Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002200.1 Hibiscus syriacus cultivar Beakdansim tig00004483_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: 63115
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:4032 original size:27 final size:26
Alignment explanation
Indices: 4002--4054 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
3992 AAAAAATTGA
4002 TATTA-AATTAATAATCATTTTGATCTT
1 TATTATAATTAA-AAT-ATTTTGATCTT
**
4029 TATTATTTTTAAAATATTTTGATCTT
1 TATTATAATTAAAATATTTTGATCTT
4055 AACATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 8 0.35
28 4 0.17
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTATAATTAAAATATTTTGATCTT
Found at i:6495 original size:23 final size:23
Alignment explanation
Indices: 6465--6508 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6455 CGTTTTACTA
* *
6465 AAATTTATTTTAGTTATTAGTTC
1 AAATTTATTATAATTATTAGTTC
6488 AAATTTATTATAATTATTAGT
1 AAATTTATTATAATTATTAGT
6509 CCGATAGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (23 bp):
AAATTTATTATAATTATTAGTTC
Found at i:9925 original size:22 final size:23
Alignment explanation
Indices: 9879--9930 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
9869 TCTCTATAAA
*
9879 TTTTT-AACAATTTTGTTGGTAT
1 TTTTTAAACAATTTTGTTGATAT
9901 TTTTTAAACTAATTTTGTT-AT-T
1 TTTTTAAAC-AATTTTGTTGATAT
9923 TTTTTAAA
1 TTTTTAAA
9931 AATATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 14 0.52
23 4 0.15
24 9 0.33
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTTAAACAATTTTGTTGATAT
Found at i:10555 original size:30 final size:30
Alignment explanation
Indices: 10521--10581 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
10511 ATGATCAAAA
*
10521 TTAA-TAATAAGAAATAATTAATTTAATTTC
1 TTAATTAA-AAGAAATAATTAATATAATTTC
* **
10551 TTAATTGAAAGATTTAATTAATATAATTTC
1 TTAATTAAAAGAAATAATTAATATAATTTC
10581 T
1 T
10582 CAATCTGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (30 bp):
TTAATTAAAAGAAATAATTAATATAATTTC
Found at i:10598 original size:30 final size:30
Alignment explanation
Indices: 10535--10607 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
10525 TAATAAGAAA
* *
10535 TAATTAATTTAATTTCTTAATTGAAAGATT
1 TAATTAATTTAATTTCTCAATTGAAAGAGT
* *
10565 TAATTAATATAATTTCTCAATCTGAGAG-GT
1 TAATTAATTTAATTTCTCAAT-TGAAAGAGT
10595 TAA-TAATTTAATT
1 TAATTAATTTAATT
10608 ATTATTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 9 0.24
30 23 0.62
31 5 0.14
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (30 bp):
TAATTAATTTAATTTCTCAATTGAAAGAGT
Found at i:10983 original size:27 final size:27
Alignment explanation
Indices: 10953--11019 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
10943 TCAGTGCTGG
*
10953 CTGAATGATTCAGCACAGAAGTGCATT
1 CTGAATGATTCAGCACAGAAGTACATT
*
10980 CTGAATGATTCAACACAGAAGTACATT
1 CTGAATGATTCAGCACAGAAGTACATT
11007 CTGAATGATTCAG
1 CTGAATGATTCAG
11020 AGCCATTATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
CTGAATGATTCAGCACAGAAGTACATT
Found at i:13072 original size:15 final size:15
Alignment explanation
Indices: 13052--13081 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13042 AATTTGGTTC
13052 CTATTTTATTAAACA
1 CTATTTTATTAAACA
13067 CTATTTTATTAAACA
1 CTATTTTATTAAACA
13082 AGAATGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
CTATTTTATTAAACA
Found at i:15539 original size:14 final size:14
Alignment explanation
Indices: 15522--15571 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
15512 AATGAACATA
15522 AACGAACATAACCG
1 AACGAACATAACCG
15536 AACGAACAT-A---
1 AACGAACATAACCG
15546 AACGAACATAACCG
1 AACGAACATAACCG
*
15560 TACGAACATAAC
1 AACGAACATAAC
15572 TAAACGTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.29
11 1 0.03
13 1 0.03
14 20 0.65
ACGTcount: A:0.52, C:0.26, G:0.12, T:0.10
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:15542 original size:24 final size:24
Alignment explanation
Indices: 15515--15570 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
15505 ATAAATGAAT
15515 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
15539 GAACATAAACGAACATAACCGTAC
1 GAACATAAACGAACATAACCGAAC
15563 GAACATAA
1 GAACATAA
15571 CTAAACGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:17425 original size:2 final size:2
Alignment explanation
Indices: 17418--17469 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
17408 GAATTTCTTC
17418 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17460 CT CT CT CT CT
1 CT CT CT CT CT
17470 TTCATTTTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18331 original size:21 final size:21
Alignment explanation
Indices: 18301--18349 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
18291 TAATTTTCAA
*
18301 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
18322 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
18343 ACATTGT
1 ACATTGT
