Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004463.1 Hibiscus syriacus cultivar Beakdansim tig00009839_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: 146797
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:6157 original size:24 final size:24
Alignment explanation
Indices: 6130--6185 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
6120 AATTTTAGTG
*
6130 AATTTTTA-TTTTT-TTTAAATTAA
1 AATTTTTAGTTTTTATATAAA-TAA
*
6153 TAATTTTGAGTTTTTATATAAATAA
1 -AATTTTTAGTTTTTATATAAATAA
6178 AATTTTTA
1 AATTTTTA
6186 AAAATTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 14 0.52
25 8 0.30
26 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATTTTTAGTTTTTATATAAATAA
Found at i:10485 original size:2 final size:2
Alignment explanation
Indices: 10478--10520 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10468 CTTTGTAAGG
10478 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10520 A
1 A
10521 CACTCAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15022 original size:26 final size:26
Alignment explanation
Indices: 14976--15025 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14966 GAAAAATTAG
* *
14976 GTTTTTTATAAAATAATTTTTAAAGT
1 GTTTTTTATAAAAAAAATTTTAAAGT
15002 GTTTTTT-TAAATAAAAATTTTAAA
1 GTTTTTTATAAA-AAAAATTTTAAA
15026 ATTCTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (26 bp):
GTTTTTTATAAAAAAAATTTTAAAGT
Found at i:15479 original size:20 final size:20
Alignment explanation
Indices: 15456--15497 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15446 CAACACGAAC
* *
15456 TCCAATTTCGCAACACAGTT
1 TCCAAATTCACAACACAGTT
*
15476 TCCAAATTCACAACTCAGTT
1 TCCAAATTCACAACACAGTT
15496 TC
1 TC
15498 TGCAATCATA
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:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (20 bp):
TCCAAATTCACAACACAGTT
Found at i:15667 original size:20 final size:20
Alignment explanation
Indices: 15644--15692 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
15634 ATTTTCTAAA
**
15644 TCGCAACACGAATTTTGTTT
1 TCGCAACACGAATTTTGAAT
* *
15664 TCGCAACTCGATTTTTGAAT
1 TCGCAACACGAATTTTGAAT
15684 TCGCAACAC
1 TCGCAACAC
15693 AAATGTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (20 bp):
TCGCAACACGAATTTTGAAT
Found at i:15809 original size:22 final size:22
Alignment explanation
Indices: 15784--15844 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
15774 TATCACTCTC
*
15784 TCCAGCGACATCCATTCCTATA
1 TCCAACGACATCCATTCCTATA
15806 TCCAACGACATCCATTCCTATA
1 TCCAACGACATCCATTCCTATA
*
15828 TCTAACGACATCC-TTCC
1 TCCAACGACATCCATTCC
15845 CCATCTCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
21 4 0.11
22 33 0.89
ACGTcount: A:0.28, C:0.38, G:0.07, T:0.28
Consensus pattern (22 bp):
TCCAACGACATCCATTCCTATA
Found at i:15886 original size:17 final size:16
Alignment explanation
Indices: 15853--15891 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
15843 CCCCATCTCT
*
15853 ATTTTTTTTTTACATA
1 ATTTTTTTTCTACATA
*
15869 ATTTTTATTTCTATATA
1 ATTTTT-TTTCTACATA
15886 ATTTTT
1 ATTTTT
15892 CAATGATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTTTTCTACATA
Found at i:16507 original size:12 final size:12
Alignment explanation
Indices: 16486--16519 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16476 ACCACATTTC
*
16486 CAATACCAAACA
1 CAATATCAAACA
16498 CAATATCAAACA
1 CAATATCAAACA
*
16510 CAATCTCAAA
1 CAATATCAAA
16520 ACCCATAACA
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:16672 original size:24 final size:24
Alignment explanation
Indices: 16645--16698 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
16635 GTATTCGAAA
16645 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
16669 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
16693 TTTGAT
1 TTTGAT
16699 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:19271 original size:39 final size:39
Alignment explanation
Indices: 19214--19288 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
19204 GTGAATGCAT
19214 ACATTTTCAGTTAGACATGCATTAGTAACTTGAGTTTGA
1 ACATTTTCAGTTAGACATGCATTAGTAACTTGAGTTTGA
19253 ACATTTTCAGTT-GAACATGCATTAGTAACTTGAGTT
1 ACATTTTCAGTTAG-ACATGCATTAGTAACTTGAGTT
19289 AAATTCGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (39 bp):
ACATTTTCAGTTAGACATGCATTAGTAACTTGAGTTTGA
Found at i:19402 original size:20 final size:20
Alignment explanation
Indices: 19363--19407 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19353 TGCGATTGTT
* *
19363 GCAAAAGTCAAATTCGCAAC
1 GCAAAAATCAAATTCACAAC
*
19383 GCAAAAATCAAATTTACAAC
1 GCAAAAATCAAATTCACAAC
*
19403 ACAAA
1 GCAAA
19408 TTTGACTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.22, G:0.09, T:0.16
Consensus pattern (20 bp):
GCAAAAATCAAATTCACAAC
Found at i:19473 original size:20 final size:20
Alignment explanation
Indices: 19431--19476 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
19421 ATAATCGTAA
* *
19431 TGCGAATTTGACTTTTGTAT
1 TGCGAATTTGACTTTCGCAT
*
19451 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGACTTTCGCAT
19471 TGCGAA
1 TGCGAA
19477 AGTGTACCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (20 bp):
TGCGAATTTGACTTTCGCAT
Found at i:20818 original size:21 final size:21
Alignment explanation
Indices: 20792--20931 Score: 149
Period size: 21 Copynumber: 6.7 Consensus size: 21
20782 GTGAATCGGG
* *
20792 CTCTTGAACGGT-AGGAGGGAC
1 CTCTTGAACGATGA-GAGGGGC
20813 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
** * *
20834 CTCTTGAACGGGGGGAGAGGC
1 CTCTTGAACGATGAGAGGGGC
* *
20855 CTCTTAAAAGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
20876 CTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
**
20897 CTCTTGAACGAT-AGGAGAAGC
1 CTCTTGAACGATGA-GAGGGGC
20918 CTCTTGAACGATGA
1 CTCTTGAACGATGA
20932 CAGGTGAATC
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
20 1 0.01
21 96 0.97
22 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.36, T:0.20
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:20914 original size:63 final size:63
