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAAAT
** *
71174 TCGCAACGCGATTGT-CAAAT
1 TCGCATTGCGATTTTCCAAAT
* ** *
71194 TTGCAACGCGATTGT-CAAAT
1 TCGCATTGCGATTTTCCAAAT
71214 TCGCA
1 TCGCA
71219 ACGCGAAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
20 27 0.47
21 30 0.53
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:71219 original size:20 final size:20
Alignment explanation
Indices: 71111--71264 Score: 125
Period size: 20 Copynumber: 7.6 Consensus size: 20
71101 AGTTTCCAAT
71111 TTCGCAACGCGAATATGT-AAA
1 TTCGCAACGCG-AT-TGTCAAA
** *
71132 -TCGCATTGCGATTTTCCAAA
1 TTCGCAACGCGATTGT-CAAA
*** * *
71152 TTCGCGTTGCGATTTTCCAAT
1 TTCGCAACGCGATTGT-CAAA
71173 TTCGCAACGCGATTGTCAAA
1 TTCGCAACGCGATTGTCAAA
*
71193 TTTGCAACGCGATTGTCAAA
1 TTCGCAACGCGATTGTCAAA
**
71213 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGATTGTCAAA
* *
71233 TTCGCAACACAGA-AGTCAAA
1 TTCGCAACGC-GATTGTCAAA
71253 TTCGCAACGCGA
1 TTCGCAACGCGA
71265 AAGTCAAATG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
18 2 0.02
19 4 0.04
20 75 0.66
21 32 0.28
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGATTGTCAAA
Found at i:71268 original size:20 final size:20
Alignment explanation
Indices: 71173--71273 Score: 132
Period size: 20 Copynumber: 5.0 Consensus size: 20
71163 ATTTTCCAAT
**
71173 TTCGCAACGCGATTGTCAAA
1 TTCGCAACGCGAAAGTCAAA
* **
71193 TTTGCAACGCGATTGTCAAA
1 TTCGCAACGCGAAAGTCAAA
71213 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
71233 TTCGCAACAC-AGAAGTCAAA
1 TTCGCAACGCGA-AAGTCAAA
71253 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
71273 T
1 T
71274 GTTTTTACGC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.01
20 71 0.97
21 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:73924 original size:21 final size:21
Alignment explanation
Indices: 73898--74006 Score: 114
Period size: 21 Copynumber: 5.2 Consensus size: 21
73888 GAAGAAGCCC
* * *
73898 GAGGCACCTATCATCATTCAA
1 GAGGCCCCTCTCATCGTTCAA
*
73919 GAGGCACCTC-CTATCGTTCAA
1 GAGGCCCCTCTC-ATCGTTCAA
*
73940 GAGGCCCCTCTCATC-ATCGAA
1 GAGGCCCCTCTCATCGTTC-AA
* *
73961 GAAGCCCCTCTCACCGTTCAA
1 GAGGCCCCTCTCATCGTTCAA
*
73982 GAGGCCCCTGTCATCGTTCAA
1 GAGGCCCCTCTCATCGTTCAA
74003 GAGG
1 GAGG
74007 TCCCGTCCGC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
20 3 0.04
21 68 0.92
22 3 0.04
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (21 bp):
GAGGCCCCTCTCATCGTTCAA
Found at i:74020 original size:21 final size:21
Alignment explanation
Indices: 73933--74026 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 21
73923 CACCTCCTAT
* *
73933 CGTTCAAGAGGCCCCTCTCAT
1 CGTTCAAGAGGCCCCTGTCAC
* * *
73954 C-ATCGAAGAAGCCCCTCTCAC
1 CGTTC-AAGAGGCCCCTGTCAC
*
73975 CGTTCAAGAGGCCCCTGTCAT
1 CGTTCAAGAGGCCCCTGTCAC
* *
73996 CGTTCAAGAGGTCCC-GTCCGC
1 CGTTCAAGAGGCCCCTGT-CAC
74017 CGTTCAAGAG
1 CGTTCAAGAG
74027 CCCGATGCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.07
21 54 0.90
22 2 0.03
ACGTcount: A:0.21, C:0.36, G:0.22, T:0.20
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTGTCAC
Found at i:75438 original size:14 final size:14
Alignment explanation
Indices: 75419--75458 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
75409 TTTTGATTAA
75419 TTGATTTGTAAAAT
1 TTGATTTGTAAAAT
**
75433 TTGATTTGTTTAAT
1 TTGATTTGTAAAAT
75447 TTGATTTGTAAA
1 TTGATTTGTAAA
75459 TAAGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (14 bp):
TTGATTTGTAAAAT
Found at i:75578 original size:20 final size:20
Alignment explanation
Indices: 75553--75590 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
75543 GTTGAATGTA
75553 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
75573 CAAATTCGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
75591 TAAGCGTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.13
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:77032 original size:24 final size:24
Alignment explanation
Indices: 76998--77051 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
76988 CCATCACATC
76998 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
77022 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
77046 ATCAAA
1 ATCAAA
77052 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:77065 original size:24 final size:24
Alignment explanation
Indices: 76998--77065 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
76988 CCATCACATC
* * *
76998 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
77022 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
77046 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
77066 TAGTACTTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:78015 original size:20 final size:20
Alignment explanation
Indices: 77958--78024 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
77948 CGAAATTAAA
**
77958 TTCGCGTTACGAATTTGAAA
1 TTCGCGTTACGAATTTGACT
*
77978 TTC-AGTTACGAATTTGACT
1 TTCGCGTTACGAATTTGACT
*
77997 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTACGAATTTGACT
*
78017 ATCGCGTT
1 TTCGCGTT
78025 GTGAATTTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (20 bp):
TTCGCGTTACGAATTTGACT
Found at i:78025 original size:20 final size:20
Alignment explanation
Indices: 77986--78033 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
77976 AATTCAGTTA
*
77986 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTATCGCGTTG
78006 CGAATTTGACTATCGCGTTG
1 CGAATTTGACTATCGCGTTG
*
78026 TGAATTTG
1 CGAATTTG
78034 GAAAATCGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.40
Consensus pattern (20 bp):
CGAATTTGACTATCGCGTTG
Found at i:78073 original size:20 final size:21
Alignment explanation
Indices: 78027--78070 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
78017 ATCGCGTTGT
*
78027 GAATTTGGAAAATCGCAACGC
1 GAATTTGAAAAATCGCAACGC
*
78048 GAATTTGAAAAATCGCAATGC
1 GAATTTGAAAAATCGCAACGC
78069 GA
1 GA
78071 TTTACATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (21 bp):
GAATTTGAAAAATCGCAACGC
Found at i:92230 original size:13 final size:13
Alignment explanation
Indices: 92212--92238 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92202 GCTTAACTGC
92212 ACCAACTACAAGG
1 ACCAACTACAAGG
92225 ACCAACTACAAGG
1 ACCAACTACAAGG
92238 A
1 A
92239 ATGGAAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (13 bp):
ACCAACTACAAGG
Found at i:97653 original size:12 final size:12
Alignment explanation
Indices: 97636--97661 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
97626 TTCATTTCCT
97636 TCCATCTCACCA
1 TCCATCTCACCA
97648 TCCATCTCACCA
1 TCCATCTCACCA
97660 TC
1 TC
97662 TTGTGGAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (12 bp):
TCCATCTCACCA
