Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006132.1 Hibiscus syriacus cultivar Beakdansim tig00014542_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: 117705
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:8311 original size:19 final size:19
Alignment explanation
Indices: 8287--8326 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8277 GCTGCCAAGA
8287 ACGCCATTAAAATAAGCAT
1 ACGCCATTAAAATAAGCAT
8306 ACGCCATTAAAATAAGCAT
1 ACGCCATTAAAATAAGCAT
8325 AC
1 AC
8327 TAGACAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.23, G:0.10, T:0.20
Consensus pattern (19 bp):
ACGCCATTAAAATAAGCAT
Found at i:8984 original size:17 final size:17
Alignment explanation
Indices: 8964--8998 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8954 TTTCGACTAT
8964 TAAATTT-TTAAATATTA
1 TAAATTTATTAAAT-TTA
8981 TAAATTTATTAAATTTA
1 TAAATTTATTAAATTTA
8998 T
1 T
8999 CGATATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTTATTAAATTTA
Found at i:8993 original size:9 final size:9
Alignment explanation
Indices: 8961--8998 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
8951 TTATTTCGAC
8961 TATTAAATT
1 TATTAAATT
8970 T-TTAAATAT
1 TATTAAAT-T
8979 TA-TAAATT
1 TATTAAATT
8987 TATTAAATT
1 TATTAAATT
8996 TAT
1 TAT
8999 CGATATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 9 0.35
9 17 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTAAATT
Found at i:10212 original size:21 final size:21
Alignment explanation
Indices: 10175--10214 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10165 TAAATTTAAA
*
10175 TTTAATGAATATTTTATAATT
1 TTTAATGAATATATTATAATT
10196 TTTAAT-AATATAATTATAA
1 TTTAATGAATAT-ATTATAA
10215 AAATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTAATGAATATATTATAATT
Found at i:10363 original size:6 final size:6
Alignment explanation
Indices: 10354--10426 Score: 128
Period size: 6 Copynumber: 12.2 Consensus size: 6
10344 CCATCTTGGT
*
10354 CTAGCC CTAGCC CTAGCC CTAGCC CTAGCC CTAACC CTAGCC CTAGCC
1 CTAGCC CTAGCC CTAGCC CTAGCC CTAGCC CTAGCC CTAGCC CTAGCC
*
10402 CTAGCC CTAGCC CTAACC CTAGCC C
1 CTAGCC CTAGCC CTAGCC CTAGCC C
10427 CTATGTTATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.19, C:0.51, G:0.14, T:0.16
Consensus pattern (6 bp):
CTAGCC
Found at i:22537 original size:21 final size:19
Alignment explanation
Indices: 22503--22546 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
22493 TGAGTTTTAA
22503 TTATTATTATTATTAATTG
1 TTATTATTATTATTAATTG
*
22522 TTATTAATTAATTATTATTTG
1 TTATT-ATT-ATTATTAATTG
22543 TTAT
1 TTAT
22547 GGATAGATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 14 0.64
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTATTATTATTATTAATTG
Found at i:25237 original size:12 final size:12
Alignment explanation
Indices: 25220--25252 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
25210 TTAAAAAAAA
25220 TGGTTATGACAC
1 TGGTTATGACAC
25232 TGGTTATGACAC
1 TGGTTATGACAC
25244 TGGTTATGA
1 TGGTTATGA
25253 AGGGGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (12 bp):
TGGTTATGACAC
Found at i:27403 original size:20 final size:20
Alignment explanation
Indices: 27380--27433 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
27370 GACCAACAAA
27380 TTCGCAAAGCGAATTCCAAT
1 TTCGCAAAGCGAATTCCAAT
* * *
27400 TTCGC-AACCCAGTTTCCAAT
1 TTCGCAAAGCGA-ATTCCAAT
*
27420 TTCGCAACGCGAAT
1 TTCGCAAAGCGAAT
27434 ATGTAAATCG
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
19 4 0.16
20 18 0.72
21 3 0.12
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAAAGCGAATTCCAAT
Found at i:27465 original size:21 final size:21
Alignment explanation
Indices: 27441--27484 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
27431 AATATGTAAA
* *
27441 TCGCATTGCGTTTTTCCAAAT
1 TCGCATTGCGATATTCCAAAT
*
27462 TCGCGTTGCGATATTCCAAAT
1 TCGCATTGCGATATTCCAAAT
27483 TC
1 TC
27485 ACAACGCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATATTCCAAAT
Found at i:28278 original size:12 final size:12
Alignment explanation
Indices: 28257--28290 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
28247 ACCACATTTC
*
28257 CAATACCAAACA
1 CAATATCAAACA
28269 CAATATCAAACA
1 CAATATCAAACA
*
28281 CAATCTCAAA
1 CAATATCAAA
28291 ACTCACAACC
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:28443 original size:24 final size:24
Alignment explanation
Indices: 28416--28493 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
28406 GTATTCGAAA
28416 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
*
28440 TTTGATCTTGGTCAATACCTGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
28464 TTTGATCTTGGACAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
28488 TTTGAT
1 TTTGAT
28494 GATGTGATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:28677 original size:3 final size:3
Alignment explanation
Indices: 28669--28707 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
28659 TATAACCCTA
*
28669 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
28708 TCCCCGAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:30794 original size:18 final size:18
Alignment explanation
Indices: 30771--30810 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30761 AGCAAAAGGA
* *
30771 AATCAAAATCGCAATCGC
1 AATCAAAATCCCAATCAC
30789 AATCAAAATCCCAATCAC
1 AATCAAAATCCCAATCAC
30807 AATC
1 AATC
30811 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.30, G:0.05, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAC
Found at i:31153 original size:20 final size:21
Alignment explanation
Indices: 31130--31186 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
31120 ATAAGCGTTA
*
31130 CGAATTTGACTATT-GCGTAG
1 CGAATTTGACTATTCGCATAG
*
31150 CGAATTTGACT-TTCGCATTG
1 CGAATTTGACTATTCGCATAG
31170 CGAATTTGACTA-TCGCA
1 CGAATTTGACTATTCGCA
31187 ACTTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (21 bp):
CGAATTTGACTATTCGCATAG
Found at i:31314 original size:25 final size:25
Alignment explanation
Indices: 31276--31325 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
31266 AAATCAATTA
*
31276 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
31301 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
31326 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:32050 original size:39 final size:39
Alignment explanation
Indices: 32007--32093 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
31997 TCCGATGCTC
32007 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
* *
32046 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
32085 ATCAAAATC
1 ATCAAAATC
32094 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGAAA
Found at i:32565 original size:61 final size:63
Alignment explanation
Indices: 32431--32571 Score: 160
Period size: 61 Copynumber: 2.2 Consensus size: 63
32421 TTTTATAAAC
* *
32431 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATAAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATT
32496 A
63 A
* * * ** * *
32497 AATAAATCAACTTTTACAAATAAATT-AATC-AAAAAATAAATCTTATTTCCTCATCAATTTT
1 AACAAATCAACTTTTACAAATAAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
32558 AACAAATCAACTTT
1 AACAAATCAACTTT
32572 CAATGTAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
61 38 0.58
62 3 0.05
66 24 0.37
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.33