Alignment explanation
Indices: 20806--20931 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
20796 TGAACGGTAG
* * *
20806 GAGGGACCTCTTGAACGATGAGAGGGGCCTCTTGAACGGGGGGAGAGGCCTCTTAAAAGATGA
1 GAGGGACCTCTTGAACGATGAGAGGGGCCTCTTGAACGAGAGGAGAAGCCTCTTAAAAGATGA
* * * * *
20869 GAGGGGCCTCTTGAATGATGAGAGGGGCCTCTTGAACGATAGGAGAAGCCTCTTGAACGATGA
1 GAGGGACCTCTTGAACGATGAGAGGGGCCTCTTGAACGAGAGGAGAAGCCTCTTAAAAGATGA
20932 CAGGTGAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.27, C:0.17, G:0.37, T:0.19
Consensus pattern (63 bp):
GAGGGACCTCTTGAACGATGAGAGGGGCCTCTTGAACGAGAGGAGAAGCCTCTTAAAAGATGA
Found at i:21107 original size:4 final size:4
Alignment explanation
Indices: 21075--21120 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
21065 GGGCCGCTAA
* * * *
21075 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
21121 TGCCAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:23054 original size:19 final size:20
Alignment explanation
Indices: 23016--23059 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
23006 AAACTTAAAT
*
23016 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATCAAAA
23036 TCGCAACGCG-AAATCAAAA
1 TCGCAACGCGAAAATCAAAA
23055 TCGCA
1 TCGCA
23060 TTGCGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATCAAAA
Found at i:23083 original size:20 final size:20
Alignment explanation
Indices: 23055--23123 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
23045 GAAATCAAAA
*
23055 TCGCATTGCGAATTTCATTT
1 TCGCGTTGCGAATTTCATTT
23075 TCGCGTTGCG------ATTT
1 TCGCGTTGCGAATTTCATTT
*
23089 TCGTGTTGCGAATTTCATTT
1 TCGCGTTGCGAATTTCATTT
* *
23109 TTGTGTTGCGAATTT
1 TCGCGTTGCGAATTT
23124 AAGTTTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 13 0.32
20 27 0.68
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.48
Consensus pattern (20 bp):
TCGCGTTGCGAATTTCATTT
Found at i:23090 original size:14 final size:14
Alignment explanation
Indices: 23071--23104 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23061 TGCGAATTTC
23071 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
*
23085 ATTTTCGTGTTGCG
1 ATTTTCGCGTTGCG
*
23099 AATTTC
1 ATTTTC
23105 ATTTTTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:31499 original size:27 final size:27
Alignment explanation
Indices: 31445--31499 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
31435 TTTATTAGAG
* **
31445 AATTTAACACACATATATATATGTAAT
1 AATTTAAAACACATATATATATAAAAT
31472 AATTTAAAACACA-ATATGATATAAAAT
1 AATTTAAAACACATATAT-ATATAAAAT
31499 A
1 A
31500 TATAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.33
Consensus pattern (27 bp):
AATTTAAAACACATATATATATAAAAT
Found at i:44341 original size:31 final size:31
Alignment explanation
Indices: 44274--44374 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
44264 TAATTAGCGC
* * *
44274 AAAAAATAATTA-ATTAATA-AATTTAAAT-
1 AAAAAATAATTATATAAATATTATTTTAATA
*
44302 AAATAATAATTATATAAATATTATTTTAATA
1 AAAAAATAATTATATAAATATTATTTTAATA
* * *
44333 AAAAAATAA-TATTTATATAATTATATTAATA
1 AAAAAATAATTATATAAAT-ATTATTTTAATA
*
44364 TAAAATATAAT
1 -AAAAAATAAT
44375 AACTATTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
28 11 0.19
29 6 0.10
30 14 0.24
31 19 0.33
32 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAAAATAATTATATAAATATTATTTTAATA
Found at i:45114 original size:15 final size:15
Alignment explanation
Indices: 45094--45145 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
45084 CTAGAATTTG
45094 AATTATTGAAAAATT
1 AATTATTGAAAAATT
* *
45109 AATTATT-AGAATTT
1 AATTATTGAAAAATT
*
45123 AAATTACTGAAAAATT
1 -AATTATTGAAAAATT
45139 AATTATT
1 AATTATT
45146 AGAATTTGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 5 0.17
15 19 0.66
16 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (15 bp):
AATTATTGAAAAATT
Found at i:45119 original size:30 final size:30
Alignment explanation
Indices: 45085--45173 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
45075 ACATTTTTAC
*
45085 TAGAATTTGAATTATTGAAAAATTAATTAT
1 TAGAATTTGAATTACTGAAAAATTAATTAT
*
45115 TAGAATTTAAATTACTGAAAAATTAATTAT
1 TAGAATTTGAATTACTGAAAAATTAATTAT
* *
45145 TAGAATTTGAATT-CTGGAAAATGAATTAT
1 TAGAATTTGAATTACTGAAAAATTAATTAT
45174 ATTTTTGGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 14 0.26
30 40 0.74
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.40
Consensus pattern (30 bp):
TAGAATTTGAATTACTGAAAAATTAATTAT
Found at i:45157 original size:15 final size:14
Alignment explanation
Indices: 45085--45157 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
45075 ACATTTTTAC
45085 TAGAATTTGAATTAT
1 TAGAATTT-AATTAT
* *
45100 TGAAAAATTAATTAT
1 T-AGAATTTAATTAT
45115 TAGAATTTAAATTACT
1 TAGAATTT-AATTA-T
* * *
45131 GAAAAATTAATTAT
1 TAGAATTTAATTAT
45145 TAGAATTTGAATT
1 TAGAATTT-AATT
45158 CTGGAAAATG
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 11 0.25
15 22 0.50
16 11 0.25
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.42
Consensus pattern (14 bp):
TAGAATTTAATTAT
Found at i:45487 original size:92 final size:88
Alignment explanation
Indices: 45368--45541 Score: 199
Period size: 90 Copynumber: 1.9 Consensus size: 88
45358 ATTATTATTT
* * * * * *
45368 TAAAATATATTAAAATAATTTATTTA-TTATTAAA-TATTATTTTTATAATTTTATTAATAAAAA
1 TAAAAAATATTAAAATAATTTAATTATTTATTAAAGTAATAGTGTTAT-ATTATATT-ATAAAAA
*
45431 TATTAATATTGGTATATTTTAGTGAAA
64 TATT-A-ATTAGTATATTTTAGTGAAA
* *
45458 TAAAAAATATTATAAATTATATTAATTATTTATTAAAGTAATAGTGTTATATTATATTTTAAAAA
1 TAAAAAATATTA-AAATAAT-TTAATTATTTATTAAAGTAATAGTGTTATATTATATTATAAAAA
45523 TATTAATTAGTATATTTTA
64 TATTAATTAGTATATTTTA
45542 AATATCTTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
90 24 0.34
91 7 0.10
92 16 0.23
93 15 0.21
94 9 0.13
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (88 bp):
TAAAAAATATTAAAATAATTTAATTATTTATTAAAGTAATAGTGTTATATTATATTATAAAAATA
TTAATTAGTATATTTTAGTGAAA
Found at i:45560 original size:23 final size:23
Alignment explanation
Indices: 45511--45561 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
45501 GTGTTATATT
