Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003158.1 Hibiscus syriacus cultivar Beakdansim tig00006645_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: 82956
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:2281 original size:9 final size:9
Alignment explanation
Indices: 2269--2302 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2259 GAATTCGGTT
2269 AATTAACCA
1 AATTAACCA
*
2278 AATTAACCG
1 AATTAACCA
2287 AATTAACCGA
1 AATTAACC-A
2297 AATTAA
1 AATTAA
2303 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (9 bp):
AATTAACCA
Found at i:2616 original size:176 final size:179
Alignment explanation
Indices: 2317--2683 Score: 559
Period size: 176 Copynumber: 2.1 Consensus size: 179
2307 TAAATTTTAA
*
2317 ATATATTATATATAACATATGGGCTCAACCCAAATCATTTAAAACCCAATTAATAATTTAAGATC
1 ATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATC
* *
2382 CGATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTTATTTTATAA
66 CAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTATTTTATAA
*
2447 TTATATATTATTTAAA-AATTGTAAACTGTTTCT-AATTAAAAAATATT
131 TTATATATTATTTAAATAATTATAAACTGTTTCTGAATTAAAAAATATT
*
2494 ATATATTATATATAA-ATATGGGCT-AAGTCCAAACCATTTAAAACCCAATTAATAA-TTAAGAT
1 ATATATTATATATAACATATGGGCTCAA-CCCAAACCATTTAAAACCCAATTAATAATTTAAGAT
* *
2556 CCAATAACTTTTAAAC-TAAATCAATATTAATTAATTAAAATATTTATCTAAAAATTTTATTTTA
65 CCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAA-AATTATAT-AAAATTTTATTTTA
* *
2620 TAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAAAAATATT
128 TAATTATATATTATTTAAA-TAATTATAAACTGTTTCTGAATTAAAAAATATT
*
2673 A-ATTTTATATA
1 ATATATTATATA
2684 ATTAGAAAAT
Statistics
Matches: 174, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
174 24 0.14
175 30 0.17
176 67 0.39
177 15 0.09
178 23 0.13
179 15 0.09
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (179 bp):
ATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATC
CAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTTATTTTATAA
TTATATATTATTTAAATAATTATAAACTGTTTCTGAATTAAAAAATATT
Found at i:2819 original size:15 final size:15
Alignment explanation
Indices: 2799--2827 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2789 AAAAAAAGTT
2799 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
2814 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
2828 CGATCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:4125 original size:15 final size:15
Alignment explanation
Indices: 4105--4179 Score: 91
Period size: 15 Copynumber: 5.1 Consensus size: 15
4095 AATTGGTTTT
4105 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
4120 CTGGAATTTGAATTA
1 CTGGAAAATGAATTA
4135 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
* *
4150 -TTGAAATTTGAATT-
1 CTGGAAA-ATGAATTA
4164 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
4179 C
1 C
4180 ATTTCTGAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
14 11 0.22
15 38 0.78
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:4177 original size:29 final size:29
Alignment explanation
Indices: 4103--4179 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 29
4093 GTAATTGGTT
*
4103 TTCTGGAAAATGAATTACTGGAATTTGAA
1 TTCTGGAAAATGAATTACTGAAATTTGAA
*
4132 TTACTGGAAAATGAATTATTGAAATTTGAA
1 TT-CTGGAAAATGAATTACTGAAATTTGAA
4162 TTCTGGAAAATGAATTAC
1 TTCTGGAAAATGAATTAC
4180 ATTTCTGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 17 0.39
30 27 0.61
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.35
Consensus pattern (29 bp):
TTCTGGAAAATGAATTACTGAAATTTGAA
Found at i:4220 original size:14 final size:14
Alignment explanation
Indices: 4188--4221 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4178 ACATTTCTGA
*
4188 AAAACGTTTTCCGG
1 AAAATGTTTTCCGG
*
4202 AAAATGTTTTCCGT
1 AAAATGTTTTCCGG
4216 AAAATG
1 AAAATG
4222 AATTACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:4554 original size:23 final size:23
Alignment explanation
Indices: 4528--4575 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4518 TATTTAAACG
* *
4528 GGTATTGGACCGGGTATTGGGTC
1 GGTATTGGACCGGGAATCGGGTC
*
4551 GGTATTGGGCCGGGAATCGGGTC
1 GGTATTGGACCGGGAATCGGGTC
4574 GG
1 GG
4576 GTATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.12, C:0.15, G:0.48, T:0.25
Consensus pattern (23 bp):
GGTATTGGACCGGGAATCGGGTC
Found at i:4604 original size:19 final size:19
Alignment explanation
Indices: 4580--4646 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
4570 GGTCGGGTAT
4580 ATATATATATTTAAATTAA
1 ATATATATATTTAAATTAA
* * *
4599 ATATATATTTTTTATTTAA
1 ATATATATATTTAAATTAA
* * *
4618 AT-TAAATTTTTAATATTAT
1 ATATATATATTTAA-ATTAA
4637 ATATATATAT
1 ATATATATAT
4647 ATATATATAT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
18 9 0.24
19 23 0.62
20 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATATATTTAAATTAA
Found at i:5056 original size:20 final size:20
Alignment explanation
Indices: 5012--5056 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5002 TATAGTGTTA
5012 TATTATAATTTAAAAATATT
1 TATTATAATTTAAAAATATT
* * * *
5032 AATTATATTTTAAATATCTT
1 TATTATAATTTAAAAATATT
5052 TATTA
1 TATTA
5057 AAATATTATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTATAATTTAAAAATATT
Found at i:5094 original size:32 final size:29
Alignment explanation
Indices: 5022--5129 Score: 82
Period size: 32 Copynumber: 3.6 Consensus size: 29
5012 TATTATAATT
5022 TAAAAATATTAATTATA-TT-TTAAATATCTTTA
1 TAAAAATATT-ATTATATTTATTAAATA----TA
*
5054 TTAAAATATTATTATATTAATATTAAATATA
1 TAAAAATATTATTATATT--TATTAAATATA
*
5085 TAAATAATATTATT-CA-TTATTAAATATA
1 TAAA-AATATTATTATATTTATTAAATATA
5113 TAAAAA-AGTTATTATAT
1 TAAAAATA-TTATTATAT
5130 ATTTATGAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
26 1 0.02
27 7 0.11
28 16 0.25
30 1 0.02
31 12 0.19
32 19 0.30
34 1 0.02
35 7 0.11
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (29 bp):
TAAAAATATTATTATATTTATTAAATATA
Found at i:5526 original size:42 final size:42
Alignment explanation
Indices: 5464--5546 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
5454 ACCAAATACT
*** *
5464 AGAAAACATTTTCTGGAAAACGAATTACGTGAAACAAACACG
1 AGAAAACATTTTCCAAAAAACGAATTACATGAAACAAACACG
5506 AGAAAACATTTTCCAAAAAACGAATTACATGAAACAAACAC
1 AGAAAACATTTTCCAAAAAACGAATTACATGAAACAAACAC
5547 AGGATTTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (42 bp):
AGAAAACATTTTCCAAAAAACGAATTACATGAAACAAACACG
Found at i:10787 original size:61 final size:59
Alignment explanation
Indices: 10680--10796 Score: 130
Period size: 61 Copynumber: 1.9 Consensus size: 59
10670 AACTCCAATT
** * *
10680 TCGCAACACAGTTTCCAAATTCGCAACTTAATTTATGCAATCGCAACGCGAATTTCTTTC
1 TCGCAACACAGTTTCCAAATTCGCAACACAAATTATGCAATAGCAACGCG-ATTTCTTTC
* *
10740 TCGCAACACGATTTTCCAAATTCGCAACACAGAATT-T-CAATTAGCAACTCGATTTCT
1 TCGCAACAC-AGTTTCCAAATTCGCAACACA-AATTATGCAA-TAGCAACGCGATTTCT
10797 GAATTCGCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
60 18 0.38
61 27 0.56