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATAAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:33960 original size:21 final size:21
Alignment explanation
Indices: 33936--34031 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
33926 GGCGGGACCA
* *
33936 CTTGAACGATGACAGGGGCCT
1 CTTGAATGATGAGAGGGGCCT
* * *
33957 CTTGAATGGTGTGAGGGGCTT
1 CTTGAATGATGAGAGGGGCCT
*
33978 CTTCG-ATGATGATAGGGGCCT
1 CTT-GAATGATGAGAGGGGCCT
* *
33999 CTTGAACGAT-AGGAGGCGCCT
1 CTTGAATGATGA-GAGGGGCCT
34020 CTTGAATGATGA
1 CTTGAATGATGA
34032 TAGGTGCATC
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 54 0.93
22 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (21 bp):
CTTGAATGATGAGAGGGGCCT
Found at i:34029 original size:42 final size:42
Alignment explanation
Indices: 33936--34035 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
33926 GGCGGGACCA
* * * * * *
33936 CTTGAACGATGACAGGGGCCTCTTGAATGGTGTGAGGGGCTT
1 CTTGAATGATGATAGGGGCCTCTTGAACGATGTGAGGCGCCT
33978 CTTCG-ATGATGATAGGGGCCTCTTGAACGATAG-GAGGCGCCT
1 CTT-GAATGATGATAGGGGCCTCTTGAACGAT-GTGAGGCGCCT
34020 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
34036 TGCATCGGGC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 46 0.94
43 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGATAGGGGCCTCTTGAACGATGTGAGGCGCCT
Found at i:34211 original size:4 final size:4
Alignment explanation
Indices: 34175--34225 Score: 57
Period size: 4 Copynumber: 12.5 Consensus size: 4
34165 GGGCCACTGA
* * * *
34175 AAAT AAAT TAAT ATAT AAAT CAGT AAAT AAAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT
34224 AA
1 AA
34226 TGCCGAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
4 34 0.89
5 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:34211 original size:17 final size:17
Alignment explanation
Indices: 34175--34222 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
34165 GGGCCACTGA
* *
34175 AAATAAATTAAT-ATAT
1 AAATAAATAAATAAAAT
* *
34191 AAATCAGTAAATAAAAT
1 AAATAAATAAATAAAAT
34208 AAATAAATAAATAAA
1 AAATAAATAAATAAA
34223 TAATGCCGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAAATAAATAAAAT
Found at i:34213 original size:21 final size:21
Alignment explanation
Indices: 34175--34225 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
34165 GGGCCACTGA
* *
34175 AAATAAAT-TAATATATAAAT
1 AAATAAATAAAATAAATAAAT
* *
34195 CAGTAAATAAAATAAATAAAT
1 AAATAAATAAAATAAATAAAT
34216 AAATAAATAA
1 AAATAAATAA
34226 TGCCGAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAAATAAAATAAATAAAT
Found at i:36264 original size:20 final size:20
Alignment explanation
Indices: 36230--36297 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
36220 AAAATCGCAA
*
36230 TGCGA-TTTTAGTTTCGCGT
1 TGCGATTTTTATTTTCGCGT
36249 TGCGATTTTTATTTTCGCGT
1 TGCGATTTTTATTTTCGCGT
36269 TGCGATTTTTATTTTCGCGT
1 TGCGATTTTTATTTTCGCGT
*
36289 TGCAATTTT
1 TGCGATTTT
36298 GGTGTTGCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 5 0.11
20 41 0.89
ACGTcount: A:0.12, C:0.15, G:0.21, T:0.53
Consensus pattern (20 bp):
TGCGATTTTTATTTTCGCGT
Found at i:36584 original size:22 final size:22
Alignment explanation
Indices: 36558--36626 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
36548 GAGATAGACA
36558 GATTTCGTCAGAGATGGGGACG
1 GATTTCGTCAGAGATGGGGACG
*
36580 GATTTCGTCAGAGATGGGGATG
1 GATTTCGTCAGAGATGGGGACG
36602 GATTTCGTCAGAGATGGGGACG
1 GATTTCGTCAGAGATGGGGACG
36624 GAT
1 GAT
36627 GTCGCCGTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.23, C:0.12, G:0.41, T:0.25
Consensus pattern (22 bp):
GATTTCGTCAGAGATGGGGACG
Found at i:36779 original size:20 final size:20
Alignment explanation
Indices: 36754--36802 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
36744 GCGTAAAAAC
36754 ATTTGACTTTCGCGTTACGA
1 ATTTGACTTTCGCGTTACGA
* *
36774 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTACGA
36794 ATTTGACTT
1 ATTTGACTT
36803 CTGTGTTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTACGA
Found at i:36870 original size:20 final size:19
Alignment explanation
Indices: 36823--36874 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
36813 ATTTACAAAT
36823 TCGCGTTGCGAAATTGGAA
1 TCGCGTTGCGAAATTGGAA
* *
36842 ACTGGGTTGCGAAATTGGAGA
1 TC-GCGTTGCGAAATTGGA-A
36863 TCGCGTTGCGAA
1 TCGCGTTGCGAA
36875 TTTGTTGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.89
21 2 0.07
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (19 bp):
TCGCGTTGCGAAATTGGAA
Found at i:47665 original size:21 final size:21
Alignment explanation
Indices: 47647--47716 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
47637 TTTATTATTT
*
47647 TTATTGTTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
47668 TTATTATTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
*
47689 TTATTATTATAATTATTACT-A
1 TTATTATTATAATTGTTA-TAA
47710 TTATTAT
1 TTATTAT
47717 ATTTTTATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (21 bp):
TTATTATTATAATTGTTATAA
Found at i:47679 original size:12 final size:12
Alignment explanation
Indices: 47662--47716 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
47652 GTTATAATTG
47662 TTATAATTATTA
1 TTATAATTATTA
*
47674 TTAT-A--ATTG
1 TTATAATTATTA
47683 TTATAATTATTA
1 TTATAATTATTA
47695 TTATAATTATTA
1 TTATAATTATTA
* *
47707 CTATTATTAT
1 TTATAATTAT
47717 ATTTTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.19
10 1 0.03
11 1 0.03
12 27 0.75
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (12 bp):
TTATAATTATTA
Found at i:47706 original size:30 final size:29
Alignment explanation
Indices: 47632--47737 Score: 92
Period size: 30 Copynumber: 3.7 Consensus size: 29
47622 TTTGCCCGTT
* *
47632 TTATTTTTATTATT-TT-TATTGTTATAA
1 TTATTATTATAATTATTATATTGTTATAA
* * *
47659 TTGTTATAATTATTATTATAATTGTTATAA
1 TTATTATTATAATTATTAT-ATTGTTATAA
*
47689 TTATTATTATAATTATTACTATTATTAT-A
1 TTATTATTATAATTATTA-TATTGTTATAA
* *
47718 TTTTTATTAATAAATATTAT
1 TTATTATT-ATAATTATTAT
47738 TATTACATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
27 11 0.17
28 2 0.03
29 10 0.15
30 41 0.63
31 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (29 bp):
TTATTATTATAATTATTATATTGTTATAA
Found at i:49202 original size:16 final size:16
Alignment explanation
Indices: 49181--49211 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49171 TTTTACTTTC
*
49181 ATATATTTATGATTAT
1 ATATATTTATCATTAT
49197 ATATATTTATCATTA
1 ATATATTTATCATTA
49212 GTATTACTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
ATATATTTATCATTAT
Found at i:49590 original size:11 final size:13
Alignment explanation
Indices: 49553--49592 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
49543 TGTTTAATAA
49553 AATATA-TATATT
1 AATATATTATATT
*
49565 AATATATTATCTT
1 AATATATTATATT
49578 AA-A-ATTATATT
1 AATATATTATATT
49589 AATA
1 AATA
49593 AACTTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATATTATATT
Found at i:50014 original size:6 final size:7
Alignment explanation
Indices: 49993--50017 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49983 TGTCTCTATT
49993 AATTAAA
1 AATTAAA
50000 AATTAAA
1 AATTAAA
50007 AATTAAA
1 AATTAAA
50014 AATT
1 AATT
50018 CATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:52372 original size:8 final size:7
Alignment explanation
Indices: 52348--52389 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
52338 TTTTCATACA
52348 TGCA-TT
1 TGCATTT
52354 TGCATTT
1 TGCATTT
52361 TGCATCTT
1 TGCAT-TT