**
45511 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
45534 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
45557 ATATT
1 ATATT
45562 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:45573 original size:19 final size:19
Alignment explanation
Indices: 45549--45619 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
45539 TTAAATATCT
*
45549 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* * *
45568 TTATTATATTAATATTAAA
1 TTATTAAAATATTATTAAA
* *
45587 TATATCAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
45607 TTATTAAATATAT
1 TTATTAAA-ATAT
45620 AAAAAATTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.03
19 25 0.64
20 6 0.15
21 7 0.18
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:45718 original size:22 final size:23
Alignment explanation
Indices: 45690--45736 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
45680 TTGATTTTTT
45690 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
45712 TATTATATTATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
45735 TA
1 TA
45737 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:45742 original size:24 final size:22
Alignment explanation
Indices: 45693--45744 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
45683 ATTTTTTTAT
* *
45693 TATAATATTAAAAATATAATAT
1 TATATTATTAAAAATATAATAA
*
45715 TATATTATTATAAATATTAATAAA
1 TATATTATTAAAAATA-TAAT-AA
45739 TATATT
1 TATATT
45745 TTGAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 4 0.16
24 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATATTATTAAAAATATAATAA
Found at i:46022 original size:42 final size:42
Alignment explanation
Indices: 45966--46060 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
45956 TTCCTCCAAC
* * *
45966 CAAACACTGGAAAACATTTTCCGGAAAACGAATTACATGAAA
1 CAAACACGGGAAAACAATTTCCAGAAAACGAATTACATGAAA
46008 CAAACACGGGAAAACAATTTCCAGAAAACGAATTACATGAAA
1 CAAACACGGGAAAACAATTTCCAGAAAACGAATTACATGAAA
46050 CAAACACGGGA
1 CAAACACGGGA
46061 TTTTGAGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.49, C:0.20, G:0.16, T:0.15
Consensus pattern (42 bp):
CAAACACGGGAAAACAATTTCCAGAAAACGAATTACATGAAA
Found at i:58239 original size:17 final size:18
Alignment explanation
Indices: 58196--58236 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
58186 GAATTATATT
58196 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
58213 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
58231 ATTAAA
1 AGTAAA
58237 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:58297 original size:10 final size:10
Alignment explanation
Indices: 58279--58308 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58269 TTAAACAGAA
*
58279 AGAGTATTTG
1 AGAGAATTTG
58289 AGAGAATTTG
1 AGAGAATTTG
58299 AGAGAATTTG
1 AGAGAATTTG
58309 GTGTGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:60893 original size:17 final size:17
Alignment explanation
Indices: 60871--60903 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60861 AAGAACTTTG
60871 AAAATATGTAAACAAAT
1 AAAATATGTAAACAAAT
60888 AAAATATGTAAACAAA
1 AAAATATGTAAACAAA
60904 AAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAATATGTAAACAAAT
Found at i:60930 original size:14 final size:14
Alignment explanation
Indices: 60911--60961 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
60901 AAAAAATGAA
60911 AAAAAACTTTAATT
1 AAAAAACTTTAATT
*
60925 AAAAAACTTTTATTT
1 AAAAAAC-TTTAATT
*
60940 AAAATAAATTTTAATT
1 -AAA-AAACTTTAATT
60956 AAAAAA
1 AAAAAA
60962 ATTCATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 9 0.29
17 3 0.10
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAAACTTTAATT
Found at i:60930 original size:15 final size:15
Alignment explanation
Indices: 60910--60962 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
60900 CAAAAAATGA
60910 AAAAAAACTTTAATT
1 AAAAAAACTTTAATT
*
60925 -AAAAAACTTTTATTT
1 AAAAAAAC-TTTAATT
*
60940 AAAATAAATTTTAATT
1 AAAA-AAACTTTAATT
60956 AAAAAAA
1 AAAAAAA
60963 TTCATTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.22
15 9 0.28
16 13 0.41
17 3 0.09
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAAAACTTTAATT
Found at i:61239 original size:23 final size:23
Alignment explanation
Indices: 61213--61261 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
61203 TTCAGAATGT
*
61213 ACTTCTGTACTGAATCATTCAAC
1 ACTTCTGTACTGAATCAGTCAAC
* * *
61236 ACTTTTTTGCTGAATCAGTCAAC
1 ACTTCTGTACTGAATCAGTCAAC
61259 ACT
1 ACT
61262 GAATCATTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (23 bp):
ACTTCTGTACTGAATCAGTCAAC
Found at i:61440 original size:32 final size:32
Alignment explanation
Indices: 61389--61474 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
61379 ATTTTTTTTA
61389 AAAAAATATGTT-ATTTTTGAAATTTGGAATT
1 AAAAAATATGTTAATTTTTGAAATTTGGAATT
* * * *
61420 AAAGAATATGTTAATATTTGAAATTTGTATTT
1 AAAAAATATGTTAATTTTTGAAATTTGGAATT
*
61452 AAAAAATATGTTATTTTTTGAAA
1 AAAAAATATGTTAATTTTTGAAA
61475 ATTTAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 11 0.23
32 36 0.77
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (32 bp):
AAAAAATATGTTAATTTTTGAAATTTGGAATT
Found at i:62359 original size:21 final size:21
Alignment explanation
Indices: 62335--62379 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
62325 AAATAATAAA
*
62335 AGTTAAAAAAATCATAGTTAC
1 AGTTAAAAAAAACATAGTTAC
*
62356 AGTTAAAAAAAACCTAGTTAC
1 AGTTAAAAAAAACATAGTTAC
62377 AGT
1 AGT
62380 ACATAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (21 bp):
AGTTAAAAAAAACATAGTTAC
Found at i:67339 original size:13 final size:13
Alignment explanation
Indices: 67321--67345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67311 GACTTTTTAC
67321 CAAAGTCAATGGT
1 CAAAGTCAATGGT
67334 CAAAGTCAATGG
1 CAAAGTCAATGG
67346 GTTGACTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (13 bp):
CAAAGTCAATGGT
Found at i:68327 original size:22 final size:23
Alignment explanation
Indices: 68288--68330 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
68278 AATAATATAT
*
68288 TTTTTAAAACAATGTTTTTTAAA