18350 AATATTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:22985 original size:21 final size:21
Alignment explanation
Indices: 22955--23002 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
22945 TAATTTTCAA
*
22955 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
22976 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
22997 ACATTG
1 ACATTG
23003 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:28555 original size:18 final size:20
Alignment explanation
Indices: 28523--28566 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
28513 GTATATTATG
28523 TTTATATAAAGTATTTAAAT
1 TTTATATAAAGTATTTAAAT
28543 TTTA-ATAAA-TATTTAAAT
1 TTTATATAAAGTATTTAAAT
*
28561 TATATA
1 TTTATA
28567 AACTCTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTATATAAAGTATTTAAAT
Found at i:30601 original size:21 final size:20
Alignment explanation
Indices: 30559--30602 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
30549 ATAACAATAT
*
30559 AACATGTAAAAATATGATAA
1 AACATGTAAAAATATGACAA
30579 AACATGTATCAAAA-ATGACAA
1 AACATGTA--AAAATATGACAA
30600 AAC
1 AAC
30603 CGGAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 9 0.43
22 4 0.19
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (20 bp):
AACATGTAAAAATATGACAA
Found at i:30620 original size:182 final size:182
Alignment explanation
Indices: 30359--31199 Score: 1040
Period size: 182 Copynumber: 4.6 Consensus size: 182
30349 ATGAAAAATG
* * * * * **
30359 TATCGCTCCATAGCAATATTACACT-TACAAATATGACAAAACCGGTCTC-AAAATGACAAAACC
1 TATCGATCCATAACAATATAACA-TGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACC
* * * *
30422 GATAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAA
65 GGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAA
* *
30487 TTTAAAAGAGAAGAAGTTACAGCGCCTATAAAGTGTCGATACTTTTAAAAAAA
130 TTTAAAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATACTTTTAAAAAAA
* *
30540 TATCGATCAATAACAATATAACATGTAAAAATATGATAAAACATGTATCAAAAATGACAAAACCG
1 TATCGATCCATAACAATATAACATGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCG
* * *
30605 GAAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTATGAAT
66 GTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAAT
* * * **
30670 TT-AAA-AG-AGAAGTTATAGCGCATAAAAAGTGTCGACACTTTATGAAAATG
131 TTAAAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATACTTT-TAAAAAAA
* * ** * *
30720 TATCGATCTATAACGATATAACA-GCTAAAAATATGATAAAACCGGTCTCAACAATGAAAAAACC
1 TATCGATCCATAACAATATAACATG-TAAAAATATGATAAAACATGTCTCAAAAATGACAAAACC
* * *
30784 GGTAAAACGATACTGGATATGTTGAAAGTGTCGATACTTTAATATAACTTTAATATAACTATAGA
65 GGTAAAACGATACCGGATATGTTGAAAGTGTCG----------ATAA-TTTAATATAAGTATCGA
* *
30849 CACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGATAC-TTTAAAAAAA
119 CACTTTAT-GAATTTAAAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATACTTTTAAAAAAA
* * * *
30912 TGT--ATCCATAACAATATAACATGTAAAAATATGATAAAACAAGTCTCAAAATTGACAAAACCA
1 TATCGATCCATAACAATATAACATGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCG
* *
30975 GTAAAACGCTACCGGGTATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAAT
66 GTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAAT
*
31040 TTAAAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATACTTTTAAAAAATG
131 TTAAAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATACTTTTAAAAAA-A
31093 TATCGATCCATAACAATATAACATGTAAAAATATGATAAAAC-TGGTCTC-AAAATGACAAAACC
1 TATCGATCCATAACAATATAACATGTAAAAATATGATAAAACAT-GTCTCAAAAATGACAAAACC
* * * *
31156 GGTAAAGCGTTACCGGATATGTTGAAAGTGTTGATACTTTAATA
65 GGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATA
31200 AGTACGCGTA
Statistics
Matches: 566, Mismatches: 68, Indels: 51
0.83 0.10 0.07
Matches are distributed among these distances:
179 95 0.17
180 107 0.19
181 43 0.08
182 126 0.22
183 42 0.07
190 84 0.15
191 28 0.05
192 10 0.02
193 4 0.01
194 27 0.05
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
TATCGATCCATAACAATATAACATGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCG
GTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAAT
TTAAAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATACTTTTAAAAAAA
Found at i:30835 original size:11 final size:11
Alignment explanation
Indices: 30819--30843 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30809 AAGTGTCGAT
30819 ACTTTAATATA
1 ACTTTAATATA
30830 ACTTTAATATA
1 ACTTTAATATA
30841 ACT
1 ACT
30844 ATAGACACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (11 bp):
ACTTTAATATA
Found at i:31114 original size:373 final size:370
Alignment explanation
Indices: 30352--31199 Score: 1188
Period size: 373 Copynumber: 2.3 Consensus size: 370
30342 GATACAAATG
* * * * *
30352 AAAAATGTATCGCTCCATAGCAATATTACA-CTTACAAATATGACAAAACCGGTCTCAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGC-TAAAAATATGATAAAACCGGTCTCAAAATGAC
* * *
30416 AAAACCGATAAAACGCTACCGGATATGTTGAAAGTGTCG----------ATAATTTAATATAAGT