62 3 0.06
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (59 bp):
TCGCAACACAGTTTCCAAATTCGCAACACAAATTATGCAATAGCAACGCGATTTCTTTC
Found at i:10823 original size:20 final size:20
Alignment explanation
Indices: 10720--10928 Score: 124
Period size: 20 Copynumber: 10.4 Consensus size: 20
10710 ATTTATGCAA
* *
10720 TCGCAACGCGAATTTCT-TT
1 TCGCAACACGAATTTCTAAT
* *
10739 CTCGCAACACGATTTTCCAAAT
1 -TCGCAACACGAATTT-CTAAT
10761 TCGCAACACAGAATTTC-AAT
1 TCGCAACAC-GAATTTCTAAT
* *
10781 TAGCAACTCG-ATTTCTGAAT
1 TCGCAACACGAATTTCT-AAT
* **
10801 TCGCAACGCGAATTTCTTTT
1 TCGCAACACGAATTTCTAAT
*
10821 TCGCAACAC-AAGTTTCCT-TT
1 TCGCAACACGAA-TTT-CTAAT
** * *
10841 TCGCAACAATATTTTCTAAA
1 TCGCAACACGAATTTCTAAT
* * **
10861 TCGTAACACGAATTTTTTTT
1 TCGCAACACGAATTTCTAAT
* * *
10881 TCGCAACTCGATTTTCAAAT
1 TCGCAACACGAATTTCTAAT
10901 TCGCAACACGAATTT-TAATT
1 TCGCAACACGAATTTCTAA-T
10921 TCGCAACA
1 TCGCAACA
10929 GATTTTATTT
Statistics
Matches: 144, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
18 5 0.03
19 7 0.05
20 106 0.74
21 20 0.14
22 6 0.04
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (20 bp):
TCGCAACACGAATTTCTAAT
Found at i:10837 original size:81 final size:81
Alignment explanation
Indices: 10673--10837 Score: 210
Period size: 81 Copynumber: 2.0 Consensus size: 81
10663 CAACGCGAAC
* * *
10673 TCCAATTTCGCAACACAGTTTCCAAATTCGCAACTTAATTTATGCAATCGCAACGCGAATTTCTT
1 TCCAAATTCGCAACACAGTTTCCAAATTAGCAACTCAATTTATGCAATCGCAACGCGAATTTCTT
* *
10738 TCTCGCAACACGATTT
66 TCTCGCAACACAAGTT
* *
10754 TCCAAATTCGCAACACAGAATTT-C-AATTAGCAACTCGATTTCTG-AATTCGCAACGCGAATTT
1 TCCAAATTCGCAACACAG--TTTCCAAATTAGCAACTCAATTTATGCAA-TCGCAACGCGAATTT
*
10816 CTTTTTCGCAACACAAGTT
63 CTTTCTCGCAACACAAGTT
10835 TCC
1 TCC
10838 TTTTCGCAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.03
81 67 0.92
82 1 0.01
83 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (81 bp):
TCCAAATTCGCAACACAGTTTCCAAATTAGCAACTCAATTTATGCAATCGCAACGCGAATTTCTT
TCTCGCAACACAAGTT
Found at i:11736 original size:12 final size:12
Alignment explanation
Indices: 11715--11748 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11705 ACCAAATTTC
*
11715 CAATACCAAACA
1 CAATATCAAACA
11727 CAATATCAAACA
1 CAATATCAAACA
*
11739 CAATCTCAAA
1 CAATATCAAA
11749 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:14525 original size:20 final size:20
Alignment explanation
Indices: 14500--14559 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
14490 TAGTAACTTG
14500 AGTCAAATTCGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
* *
14520 AGTCAAATTCGC-TACGCGAA
1 AGTCAAATTCGCGT-TGCGAT
*
14540 AGTCAAATTCACGTTGCGAT
1 AGTCAAATTCGCGTTGCGAT
14560 TTTCGCATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (20 bp):
AGTCAAATTCGCGTTGCGAT
Found at i:14633 original size:20 final size:20
Alignment explanation
Indices: 14608--14652 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
14598 GTGATTGTTA
*
14608 CGAAAGACAAATTTGCAACG
1 CGAAAGACAAATTCGCAACG
* *
14628 CGAAAGTCAAATTCGCAATG
1 CGAAAGACAAATTCGCAACG
14648 CGAAA
1 CGAAA
14653 ATCAAATCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (20 bp):
CGAAAGACAAATTCGCAACG
Found at i:14657 original size:20 final size:20
Alignment explanation
Indices: 14615--14675 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
14605 TTACGAAAGA
* *
14615 CAAATTTGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAAT
*
14635 CAAATTCGCAATGCGAAAAT
1 CAAATTCGCAACGCGAAAAT
* * *
14655 CAAATCCACAACGCAAAAAT
1 CAAATTCGCAACGCGAAAAT
14675 C
1 C
14676 GCAACGCGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.25, G:0.13, T:0.16
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAAT
Found at i:14756 original size:20 final size:20
Alignment explanation
Indices: 14733--14770 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14723 TCGCAACGCG
14733 AATTTGACTTTCGCGTTGCA
1 AATTTGACTTTCGCGTTGCA
* *
14753 AATTTGATTTTTGCGTTG
1 AATTTGACTTTCGCGTTG
14771 AGAAAGTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCA
Found at i:16270 original size:21 final size:21
Alignment explanation
Indices: 16244--16359 Score: 160
Period size: 21 Copynumber: 5.5 Consensus size: 21
16234 GAATCGGTCC
* *
16244 CTTGAACGGTGGGAGGGACCT
1 CTTGAACGATGGGAGGGGCCT
* *
16265 CTTGAACAATGAGAGGGGCCT
1 CTTGAACGATGGGAGGGGCCT
*
16286 CTTGAATGATGGGAGGGGCCT
1 CTTGAACGATGGGAGGGGCCT
* *
16307 CTTGAACGATGAGAGAGGCCT
1 CTTGAACGATGGGAGGGGCCT
*
16328 CTTGAACGATAGGAGGGGCCT
1 CTTGAACGATGGGAGGGGCCT
16349 CTTGAACGATG
1 CTTGAACGATG
16360 AAAGGTGAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 81 1.00
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.21
Consensus pattern (21 bp):
CTTGAACGATGGGAGGGGCCT
Found at i:16308 original size:42 final size:42
Alignment explanation
Indices: 16244--16360 Score: 180
Period size: 42 Copynumber: 2.8 Consensus size: 42
16234 GAATCGGTCC
* * * *
16244 CTTGAACGGTGGGAGGGACCTCTTGAACAATGAGAGGGGCCT
1 CTTGAACGATGGGAGGGGCCTCTTGAACGATGAGAGAGGCCT
*
16286 CTTGAATGATGGGAGGGGCCTCTTGAACGATGAGAGAGGCCT
1 CTTGAACGATGGGAGGGGCCTCTTGAACGATGAGAGAGGCCT
*
16328 CTTGAACGATAGGAGGGGCCTCTTGAACGATGA
1 CTTGAACGATGGGAGGGGCCTCTTGAACGATGA
16361 AAGGTGAATC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.21
Consensus pattern (42 bp):
CTTGAACGATGGGAGGGGCCTCTTGAACGATGAGAGAGGCCT
Found at i:16794 original size:21 final size:21
Alignment explanation
Indices: 16768--16817 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
16758 ACTATTGTCG
*
16768 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
16789 TCACGTAAAGCACTGACCTCA
1 TCACGTAAAGCACCGACCTCA
16810 TCACGTAA
1 TCACGTAA
16818 CTCCCCTAAC
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:0.34, C:0.32, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:18329 original size:20 final size:20
Alignment explanation
Indices: 18306--18357 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
18296 AAACTTAAAT
18306 TCGCAACGCGAAAAAGAAAA
1 TCGCAACGCGAAAAAGAAAA
** *
18326 TCGCAACGCTTAAATGAAAA
1 TCGCAACGCGAAAAAGAAAA
*
18346 TCACAACGCGAA
1 TCGCAACGCGAA
18358 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAAAGAAAA
Found at i:18772 original size:22 final size:22
Alignment explanation
Indices: 18723--18772 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
18713 TAGAGGGGGG
* *
18723 TCGCCGGATATGGGAACAGATT
1 TCGCCGGAGATGGGAACAGATA
* * *
18745 TTGCCGGAGATGGGGACGGATA
1 TCGCCGGAGATGGGAACAGATA
18767 TCGCCG
1 TCGCCG
18773 TAGAGAGTGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.38, T:0.20
Consensus pattern (22 bp):
TCGCCGGAGATGGGAACAGATA
Found at i:19604 original size:14 final size:15
Alignment explanation
Indices: 19585--19618 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19575 TTTAAGAAAA
19585 TATAATAA-AATATT
1 TATAATAACAATATT
19599 TATAATAACAATATT
1 TATAATAACAATATT
19614 T-TAAT
1 TATAAT
19619 CTTTAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATAACAATATT
Found at i:19611 original size:25 final size:25
Alignment explanation
Indices: 19561--19612 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
19551 TTTAAATGAA
* *
19561 ATAATATAATAATTTTTAAGAAAAT
1 ATAATAAAATAATTTATAAGAAAAT
*
19586 ATAATAAAAT-ATTTATAATAACAAT
1 ATAATAAAATAATTTATAAGAA-AAT
19611 AT
1 AT
19613 TTTAATCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAATAAAATAATTTATAAGAAAAT
Found at i:21915 original size:91 final size:91
Alignment explanation
Indices: 21742--22008 Score: 405
Period size: 91 Copynumber: 2.9 Consensus size: 91
21732 CGTTATTTGA
21742 TTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCTCTTG-TGGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTTGTTGGATGAGTTCTTCTCATTATGAA
* *
21805 CTCTT-CACTGGAAATACTGATGCAAGG
65 CT-TTCCATTGGAAACACTGATGCAAGG
*
21832 TTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
* *
21897 TTTCCATTGGAAACACTGATGTACGG
66 TTTCCATTGGAAACACTGATGCAAGG
* **
21923 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT-TGTTGGATGAGTTCTTCTCATTATGAA
*
21988 CTCTCCATTGGAAACACTGAT
65 CTTTCCATTGGAAACACTGAT
22009 ACATCTCCTT
Statistics
Matches: 163, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
90 37 0.23
91 81 0.50
92 45 0.28
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (91 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATGAGTTCTTCTCATTATGAAC
TTTCCATTGGAAACACTGATGCAAGG
Found at i:22271 original size:136 final size:133
Alignment explanation
Indices: 22037--22379 Score: 388
Period size: 136 Copynumber: 2.6 Consensus size: 133
22027 GACTTGAAAG
* * ** *
22037 GAACAAGTTCTTATCATTATGAAC--TTTCTCCTT-TAAGATGAGTTCTTCTTATTATGAA-CTC
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCTTGTCGGATGAGTTCTTCTCATTATGAACCTC
* * * * * * * **
22098 TTCTAGAAATGTTAATCCATCCAGCGGGGTATCACTGATTCGAAATATTATGAATCGAGTGATAG
66 TTTTGGAAATATCAATCCATCAAGCGAGGTATCACTGACTCGAAATACCATGAATCGAGTGATAG
22163 GTC
131 GTC
22166 GAACAAGCTCTTCTCATTATGAACTTTTTCTCTCTCTGTCGGATGAGTTCTTCTCATTATGAACC
1 GAACAAGCTCTTCTCATTATGAACTTTTTCTC-CT-TGTCGGATGAGTTCTTCTCATTATGAA-C
* * * * *
22231 CTCTTTTGGAAATATCAATCCCTCAAGCGAGGTGTCACTGACTCTAAATGCCGTGAATCGAGTGA
63 CTCTTTTGGAAATATCAATCCATCAAGCGAGGTATCACTGACTCGAAATACCATGAATCGAGTGA
*
22296 TGGGTC
128 TAGGTC
* *
22302 AAACAAACTCTTCTCATTATGAACTTTTTCTCCCTTTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTTTTCT-CC-TTGTCGGATGAGTTCTTCTCATTATGAAC-
**
22367 CTCCATTGGAAAT
63 CTCTTTTGGAAAT
22380 GTTGGTTCAC
Statistics
Matches: 180, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
129 22 0.12
131 6 0.03
132 2 0.01
133 1 0.01
134 22 0.12
135 1 0.01
136 124 0.69
137 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (133 bp):
GAACAAGCTCTTCTCATTATGAACTTTTTCTCCTTGTCGGATGAGTTCTTCTCATTATGAACCTC
TTTTGGAAATATCAATCCATCAAGCGAGGTATCACTGACTCGAAATACCATGAATCGAGTGATAG
GTC
Found at i:23267 original size:8 final size:8
Alignment explanation
Indices: 23254--23296 Score: 61
Period size: 9 Copynumber: 5.2 Consensus size: 8
23244 TTTTTCTCTC
23254 TTCATTTT
1 TTCATTTT
23262 TTCATTATT
1 TTCATT-TT
23271 TTCATTTT
1 TTCATTTT
23279 TTCA-TTT
1 TTCATTTT
23286 TTCATCTTT
1 TTCAT-TTT
23295 TT
1 TT
23297 TTTCTTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.22
8 12 0.38
9 13 0.41
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (8 bp):
TTCATTTT
Found at i:23297 original size:17 final size:17
Alignment explanation
Indices: 23254--23296 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
23244 TTTTTCTCTC
23254 TTCATTTTTTCATTATT
1 TTCATTTTTTCATTATT
23271 TTCATTTTTTCA-T-TT
1 TTCATTTTTTCATTATT
23286 TTCATCTTTTT
1 TTCAT-TTTTT
23297 TTTCTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.28
16 6 0.24
17 12 0.48
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (17 bp):
TTCATTTTTTCATTATT
Found at i:33975 original size:22 final size:21
Alignment explanation
Indices: 33949--34005 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
33939 GACCGATCTG
*
33949 AAAACAAAAATCAAATGTTAGT
1 AAAACAAAAATCAAATG-AAGT
* *
33971 AAAACAATAATAAAATGAAGT
1 AAAACAAAAATCAAATGAAGT
33992 ACAAA-AAAAATCAA
1 A-AAACAAAAATCAA
34006 TAAAAGGATC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.18
Consensus pattern (21 bp):
AAAACAAAAATCAAATGAAGT
Found at i:34713 original size:14 final size:15
Alignment explanation
Indices: 34694--34727 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
34684 TTTAAGAAAA
34694 TATAATAA-AATATT
1 TATAATAATAATATT
34708 TATAATAATAATATT
1 TATAATAATAATATT
34723 T-TAAT
1 TATAAT
34728 CCTTATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATAATAATATT
Found at i:36722 original size:24 final size:24
Alignment explanation
Indices: 36689--36750 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
36679 ATGTAATATT
*
36689 ATTATTAATACTAATAA-CAACAATA
1 ATTA-TAATAATAATAATCAA-AATA
*
36714 CTTATAATAATAATAATCAAAATA
1 ATTATAATAATAATAATCAAAATA
36738 ATTATAATAATAA
1 ATTATAATAATAA
36751 ATATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (24 bp):
ATTATAATAATAATAATCAAAATA
Found at i:36758 original size:18 final size:19
Alignment explanation
Indices: 36716--36758 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
36706 CAACAATACT
*
36716 TATAATAATAATAATCAAA
1 TATAATTATAATAATCAAA
36735 -ATAATTATAATAAT-AAA
1 TATAATTATAATAATCAAA
36752 TATAATT
1 TATAATT
36759 TTTTAAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TATAATTATAATAATCAAA
Found at i:37674 original size:60 final size:60
Alignment explanation
Indices: 37581--37700 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 60
37571 ATTAGATATC
* * *
37581 TATTTTGAAAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATGGATGGCTTATAAA
1 TATTTTGAAAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATAGATGACTAATAAA
**
37641 TATTTTGACAAGTATGTTTT-AAATTTTAAAATATATCAGTCAAAATAGATGACTAATAAA
1 TATTTTGA-AAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATAGATGACTAATAAA
37701 GAAGTATAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 43 0.80
61 11 0.20
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.38
Consensus pattern (60 bp):
TATTTTGAAAGTATGTTTTAAAATTAAAAAATATATCAGTCAAAATAGATGACTAATAAA
Found at i:40038 original size:43 final size:43
Alignment explanation
Indices: 39972--40067 Score: 158
Period size: 43 Copynumber: 2.3 Consensus size: 43
39962 TTTACTTCAA
* * *
39972 TAGTGAC-AAAAATTATTGTCGTCACAAATTACCAACTAAGAC
1 TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
40014 TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
1 TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
40057 TAGTGACAAAA
1 TAGTGACAAAA
40068 TGTTTTCATC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
42 7 0.14
43 43 0.86
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (43 bp):
TAGTGACAAAAAATAATTATCGTCACAAATCACCAACTAAGAC
Found at i:45898 original size:21 final size:21
Alignment explanation