1 TTTTAAAAACAATGTTTTTTAAA
*
68311 TTTTAAAAATAAT-TTTTTTA
1 TTTTAAAAACAATGTTTTTTA
68331 TTGAGACTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTAAAAACAATGTTTTTTAAA
Found at i:69192 original size:4 final size:4
Alignment explanation
Indices: 69183--69208 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
69173 AAACGTCAAT
69183 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
69209 GTGTGATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:69378 original size:32 final size:32
Alignment explanation
Indices: 69342--69420 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
69332 TCATTTTTTT
69342 TTAAAAATCAATAAAAATACAAT-AAAAAAGAA
1 TTAAAAATCAA-AAAAATACAATAAAAAAAGAA
* * * *
69374 TTAAAAGTGAAGAAAATTCAATAAAAAAAGAA
1 TTAAAAATCAAAAAAATACAATAAAAAAAGAA
*
69406 TATAAAACT-AAAAAA
1 T-TAAAAATCAAAAAA
69421 TATCACCTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 9 0.23
32 24 0.62
33 6 0.15
ACGTcount: A:0.70, C:0.05, G:0.06, T:0.19
Consensus pattern (32 bp):
TTAAAAATCAAAAAAATACAATAAAAAAAGAA
Found at i:69421 original size:31 final size:30
Alignment explanation
Indices: 69354--69422 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
69344 AAAAATCAAT
*
69354 AAAAATACAATAAAAAAGAATTAAAAGTGA
1 AAAAATACAATAAAAAAGAATTAAAACTGA
*
69384 AGAAAATTCAATAAAAAAAGAATATAAAACT-A
1 A-AAAATACAAT-AAAAAAGAAT-TAAAACTGA
69416 AAAAATA
1 AAAAATA
69423 TCACCTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 1 0.03
31 14 0.42
32 12 0.36
33 6 0.18
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.17
Consensus pattern (30 bp):
AAAAATACAATAAAAAAGAATTAAAACTGA
Found at i:70326 original size:27 final size:29
Alignment explanation
Indices: 70294--70356 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
70284 TTTTGATAAT
*
70294 TTTAAAATT-TAAAAAAA-C-CCTAATTTA
1 TTTAAAATTACAAAAAAATCTCC-AATTTA
70321 TTT-AAATTACAAAAAAATCTCCAATTTA
1 TTTAAAATTACAAAAAAATCTCCAATTTA
*
70349 TTAAAAAT
1 TTTAAAAT
70357 CCTAAATCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 5 0.17
27 10 0.33
28 9 0.30
29 6 0.20
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (29 bp):
TTTAAAATTACAAAAAAATCTCCAATTTA
Found at i:73811 original size:2 final size:2
Alignment explanation
Indices: 73798--73841 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
73788 TTTATTTTAT
* *
73798 TA TA TT TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73840 TA
1 TA
73842 CATAACCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79060 original size:251 final size:251
Alignment explanation
Indices: 78617--79124 Score: 998
Period size: 251 Copynumber: 2.0 Consensus size: 251
78607 GAACAAAGAG
78617 CGAGAGATCAACAATGTAAACACCTACAGTGTCAGCAAGGGGGTTACGATCTCAAGCTCAAATTC
1 CGAGAGATCAACAATGTAAACACCTACAGTGTCAGCAAGGGGGTTACGATCTCAAGCTCAAATTC
*
78682 CACAGCAGCTGTACCATCCGGTACTTCTAGACAGAACCAGAGAGAACCAAGAAGAGAAAGGGAAA
66 CACAGCAACTGTACCATCCGGTACTTCTAGACAGAACCAGAGAGAACCAAGAAGAGAAAGGGAAA
*
78747 GGGAGCAGTTCGACCCCATTCCCATGACGTATAAAGAATTATACCAACAGCTCTTCGACACTCAT
131 AGGAGCAGTTCGACCCCATTCCCATGACGTATAAAGAATTATACCAACAGCTCTTCGACACTCAT
78812 GCAGTGTCGCCTTATCCTATGAATCCAATAAATCCCCCTTACCCGAAATGGTATGA
196 GCAGTGTCGCCTTATCCTATGAATCCAATAAATCCCCCTTACCCGAAATGGTATGA
78868 CGAGAGATCAACAATGTAAACACCTACAGTGTCAGCAAGGGGGTTACGATCTCAAGCTCAAATTC
1 CGAGAGATCAACAATGTAAACACCTACAGTGTCAGCAAGGGGGTTACGATCTCAAGCTCAAATTC
78933 CACAGCAACTGTACCATCCGGTACTTCTAGACAGAACCAGAGAGAACCAAGAAGAGAAAGGGAAA
66 CACAGCAACTGTACCATCCGGTACTTCTAGACAGAACCAGAGAGAACCAAGAAGAGAAAGGGAAA
78998 AGGAGCAGTTCGACCCCATTCCCATGACGTATAAAGAATTATACCAACAGCTCTTCGACACTCAT
131 AGGAGCAGTTCGACCCCATTCCCATGACGTATAAAGAATTATACCAACAGCTCTTCGACACTCAT
79063 GCAGTGTCGCCTTATCCTATGAATCCAATAAATCCCCCTTACCCGAAATGGTATGA
196 GCAGTGTCGCCTTATCCTATGAATCCAATAAATCCCCCTTACCCGAAATGGTATGA
79119 CGAGAG
1 CGAGAG
79125 CACTCACTGC
Statistics
Matches: 255, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
251 255 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (251 bp):
CGAGAGATCAACAATGTAAACACCTACAGTGTCAGCAAGGGGGTTACGATCTCAAGCTCAAATTC
CACAGCAACTGTACCATCCGGTACTTCTAGACAGAACCAGAGAGAACCAAGAAGAGAAAGGGAAA
AGGAGCAGTTCGACCCCATTCCCATGACGTATAAAGAATTATACCAACAGCTCTTCGACACTCAT
GCAGTGTCGCCTTATCCTATGAATCCAATAAATCCCCCTTACCCGAAATGGTATGA
Found at i:84833 original size:3 final size:3
Alignment explanation
Indices: 84825--84864 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
84815 CTAAGTTGAA
84825 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
84865 CGTTTAGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:85874 original size:105 final size:105
Alignment explanation
Indices: 85692--86359 Score: 1178
Period size: 105 Copynumber: 6.4 Consensus size: 105
85682 TTTTACTCAA
85692 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
85757 AAGGGACCGCTGGTTGTCAACAAACATATCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
* *
85797 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCATGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
85862 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
* *
85902 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCATGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
85967 AAGGGACCACTGGTTGTCAACAAACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
86007 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
86072 AAGGGACCGCTGGTTGTCACCAAACATTCCTCCAA-TTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTTCAG
*
86112 AGCCAATCTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
86177 AAGGGACCGCTGGTTGTCAACAAACATTTCTCCAA-TTCAG
66 AAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTTCAG
** *
86217 AGCCAATTTCAACTTCACAACGAATCATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
86282 AAGGGACCGCTGGTTGTCAAACACACATTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTC-AACAAACATTTCTCAATTTCAG
86323 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
86360 GGAACAATAC
Statistics
Matches: 541, Mismatches: 19, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