65 AAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATACTTTAATATAATTTAATATAACT
* *
30471 ATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTACAGCGCCTATAAAGTGTCGATACTTTTAAA
130 ATAGAAACTTTCTGAATTTAAAAGAGAAGAAGTTACAGCGCCTATAAAGTATCGATACTTTTAAA
*
30536 AAAATATCGATCAATAACAATATAACATGTAAAAATATGATAAAACATGTATCAAAAATGACAAA
195 AAAATATC-ATCAATAACAATATAACATGTAAAAATATGATAAAACAAGTATCAAAAATGACAAA
*
30601 ACCGGAAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTAT
259 ACCAGAAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTAT
30666 GAATTTAAAAGAGAAGTTATAGCGCATAAAAAGTGTCGACACTTTAT
324 GAATTTAAAAGAGAAGTTATAGCGCATAAAAAGTGTCGACACTTTAT
* * * *
30713 GAAAATGTATCGATCTATAACGATATAACAGCTAAAAATATGATAAAACCGGTCTCAACAATGAA
1 AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGATAAAACCGGTCTCAA-AATGAC
*
30778 AAAACCGGTAAAACGATACTGGATATGTTGAAAGTGTCGATACTTTAATATAACTTTAATATAAC
65 AAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATACTTTAATATAA-TTTAATATAAC
* *
30843 TATAGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGATAC-TTTA
129 TATAGAAACTTTCT-GAATTTAAAAGAGAAGAAGTTACAGCGCCTATAAAGTATCGATACTTTTA
* * * *
30906 AAAAAATGT-ATCCATAACAATATAACATGTAAAAATATGATAAAACAAGTCTCAAAATTGACAA
193 AAAAAATATCATCAATAACAATATAACATGTAAAAATATGATAAAACAAGTATCAAAAATGACAA
* * * * *
30970 AACCAGTAAAACGCTACCGGGTATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTA
258 AACCAGAAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTA
* *
31035 TGAATTTAAAAGAGAAGAAGTTATAGCGCATATAAAGTGTCGATACTTT-T
323 TGAATTT-AAA-AG-AGAAGTTATAGCGCATAAAAAGTGTCGACACTTTAT
*
31085 AAAAAATGTATCGATCCATAACAATATAACATG-TAAAAATATGATAAAACTGGTCTCAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACA-GCTAAAAATATGATAAAACCGGTCTCAAAATGA
* * *
31149 CAAAACCGGTAAAGCGTTACCGGATATGTTGAAAGTGTTGATACTTTAATA
64 CAAAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATACTTTAATA
31200 AGTACGCGTA
Statistics
Matches: 429, Mismatches: 39, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
361 48 0.11
362 42 0.10
370 117 0.27
371 3 0.01
372 71 0.17
373 147 0.34
374 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (370 bp):
AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGATAAAACCGGTCTCAAAATGACA
AAACCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATACTTTAATATAATTTAATATAACTA
TAGAAACTTTCTGAATTTAAAAGAGAAGAAGTTACAGCGCCTATAAAGTATCGATACTTTTAAAA
AAATATCATCAATAACAATATAACATGTAAAAATATGATAAAACAAGTATCAAAAATGACAAAAC
CAGAAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGACACTTTATGA
ATTTAAAAGAGAAGTTATAGCGCATAAAAAGTGTCGACACTTTAT
Found at i:31607 original size:18 final size:19
Alignment explanation
Indices: 31584--31628 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
31574 TATTTAATAT
31584 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
31602 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
31621 TTTTAGGT
1 TTATAGGT
31629 TGTATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:32868 original size:22 final size:22
Alignment explanation
Indices: 32817--32872 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
32807 AATATTTTTG
*
32817 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
32840 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
32862 CTTTTATTATA
1 -TTTTATTATA
32873 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:33121 original size:9 final size:9
Alignment explanation
Indices: 33109--33160 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
33099 TCAAGGAGTT
33109 AGAGGAGGC
1 AGAGGAGGC
* *
33118 AGAGGAAGT
1 AGAGGAGGC
33127 AGAGGAGGC
1 AGAGGAGGC
* *
33136 AGAGGAAGT
1 AGAGGAGGC
*
33145 AGAAGAGGC
1 AGAGGAGGC
*
33154 AGTGGAG
1 AGAGGAG
33161 AAGGAAGAAG
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.50, T:0.06
Consensus pattern (9 bp):
AGAGGAGGC
Found at i:33129 original size:18 final size:18
Alignment explanation
Indices: 33108--33155 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
33098 GTCAAGGAGT
33108 TAGAGGAGGCAGAGGAAG
1 TAGAGGAGGCAGAGGAAG
33126 TAGAGGAGGCAGAGGAAG
1 TAGAGGAGGCAGAGGAAG
*
33144 TAGAAGAGGCAG
1 TAGAGGAGGCAG
33156 TGGAGAAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.48, T:0.06
Consensus pattern (18 bp):
TAGAGGAGGCAGAGGAAG
Found at i:33618 original size:22 final size:18
Alignment explanation
Indices: 33569--33607 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
33559 GAAAAAATTT
*
33569 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
33587 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
33605 GAA
1 GAA
33608 ATGAGGAGAA
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:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:34354 original size:21 final size:21
Alignment explanation
Indices: 34328--34369 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34318 CTAGAATGGG
*
34328 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