Indices: 45874--45936 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
45864 TTCAAAGAAA
45874 CATTTTCCAAACTTTGAAAAC
1 CATTTTCCAAACTTTGAAAAC
45895 CATTTT-CAAA----G-AAA-
1 CATTTTCCAAACTTTGAAAAC
* *
45909 CACTTACCAAACTTTGAAAAC
1 CATTTTCCAAACTTTGAAAAC
45930 CATTTTC
1 CATTTTC
45937 AAAGTTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 11 0.35
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.32
Consensus pattern (21 bp):
CATTTTCCAAACTTTGAAAAC
Found at i:45901 original size:35 final size:35
Alignment explanation
Indices: 45835--45940 Score: 151
Period size: 35 Copynumber: 3.0 Consensus size: 35
45825 AACATCTACC
* *
45835 AAAC-TTTACCAAACTCTGAAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCA-TTTTCAAAG
*
45871 AAACATTTTCCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
*
45906 AAACACTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
45941 TTGGTTGCCA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 42 0.66
36 10 0.16
37 12 0.19
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:47110 original size:225 final size:225
Alignment explanation
Indices: 46505--49071 Score: 4535
Period size: 225 Copynumber: 11.4 Consensus size: 225
46495 TCAGCATCTA
* * * * * *
46505 CTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTCTCTGGCAAT
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCT-TCTGGAAAA
* * ** * *
46570 GCTGATCCATCGAATGATGAATTCAAGTGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCT
65 GCTGATCCATCGAGTGATGGATTTGAG-CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT
* *
46634 TTTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTTGAAATGATGATTCATCGAAT
129 TCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC-TTGAAATGATGATTCATCGAAG
*
46699 GATGAATTCAAACAAAAAGTTGAACAAGTTCTT
193 GATGAATTCAAACAAAAAGTTAAACAAGTTCTT
* * *
46732 CTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCT-TCTGGAAAA
* * *
46797 GCGGATCCATCAAGTGATGGATTTGAGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTT
65 GCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
*
46862 CTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTTATCGAAGGA
130 CTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGA
*
46927 TGAATTCAAACAAAAAGTTAAACAAGTTTTT
195 TGAATTCAAACAAAAAGTTAAACAAGTTCTT
*
46958 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTGTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
47023 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
47088 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
47153 GAATTCAAACAAAAAGTTAAACAAGTTCTT
196 GAATTCAAACAAAAAGTTAAACAAGTTCTT
*
47183 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTGTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
*
47248 CTGATCCTTCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
47313 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
*
47378 GAATTCAAACAAAAAGTTGAACAAGTTCTT
196 GAATTCAAACAAAAAGTTAAACAAGTTCTT
*
47408 CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
* *
47473 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTT
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
* * *
47538 TTCATTCTTCAGATAAGTTTTTCTCATTATGAACTTTCTCTTGAAATGATGATCCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
47603 GAATTCAAACAAAAAGTTAAACAAGTTCTT
196 GAATTCAAACAAAAAGTTAAACAAGTTCTT
*
47633 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTGTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
47698 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
*
47763 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATAATTCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
47828 GAATTCAAACAAAAAGTTAAACAAGTTCTT
196 GAATTCAAACAAAAAGTTAAACAAGTTCTT
* * *
47858 CTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCT-TCTGGAAAA
* * *
47923 GCGGATCCATCAAGTGATGGATTTGAGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTT
65 GCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
47988 CTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGA
130 CTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGA
*
48053 TGAATTCAAACAAAAAGTTGAACAAGTTCTT
195 TGAATTCAAACAAAAAGTTAAACAAGTTCTT
*
48084 CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
* *
48149 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTT
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
* * *
48214 TTCATTCTTCAGATAAGTTTTTCTCATTATGAACTTTCTCTTGAAATGATGATCCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
48279 GAATTCAAACAAAAAGTTAAACAAGTTCTT
196 GAATTCAAACAAAAAGTTAAACAAGTTCTT
*
48309 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTGTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
48374 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
*
48439 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATAATTCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
48504 GAATTCAAACAAAAAGTTAAACAAGTTCTT
196 GAATTCAAACAAAAAGTTAAACAAGTTCTT
*
48534 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTGTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
48599 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
48664 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
*
48729 GAATTCAAACAAAAAGTTGAACAAGTTCTT
196 GAATTCAAACAAAAAGTTAAACAAGTTCTT
*
48759 CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
*
48824 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
* *
48889 TTCATTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATCCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
48954 G-ATATCAAACAAAAAGTTAAACAAGTTCTT
196 GAAT-TCAAACAAAAAGTTAAACAAGTTCTT
*
48984 CTCATTATGAACTTATTCTTCTTTCTTTAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
* *
49049 CTGATCCATTGAATGATGGATTT
66 CTGATCCATCGAGTGATGGATTT
49072 AAATCTTTGT
Statistics
Matches: 2250, Mismatches: 87, Indels: 8
0.96 0.04 0.00
Matches are distributed among these distances:
224 2 0.00
225 1773 0.79
226 324 0.14
227 151 0.07
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (225 bp):
CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
GAATTCAAACAAAAAGTTAAACAAGTTCTT
Found at i:48258 original size:901 final size:900
Alignment explanation
Indices: 46505--49071 Score: 4580
Period size: 901 Copynumber: 2.8 Consensus size: 900
46495 TCAGCATCTA
* * * * *
46505 CTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTCTCTGGCAAT
1 CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCT-TCTGGAAAA
* * ** *
46570 GCTGATCCATCGAATGATGAATTCAAGTGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCT
65 GCTGATCCATCGAGTGATGGATTTGAG-CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCT
*
46634 TTTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTTGAAATGATGATTCATCGAAT
129 TTTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC-TTGAAATGATGATTCATCGAAG
* * *
46699 GATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGAT
193 GATGAATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAAT
* * * *
46764 GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCGGATCCATCAAGTGATGGATTTGAGCAAAA
258 GAGTTCTTGTCATTATGAACTCT-TCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAA
*
46829 GGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATG
322 GGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATG
* *
46894 AACTTTCTCTTGAAATGATGATTTATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTTTTC
387 AACTTTCTCTTGAAATGATGATTCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTTC
* *
46959 TCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTGTCATTATGAACTCTTCTGGAAAAGC
452 TCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGC
47024 TGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
517 TGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
47089 TCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGATG
582 TCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGATG
47154 AATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAGT
647 AATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAGT
* *
47219 TCTTGTCATTATGAACTCTTCTGGAAAAGCTGATCCTTCGAGTGATGGATTTGAGCAAAAGGTTG
712 TCTTCTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTG
*
47284 AACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTT
777 AACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCTTCTCATTATGAACTT
* *
47349 TCTCTTGAAATGATGATTCATCGAAGGATGAATTCAAACAAAAAGTTGAACAAGTTCTT
842 TCTCTTGAAATGATGATCCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTT
47408 CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
47473 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTT
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTT
* * *
47538 TTCATTCTTCAGATAAGTTTTTCTCATTATGAACTTTCTCTTGAAATGATGATCCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
47603 GAATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAG
196 GAATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAG
47668 TTCTTGTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
261 TTCTTGTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
47733 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
326 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
*
47798 TTCTCTTGAAATGATAATTCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTTCTCAT
391 TTCTCTTGAAATGATGATTCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTTCTCAT
* * *
47863 TATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCGGA
456 TATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCT-TCTGGAAAAGCTGA
* *
47928 TCCATCAAGTGATGGATTTGAGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCC
520 TCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC
47993 TTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGATGAAT
585 TTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGATGAAT
* *
48058 TCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCT
650 TCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCT
48123 TCTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAAC
715 TCTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAAC
* * *
48188 AAGTTCTTCTCATTATGAACTTCTTTTTCATTCTTCAGATAAGTTTTTCTCATTATGAACTTTCT
780 AAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCTTCTCATTATGAACTTTCT
48253 CTTGAAATGATGATCCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTT
845 CTTGAAATGATGATCCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTT
* *
48309 CTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTTGTCATTATGAACTCTTCTGGAAAAG
1 CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
* *
48374 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
66 CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTT
*
48439 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATAATTCATCGAAGGAT
131 TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
48504 GAATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAG
196 GAATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAG
48569 TTCTTGTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
261 TTCTTGTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
48634 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
326 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
*
48699 TTCTCTTGAAATGATGATTCATCGAAGGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCAT
391 TTCTCTTGAAATGATGATTCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTTCTCAT
48764 TATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGCTGAT
456 TATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGCTGAT
* *
48829 CCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCAT
521 CCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCT
*
48894 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATCCATCGAAGGATG-ATA
586 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGATGAAT-
*
48958 TCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTTAAATGAGTTCT
650 TCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCT
* *
49023 TCTCATTATGAACTCTTCTGGAAAAGCTGATCCATTGAATGATGGATTT
715 TCTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTT
49072 AAATCTTTGT
Statistics
Matches: 1596, Mismatches: 65, Indels: 9
0.96 0.04 0.01
Matches are distributed among these distances:
899 2 0.00
900 459 0.29
901 982 0.62
902 101 0.06
903 52 0.03
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (900 bp):
CTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAG
CTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTT
TTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGAT
GAATTCAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAG
TTCTTGTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTT
GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
TTCTCTTGAAATGATGATTCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTTCTCAT
TATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGCTGAT
CCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCT
TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTTGAAATGATGATTCATCGAAGGATGAATT
CAAACAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTATTCTTCTTTCTTCAAATGAGTTCTT
CTCATTATGAACTCTTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACA
AGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
TTGAAATGATGATCCATCGAAGGATGAATTCAAACAAAAAGTTAAACAAGTTCTT
Found at i:49498 original size:22 final size:22
Alignment explanation
Indices: 49473--49527 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
49463 AATAAAGCTT
*
49473 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
49495 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
49517 TCATCTTTGAA
1 TCATCTTTGAA
49528 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:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:54394 original size:10 final size:10
Alignment explanation
Indices: 54367--54399 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