105 486 0.90
106 55 0.10
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAG
Found at i:87937 original size:2 final size:2
Alignment explanation
Indices: 87930--87997 Score: 54
Period size: 2 Copynumber: 36.0 Consensus size: 2
87920 CTCCCTTATT
* * * * * *
87930 TA TA TA TA TA TA TA TC T- TA TG TA TA TT TT TA T- TT TA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87969 TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87998 CATAACCATA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
1 4 0.07
2 51 0.93
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (2 bp):
TA
Found at i:91846 original size:16 final size:17
Alignment explanation
Indices: 91808--91839 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
91798 AAGAAATTTA
91808 ATATA-TAAATATAGAT
1 ATATATTAAATATAGAT
91824 ATATATTAAATA-AGAT
1 ATATATTAAATATAGAT
91840 TTTTATTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATATATTAAATATAGAT
Found at i:92142 original size:2 final size:2
Alignment explanation
Indices: 92135--92160 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92125 CACATTTTTA
92135 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
92161 TAAATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95733 original size:19 final size:20
Alignment explanation
Indices: 95708--95756 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
95698 TGAACGTAAC
**
95708 CTAAAATGTTACAATTTTAT
1 CTAAAATGTTACAATTGAAT
*
95728 -TAAAAT-TTTCAATTGAAT
1 CTAAAATGTTACAATTGAAT
95746 CTAAAATGTTA
1 CTAAAATGTTA
95757 GGGAGGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.39
19 12 0.52
20 2 0.09
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (20 bp):
CTAAAATGTTACAATTGAAT
Found at i:98763 original size:22 final size:22
Alignment explanation
Indices: 98738--98792 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
98728 TCAGGAGTTA
* *
98738 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
98760 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
98782 CAGGAGTTATA
1 CAGGAGTTATA
98793 ACAGCTGAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:104110 original size:22 final size:22
Alignment explanation
Indices: 104085--104139 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
104075 TCAGGAGTTA
* *
104085 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
104107 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
104129 CAGGAGTTATA
1 CAGGAGTTATA
104140 ACAGCTGAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:108423 original size:23 final size:23
Alignment explanation
Indices: 108393--108485 Score: 152
Period size: 23 Copynumber: 4.0 Consensus size: 23
108383 AGTCGAGGGT
*
108393 TCTATGTGGTCCTTTGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
108416 TCTATGTGGTCCTTCGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
*
108439 CCTATGTGGTCCTTCGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
108462 -CTTATGTGGTCCTTCGGGACAAA
1 TC-TATGTGGTCCTTCGGGACAAA
108485 T
1 T
108486 ATGTGGCACT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
22 1 0.02
23 65 0.98
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (23 bp):
TCTATGTGGTCCTTCGGGACAAA
Found at i:110337 original size:48 final size:48
Alignment explanation
Indices: 110281--110373 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
110271 TTGGCGGCGA
* *
110281 TGGTGGCTTCACAATTGGAGGACTCGGGTATACGGGAGCCTTTGGAGC
1 TGGTGGCTTCACAAATGGAGGACTCGGGTAGACGGGAGCCTTTGGAGC
*
110329 TGGTGGCTTCACAAATGGAGGACTCGGGTAGACGGGAGGCTTTGG
1 TGGTGGCTTCACAAATGGAGGACTCGGGTAGACGGGAGCCTTTGG
110374 TGGCGTTGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.19, C:0.17, G:0.40, T:0.24
Consensus pattern (48 bp):
TGGTGGCTTCACAAATGGAGGACTCGGGTAGACGGGAGCCTTTGGAGC
Found at i:113032 original size:3 final size:3
Alignment explanation
Indices: 113024--113097 Score: 114
Period size: 3 Copynumber: 24.7 Consensus size: 3
113014 AATTTTTTCA
* *
113024 TAT TAT TAT TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113072 TAT TAT TAT ATAT TA- TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TA
113098 AATAAAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 60 0.92
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:113109 original size:3 final size:3
Alignment explanation
Indices: 113098--113169 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
113088 ATTATTATTA
113098 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
113145 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
113170 CAAGCCCACA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:114513 original size:21 final size:21
Alignment explanation
Indices: 114462--114514 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
114452 ATTATGACTA
114462 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
114483 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
114504 TCGCAATGCGA
1 TCGCAATGCGA
114515 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:114550 original size:21 final size:21
Alignment explanation
Indices: 114501--114555 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
114491 CGATTTTCCC
*
114501 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
* **
114522 AA-TCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGGA
114542 AATTCGCAATGCGA
1 AATTCGCAATGCGA
114556 TACTGACTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:114570 original size:20 final size:20
Alignment explanation
Indices: 114545--114617 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
114535 ATTGGGAAAT
*
114545 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATACTGACTA
* *
114565 TCGCAACGCGATACTGTCTT
1 TCGCAACGCGATACTGACTA
*
114585 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTA
*
114605 TCGCAACGAGATA
1 TCGCAACGCGATA
114618 ATACATAATC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTA
Found at i:114832 original size:22 final size:22
Alignment explanation
Indices: 114804--114847 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
114794 CACTCTCTCA