52369 TGCATTT
1 TGCATTT
* *
52376 TTCATTG
1 TGCATTT
52383 TGCATTT
1 TGCATTT
52390 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:52372 original size:15 final size:14
Alignment explanation
Indices: 52348--52389 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
52338 TTTTCATACA
52348 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
52361 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
52376 TTCATTGTGCATTT
1 TGCATTTTGCATTT
52390 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:52485 original size:27 final size:27
Alignment explanation
Indices: 52449--52508 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
52439 TATTCACATA
52449 TTTACATTTGTATTTACATTTTCATTT
1 TTTACATTTGTATTTACATTTTCATTT
*
52476 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGTATTTACATTTTCATTT
52502 TTTACAT
1 TTTACAT
52509 AATTACATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTACATTTGTATTTACATTTTCATTT
Found at i:57311 original size:22 final size:22
Alignment explanation
Indices: 57286--57408 Score: 183
Period size: 22 Copynumber: 5.6 Consensus size: 22
57276 ACATCTACAT
*
57286 TCTTCAAAGATGATAGATTTTC
1 TCTTCAAAGATGATAGATTCTC
57308 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
57330 TTTTCAAATATGATAGATTTTC
1 TCTTCAAAGATGATAGATTCTC
57352 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
57374 TTTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
57396 TTTTCAAAGATGA
1 TCTTCAAAGATGA
57409 AATCTTTATT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 91 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:57343 original size:44 final size:44
Alignment explanation
Indices: 57288--57408 Score: 206
Period size: 44 Copynumber: 2.8 Consensus size: 44
57278 ATCTACATTC
57288 TTCAAAGATGATAGATTTTCTCTTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTTTCTCTTCAAAGATGATAGATTCTCTT
*
57332 TTCAAATATGATAGATTTTCTCTTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTTTCTCTTCAAAGATGATAGATTCTCTT
* * *
57376 TTTAAAGATGATAGATTCTCTTTTCAAAGATGA
1 TTCAAAGATGATAGATTTTCTCTTCAAAGATGA
57409 AATCTTTATT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (44 bp):
TTCAAAGATGATAGATTTTCTCTTCAAAGATGATAGATTCTCTT
Found at i:58209 original size:76 final size:76
Alignment explanation
Indices: 58083--58260 Score: 275
Period size: 76 Copynumber: 2.3 Consensus size: 76
58073 TTCTCACATC
* *
58083 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACC
*
58148 TTAGGGTCATA
66 TTAGGGTCAGA
*
58159 TGTAAGTACTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACC
* *
58224 TTCGGGTCAGC
66 TTAGGGTCAGA
* * *
58235 TGTAAGCCCTACAGCGCATAATGTTT
1 TGTAAGTCCTACAGTGCATGATGTTT
58261 TTTTTCTTAA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 92 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (76 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACC
TTAGGGTCAGA
Found at i:58501 original size:113 final size:112
Alignment explanation
Indices: 58284--59164 Score: 839
Period size: 113 Copynumber: 7.7 Consensus size: 112
58274 ATTTCCAGGT
*
58284 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * *
58349 TCAACTTTTTTCTTGAATTCATCATTCGATGGATCAACATTTCTAGA
66 TCAACTTTTTACTTAAATTCATCACTCGATGGATCAACATTGCCAGA
* *
58396 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATTAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * *
58461 TCAAACTTTTTTCTTAAATTCATCATTCGATGGATCAACATTGCCAGGT
66 TC-AACTTTTTACTTAAATTCATCACTCGATGGATCAACATTGCCA-GA
* * *
58510 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * *
58575 TCAACCTTTTACTCAAATTCATCACTCGGTGGATCAGCAATGCCAGGT
66 TCAACTTTTTACTTAAATTCATCACTCGATGGATCAACATTGCCA-GA
* * *
58623 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTTT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * * *
58688 TTAACCTTTTGCTTTAATTCATCACTCGATGGATTATCATTGCCAGTT
66 TCAACTTTTTACTTAAATTCATCACTCGATGGATCAACATTGCCAG-A
* *
58736 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* ** * * * * * *
58801 TCAACCTTTCGCTTTAATTCATCACTCGATGAATTAGCTTTTCCAGA
66 TCAACTTTTTACTTAAATTCATCACTCGATGGATCAACATTGCCAGA
* *
58848 GAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 -AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* *** * * *
58912 TTCAACCTTTGTATGACTCT--A-TCATAGAAAGAGATAGATCAACACTAACTTTTCTAGA
65 TTCAA-CTTT-T-T-ACT-TAAATTCAT--CACTCGATGGATC-A-AC--A--TTGCCAGA
* *
58970 GAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAGGAAGTTCATAATGAGAAGAACTTG
1 -AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * * * * * *
59034 TTCAACCTTTTGCAT-AACTCTATCAC-AGAAGGAGATATATCATCATCAGCGTTTCCAGA
65 TTCAACTTTTTACTTAAATTC-ATCACTCG-ATG-G----ATCA--A-CA---TTGCCAGA
* *
59093 AGGAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGTTCATAATGAGAAGAATTTG
1 A-GAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
59154 TTCAACTTTTT
65 TTCAACTTTTT
59165 GCTAGATTAC
Statistics
Matches: 667, Mismatches: 70, Indels: 56
0.84 0.09 0.07
Matches are distributed among these distances:
112 99 0.15
113 315 0.47
114 70 0.10
115 1 0.00
116 8 0.01
117 5 0.01
118 5 0.01
119 4 0.01
120 42 0.06
121 5 0.01
122 75 0.11
123 37 0.06
124 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACTTTTTACTTAAATTCATCACTCGATGGATCAACATTGCCAGA
Found at i:58974 original size:122 final size:123
Alignment explanation
Indices: 58838--59166 Score: 454
Period size: 122 Copynumber: 2.7 Consensus size: 123
58828 GATGAATTAG
58838 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
* * * *
58903 AAGAGCTTGTTCAACC-TTTGTATGACTCTATCATAGAAAGAGATAGATCAACA-CTAA
66 AAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAAGAGATAGATCAACATC-AA
* * *
58960 CTTTTCTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAGGAAGTTCATAATGAG
1 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
* * * *
59025 AAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAG
66 AAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAAGAGATAGATCAACATCAA
* * *
59083 CGTTTCCAGA-AGGAGTTCATAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGA
* *
59144 GAAGAATTTGTTCAACTTTTTGC
65 GAAGAACTTGTTCAACCTTTTGC
59167 TAGATTACAT
Statistics
Matches: 185, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
120 42 0.23
122 78 0.42
123 64 0.35
124 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (123 bp):
CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAAGAGATAGATCAACATCAA
Found at i:59423 original size:21 final size:21
Alignment explanation
Indices: 59399--59469 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
59389 CGTTTTATTT
*
59399 TTATTGTTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
59420 TTATTATTATAATTGTTATAA
1 TTATTATTATAATTGTTATAA
*
59441 TTATTATTATAATTATTAT-A
1 TTATTATTATAATTGTTATAA
*
59461 TTTTTATTA
1 TTATTATTA
59470 ATAAATATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 9 0.19
21 38 0.81
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTATTATTATAATTGTTATAA
Found at i:59473 original size:21 final size:21
Alignment explanation
Indices: 59399--59485 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
59389 CGTTTTATTT
* *
59399 TTATTGTTATAATTGTTATAA
1 TTATTATTATAATTATTATAA
*
59420 TTATTATTATAATTGTTATAA
1 TTATTATTATAATTATTATAA
59441 TTATTATTATAATTATTAT-A
1 TTATTATTATAATTATTATAA
* * *
59461 TTTTTATTAATAAATATTATTA
1 TTATTATT-ATAATTATTATAA
59483 TTA
1 TTA
59486 CATATTACAG