Found at i:101624 original size:20 final size:20
Alignment explanation
Indices: 101530--101898 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
101520 GATTTTCCAT
* ** *
101530 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
101550 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
101570 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
101590 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
101610 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
101630 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
101650 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
101670 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
101690 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
101710 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
101730 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
101750 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
101770 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
101790 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
101810 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
101830 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
101850 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
101870 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
101890 AATCACAAC
1 AATCGCAAC
101899 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:102611 original size:24 final size:24
Alignment explanation
Indices: 102572--102618 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
102562 AAATTTGGTC
102572 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
102596 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
102619 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:105142 original size:19 final size:19
Alignment explanation
Indices: 105120--105445 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
105110 CGGAAAATAC
*
105120 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
105139 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
105153 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
105173 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
105187 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
105206 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
105225 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
105239 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
105258 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
105277 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
105291 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
105310 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
105329 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
105348 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
105367 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
105386 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
105400 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
105419 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
105438 AATCGCAA
1 AATCGCAA
105446 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 174 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:105207 original size:33 final size:34
Alignment explanation
Indices: 105120--105445 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
105110 CGGAAAATAC
* *
105120 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
105153 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
105187 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
105225 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
105258 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
105291 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
105329 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
105367 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
105399 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
105438 AATCGCAA
1 AATCGCAA
105446 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 91 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:105381 original size:161 final size:157
Alignment explanation
Indices: 105148--105467 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
105138 AAATCCCAAC
*
105148 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
105213 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
105278 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
105305 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
105369 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
*
105434 TGAAAATCGCAACGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
105466 AT
1 AT
105468 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 120 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:105483 original size:52 final size:52
Alignment explanation
Indices: 105148--105467 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
105138 AAATCCCAAC
105148 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
105201 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
105253 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
105305 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
105362 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
105414 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
105466 AT
1 AT
105468 TATAAACGCA
Statistics
Matches: 255, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 184 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:105583 original size:19 final size:19
Alignment explanation
Indices: 105474--105575 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
105464 AAATTATAAA
105474 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
105493 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
105513 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
105529 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
105546 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
105565 CGCATTGCGAT
1 CGCATTGCGAT
105576 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:105701 original size:14 final size:14
Alignment explanation
Indices: 105682--105718 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
105672 CATCAATTAC
105682 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
105696 ACAAATCATCTTTT
1 ACAAATCAACTTTT
105710 ACAAATCAA
1 ACAAATCAA
105719 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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:105730 original size:12 final size:12
Alignment explanation
Indices: 105713--105785 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
105703 ATCTTTTACA
105713 AATCAATTAAAC