*
114804 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
114826 CCCATCTCCGATGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
114848 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.41, G:0.14, T:0.23
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:115146 original size:20 final size:20
Alignment explanation
Indices: 115097--115155 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
115087 TTTATTCTCT
* **
115097 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
115117 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
115137 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
115156 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:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:115346 original size:25 final size:24
Alignment explanation
Indices: 115292--115346 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
115282 TGTTTATTAT
* *
115292 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
115316 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
115342 TGTTT
1 TGTTT
115347 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:117099 original size:19 final size:20
Alignment explanation
Indices: 117056--117100 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
117046 CGCAACACAA
117056 AAATGACTACCGCAATACGG
1 AAATGACTACCGCAATACGG
* * *
117076 AAATGGCTATCGCAATGC-G
1 AAATGACTACCGCAATACGG
117095 AAATGA
1 AAATGA
117101 AAATCACAAC
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):
AAATGACTACCGCAATACGG
Found at i:117141 original size:19 final size:19
Alignment explanation
Indices: 117084--117166 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
117074 GGAAATGGCT
117084 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* * *
117103 ATCACAA--CG--A-CAAC
1 ATCGCAATGCGAAATGAAA
117117 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
117136 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
117155 ATCGCAATGCGA
1 ATCGCAATGCGA
117167 TTTGTGTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 8 0.16
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 37 0.73
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:117221 original size:19 final size:19
Alignment explanation
Indices: 117194--117230 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117184 GATTTTGTCG
117194 TTGCAATTTTCATTTCGCA
1 TTGCAATTTTCATTTCGCA
* *
117213 TTGCGATTTTTATTTCGC
1 TTGCAATTTTCATTTCGC
117231 GTTACGATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (19 bp):
TTGCAATTTTCATTTCGCA
Found at i:117238 original size:19 final size:19
Alignment explanation
Indices: 117199--117238 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
117189 TGTCGTTGCA
*
117199 ATTTTCATTTCGCATTGCG
1 ATTTTCATTTCGCATTACG
* *
117218 ATTTTTATTTCGCGTTACG
1 ATTTTCATTTCGCATTACG
117237 AT
1 AT
117239 AGCCATTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (19 bp):
ATTTTCATTTCGCATTACG
Found at i:117268 original size:20 final size:20
Alignment explanation
Indices: 117245--117283 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
117235 CGATAGCCAT
117245 TTTCGCGTTGCGAAAGTAAG
1 TTTCGCGTTGCGAAAGTAAG
*
117265 TTTCGTGTTGCGAAAGTAA
1 TTTCGCGTTGCGAAAGTAA
117284 ACTATTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
TTTCGCGTTGCGAAAGTAAG
Found at i:117658 original size:21 final size:20
Alignment explanation
Indices: 117632--117700 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
117622 CTGTCATCCC
117632 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
117653 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
117674 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
117694 TCAAGAG
1 TCAAGAG
117701 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:117712 original size:41 final size:42
Alignment explanation
Indices: 117622--117712 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
117612 CCCGACTCAC
* *
117622 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
117664 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
117705 CTGTCATC
1 CTGTCATC
117713 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 23 0.52
42 21 0.48
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:119323 original size:19 final size:19
Alignment explanation
Indices: 119299--119363 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
119289 GCAACGAGAG
119299 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
119318 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
119337 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
119351 AATCGCAATGCGA
1 AATCGCAATGCGA
119364 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:119407 original size:20 final size:20
Alignment explanation
Indices: 119382--119457 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
119372 TCGTATTGCG
*
119382 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
119402 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
119422 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
119442 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
119458 TTCCCCGTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:119474 original size:34 final size:34
Alignment explanation
Indices: 119377--119476 Score: 110
Period size: 40 Copynumber: 2.8 Consensus size: 34
119367 TCATTTCGTA
* *
119377 TTGCGATTTTCTCGTTGCGATAGCCATTTTCGCG
1 TTGCGATTTTCCCGTTGCGATAGTCATTTTCGCG
*
119411 TTGCGATAGCCATTTTCGCGTTGCGATAGTCATTTTCGCG
1 TTGC----G--ATTTTCCCGTTGCGATAGTCATTTTCGCG
*
119451 TTGCGATTTCCCCGTTGCGATAGTCA
1 TTGCGATTTTCCCGTTGCGATAGTCA
119477 AATGAATGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
34 23 0.41
36 1 0.02
38 1 0.02
40 31 0.55
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (34 bp):
TTGCGATTTTCCCGTTGCGATAGTCATTTTCGCG
Found at i:120422 original size:23 final size:23
Alignment explanation
Indices: 120396--120440 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
120386 CACCACAGCT
*
120396 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