34349 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
34370 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:34543 original size:21 final size:20
Alignment explanation
Indices: 34498--34558 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 20
34488 ATCTATACTC
34498 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
*
34518 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
34538 GAGGGAATCTGTACCCCCTGG
1 G-GGGAATCTGTACCCCCTGG
34559 ACAATCTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.49
21 19 0.51
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:36190 original size:19 final size:19
Alignment explanation
Indices: 36166--36215 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
36156 AAATGCATGG
*
36166 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
36185 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
36204 ATAATTTTGTAT
1 TTAATTTTGTAT
36216 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:37193 original size:200 final size:199
Alignment explanation
Indices: 36561--37366 Score: 1369
Period size: 200 Copynumber: 4.0 Consensus size: 199
36551 GTACACTTAT
* * *
36561 GTGTCGATACAATTATAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
* * *
36626 GGTGAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAAACATGTGTCCAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAG-AAAACAGGTGTACAAAAAGT
* *
36691 ATCGACACAAATCAAACAAGTGTTGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
36756 AAAAA
195 AAAAA
* *
36761 GTGTCGATACATTTATAACAAGTGTTGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
* *
36826 GGTAAATTAGCAATATAACTGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
36891 TCGACACAAATCAAACAAGTGTTGATACTTTTGGTTCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
36956 AAAA
196 AAAA
* *
36960 GTGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
* * *
37025 GGTAAATTAGCAATATAACAGGTCTAAATATACCGATTTTTTTAGAAAACAGGTGTACAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCG-GTTTTTGAGAAAACAGGTGTACAAAAAGT
* *
37090 ATCAACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGTACT
130 ATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
37155 AAAAA
195 AAAAA
* *
37160 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
37225 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
37290 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATCTCAAAACCAAGTGTACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
37355 AAAA
196 AAAA
37359 GTGTCGAT
1 GTGTCGAT
37367 CCCAAAAATA
Statistics
Matches: 578, Mismatches: 27, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
199 285 0.49
200 293 0.51
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:37299 original size:399 final size:398
Alignment explanation
Indices: 36561--37982 Score: 2181
Period size: 399 Copynumber: 3.7 Consensus size: 398
36551 GTACACTTAT
* * *
36561 GTGTCGATACAATTATAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
* * *
36626 GGTGAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAAACATGTGTCCAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAG-AAAACATGTGTACAAAAAGT
* *
36691 ATCGACACAAATCAAACAAGTGTTGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
* *
36756 AAAAAGTGTCGATACATTTATAACAAGTGTTGATCCCAAAAACATCGAAAACCATAATTATAATG
195 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
*
36821 TAATAGGTAAATTAGCAATATAACTGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAA
260 TAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAA
* *
36886 AAGTATCGACACAAATCAAACAAGTGTTGATACTTTTGGTTCAGAATGTATTTCAAAACCAAGTG
325 AAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
36951 CACTAAAAA
390 CACTAAAAA
* *
36960 GTGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
* * * *
37025 GGTAAATTAGCAATATAACAGGTCTAAATATACCGATTTTTTTAGAAAACAGGTGTACAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACC-AGTTTTTGAGAAAACATGTGTACAAAAAGT
* *
37090 ATCAACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGTACT
130 ATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
* *
37155 AAAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATGATAATG
195 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
*
37220 TAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
260 TAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAA
*
37285 AAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATCTC--AA--AA---
325 AAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
37343 C-C----AA
390 CACTAAAAA
* *
37347 --GT-G-TAC---TA-AA-AAGTGTCGATCCCAAAAATATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
* * *
37403 TGTAAATTAGCAATATAACCGGTCTAAATATATCAGTTTTTGAGAAAACATGTTTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
37468 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTC--AA--AA---C-C--
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