1 AATCAATTAAAC
*
105725 AATCAA--AAATTG
1 AATCAATTAAA--C
**
105737 AATCAACTTTTAC
1 AATCAA-TTAAAC
105750 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
105763 AATCAA-AAAAC
1 AATCAATTAAAC
105774 AATCAATTAAAC
1 AATCAATTAAAC
105786 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:105747 original size:38 final size:38
Alignment explanation
Indices: 105699--105771 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
105689 AACTTTTACA
*
105699 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
105737 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
105772 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:107666 original size:14 final size:14
Alignment explanation
Indices: 107647--107703 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
107637 GCGAAATGAA
*
107647 AATCGCAACGACAG
1 AATCGCAACGAAAG
107661 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
107678 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
107694 AATCGCAACG
1 AATCGCAACG
107704 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:107674 original size:33 final size:33
Alignment explanation
Indices: 107628--107720 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
107618 GAGAAACCAA
*
107628 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
107661 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
107694 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
107721 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:107685 original size:19 final size:19
Alignment explanation
Indices: 107591--107725 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
107581 TAGTTTACTT
* *
107591 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
107611 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
107630 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
107649 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
107663 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
107682 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
107696 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
107715 TCGCAATGCGA
1 TCGCAACGCGA
107726 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 46 0.48
20 11 0.12
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:107743 original size:19 final size:19
Alignment explanation
Indices: 107721--107849 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
107711 AAAATCGCAA
107721 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
107740 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
107754 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
107773 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
107787 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
107806 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
107825 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
107845 TGCGA
1 TGCGA
107850 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:107763 original size:33 final size:33
Alignment explanation
Indices: 107721--107812 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
107711 AAAATCGCAA
107721 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
107754 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
107787 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
107813 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:108052 original size:93 final size:93
Alignment explanation
Indices: 107893--108365 Score: 939
Period size: 93 Copynumber: 5.1 Consensus size: 93
107883 TTGAATGGAT
107893 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
107958 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
107986 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
108051 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
108079 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
108144 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
108172 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
108236 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
108264 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
108329 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
108357 AAATTTACT
1 AAATTTACT
108366 AAGCAATCTA
Statistics
Matches: 379, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.24
93 287 0.76
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:108338 original size:185 final size:186
Alignment explanation
Indices: 107893--108365 Score: 939
Period size: 185 Copynumber: 2.5 Consensus size: 186
107883 TTGAATGGAT
107893 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
107958 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
108023 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
108079 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
108144 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
108209 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
108264 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
108329 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
108366 AAGCAATCTA
Statistics
Matches: 287, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
185 155 0.54
186 132 0.46
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:110079 original size:14 final size:14
Alignment explanation
Indices: 110060--110149 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
110050 TTGAAATGAA
110060 AATCGCAACGAGAG
1 AATCGCAACGAGAG
110074 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
110091 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
110107 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
110126 AATCGCAACGAGAG
1 AATCGCAACGAGAG
110140 AATCGCAACG
1 AATCGCAACG
110150 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:110097 original size:33 final size:33
Alignment explanation
Indices: 110052--110166 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
110042 TCTTTTGGTT
110052 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
110085 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
110118 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
110151 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
110167 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:110098 original size:19 final size:18
Alignment explanation
Indices: 110059--110171 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
110049 GTTGAAATGA
110059 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
110074 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
110091 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
110107 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