120419 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
120441 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:120689 original size:149 final size:149
Alignment explanation
Indices: 120419--120722 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
120409 CGAAGTGCCC
*
120419 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
120484 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
120549 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
120568 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
120633 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
120698 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
120717 CGTAGA
1 CGTAGA
120723 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:121221 original size:67 final size:67
Alignment explanation
Indices: 121111--121262 Score: 250
Period size: 67 Copynumber: 2.3 Consensus size: 67
121101 TTTTTCTCAT
* *
121111 GGGGGAATCGGTTCCCCCCCTAGGGGTATCGATTCCCCCCTAGCATTCTGGAATTTCATATACGT
1 GGGGGTATCGGTT-CCCCCCTAGGGGTATCGATTCCCCCCTAGCATTCTGGAAATTCATATACGT
121176 TGA
65 TGA
* * *
121179 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTAGGGGTATCGATTCCCCCCTAGCATTCTGGAAATTCATATACGTT
121244 GA
66 GA
121246 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
121263 TTGAATAGGT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 67 0.85
68 12 0.15
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTAGGGGTATCGATTCCCCCCTAGCATTCTGGAAATTCATATACGTT
GA
Found at i:127054 original size:23 final size:23
Alignment explanation
Indices: 127028--127072 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
127018 CACCACAGCT
*
127028 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
127051 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
127073 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:127321 original size:149 final size:149
Alignment explanation
Indices: 127051--127354 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
127041 CGAAGTGCCC
*
127051 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
127116 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
127181 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
127200 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
127265 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
127330 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
*
127349 TGTAGA
1 CGTAGA
127355 CCCTCTACCC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:127859 original size:20 final size:21
Alignment explanation
Indices: 127818--127858 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
127808 TTTTTTCTCA
*
127818 TGGGGGAATCGGTTCCCCCCC
1 TGGGGGAATCGATTCCCCCCC
*
127839 TGGGGGTATCGATTCCCCCC
1 TGGGGGAATCGATTCCCCCC
127859 TAGCATTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.37, G:0.32, T:0.22
Consensus pattern (21 bp):
TGGGGGAATCGATTCCCCCCC
Found at i:127929 original size:67 final size:67
Alignment explanation
Indices: 127819--127970 Score: 250
Period size: 67 Copynumber: 2.3 Consensus size: 67
127809 TTTTTCTCAT
* *
127819 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCCCTAGCATTCTGGAATTTCATATACAT
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCCCTAGCATTCTGGAAATTCATATACAT
127884 TGA
65 TGA
* * *
127887 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCCCTAGCATTCTGGAAATTCATATACATT
127952 GA
66 GA
127954 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
127971 TTGAATAGGT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 67 0.85
68 12 0.15
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCCCTAGCATTCTGGAAATTCATATACATT
GA
Found at i:128941 original size:20 final size:20
Alignment explanation
Indices: 128920--129007 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
128910 TGTATTATCT
** *
128920 CGTTGCGATTGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
*
128940 CGTTGCGAAAATCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
128960 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
* *
128980 CGTTGCGAAAGTCAGTATCA
1 CGTTGCGAAAGTCAGAATCG
129000 CGTTGCGA
1 CGTTGCGA
129008 TTTTGTATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:129034 original size:41 final size:41
Alignment explanation
Indices: 128975--129052 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
128965 CGAAAGTCAG
*
128975 TATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCACATTGCGATTTTGTAT
* *
129016 TATCGTGTTGCGATAGTCAGTATCACATTGCGATTTT
1 TATCGCGTTGCGAAAGTCAGTATCACATTGCGATTTT
129053 CCAAATTCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTATCACATTGCGATTTTGTAT
Found at i:129046 original size:20 final size:20
Alignment explanation
Indices: 128915--129049 Score: 101
Period size: 20 Copynumber: 6.7 Consensus size: 20
128905 GATTCTGTAT
* *
128915 TATCTCGTTGCGATTGTCAG
1 TATCACGTTGCGATAGTCAG
* * * *
128935 AATCTCGTTGCGAAAATCAG
1 TATCACGTTGCGATAGTCAG
* * *
128955 AATCGCGTTGCGAAAGTCAG
1 TATCACGTTGCGATAGTCAG
* *
128975 TATCGCGTTGCGAAAGTCAG
1 TATCACGTTGCGATAGTCAG
* *
128995 TATCACGTTGCGATTTTGT-AT
1 TATCACGTTGCGA--TAGTCAG
**
129016 TATCGTGTTGCGATAGTCAG
1 TATCACGTTGCGATAGTCAG
*
129036 TATCACATTGCGAT
1 TATCACGTTGCGAT
129050 TTTCCAAATT
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
19 3 0.03
20 77 0.82
21 12 0.13
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCACGTTGCGATAGTCAG
Found at i:129067 original size:21 final size:20
Alignment explanation
Indices: 129041--129089 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
129031 GTCAGTATCA
*
129041 CATTGCGATTTTCCAAATTCG
1 CATTGCGA-TTTACAAATTCG
**
129062 CATTGCGATTTACTTATTCG
1 CATTGCGATTTACAAATTCG
129082 CATTGCGA
1 CATTGCGA
129090 ATTGGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGCGATTTACAAATTCG
Found at i:129068 original size:41 final size:41
Alignment explanation
Indices: 128975--129070 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
128965 CGAAAGTCAG
* * ** *
128975 TATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTTCAAA
*