37523 --AAGTG-C---AC---TA-AA-AAGTGTCGATCCCAAAAACATCGAAACCCATAATAATAATGT
196 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
*
37577 AATAGGTAAATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAA
261 AATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAA
37642 AGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
326 AGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
37707 ACTAAAAA
391 ACTAAAAA
* *
37715 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAACCCATAATGATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
* *
37780 GGTAAATTAGCAATATAATCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAACTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
37845 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
* * *
37910 AAAAGTGTTGATGCATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGT
196 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
37975 AATAGGTA
261 AATAGGTA
37983 GCAATGTAAC
Statistics
Matches: 924, Mismatches: 56, Indels: 87
0.87 0.05 0.08
Matches are distributed among these distances:
356 155 0.17
357 2 0.00
358 4 0.00
360 2 0.00
361 2 0.00
363 1 0.00
364 2 0.00
365 5 0.01
368 2 0.00
369 1 0.00
370 2 0.00
371 1 0.00
372 3 0.00
373 2 0.00
375 4 0.00
376 2 0.00
377 226 0.24
378 73 0.08
379 4 0.00
380 2 0.00
381 2 0.00
383 3 0.00
384 2 0.00
385 3 0.00
387 2 0.00
389 5 0.01
391 1 0.00
392 1 0.00
393 1 0.00
395 2 0.00
396 2 0.00
397 4 0.00
398 48 0.05
399 346 0.37
400 7 0.01
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (398 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATGATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
AATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAA
AGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
ACTAAAAA
Found at i:37483 original size:178 final size:178
Alignment explanation
Indices: 37179--37917 Score: 1082
Period size: 178 Copynumber: 4.0 Consensus size: 178
37169 CATTTATAAC
*
37179 AAGTATCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATAGGTAAATTAGCAATATAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATAGGTAAATTAGCAATATAAC
* *
37244 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATCAAACAAG
66 CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATCAAACAAG
* *
37309 TGTCGATACTTTTGGTCCAGAATGTATCTCAAAACCAAGTGTACTAAA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
* * * *
37357 AAGTGTCGATCCCAAAAATATCGAAAACCATAATTATAATGTAATATGTAAATTAGCAATATAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATAGGTAAATTAGCAATATAAC
* *
37422 CGGTCTAAATATATCAGTTTTTGAGAAAACATGTTTACAAAAAGTATCGACACAAATCAAACAAG
66 CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATCAAACAAG
37487 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
* *
37535 AAGTGTCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAAATTAGCAATATAAA
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATAGGTAAATTAGCAATATAAC
*
37600 CGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATCAAACAAG
66 CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATCAAACAAG
37665 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
** * ** **
37713 AAGTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAACCCATAATGATAATGTAA
1 AAGTGTCGAT-C--CCA-AA-AA----C-ATC-GAAACCCAT---AA-TGATAATG-T-A----A
* *
37778 TAGGTAAATTAGCAATATAATCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAC
45 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAG
37843 TATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC
110 TATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC
37908 TAAA
175 TAAA
37912 AAGTGT
1 AAGTGT
37918 TGATGCATTT
Statistics
Matches: 511, Mismatches: 29, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
178 347 0.68
179 1 0.00
181 1 0.00
182 2 0.00
183 2 0.00
187 1 0.00
188 3 0.01
189 6 0.01
192 2 0.00
193 6 0.01
194 1 0.00
195 1 0.00
199 138 0.27
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (178 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCATAATGATAATGTAATAGGTAAATTAGCAATATAAC
CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATCAAACAAG
TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
Found at i:37875 original size:199 final size:199
Alignment explanation
Indices: 37535--37982 Score: 815
Period size: 199 Copynumber: 2.3 Consensus size: 199
37525 GTGCACTAAA
37535 AAGTGTCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAAATTAGCAATATAAA
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAAATTAGCAATATAAA
* *
37600 CGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATCAAACAAG
66 CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAACTATCGACACAAATCAAACAAG
37665 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTA
37730 TAAC
196 TAAC
* * *
37734 AAGTGTCGATCTCAAAAACATCGAAACCCATAATGATAATGTAATAGGTAAATTAGCAATATAAT