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
20 8 0.14
21 48 0.81
22 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
TTATTATTATAATTATTATAA
Found at i:59736 original size:20 final size:21
Alignment explanation
Indices: 59711--59762 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
59701 TTTTCCGAAT
*
59711 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
59731 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
59752 TCGCAATGCGA
1 TCGCAATGCGA
59763 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:59776 original size:20 final size:20
Alignment explanation
Indices: 59751--59885 Score: 146
Period size: 20 Copynumber: 6.7 Consensus size: 20
59741 AATTGGGAAA
59751 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
59771 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
59791 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
59811 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* * *
59832 ATCGTAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
59852 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
59872 TTCGCAACGCGATA
1 ATCGCAATGCGATA
59886 ATACATAATC
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 83 0.84
21 12 0.12
22 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:59848 original size:61 final size:61
Alignment explanation
Indices: 59781--59896 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
59771 ATCGCAATGC
* * *
59781 GATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAAATCGTAACGA
1 GATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAAATCGTAACGA
* * * *
59842 GATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATAATCG
1 GATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAAATCG
59897 CAATGCAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (61 bp):
GATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAAATCGTAACGA
Found at i:60440 original size:20 final size:20
Alignment explanation
Indices: 60386--60444 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
60376 GCGATTCTCT
**
60386 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
60406 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
60426 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
60445 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:61782 original size:18 final size:18
Alignment explanation
Indices: 61761--61805 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
61751 TCCACTTCGG
*
61761 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
61779 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
61797 GAGCCATCA
1 GAGCCATCA
61806 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:62312 original size:20 final size:20
Alignment explanation
Indices: 62287--62328 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
62277 TAGTTTATTT
62287 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
62307 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
62327 TC
1 TC
62329 ACAATGCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:62341 original size:19 final size:20
Alignment explanation
Indices: 62298--62342 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
62288 CGCAACACGA
*
62298 AAATGACTATCGCAACGCGG
1 AAATGACTATCACAACGCGG
* *
62318 AAATGGCTATCACAATGC-G
1 AAATGACTATCACAACGCGG
62337 AAATGA
1 AAATGA
62343 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGACTATCACAACGCGG
Found at i:62361 original size:14 final size:14
Alignment explanation
Indices: 62342--62397 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
62332 ATGCGAAATG
62342 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
62356 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
62372 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
62388 AAAATCGCAA
1 AAAATCGCAA
62398 TGCGAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:62384 original size:32 final size:33
Alignment explanation
Indices: 62330--62416 Score: 167
Period size: 32 Copynumber: 2.7 Consensus size: 33
62320 ATGGCTATCA
62330 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
62363 CAATGCGAAATG-AAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
62395 CAATGCGAAATGAAAATCGCAA
1 CAATGCGAAATGAAAATCGCAA
62417 TGCGATTTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 32 0.60
33 21 0.40
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:62455 original size:14 final size:14
Alignment explanation
Indices: 62433--62574 Score: 68
Period size: 14 Copynumber: 8.9 Consensus size: 14
62423 TTGTGTTTCG
62433 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
62447 CGTTCCGATTTCATTT
1 CGTTGCGATTT--TGT
62463 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
62479 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
* *
62496 CGCGTTCCGATTTCATTT
1 --CGTTGCGATTT--TGT
62514 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
62530 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
62547 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
62563 CGTTGCGATTTT
1 CGTTGCGATTTT
62575 CATTTCGCAT
Statistics
Matches: 102, Mismatches: 10, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
14 34 0.33
15 6 0.06
16 16 0.16
17 4 0.04
18 27 0.26
19 15 0.15
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:62465 original size:32 final size:33
Alignment explanation
Indices: 62428--62508 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 33
62418 GCGATTTGTG
62428 TTTCGCGTTGCGATTTTGTCGTTCCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTCCGATTTTCA
* *
62460 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTCCGATTTTCA
*
62493 TTTCGCGTTCCGATTT
1 TTTCGCGTTGCGATTT
62509 CATTTCGCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 25 0.57
33 19 0.43
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTCCGATTTTCA
Found at i:62466 original size:51 final size:50
Alignment explanation
Indices: 62411--62559 Score: 174
Period size: 51 Copynumber: 2.9 Consensus size: 50
62401 GAAATGAAAA
* * * *
62411 TCGCAATGCGATTTGT-GTTTCGCGTTGCGATTTTGTCGTTCCGATTTCATT
1 TCGCATTGCGATTTGTCGTTGCGAGTTGC-ATTTCG-CGTTCCGATTTCATT
* *
62462 TCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCGTTCCGATTTCATT
1 TCGCATTGCGA-TTTGTCGTTGCGAGTTGCATTTCGCGTTCCGATTTCATT
* * *
62513 TCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCGTTGCGATTT
1 TCGCATTGCGA-TTTGTCGTTGCGAGTTGCATTTCGCGTTCCGATTT
62560 TGTCGTTGCG
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 71 0.80
52 10 0.11
53 8 0.09
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.46
Consensus pattern (50 bp):
TCGCATTGCGATTTGTCGTTGCGAGTTGCATTTCGCGTTCCGATTTCATT
Found at i:62548 original size:33 final size:33
Alignment explanation
Indices: 62498--62590 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
62488 TTTCATTTCG
*
62498 CGTTCCGA-TTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
*
62530 CGTTGCGATTTTCATTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
62563 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
62591 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 7 0.12
33 50 0.88
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:62556 original size:84 final size:83
Alignment explanation
Indices: 62428--62582 Score: 274
Period size: 84 Copynumber: 1.9 Consensus size: 83
62418 GCGATTTGTG
*