54357 CTTGATTCAA
54367 TTTTCCTTTT
1 TTTTCCTTTT
*
54377 TCTT-CTTTT
1 TTTTCCTTTT
54386 TTTTCCTTTT
1 TTTTCCTTTT
54396 TTTT
1 TTTT
54400 TCTTCTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCCTTTT
Found at i:54712 original size:2 final size:2
Alignment explanation
Indices: 54705--54739 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
54695 ACAACAAAGG
54705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54740 AAGGATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57757 original size:14 final size:15
Alignment explanation
Indices: 57723--57761 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
57713 CATAAAAATA
*
57723 CAAATGCAAAGATGC
1 CAAATGTAAAGATGC
*
57738 CAAATGTAAATATG-
1 CAAATGTAAAGATGC
57752 CAAATGTAAA
1 CAAATGTAAA
57762 CATGTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (15 bp):
CAAATGTAAAGATGC
Found at i:57770 original size:14 final size:14
Alignment explanation
Indices: 57723--57770 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
57713 CATAAAAATA
* *
57723 CAAATGCAAAGATG
1 CAAATGTAAACATG
*
57737 CCAAATGTAAATATG
1 -CAAATGTAAACATG
57752 CAAATGTAAACATG
1 CAAATGTAAACATG
*
57766 TAAAT
1 CAAAT
57771 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (14 bp):
CAAATGTAAACATG
Found at i:58079 original size:43 final size:43
Alignment explanation
Indices: 58018--58103 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
58008 CCGTGCATCA
* *
58018 AACAAAACTTTACATATAGGGGACATCTTTCAGTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
58061 AACAAAACTTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
58104 TCTAAAGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.30
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:59523 original size:16 final size:15
Alignment explanation
Indices: 59471--59522 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
59461 TTAATACTTG
*
59471 AATAAAAAAAAAAGT
1 AATAAAAAAATAAGT
* *
59486 ATTAATAAAATAA-T
1 AATAAAAAAATAAGT
59500 -ATAAAAATAATAAGT
1 AATAAAAA-AATAAGT
59515 AATAAAAA
1 AATAAAAA
59523 TTTAAAAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
15 11 0.38
16 7 0.24
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (15 bp):
AATAAAAAAATAAGT
Found at i:61616 original size:3 final size:3
Alignment explanation
Indices: 61604--61686 Score: 114
Period size: 3 Copynumber: 28.0 Consensus size: 3
61594 TATATATATT
* * *
61604 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
61651 TAA TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61687 ATAAATTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:62203 original size:24 final size:24
Alignment explanation
Indices: 62176--62282 Score: 142
Period size: 24 Copynumber: 4.5 Consensus size: 24
62166 ATTGGCGAAC
62176 GAGATCTACGACGCATAGGTGATG
1 GAGATCTACGACGCATAGGTGATG
*
62200 GAGATCTAGGACGCATAGGTGATG
1 GAGATCTACGACGCATAGGTGATG
* *
62224 GAGATCTATGACGCATAGGTGAAG
1 GAGATCTACGACGCATAGGTGATG
* * * *
62248 GAGATTTATGACACATAGGTGATA
1 GAGATCTACGACGCATAGGTGATG
*
62272 GACATCTACGA
1 GAGATCTACGA
62283 TATCGAACAG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (24 bp):
GAGATCTACGACGCATAGGTGATG
Found at i:64643 original size:2 final size:2
Alignment explanation
Indices: 64636--64667 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64626 TTTGTAGTGT
64636 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
64668 ATTTAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65067 original size:2 final size:2
Alignment explanation
Indices: 65060--65123 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
65050 TTTCTAGTGT
65060 TA TA TA 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
65102 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
65124 ATTTTTCTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65611 original size:20 final size:20
Alignment explanation
Indices: 65586--65881 Score: 129
Period size: 20 Copynumber: 14.7 Consensus size: 20
65576 GATTTTCCAG
*
65586 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
65606 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
65626 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
** * *
65646 AATCATAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
65666 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
65687 AATCACAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
65707 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
65728 AATCACAACGCGTATCCGAA
1 AATCGCAACGCGAATACGAA
* * * *
65748 AATCACAAGGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
65768 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
65788 AATCGCAACGAGAATACGGA
1 AATCGCAACGCGAATACGAA
* * * * *
65808 AATTGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
65828 AATCGCAACGAC-AATACATAA
1 AATCGCAACG-CGAATAC-GAA
* * *
65849 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
65869 AATCGCAACGCGA
1 AATCGCAACGCGA
65882 TTTTTAAAGC
Statistics
Matches: 208, Mismatches: 53, Indels: 30
0.71 0.18 0.10
Matches are distributed among these distances:
19 3 0.01
20 155 0.75
21 50 0.24
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:65771 original size:81 final size:81
Alignment explanation
Indices: 65684--65878 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 81
65674 CGAGTATCCG
*
65684 TAAAATCACAACGCGTATCTGTAAATCGCAACGACAATACGTAAAATCACAACGCGTATCCGAAA
1 TAAAATCGCAACGCGTATCTGTAAATCGCAACGACAATACG-AAAATCACAACGCGTATCCGAAA
* * *
65749 ATCACAAGGAGAATACG
65 ATCACAACGACAATACA
* * ** * *
65766 T-AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGGAAATTGCAATGCGTATCCGTAAA
1 TAAAATCGCAACGCGTATCTGTAAATCGCAACGACAATACGAAAATCACAACGCGTATCCGAAAA
*
65830 TCGCAACGACAATACA
66 TCACAACGACAATACA
*
65846 TAAAATCGCAACGCGTATCCGTAAATCGCAACG
1 TAAAATCGCAACGCGTATCTGTAAATCGCAACG
65879 CGATTTTTAA
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 32 0.32
81 67 0.67
82 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.18
Consensus pattern (81 bp):
TAAAATCGCAACGCGTATCTGTAAATCGCAACGACAATACGAAAATCACAACGCGTATCCGAAAA
TCACAACGACAATACA
Found at i:65782 original size:40 final size:41
Alignment explanation
Indices: 65667--65878 Score: 266
Period size: 41 Copynumber: 5.2 Consensus size: 41
65657 GATTCTGACT
** * * *
65667 ATCGCAACGAGTATCCGTAAAATCACAACGCGTATCTGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* *
65708 ATCGCAACGACAATACGTAAAATCACAACGCGTATCCGAAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
65749 ATCACAAGGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
65789 ATCGCAACGAGAATACG-GAAATTGCAATGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
*
65829 ATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
65870 ATCGCAACG
1 ATCGCAACG
65879 CGATTTTTAA
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 68 0.46
41 80 0.54
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:66463 original size:20 final size:19