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAAATTAGCAATATAAA
37799 CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAACTATCGACACAAATCAAACAAG
66 CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAACTATCGACACAAATCAAACAAG
* *
37864 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTTGATGCATTTA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTA
37929 TAAC
196 TAAC
* *
37933 AAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTA
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTA
37983 GCAATGTAAC
Statistics
Matches: 239, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
199 239 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (199 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAAATTAGCAATATAAA
CGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAACTATCGACACAAATCAAACAAG
TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTA
TAAC
Found at i:38380 original size:15 final size:15
Alignment explanation
Indices: 38360--38401 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
38350 TTTCTCAAAT
38360 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
38375 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
*
38390 CTCTTCTTAACC
1 CTCTTCTCAACC
38402 ATAACCTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:39588 original size:3 final size:3
Alignment explanation
Indices: 39563--39627 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
39553 CAAGCGGTCA
* * * * *
39563 ATG AAG ATG ACG ATG AAG ATG ATG ATA ATG ATG ATG ATG ATG ATA ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
39611 ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG AT
39628 CCAAACAAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:41356 original size:201 final size:201
Alignment explanation
Indices: 41011--42166 Score: 1890
Period size: 201 Copynumber: 5.8 Consensus size: 201
41001 TACATTTTTC
** *
41011 AAATATACCGGTTTTTGAGAAAACATATGTACAAAAAGTATCGACACAAATTAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
* *
41076 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCATAACAAAGTATCGATACATTTAAAAC
66 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* *
41141 AAATGTCGATCCCGAAAACATCGAAAAACATAATTATAACGTAATAGGTAAATTATTAATGTAAC
131 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
41206 CGGTCT
196 CGGTCT
41212 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
*
41277 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACATTTAAAAC
66 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
41342 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
131 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
41407 CGGTCT
196 CGGTCT
* * *
41413 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAAGTATCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
41478 ATACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAA
66 ATACATCTTGTCCAGATTGTA-TTTT-AAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAA
*
41543 ACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTA
129 ACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTA
41608 ACCGGTCT
194 ACCGGTCT
41616 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
*
41681 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACATTTAAAAC
66 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
41746 AAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
131 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
41811 CGGTCT
196 CGGTCT
* * *
41817 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAAT-AAAAAAAGTATCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
41881 ATACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAAGTGTCGAT-C-------
66 ATACATCTTGTCCAGATTGTA-TTTT-AAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAA
*
41938 -C------CGA-----AAACA-T-CGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
129 ACAAGTGTCGATCCCGAAA-ACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
41989 AACCGGTCT
193 AACCGGTCT
* * *
41998 AAATATACCTGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACAGAAATAAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
* *
42063 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTTGATACATTTATAAC
66 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
42128 AAGTATCGATCCCGAAAACATCGAAAAACATAATTATAA
131 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
42167 CTAAATGTCT
Statistics
Matches: 897, Mismatches: 30, Indels: 56
0.91 0.03 0.06
Matches are distributed among these distances:
180 28 0.03
181 103 0.11
182 36 0.04
183 1 0.00
187 3 0.00
189 1 0.00
193 1 0.00
195 3 0.00
199 1 0.00
200 36 0.04
201 456 0.51
202 36 0.04
203 192 0.21
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (201 bp):
AAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
CGGTCT
Found at i:41758 original size:404 final size:402
Alignment explanation
Indices: 41011--42166 Score: 1987