62428 TTTCGCGTTGCGATTTTGTCGTTCCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTCCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
62493 TTTCGCGTTCCGATTTCA
66 TTTCGCGTTCCGATTTCA
* *
62511 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCGTTGCGATTTTGTCGTTGCGATTTTC
1 TTTCGCATTGCGATTTTGTCGTTCCGA-TTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTC
62576 ATTTCGC
65 ATTTCGC
62583 ATTGCGATAG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
83 25 0.37
84 43 0.63
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (83 bp):
TTTCGCATTGCGATTTTGTCGTTCCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
TTTCGCGTTCCGATTTCA
Found at i:62609 original size:20 final size:19
Alignment explanation
Indices: 62575--62630 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
62565 TTGCGATTTT
*
62575 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
62594 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
62614 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
62631 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:62641 original size:20 final size:19
Alignment explanation
Indices: 62479--62633 Score: 125
Period size: 19 Copynumber: 8.6 Consensus size: 19
62469 GCGATTTTGT
62479 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
62498 CGTTCCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
62516 CATTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
62530 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
62549 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
62563 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
62582 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
62602 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
62622 CGTTGCGATTTT
1 CGTTGCGATTTT
62634 AAGTTTCGTG
Statistics
Matches: 108, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
14 15 0.14
15 6 0.06
16 4 0.04
17 4 0.04
18 22 0.20
19 28 0.26
20 26 0.24
21 3 0.03
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:64518 original size:14 final size:14
Alignment explanation
Indices: 64499--64534 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
64489 ATTGTTTAAT
64499 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
64513 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
64527 TGATTTGT
1 TGATTTGT
64535 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:64681 original size:14 final size:14
Alignment explanation
Indices: 64662--64714 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 14
64652 AAACTGACGG
64662 TCGCAACGAGAAAA
1 TCGCAACGAGAAAA
64676 TCGCAATGCGAAATGAAAA
1 TCGCAA--CG--A-GAAAA
64695 TCGCAACGAGAAAA
1 TCGCAACGAGAAAA
64709 TCGCAA
1 TCGCAA
64715 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 17 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.32
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (14 bp):
TCGCAACGAGAAAA
Found at i:65053 original size:20 final size:20
Alignment explanation
Indices: 65028--65077 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
65018 TTGAAGATGA
65028 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
*** *
65048 TTGCGAAAGTCAGAATCTTG
1 TTGCGATTTTCAGAATCTCG
65068 TTGCGATTTT
1 TTGCGATTTT
65078 GTATTATCTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:65148 original size:20 final size:21
Alignment explanation
Indices: 65104--65155 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
65094 ATAGTCACTA
*
65104 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
65125 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
65145 TCGCATTGCGA
1 TCGCATTGCGA
65156 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:65967 original size:24 final size:24
Alignment explanation
Indices: 65940--65993 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
65930 GTATTCGAAA
*
65940 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
65964 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
65988 TTTGAT
1 TTTGAT
65994 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:66185 original size:12 final size:12
Alignment explanation
Indices: 66168--66204 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
66158 ATATAATCCT
66168 GAAGAAGAAAAA
1 GAAGAAGAAAAA
66180 GAAGAAGAAAAA
1 GAAGAAGAAAAA
66192 GAAGAAGAAAAA
1 GAAGAAGAAAAA
66204 G
1 G
66205 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:68537 original size:33 final size:33
Alignment explanation
Indices: 68494--68659 Score: 201
Period size: 33 Copynumber: 5.0 Consensus size: 33
68484 CGGAAAGTAC
68494 TATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGA-A
* **
68528 -ATCGCAATGCGAAATAAAAATCGCAACGCTAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
* * **
68560 TTTCACAATGCGAAATGAAAATCGCAACGCTAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
* * *
68593 TTTCACAATGCGAAATGAAAATCGCAACGAGGGA
1 TATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
68627 -ATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 TATCGCAATGCGAAATGAAAATCGCAACGAGAA
68659 T
1 T
68660 TTAATTTCGC
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
32 3 0.03
33 112 0.97
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (33 bp):
TATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:68707 original size:19 final size:19
Alignment explanation
Indices: 68683--68729 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
68673 GCGATTCCCT
68683 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
68702 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
68721 CATTGCGAT
1 CGTTGCGAT
68730 AGTACTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:68855 original size:14 final size:14
Alignment explanation
Indices: 68836--68872 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
68826 CATCAATTAA
68836 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
68850 ACAAATCACCTTTT
1 ACAAATCAACTTTT
68864 ACAAATCAA
1 ACAAATCAA
68873 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:70287 original size:42 final size:41
Alignment explanation
Indices: 70228--70433 Score: 164
Period size: 42 Copynumber: 4.9 Consensus size: 41
70218 GTGAATCGGA
* *
70228 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
70270 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
70312 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
70354 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
70396 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
70434 GCGATTCGGG
Statistics
Matches: 127, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
41 9 0.07
42 107 0.84
43 11 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:70294 original size:21 final size:21
Alignment explanation
Indices: 70225--70378 Score: 64
Period size: 21 Copynumber: 7.3 Consensus size: 21
70215 CATGTGAATC
*
70225 GGACTCTTGAATGGTGGGA-G
1 GGACTCTTGAACGGTGGGAGG
* * ** *
70245 GGACCTCTTCAACGATGACAGT
1 GGA-CTCTTGAACGGTGGGAGG
*
70267 GGCCTCTTGAACGGTGGGAGG
1 GGACTCTTGAACGGTGGGAGG
* **
70288 GGACTCTCG-A-GGAATGATAGG
1 GGACTCTTGAACGG--TGGGAGG
* * * * *
70309 GGCCTCTTCAACGATAGGAGT
1 GGACTCTTGAACGGTGGGAGG
* ** *
70330 GGACTCTTG-AGGGATGACAGT
1 GGACTCTTGAACGG-TGGGAGG
*
70351 GGCCTCTTGAACGGTGGGAGG
1 GGACTCTTGAACGGTGGGAGG
70372 GGACTCT
1 GGACTCT
70379 CGAGGAATGA
Statistics
Matches: 89, Mismatches: 37, Indels: 15
0.63 0.26 0.11
Matches are distributed among these distances:
19 2 0.02
20 6 0.07