110124 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
110140 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
110157 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
110172 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:110202 original size:14 final size:14
Alignment explanation
Indices: 110183--110237 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
110173 TTTGGTTTCG
110183 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
110197 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
110216 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
110230 CGTTGCGA
1 CGTTGCGA
110238 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:110215 original size:33 final size:33
Alignment explanation
Indices: 110167--110237 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
110157 AAAATCGCAA
**
110167 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
110200 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
110233 TGCGA
1 TGCGA
110238 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:110245 original size:33 final size:33
Alignment explanation
Indices: 110178--110259 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
110168 GCGATTTTGG
***
110178 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
110211 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
110244 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
110260 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:110264 original size:20 final size:20
Alignment explanation
Indices: 110190--110278 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
110180 TCGCGTTGCG
110190 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
110210 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
110223 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
110243 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
110263 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
110279 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:110400 original size:33 final size:33
Alignment explanation
Indices: 110358--110428 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
110348 AATACTAACT
*
110358 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
110391 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
110424 TGAAA
1 TGAAA
110429 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:110660 original size:22 final size:21
Alignment explanation
Indices: 110609--110662 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
110599 TGGTTGTGAG
**
110609 GGATTTCGCCGGAGATGGGAC
1 GGATTTCTTCGGAGATGGGAC
**
110630 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGAT-GGGAC
110652 GGATTTCTTCG
1 GGATTTCTTCG
110663 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (21 bp):
GGATTTCTTCGGAGATGGGAC
Found at i:110833 original size:20 final size:20
Alignment explanation
Indices: 110808--111001 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
110798 CTTTAAATAT
110808 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
110828 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
110850 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
110869 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
110889 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
110909 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
110929 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
110949 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
110969 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
110989 CGCGTTGCGATTT
1 CGCGTTGCGATTT
111002 TTGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:110995 original size:60 final size:60
Alignment explanation
Indices: 110808--111001 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
110798 CTTTAAATAT
**
110808 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
110869 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
110929 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
110989 CGCGTTGCGATTT
1 CGCGTTGCGATTT
111002 TTGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:111012 original size:21 final size:20
Alignment explanation
Indices: 110968--111066 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
110958 ATTTATGTGT
* * *
110968 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTGAAAA
110988 TCGCGTTGCGATTTTTGAAAA
1 TCGCGTTGCGA-TTTTGAAAA
** * **
111009 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTG-AAAA
* * *
111030 TCGCATCGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTGAA-AA
111051 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
111067 GAAACTGATT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTGAAAA
Found at i:111081 original size:20 final size:20
Alignment explanation
Indices: 111056--111107 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
111046 AAGAATCGCG
*
111056 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
111076 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
111096 TTGCGATTCTGG
1 TTGCGATTCTGG
111108 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:122330 original size:21 final size:22
Alignment explanation
Indices: 122292--122333 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
122282 TAGGTTTTTC
* *
122292 TTTTTTGTTTTCATATTTTAGA
1 TTTTTTATTCTCATATTTTAGA
122314 TTTTTTATTCTCA-ATTTTAG
1 TTTTTTATTCTCATATTTTAG
122334 GAATTTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTTTATTCTCATATTTTAGA
Found at i:130523 original size:42 final size:42
Alignment explanation
Indices: 130457--130578 Score: 183
Period size: 42 Copynumber: 2.9 Consensus size: 42
130447 TTAACTTAAT
* *
130457 TAAAAGATTATCCCATTAATACAAGCTTAGGAAACAGAT-GG
1 TAAAAGATTACCCCATTAAAACAAGCTTAGGAAACAGATAGG
*
130498 TAAAAGATTACCCCCATTAAAACAAGCTTAGGAAACAGATAGT
1 TAAAAGATTA-CCCCATTAAAACAAGCTTAGGAAACAGATAGG
* *
130541 TAAAAGATTACCCCATTCAAACAAGTTTAGGAAACAGA
1 TAAAAGATTACCCCATTAAAACAAGCTTAGGAAACAGA
130579 AATATATATA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 10 0.14
42 53 0.72
43 11 0.15
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (42 bp):
TAAAAGATTACCCCATTAAAACAAGCTTAGGAAACAGATAGG
Found at i:133357 original size:33 final size:33
Alignment explanation
Indices: 133315--133406 Score: 184
Period size: 33 Copynumber: 2.8 Consensus size: 33
133305 AGTTGATAAG
133315 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
133348 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
133381 TTGGAAATTTCATCTTGGTTGGTGGC
1 TTGGAAATTTCATCTTGGTTGGTGGC
133407 TAAACTTTGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (33 bp):
TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
Done.