Period size: 404 Copynumber: 2.9 Consensus size: 402
41001 TACATTTTTC
* ** * *
41011 AAATATACCGGTTTTTGAGAAAACATATGTACAAAAAGTATCGACACAAATTAAAAAAAGTGTCG
1 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAA-TAAAAAAAGTATCG
*
41076 ATACATCTTGTCCAGATTGTA-TTTT-AAAAACCAAGTGCATAACAAAGTATCGATACATTTAAA
65 ATACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAAGT-TCGATACATTTAAA
*
41139 ACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAACGTAATAGGTAAATTATTAATGTA
129 ACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTA
41204 ACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAA
194 ACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAA
41269 AAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACA
259 AAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACA
41334 TTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATT
324 TTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATT
41399 AATGTAACCGGTCT
389 AATGTAACCGGTCT
41413 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAAGTATCG
1 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAAT-AAAAAAAGTATCG
41478 ATACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAA
65 ATACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAAGT-TCGATACATTTAAA
41543 ACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTA
129 ACAAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTA
41608 ACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAA
194 ACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAA
41673 AAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACA
259 AAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACA
*
41738 TTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATT
324 TTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATT
41803 AATGTAACCGGTCT
389 AATGTAACCGGTCT
41817 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAGTATCGA
1 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAGTATCGA
41882 TACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAA----G-------------
66 TACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAAGTTCGATACATTTAAAAC
41930 ---TGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
131 AAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * *
41992 CGGTCTAAATATACCTGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACAGAAATAAAAAAAA
196 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAA
* *
42057 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTTGATACATT
261 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACATT
* *
42122 TATAACAAGTATCGATCCCGAAAACATCGAAAAACATAATTATAA
326 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
42167 CTAAATGTCT
Statistics
Matches: 734, Mismatches: 17, Indels: 26
0.94 0.02 0.03
Matches are distributed among these distances:
382 229 0.31
398 1 0.00
401 1 0.00
402 79 0.11
403 65 0.09
404 359 0.49
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (402 bp):
AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAGTATCGA
TACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACAAAGTTCGATACATTTAAAAC
AAATGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAA
GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAAAAAGTGTCGATACATT
TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
TGTAACCGGTCT
Found at i:41962 original size:181 final size:180
Alignment explanation
Indices: 41746--42112 Score: 664
Period size: 181 Copynumber: 2.0 Consensus size: 180
41736 CATTTAAAAC
*
41746 AAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
41811 CGGTCTAAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACAGAAAT-AAAAAAA
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAA
*
41875 GTATCGATACATCTTGTCCAGATTGTATTTTTAAAAAACCAAGTGCACAACA
131 GTGTCGATACATCTTGTCCAGATTGTA-TTTT-AAAAACCAAGTGCACAACA
41927 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
1 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* *
41992 CGGTCTAAATATACCTGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACAGAAATAAAAAAAA
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAA
42057 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACA
131 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACA
42107 AAGTGT
1 AAGTGT
42113 TGATACATTT
Statistics
Matches: 180, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
180 25 0.14
181 122 0.68
182 33 0.18
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (180 bp):
AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACAGAAATAAAAAAAA
GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACA
Found at i:45223 original size:64 final size:64
Alignment explanation
Indices: 45144--45327 Score: 332
Period size: 64 Copynumber: 2.9 Consensus size: 64
45134 TACATATTAC
45144 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCCTATTTT
1 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCCTATTTT
**
45208 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTATGGTTAAATGCCTATTTT
1 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCCTATTTT
* *
45272 ATTATATAAGCGCTACTTAATATGTTATTGTGCTTGATAATATTTCCGGTTAAATG
1 ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATG
45328 ATATAACATA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 114 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (64 bp):
ATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCCTATTTT
Found at i:53089 original size:24 final size:24
Alignment explanation
Indices: 52933--53075 Score: 198
Period size: 24 Copynumber: 6.0 Consensus size: 24
52923 TTTCGATTGA
*
52933 ATTCTGATATGATACTTGACATGA
1 ATTCTGATATGATACTTGACATGG
* *
52957 ATTTTGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* *
52981 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
*
53005 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
*
53029 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
53053 ATTTTGATATGATACTTGACATG
1 ATTCTGATATGATACTTGACATG
53076 AATTATGTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
23 1 0.01
24 106 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:53252 original size:43 final size:43
Alignment explanation
Indices: 53191--53285 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
53181 GGGCCTTACT
* *
53191 TGGTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTCGGAAACCTACACATTA
53234 TGGTGTGTTGGTGGGTGTATGGTTCTCGGAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTCTCGGAAACCTACACATTA
53277 TGGTGTGTT
1 TGGTGTGTT
53286 CGGTTGGAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGGTTCTCGGAAACCTACACATTA
Found at i:55336 original size:13 final size:13
Alignment explanation
Indices: 55318--55343 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55308 ACAGTTCATT
55318 TTAAAATTTAAAA
1 TTAAAATTTAAAA
55331 TTAAAATTTAAAA
1 TTAAAATTTAAAA
55344 ATTTTCATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAATTTAAAA
Found at i:55955 original size:12 final size:12
Alignment explanation
Indices: 55938--55965 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
55928 TTTACCCAAA
55938 TCTTATTCTTCT
1 TCTTATTCTTCT
55950 TCTTATTCTTCT
1 TCTTATTCTTCT
55962 TCTT
1 TCTT
55966 CGTCAGTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.68
Consensus pattern (12 bp):
TCTTATTCTTCT
Found at i:57031 original size:18 final size:17
Alignment explanation
Indices: 56977--57079 Score: 118
Period size: 18 Copynumber: 5.9 Consensus size: 17
56967 GCGTAGAATT
*
56977 TGTCCCGTAGACCACTA
1 TGTCCCGAAGACCACTA
*
56994 TGT-CCGAAGACCACTG
1 TGTCCCGAAGACCACTA
*
57010 TGTCCCGAAGGACCATTA
1 TGTCCCGAA-GACCACTA
57028 TGTCCCGAAGGACCACTA
1 TGTCCCGAA-GACCACTA
*
57046 TGTCCCGAATGACCATTA
1 TGTCCCGAA-GACCACTA
*
57064 TGTCCCAAAAGACCAC
1 TGTCCC-GAAGACCAC
57080 GTAGACCCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
16 14 0.19
17 8 0.11
18 50 0.68
19 2 0.03
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.20
Consensus pattern (17 bp):
TGTCCCGAAGACCACTA
Found at i:57078 original size:54 final size:51
Alignment explanation
Indices: 56977--57078 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 51
56967 GCGTAGAATT
* * * *
56977 TGTCCCGTAGACCACTATGTCCGAAGACCACTGTGTCCCGAAGGACCATTA
1 TGTCCCGAAGACCACTATGTCCGAAGACCACTATGTCCCAAAAGACCATTA
*
57028 TGTCCCGAAGGACCACTATGTCCCGAATGACCATTATGTCCCAAAAGACCA
1 TGTCCCGAA-GACCACTATGT-CCGAA-GACCACTATGTCCCAAAAGACCA
57079 CGTAGACCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 8 0.19
52 11 0.26
53 5 0.12
54 19 0.44
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (51 bp):
TGTCCCGAAGACCACTATGTCCGAAGACCACTATGTCCCAAAAGACCATTA
Found at i:57555 original size:48 final size:48
Alignment explanation
Indices: 57497--57604 Score: 198
Period size: 48 Copynumber: 2.2 Consensus size: 48
57487 TATCATACAT
* *
57497 ATATTCATTTATATAGTTCACACATAAAGATACATTCAACAATTAGAC
1 ATATGCATTTACATAGTTCACACATAAAGATACATTCAACAATTAGAC
57545 ATATGCATTTACATAGTTCACACATAAAGATACATTCAACAATTAGAC
1 ATATGCATTTACATAGTTCACACATAAAGATACATTCAACAATTAGAC
57593 ATATGCATTTAC
1 ATATGCATTTAC
57605 TCATATAGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (48 bp):
ATATGCATTTACATAGTTCACACATAAAGATACATTCAACAATTAGAC
Found at i:60709 original size:43 final size:43
Alignment explanation
Indices: 60648--60739 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
60638 CACCTCTTCT
*
60648 TTAATGATATATAATAGTGTTAAACTCATTTTGTAACAAAATC
1 TTAATGATAAATAATAGTGTTAAACTCATTTTGTAACAAAATC
*
60691 TTAATGATAAATAATAGTGTTAAACTCATTTTGTAATAAAATC
1 TTAATGATAAATAATAGTGTTAAACTCATTTTGTAACAAAATC
60734 TATAAT
1 T-TAAT
60740 TTAAGGCCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 42 0.91
44 4 0.09
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (43 bp):
TTAATGATAAATAATAGTGTTAAACTCATTTTGTAACAAAATC
Done.