21 74 0.83
22 6 0.07
23 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.22
Consensus pattern (21 bp):
GGACTCTTGAACGGTGGGAGG
Found at i:70369 original size:84 final size:84
Alignment explanation
Indices: 70258--70433 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
70248 CCTCTTCAAC
70258 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
70323 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
*
70342 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
70407 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
70426 GATGACAG
1 GATGACAG
70434 GCGATTCGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:70830 original size:91 final size:90
Alignment explanation
Indices: 70652--70836 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
70642 ATTTCAAACT
* *
70652 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGT
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
70717 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
70745 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
70809 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
70836 T
1 T
70837 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 41 0.47
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:72590 original size:14 final size:14
Alignment explanation
Indices: 72571--72659 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
72561 GGAAATGACT
72571 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
72585 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
*
72602 CTATCGCGACGAGAGA
1 --ATCGCAACGAGAGA
72618 ATCGCAACGAGAAATGAAA
1 ATCGCAACGAG--A-G--A
*
72637 ATCGCGACGAGAGA
1 ATCGCAACGAGAGA
72651 ATCGCAACG
1 ATCGCAACG
72660 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 26 0.44
16 8 0.14
17 8 0.14
19 17 0.29
ACGTcount: A:0.40, C:0.22, G:0.27, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:72604 original size:33 final size:33
Alignment explanation
Indices: 72547--72678 Score: 192
Period size: 33 Copynumber: 4.0 Consensus size: 33
72537 ACGAGATAAT
**
72547 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
** *
72581 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
* *
72614 GAGAATCGCAACGAGAAATGAAAATCGCGACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
72647 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGAAAATCGCAACG
72679 CGAAATGAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 78 0.85
34 14 0.15
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:72641 original size:19 final size:19
Alignment explanation
Indices: 72522--72695 Score: 117
Period size: 19 Copynumber: 9.8 Consensus size: 19
72512 GTCTTTGGTT
72522 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
72541 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
72562 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
72581 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
72595 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
72614 G--A-G--AATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
72628 GAAATGAAAATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
72647 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
72661 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
72680 GAAATGAAAATTGCAA
1 GAAATGAAAATCGCAA
72696 TGCGATTTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
14 30 0.25
16 6 0.05
17 6 0.05
19 49 0.40
20 29 0.24
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:72718 original size:19 final size:19
Alignment explanation
Indices: 72696--72740 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
72686 AAAATTGCAA
*
72696 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
72715 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
72734 TGCGATT
1 TGCGATT
72741 CTCTCGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:73320 original size:20 final size:20
Alignment explanation
Indices: 73295--73351 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
73285 GCGCTATGTA
73295 AATCGCGTTGCGAAA-TTCAG
1 AATCGCGTTGCGAAAGTT-AG
*
73315 AATCGCGTTGTGAAAGTTAG
1 AATCGCGTTGCGAAAGTTAG
73335 AATCGCGTTGCGAAAGT
1 AATCGCGTTGCGAAAGT
73352 CAATATCTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTTAG
Found at i:73520 original size:21 final size:21
Alignment explanation
Indices: 73480--73520 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
73470 ACTGTAGACC
**
73480 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
73501 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
73521 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:74937 original size:16 final size:16
Alignment explanation
Indices: 74916--74946 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74906 TTTTACTTTC
*
74916 ATATATTTATGATTAT
1 ATATATTTATCATTAT
74932 ATATATTTATCATTA
1 ATATATTTATCATTA
74947 GTATTACTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
ATATATTTATCATTAT
Found at i:75305 original size:130 final size:130
Alignment explanation
Indices: 75074--75308 Score: 287
Period size: 130 Copynumber: 1.8 Consensus size: 130
75064 TATATATTTA
* * *
75074 TCAATATTAAGAAATGACAGTCTTAAAGCAACTTGATGTCCATTTTCTGATATTTTTAAATAAAA
1 TCAATATTAAGAAAGGACAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTTTAAATAAAA
* * **
75139 AAAATAAATATTTTAATATATAAATATGTTTTTATATTATTTTCTATTAAAATTTATTTATTTTT
66 AAAATAAATATTTTAATAAATAAATATATTAATATATTATTTTCTATTAAAATTTATTTATTTTT
* * * *
75204 TCAATATTAAGAAAGGAGCTGTCTTAAAGCACCTAGAAG-CCCTTTTCTGATATTTTTATAT-AA
1 TCAATATTAAGAAAGGA-CAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTTTAAATAAA
* ** *
75267 ATAAATATCT-TGTTTAATAAAATATATATATTAATATATTAT
65 AAAAATAAATAT-TTTAAT-AAATAAATATATTAATATATTAT
75309 CTTGAAATTA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
128 1 0.01
129 15 0.17
130 54 0.62
131 17 0.20
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (130 bp):
TCAATATTAAGAAAGGACAGTCTTAAAGCAACTAGAAGTCCATTTTCTGATATTTTTAAATAAAA
AAAATAAATATTTTAATAAATAAATATATTAATATATTATTTTCTATTAAAATTTATTTATTTTT
Found at i:76772 original size:138 final size:137
Alignment explanation
Indices: 76519--76791 Score: 327
Period size: 138 Copynumber: 2.0 Consensus size: 137
76509 CTGAAAAGGA
* * *
76519 AATTCACAAACTTATTATGAATTCCATGGATGAACACATAGTGCTGAAAGTACATATAGTACTCA
1 AATTCACAAACTCATTATGAATACCATGGATGAACACATAGTGCCGAAAGTACATATAGTACTCA
** *
76584 TACGAAAATGCACCATTATGCATTCAAAAAAATCGATCAATAAATTTTATACATAATTGTATGTC
66 TACGAAAATGCACCATTATGCATTCAAAAAAATCGATCAATAAACATTATACACAATT-TATGTC
*
76649 TAAATGGT
130 AAAATGGT
* *
76657 AATTCACAAACTCATTATGAATACCATGG-T-TACATATCTAGTGCCGAAAGTACATATAGTACT
1 AATTCACAAACTCATTATGAATACCATGGATGAACACA--TAGTGCCGAAAGTACATATAGTACT
* * * * * * * * *
76720 GATACGAAAATGTATCGTTATGTATT-ACACAAAATCGATCGATAACCATTATATACAATTTATG
64 CATACGAAAATGCACCATTATGCATTCA-AAAAAATCGATCAATAAACATTATACACAATTTATG
76784 TCAAAATG
128 TCAAAATG
76792 CACCTATGAC
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
136 4 0.04
137 13 0.11
138 97 0.85
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (137 bp):
AATTCACAAACTCATTATGAATACCATGGATGAACACATAGTGCCGAAAGTACATATAGTACTCA
TACGAAAATGCACCATTATGCATTCAAAAAAATCGATCAATAAACATTATACACAATTTATGTCA
AAATGGT
Found at i:80565 original size:20 final size:20
Alignment explanation
Indices: 80540--80607 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
80530 TGAGCACAAA