Alignment explanation
Indices: 66438--66509 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
66428 TTCTAAACTT
*
66438 AAAATCCCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
66458 AAAATCGCAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
66478 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
66499 AAAATCGCAAC
1 AAAATCGCAAC
66510 GAGAGAATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:66499 original size:21 final size:21
Alignment explanation
Indices: 66453--66516 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
66443 CCCAACATGA
66453 AAATGAAAATCGCAAC-ACGA-
1 AAATGAAAATCGCAACGA-GAG
**
66473 AAATGACTATCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG
66494 AAATGAAAATCGCAACGAGAG
1 AAATGAAAATCGCAACGAGAG
66515 AA
1 AA
66517 TCACAACGCG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.52, C:0.17, G:0.20, T:0.11
Consensus pattern (21 bp):
AAATGAAAATCGCAACGAGAG
Found at i:66530 original size:33 final size:33
Alignment explanation
Indices: 66493--66573 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
66483 CGCAACGAGA
66493 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCACAACGC
* *
66526 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCACAACGC
**
66559 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
66574 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCACAACGC
Found at i:66610 original size:14 final size:14
Alignment explanation
Indices: 66591--66660 Score: 86
Period size: 14 Copynumber: 4.6 Consensus size: 14
66581 TTTCATTTCG
66591 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
66605 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
66619 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
66638 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
66652 CGTTGCGAT
1 CGTTGCGAT
66661 AGTCATTTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
14 33 0.67
16 3 0.06
17 3 0.06
19 10 0.20
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:66642 original size:33 final size:33
Alignment explanation
Indices: 66605--66709 Score: 129
Period size: 33 Copynumber: 3.0 Consensus size: 33
66595 GCGATTCTCT
66605 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTTCG
**
66638 CGTTGCGATTCTCTCGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCTCGTTGCGATTTTCATTT-CG
66672 CGTTGCGATAGTCATTCTCTCGTTGCGATTTTCATTTC
1 CGTTGC----G--ATTCTCTCGTTGCGATTTTCATTTC
66710 AACCAAAAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
33 29 0.48
34 8 0.13
38 1 0.02
39 1 0.02
40 22 0.36
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTCTCTCGTTGCGATTTTCATTTCG
Found at i:66707 original size:20 final size:20
Alignment explanation
Indices: 66645--66700 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
66635 TCGCGTTGCG
66645 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
66665 ATT-TCCGCGTTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
66685 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
66701 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:68482 original size:12 final size:13
Alignment explanation
Indices: 68459--68487 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
68449 CACTGTGACG
68459 TTTGTATTTGTCT
1 TTTGTATTTGTCT
68472 TTTGT-TTTGTCT
1 TTTGTATTTGTCT
68484 TTTG
1 TTTG
68488 GTTGAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.03, C:0.07, G:0.17, T:0.72
Consensus pattern (13 bp):
TTTGTATTTGTCT
Found at i:68896 original size:94 final size:94
Alignment explanation
Indices: 68399--68872 Score: 835
Period size: 94 Copynumber: 5.1 Consensus size: 94
68389 TAGATTGCTT
* * * * *
68399 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGACGTTTGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68464 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
* *
68493 AGTAAATTTATTCGGTTTCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68558 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
68587 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68652 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
68681 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68746 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
68775 AGTAAATTTGTTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68840 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
68868 AGTAA
1 AGTAA
68873 TGTAATCCAT
Statistics
Matches: 369, Mismatches: 10, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
93 26 0.07
94 343 0.93
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.48
Consensus pattern (94 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:69451 original size:19 final size:17
Alignment explanation
Indices: 69435--69485 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
69425 AAAAATGACT
69435 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
69454 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
69468 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
69485 A
1 A
69486 AATCGCAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 7 0.26
19 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:69477 original size:33 final size:33
Alignment explanation
Indices: 69435--69528 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
69425 AAAAATGACT
* *
69435 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
69468 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
69501 ATCGCAACGTGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
69529 CGAAACTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:69491 original size:19 final size:19
Alignment explanation
Indices: 69435--69493 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
69425 AAAAATGACT
69435 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
69454 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
69468 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
69487 ATCGCAA
1 ATCGCAA
69494 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:69522 original size:19 final size:19
Alignment explanation
Indices: 69467--69543 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
69457 GCAACGAGAG
*
69467 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
69486 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
69500 AATCGCAACGTGAAACTAA
1 AATCGCAACGCGAAACTAA
69519 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
69538 ATTCGC
1 AATCGC
69544 GTTGCGATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 1 0.02
17 2 0.04
18 2 0.04
19 33 0.67
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:69681 original size:20 final size:19
Alignment explanation
Indices: 69578--69709 Score: 104
Period size: 20 Copynumber: 7.4 Consensus size: 19
69568 GATTCCCTCG
*
69578 TTGCGATTTTCATTTCGCA
1 TTGCGATATTCATTTCGCA
*
69597 TTGCG--ATTC-TCTCG--
1 TTGCGATATTCATTTCGCA
*
69611 TTGCGATTTTCATTTCGCA
1 TTGCGATATTCATTTCGCA
*
69630 TTGCGATAGTCATTTCCGCA