80540 ATACTGTATGAACAGTACCG
1 ATACTGTATGAACAGTACCG
* *
80560 ATACTGTATGAATAGTAGTATCG
1 ATACTGTATG-A-A-CAGTACCG
* *
80583 ATATTGTATGAACATTACCG
1 ATACTGTATGAACAGTACCG
80603 ATACT
1 ATACT
80608 CAAAATTCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 19 0.50
21 2 0.05
22 2 0.05
23 15 0.39
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (20 bp):
ATACTGTATGAACAGTACCG
Found at i:82113 original size:21 final size:21
Alignment explanation
Indices: 82075--82114 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
82065 TATATATCCC
*
82075 TATCAGTATCATCATCATTAA
1 TATCAGTATCACCATCATTAA
* *
82096 TATCATTATCACCTTCATT
1 TATCAGTATCACCATCATT
82115 TAGTACATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.42
Consensus pattern (21 bp):
TATCAGTATCACCATCATTAA
Found at i:82367 original size:23 final size:23
Alignment explanation
Indices: 82341--82424 Score: 141
Period size: 23 Copynumber: 3.7 Consensus size: 23
82331 AAATGTTCCA
82341 AAGGACCACGTAGAATTATTACG
1 AAGGACCACGTAGAATTATTACG
82364 AAGGACCACGTAGAATTATTACG
1 AAGGACCACGTAGAATTATTACG
* *
82387 AAGGACCACGTAGAATTGTTCCG
1 AAGGACCACGTAGAATTATTACG
*
82410 AAGGTCCACGTAGAA
1 AAGGACCACGTAGAA
82425 CCCTCGACTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (23 bp):
AAGGACCACGTAGAATTATTACG
Found at i:82369 original size:46 final size:46
Alignment explanation
Indices: 82316--82424 Score: 137
Period size: 46 Copynumber: 2.4 Consensus size: 46
82306 ATAGATGTCC
* * * *
82316 CGAAGGACCGCGTGGAAATGTTCCAAAGGACCACGTAGAATTATTA
1 CGAAGGACCACGTAGAAATATTACAAAGGACCACGTAGAATTATTA
* * * *
82362 CGAAGGACCACGTAGAATTATTACGAAGGACCACGTAGAATTGTTC
1 CGAAGGACCACGTAGAAATATTACAAAGGACCACGTAGAATTATTA
*
82408 CGAAGGTCCACGTAGAA
1 CGAAGGACCACGTAGAA
82425 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (46 bp):
CGAAGGACCACGTAGAAATATTACAAAGGACCACGTAGAATTATTA
Found at i:83277 original size:20 final size:20
Alignment explanation
Indices: 83239--83277 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
83229 AGCATCGATA
* * *
83239 CCCTTGGTATCTATGCTACT
1 CCCTTAGTATCGATACTACT
83259 CCCTTAGTATCGATACTAC
1 CCCTTAGTATCGATACTAC
83278 ACGACTGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (20 bp):
CCCTTAGTATCGATACTACT
Found at i:83947 original size:16 final size:16
Alignment explanation
Indices: 83922--83954 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
83912 CATTAATTGC
83922 CAAAAGATCAAAATGT
1 CAAAAGATCAAAATGT
*
83938 CAAAATATCAAAATGT
1 CAAAAGATCAAAATGT
83954 C
1 C
83955 CCTTCCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (16 bp):
CAAAAGATCAAAATGT
Found at i:84530 original size:19 final size:20
Alignment explanation
Indices: 84506--84554 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
84496 AAATGATTTT
* * *
84506 ATTTTGAAAGCTAAAATG-G
1 ATTTTGAAAACCAAAATGAA
84525 ATTTTGAAAACCAAAATGAA
1 ATTTTGAAAACCAAAATGAA
84545 ATTTTGAAAA
1 ATTTTGAAAA
84555 AGGATTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (20 bp):
ATTTTGAAAACCAAAATGAA
Found at i:85934 original size:20 final size:20
Alignment explanation
Indices: 85872--85935 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
85862 CACAAAATAT
* *
85872 TGTATGAACAGTACCCATAA
1 TGTATGAACAGTACCGATAC
*
85892 TGTATGAACAGTTGTATCGATAC
1 TGTATGAACA---GTACCGATAC
*
85915 TGTATGAACAATACCGATAC
1 TGTATGAACAGTACCGATAC
85935 T
1 T
85936 CAAAATTCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
20 19 0.53
23 17 0.47
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATGAACAGTACCGATAC
Found at i:94562 original size:20 final size:20
Alignment explanation
Indices: 94535--94589 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
94525 ATCATGTTTT
*
94535 AACAGTATCGGTACTGCATC
1 AACAGTATCGATACTGCATC
*
94555 AGCAGTATCGATACTGCATC
1 AACAGTATCGATACTGCATC
94575 AACAGTATCGATACT
1 AACAGTATCGATACT
94590 ATTACTCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
AACAGTATCGATACTGCATC
Found at i:94721 original size:95 final size:94
Alignment explanation
Indices: 94557--94857 Score: 361
Period size: 95 Copynumber: 3.2 Consensus size: 94
94547 ACTGCATCAG
* * * ** *
94557 CAGTATCGATACTGCATCAACAGTATC-GATACTATTACTCTAAGTAGTATCGATATTATATATG
1 CAGTATCGGTACTGCCTC-AGAGTATCAG-TACTACAACTCTAAGTAGTATCGATATCATATATG
* *
94621 GTATCGATACTATTTTAGCATTCTGTTTTGA
64 ATATCGATACCATTTTAGCATTCTGTTTTGA
* * *
94652 TAGTATCGGTACTGCCTGAGAAGTATCAGTACTACAACTCTAAGTATTATCGATATCATATATGA
1 CAGTATCGGTACTGCCTCAG-AGTATCAGTACTACAACTCTAAGTAGTATCGATATCATATATGA
*
94717 TATCGATACCAATTTAGCATTCTGTTTTGA
65 TATCGATACCATTTTAGCATTCTGTTTTGA
* ** * * * *
94747 CAATATCGGTACCATAACTCAGAGTATCGGTACTACTACTCTAACTAGTATCAATATCATATATG
1 CAGTATCGGTA-C-TGCCTCAGAGTATCAGTACTACAACTCTAAGTAGTATCGATATCATATATG
* *
94812 ATATCGGTACCATTTTAGCATTCCGTTTTGA
64 ATATCGATACCATTTTAGCATTCTGTTTTGA
94843 CAGTATCGGTACTGC
1 CAGTATCGGTACTGC
94858 ATCAACAATA
Statistics
Matches: 174, Mismatches: 28, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
94 2 0.01
95 89 0.51
96 78 0.45
97 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (94 bp):
CAGTATCGGTACTGCCTCAGAGTATCAGTACTACAACTCTAAGTAGTATCGATATCATATATGAT
ATCGATACCATTTTAGCATTCTGTTTTGA
Found at i:94815 original size:96 final size:96
Alignment explanation
Indices: 94578--94854 Score: 369
Period size: 96 Copynumber: 2.9 Consensus size: 96
94568 CTGCATCAAC
* * * * *
94578 AGTATCGATACTATTACTCTAAGTAGTATCGATATTATATATGGTATCGATACTATTTTAGCATT
1 AGTATCGGTACTACTACTCTAAGTAGTATCGATATCATATATGATATCGATACCATTTTAGCATT
* ** *
94643 CTGTTTTGATAGTATCGGTA-CTGCCTGAGA
66 CTGTTTTGACAGTATCGGTACCTAACTCAGA
* * * *
94673 AGTATCAGTACTACAACTCTAAGTATTATCGATATCATATATGATATCGATACCAATTTAGCATT
1 AGTATCGGTACTACTACTCTAAGTAGTATCGATATCATATATGATATCGATACCATTTTAGCATT
*
94738 CTGTTTTGACAATATCGGTACCATAACTCAG-
66 CTGTTTTGACAGTATCGGTACC-TAACTCAGA
* * *
94769 AGTATCGGTACTACTACTCTAACTAGTATCAATATCATATATGATATCGGTACCATTTTAGCATT
1 AGTATCGGTACTACTACTCTAAGTAGTATCGATATCATATATGATATCGATACCATTTTAGCATT
*
94834 CCGTTTTGACAGTATCGGTAC
66 CTGTTTTGACAGTATCGGTAC
94855 TGCATCAACA
Statistics
Matches: 157, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
95 74 0.47
96 78 0.50
97 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (96 bp):
AGTATCGGTACTACTACTCTAAGTAGTATCGATATCATATATGATATCGATACCATTTTAGCATT
CTGTTTTGACAGTATCGGTACCTAACTCAGA
Found at i:97049 original size:20 final size:20
Alignment explanation
Indices: 97024--97061 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
97014 TCGACGGGTT
*
97024 GTATCGGTACTTCAAAGAGA
1 GTATCGATACTTCAAAGAGA
97044 GTATCGATACTTCAAAGA
1 GTATCGATACTTCAAAGA
97062 AAAATCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
GTATCGATACTTCAAAGAGA
Found at i:97163 original size:22 final size:22
Alignment explanation
Indices: 97137--97210 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 22
97127 TTGGATGAAC
97137 AATATCGATACTAAACAAGAAT
1 AATATCGATACTAAACAAGAAT
* *
97159 AATATCGATACTAAGCAAGAAC
1 AATATCGATACTAAACAAGAAT
*
97181 AATATCGATACT-AA-ATGAAT
1 AATATCGATACTAAACAAGAAT
97201 AATATCGATA
1 AATATCGATA
97211 TTGAGTGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.30
21 1 0.02
22 32 0.68
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (22 bp):
AATATCGATACTAAACAAGAAT
Found at i:99533 original size:2 final size:2
Alignment explanation
Indices: 99526--99550 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99516 AGGGTTTTGT