1 TTGCGATATTCATTT-CGCA
*
69650 TTGCGATATTCATATTCGAA
1 TTGCGATATTCAT-TTCGCA
*
69670 TTGCGATTTTCA---CG--
1 TTGCGATATTCATTTCGCA
*
69684 TTGCGATTTTCATTTCGCA
1 TTGCGATATTCATTTCGCA
*
69703 TTTCGAT
1 TTGCGAT
69710 TCTCTCGTTG
Statistics
Matches: 91, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
14 17 0.19
16 9 0.10
17 9 0.10
19 24 0.26
20 30 0.33
21 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (19 bp):
TTGCGATATTCATTTCGCA
Found at i:69732 original size:33 final size:33
Alignment explanation
Indices: 69543--69723 Score: 218
Period size: 33 Copynumber: 5.3 Consensus size: 33
69533 ACTAAATTCG
* * *
69543 CGTTGCGATTTTCATTTTGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
69576 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
69609 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTT
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC-TCT
* * * *
69645 CCGCATTGCGATATTCATATTCGAATTGCGATTTTCA
1 -CG--TTGCGATTTTCAT-TTCGCATTGCGATTCTCT
*
69682 CGTTGCGATTTTCATTTCGCATTTCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
69715 CGTTGCGAT
1 CGTTGCGAT
69724 AGTAATTTCC
Statistics
Matches: 127, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
33 81 0.64
34 12 0.09
35 2 0.02
36 4 0.03
37 3 0.02
38 1 0.01
39 12 0.09
40 12 0.09
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:72295 original size:24 final size:23
Alignment explanation
Indices: 72257--72310 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
72247 CTGAAAAATC
72257 ATCAAATCCGAGTATTGACCAAG
1 ATCAAATCCGAGTATTGACCAAG
* *
72280 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAA-TCCGAGTATTGACCAAG
72304 ATCAAAT
1 ATCAAAT
72311 TTCGAATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
ATCAAATCCGAGTATTGACCAAG
Found at i:73183 original size:20 final size:19
Alignment explanation
Indices: 73162--73401 Score: 103
Period size: 20 Copynumber: 11.9 Consensus size: 19
73152 GCGATAGTCA
73162 GAATCTCGTTGCGATTTAC
1 GAATCTCGTTGCGATTTAC
* * *
73181 AGATTCGCATTGCGATTTAC
1 -GAATCTCGTTGCGATTTAC
* *
73201 GTAT-TCGCATTGCGATTTAT
1 GAATCTCG--TTGCGATTTAC
*
73221 GTAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
*
73241 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
*
73261 AGATAT-GCGTTGCGATTTAC
1 -GA-ATCTCGTTGCGATTTAC
* *
73281 GTATTCTCATTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
73301 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* * * *
73322 GTATTGTTGTTGCAATTTAC
1 G-AATCTCGTTGCGATTTAC
*
73342 -AGATACGCGTTGCGATTTTAC
1 GA-AT-CTCGTTGCGA-TTTAC
* *
73363 GGATACTCGTTGCGATAGT-C
1 GAAT-CTCGTTGCGAT-TTAC
*
73383 AGAATCGCGTTGCGATTTA
1 -GAATCTCGTTGCGATTTA
73402 TATGTTCGCG
Statistics
Matches: 165, Mismatches: 37, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
18 2 0.01
19 7 0.04
20 116 0.70
21 36 0.22
22 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (19 bp):
GAATCTCGTTGCGATTTAC
Found at i:73214 original size:40 final size:40
Alignment explanation
Indices: 73170--73419 Score: 220
Period size: 40 Copynumber: 6.2 Consensus size: 40
73160 CAGAATCTCG
*
73170 TTGCGATTTACAGATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTACAGATTCGCGTTGCGATTTACGTATTCGCA
* * * *
73210 TTGCGATTTA-TGTATTCGCATTGCGATTTACGTATTCTCG
1 TTGCGATTTACAG-ATTCGCGTTGCGATTTACGTATTCGCA
*
73250 TTGCGATTTACAGATAT-GCGTTGCGATTTACGTATTCTCA
1 TTGCGATTTACAGAT-TCGCGTTGCGATTTACGTATTCGCA
* * **
73290 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GTTG
1 TTGCGATTTACAGATTCGCGTTGCGA-TTTACGTATTCG-CA
* * * * * *
73331 TTGCAATTTACAGATACGCGTTGCGATTTTACGGATACTCG
1 TTGCGATTTACAGATTCGCGTTGCGA-TTTACGTATTCGCA
* * ** * *
73372 TTGCGATAGT-CAGAATCGCGTTGCGATTTATATGTTCGCG
1 TTGCGAT-TTACAGATTCGCGTTGCGATTTACGTATTCGCA
73412 TTGCGATT
1 TTGCGATT
73420 CTGGAAAATC
Statistics
Matches: 174, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
39 1 0.01
40 106 0.61
41 66 0.38
42 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACAGATTCGCGTTGCGATTTACGTATTCGCA
Found at i:73234 original size:60 final size:58
Alignment explanation
Indices: 73170--73327 Score: 192
Period size: 60 Copynumber: 2.6 Consensus size: 58
73160 CAGAATCTCG
* *
73170 TTGCGATTTACAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTATGTATTCGCA
1 TTGCGATTTAC-GATTCGCGTTGCGATTTACGTATT-GCATTGCGATTTACGTATTCGCA
* * *
73230 TTGCGATTTACGTATTCTCGTTGCGATTTACAG-ATATGCGTTGCGATTTACGTATTCTCA
1 TTGCGATTTACG-ATTCGCGTTGCGATTTAC-GTAT-TGCATTGCGATTTACGTATTCGCA
*
73290 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTG
1 TTGCGATTTAC-GATTCGCGTTGCGA-TTTACGTATTG
73328 TTGTTGCAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
59 1 0.01
60 74 0.87
61 10 0.12
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (58 bp):
TTGCGATTTACGATTCGCGTTGCGATTTACGTATTGCATTGCGATTTACGTATTCGCA
Found at i:73480 original size:42 final size:42
Alignment explanation
Indices: 73385--73480 Score: 97
Period size: 42 Copynumber: 2.3 Consensus size: 42
73375 CGATAGTCAG
* * *
73385 AATCGCGTTGCG-ATTTATATGTTCGCGTTGCGATTCTGGAA
1 AATCGCGTTGCGAATTTATATGATCGCATTGCGATTCTGCAA
** * * *
73426 AATCGCAATGCGAATTTGTACT-ATCGCATTGCGATTCTTCAT
1 AATCGCGTTGCGAATTTATA-TGATCGCATTGCGATTCTGCAA
73468 AATCGCGTTGCGA
1 AATCGCGTTGCGA
73481 TTCTGGGAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 10 0.23
42 32 0.74
43 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (42 bp):
AATCGCGTTGCGAATTTATATGATCGCATTGCGATTCTGCAA
Found at i:73518 original size:20 final size:19
Alignment explanation
Indices: 73469--73522 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
73459 ATTCTTCATA
73469 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
73488 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
73509 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
73523 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:76223 original size:52 final size:52
Alignment explanation
Indices: 76091--76214 Score: 151
Period size: 52 Copynumber: 2.4 Consensus size: 52
76081 TAAGTTGTAC
* * * *
76091 TTTTGTTTCAGATTTTAATTTATTAAATTCTTGTTATTTAATAAAAGTTAAT
1 TTTTGTTTCAGGTTTTAATTTATTAAATTCTTATTATTCAATAAAAGTTAAG
* * * * * *
76143 TTTTATTTCGGGTTTTAGTTTATTAAATTTTTATTGTTCAATAAAAGTT-GG
1 TTTTGTTTCAGGTTTTAATTTATTAAATTCTTATTATTCAATAAAAGTTAAG
76194 TTTTGTTTCAGGTTTTAATTT
1 TTTTGTTTCAGGTTTTAATTT
76215 TACCAAATTC
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
51 18 0.31
52 41 0.69
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.57
Consensus pattern (52 bp):
TTTTGTTTCAGGTTTTAATTTATTAAATTCTTATTATTCAATAAAAGTTAAG
Found at i:78847 original size:19 final size:19
Alignment explanation
Indices: 78823--78862 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
78813 TTTGATGTTT
*
78823 TGCTACAGCTAGAACTAGA
1 TGCTACAGCCAGAACTAGA
78842 TGCTACAGCCAGAACTAGA
1 TGCTACAGCCAGAACTAGA
78861 TG
1 TG
78863 TCACGAGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (19 bp):
TGCTACAGCCAGAACTAGA
Done.