99526 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
99551 GAAATTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:103681 original size:39 final size:39
Alignment explanation
Indices: 103627--103701 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
103617 CATGATTTCA
103627 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACGTCT
1 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACGTCT
103666 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACG
1 GTATTAACCATCTTGTTCAGCTGGTAAATTGACACG
103702 ACTTCATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (39 bp):
GTATTAACCATCTTGTTCAGCTGGTAAATTGACACGTCT
Found at i:104968 original size:52 final size:52
Alignment explanation
Indices: 104888--104992 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
104878 AAGGAAAGAA
* *
104888 AATGTGACATATGGCATAATAAAGACCAATACAAATATATATATATATATAT
1 AATGTGACATATGGAATAATAAAAACCAATACAAATATATATATATATATAT
104940 AATGTGACATATGGAATAATAAAAACCAATACAAATATATATATATATATAT
1 AATGTGACATATGGAATAATAAAAACCAATACAAATATATATATATATATAT
104992 A
1 A
104993 TAACACATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (52 bp):
AATGTGACATATGGAATAATAAAAACCAATACAAATATATATATATATATAT
Found at i:106088 original size:347 final size:343
Alignment explanation
Indices: 105365--106045 Score: 1080
Period size: 344 Copynumber: 2.0 Consensus size: 343
105355 AACAAAGATT
* * * * * * *
105365 TAAAAATAACTTAGCACATGACTAAAATGCAACACACGTAAATCTTAAAGACAAAATCAGAAATA
1 TAAAAAGAACTGATCACAGGACTAAAATGCAACACACATAAATCTTAAAGACAAAATAAAAAATA
* *
105430 TAAAGAAACTTGATTTGAGGACTGAAATGAATTAAAACGAAAATTGGACGGAGTGCTTACATAAT
66 TAAAGAAACTGGATTTGAGGACTGAAATGAATTAAAACAAAAATTGGACGGAGTGCTTACATAAT
105495 AATCCCATCCACAAGCGTAAAAACGGGTGAACCTAGCCGAGATGGAGCGACGTTTCACATTCCAC
131 AATCCCATCCACAAGCG-AAAAACGGGTGAACCTAGCCGAGATGGAGCGACGTTT---ATTCCAC
*
105560 TTAAAGCCTCTGTTAGGCTTGTGTTAAACCTAATATCCACTTTATCACCTTGCTCCCCTTAAACT
192 TTAAAGCCTCAGTTAGGCTTGTGTTAAACCTAATATCCACTTTATCACCTTGCTCCCCTTAAACT
*
105625 CCAACATGTCGTTTTCTCTCATCTCTAACCCCTCCCCTTCCTTTCTCTCATTTTCCTTCCTTGAC
257 CCAACATGTCATTTTCTCTCATCTCTAACCCCTCCCCTTCCTTTCTCTCATTTTCCTTCCTTGAC
* **
105690 CTCACGACCATCAACAAAGATT
322 CTCACGACCATCAACAAACACC
* * *
105712 TAAAAATAACTTATCACATGACTAAAATGCAACACACATAAATCTTAAAGACAAAATAAAAAATA
1 TAAAAAGAACTGATCACAGGACTAAAATGCAACACACATAAATCTTAAAGACAAAATAAAAAATA
105777 TAAAGAAACTGGATTTGAGGACTGAAATGAATTAAAACAAAAATTGGACGGAGTGCTTACATAAT
66 TAAAGAAACTGGATTTGAGGACTGAAATGAATTAAAACAAAAATTGGACGGAGTGCTTACATAAT
*
105842 AATCCCATCCACATTA-C-AAAAATGGGTGAACCTAGCCGAGATGGAGCGACGTTGT-TTCACAC
131 AATCCCATCCACA--AGCGAAAAACGGGTGAACCTAGCCGAGATGGAGCGACGTT-TATTC-CAC
*
105904 TTAAAGCCTCAGTTAGGCTTGTGTTTAACCTAATATCCACTTTATCACCTTGCTCCCCTTAAACT
192 TTAAAGCCTCAGTTAGGCTTGTGTTAAACCTAATATCCACTTTATCACCTTGCTCCCCTTAAACT
* *
105969 CCAACATGTCATTTTCTCTCATCTCTAACCCCTCCCGTTCCTTTCTCTCGTTTTCCTTCCTTGAC
257 CCAACATGTCATTTTCTCTCATCTCTAACCCCTCCCCTTCCTTTCTCTCATTTTCCTTCCTTGAC
106034 CTCACGACCATC
322 CTCACGACCATC
106046 GTAGCCGTCA
Statistics
Matches: 318, Mismatches: 12, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
343 3 0.01
344 140 0.44
346 35 0.11
347 138 0.43
348 1 0.00
349 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (343 bp):
TAAAAAGAACTGATCACAGGACTAAAATGCAACACACATAAATCTTAAAGACAAAATAAAAAATA
TAAAGAAACTGGATTTGAGGACTGAAATGAATTAAAACAAAAATTGGACGGAGTGCTTACATAAT
AATCCCATCCACAAGCGAAAAACGGGTGAACCTAGCCGAGATGGAGCGACGTTTATTCCACTTAA
AGCCTCAGTTAGGCTTGTGTTAAACCTAATATCCACTTTATCACCTTGCTCCCCTTAAACTCCAA
CATGTCATTTTCTCTCATCTCTAACCCCTCCCCTTCCTTTCTCTCATTTTCCTTCCTTGACCTCA
CGACCATCAACAAACACC
Found at i:107205 original size:3 final size:3
Alignment explanation
Indices: 107085--107185 Score: 168
Period size: 3 Copynumber: 33.7 Consensus size: 3
107075 TTATACGTAT
*
107085 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
107133 ATA ATAA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
107178 ATG ATA AT
1 ATA ATA AT
107186 CATATACACC
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.02
3 87 0.95
4 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:107436 original size:2 final size:2
Alignment explanation
Indices: 107429--107463 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107419 AACTAATACG
107429 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
107464 CGCAAATGAA
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:112607 original size:58 final size:58
Alignment explanation
Indices: 112517--112729 Score: 261
Period size: 58 Copynumber: 3.7 Consensus size: 58
112507 ATAATTCAAT
* * * * * * *
112517 TGGAATTTCATACAATCAATATGATTTTCTTACCCTTTTAGCAAAC-AAGTGCCATATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCC-TATC
*
112575 TGGAAATTCATACACTTAGTATGATTTCCTTACTATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTG-CCTATC
* * * *
112634 TTG-AATTCATACAC-TATTAAGATTTCCTTTCCATTTTAGCACACAAAGTGGCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGT-GCCTATC
*
112691 TGGAAATTCATACACTTAGTACGATTTCCTTACCATTTT
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTT
112730 TATTAAGGGA
Statistics
Matches: 133, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
57 39 0.29
58 61 0.46
59 31 0.23
60 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (58 bp):
TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCTATC
Found at i:112675 original size:57 final size:59
Alignment explanation
Indices: 112539--112729 Score: 262
Period size: 58 Copynumber: 3.3 Consensus size: 59
112529 CAATCAATAT
* * * * *
112539 GATTTTCTTACCCTTTTAGCAAAC-AAGTGCCATATCTGGAAATTCATACACTTAGTAT
1 GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTAA
* * *
112597 GATTTCCTTACTATTTTAGCACACAAAGTGCCCTATCTTG-AATTCATACAC-TATTAA
1 GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTAA
* * *
112654 GATTTCCTTTCCATTTTAGCACACAAAGTGGCCTATCTGGAAATTCATACACTTAGTAC
1 GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTAA
112713 GATTTCCTTACCATTTT
1 GATTTCCTTACCATTTT
112730 TATTAAGGGA
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
57 40 0.35
58 42 0.37
59 33 0.29
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (59 bp):
GATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTTAGTAA
Found at i:114261 original size:14 final size:15
Alignment explanation
Indices: 114239--114268 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
114229 AAAAATAAAG
114239 AAATAAAACAAACAA
1 AAATAAAACAAACAA
114254 AAAT-AAACAAACAA
1 AAATAAAACAAACAA
114268 A
1 A
114269 CACTCACGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (15 bp):
AAATAAAACAAACAA
Found at i:116453 original size:53 final size:53
Alignment explanation
Indices: 116301--116456 Score: 267
Period size: 53 Copynumber: 2.9 Consensus size: 53
116291 TTCCCTCAAG
* * *
116301 AGGTATCGATACACTACTGGGGTATCGGTACCCAAATTAAGTTCGAAGTTTAC
1 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAC
*
116354 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAT
1 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAC
*
116407 AGGTATCGATACACTACTGGTGTATCCGTACCCAAATTAAATTCGATGTT
1 AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTT
116457 CATCAAAATT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 98 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (53 bp):
AGGTATCGATACACTACTGGTGTATCGGTACCCAAATTAAATTCGATGTTTAC
Done.