129016 TATCGTGTTGCGATAGTCAGTATCACATTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTT-CAAA
*
129058 T-TCGCATTGCGAT
1 TATCGCGTTGCGAT
129071 TTACTTATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTTCAAA
Found at i:129130 original size:21 final size:21
Alignment explanation
Indices: 129079--129130 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
129069 ATTTACTTAT
129079 TCGCATTGCG-AATTGGAAAA
1 TCGCATTGCGAAATTGGAAAA
**
129099 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCGAAATTGGAAAA
129120 TCGCATTGCGA
1 TCGCATTGCGA
129131 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (21 bp):
TCGCATTGCGAAATTGGAAAA
Found at i:129569 original size:20 final size:20
Alignment explanation
Indices: 129553--129592 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
129543 TATATATATA
129553 TATAGTTTTATTCATATTAT
1 TATAGTTTTATTCATATTAT
* * *
129573 TATATTTTTCTTCATTTTAT
1 TATAGTTTTATTCATATTAT
129593 ATTTCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
TATAGTTTTATTCATATTAT
Found at i:138879 original size:75 final size:74
Alignment explanation
Indices: 138774--139004 Score: 219
Period size: 75 Copynumber: 3.1 Consensus size: 74
138764 GAAGCAAATT
* * *
138774 CTGAAAGCCCATTTCAATC-ATAATCAGGAATATTGACGCATTTTGAATGTTCACGTCA-A-CAA
1 CTGAAAGCCCATTTCAATCAAAAAT-TGGAATATTGACGCATTTTGAACG-TC-CGT-ATAGCAA
**
138836 ATGTTGGGGCATG
62 ATACTGGGGCATG
* * *
138849 CTGAAAGCACATTTCAATCAAAAATTGGAATATTGGCGCATTTTGAACGTCTGTATTAGCAAATA
1 CTGAAAGCCCATTTCAATCAAAAATTGGAATATTGACGCATTTTGAACGTCCGTA-TAGCAAATA
138914 CTGGGGCATG
65 CTGGGGCATG
* * *
138924 CTGAAAGCCCATTTCAAT-AAGAAATTGGAATA---A--CATTTTGAACGTTCATATCAGTAAAT
1 CTGAAAGCCCATTTCAATCAA-AAATTGGAATATTGACGCATTTTGAACGTCCGTAT-AGCAAAT
*
138983 GCTGGGGCATG
64 ACTGGGGCATG
*
138994 CTGAAGGCCCA
1 CTGAAAGCCCA
139005 CATCATTATG
Statistics
Matches: 134, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
69 1 0.01
70 40 0.30
72 1 0.01
73 2 0.01
74 5 0.04
75 81 0.60
76 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (74 bp):
CTGAAAGCCCATTTCAATCAAAAATTGGAATATTGACGCATTTTGAACGTCCGTATAGCAAATAC
TGGGGCATG
Found at i:141049 original size:45 final size:45
Alignment explanation
Indices: 140995--141093 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
140985 GGAAGCTTTT
* * * *
140995 TGATATTTTTAAAGCCT-TCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTTAAAGCCTCT-GGGTCATCCGTAAGACCTACAGTGCA
141040 TGATGTTTTTAAAGCCTCTGGGTCATCCGTAAGACCTACAGTGCA
1 TGATGTTTTTAAAGCCTCTGGGTCATCCGTAAGACCTACAGTGCA
141085 TGATGTTTT
1 TGATGTTTT
141094 CAAAAAGCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (45 bp):
TGATGTTTTTAAAGCCTCTGGGTCATCCGTAAGACCTACAGTGCA
Found at i:141111 original size:121 final size:121
Alignment explanation
Indices: 140897--141337 Score: 678
Period size: 121 Copynumber: 3.7 Consensus size: 121
140887 CTATTTCCCA
* * * *
140897 CATCTGTAAGCCATTCAGTGCATGATATTTTTAAAGCCTCTAGGTCATCCGTAAGA-CTTACAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCTCTGGGTCATCCGTAA-ACCCTACAGT
*
140961 GCA-GAATGTTTTCAAAAAGCCTTCGGAAGCTTTTTGATATTTTTAAAGCCTTCGGGT
65 GCATG-ATGTTTTCAAAAAGCCTTCGGAAGCTTTTTGATATTTTTAAAGCCTCCGGGT
141018 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCTCTGGGTCATCCGTAAGA-CCTACAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCTCTGGGTCATCCGTAA-ACCCTACAGT
* *
141082 GCATGATGTTTTCAAAAAGCCTTCAGAAGCTTTTTGATATTTTTAAAGCCTCCAGGT
65 GCATGATGTTTTCAAAAAGCCTTCGGAAGCTTTTTGATATTTTTAAAGCCTCCGGGT
*
141139 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCT-TCGGGTCATCTGTAAACCCTACAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCTCT-GGGTCATCCGTAAACCCTACAGT
*
141203 GCAGGATGTTTTCAAAAAGCCTTCGGAAGCTTTTTGATA-TTTTAAAGCCTCCGGGT
65 GCATGATGTTTTCAAAAAGCCTTCGGAAGCTTTTTGATATTTTTAAAGCCTCCGGGT
* * ** *
141259 TATTTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCTC-GGGTCATCTATAAACCCTTCAGTG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCTCTGGGTCATCCGTAAACCCTACAGTG
141323 CATGATGTTTTCAAA
66 CATGATGTTTTCAAA
141338 GCCTTTGGGT
Statistics
Matches: 300, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
119 36 0.12
120 55 0.18
121 208 0.69
122 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (121 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCCTCTGGGTCATCCGTAAACCCTACAGTG
CATGATGTTTTCAAAAAGCCTTCGGAAGCTTTTTGATATTTTTAAAGCCTCCGGGT
Found at i:141172 original size:45 final size:45
Alignment explanation
Indices: 141116--141214 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
141106 AGAAGCTTTT
* * *
141116 TGATATTTTTAAAGCCTCCAGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTTAAAGCCTCCAGGTCATCTGTAAACCCTACAGTGCA
* *
141161 TGATGTTTTTAAAGCCTTCGGGTCATCTGTAAACCCTACAGTGCA
1 TGATGTTTTTAAAGCCTCCAGGTCATCTGTAAACCCTACAGTGCA
*
141206 GGATGTTTT
1 TGATGTTTT
141215 CAAAAAGCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (45 bp):
TGATGTTTTTAAAGCCTCCAGGTCATCTGTAAACCCTACAGTGCA
Found at i:141379 original size:44 final size:44
Alignment explanation
Indices: 141237--141427 Score: 208
Period size: 45 Copynumber: 4.3 Consensus size: 44
141227 GGAAGCTTTT
* * *
141237 TGATATTTT-AAAGCCTCCGGGTTATTTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCT-CGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
141281 TGATGTTTTTAAAGCCTCGGGTCATCTATAAACCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
141325 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCC-TCGGGTCATCTGTAAGCCCTTCAGTGCA
* ** *
141370 TGATG-TTTCAAAGACCTCAGGGCCATCCATAAGACCTAT-AGTGCA
1 TGATGTTTTCAAAG-CCTC-GGGTCATCTGTAAGCCCT-TCAGTGCA
*
141415 GGATGTTTTCAAA
1 TGATGTTTTCAAA
141428 AAGCCTTCGG
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
44 55 0.44
45 63 0.50
46 8 0.06
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (44 bp):
TGATGTTTTCAAAGCCTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:141680 original size:16 final size:15
Alignment explanation
Indices: 141659--141697 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
141649 TAATTTTTCA
*
141659 TATTATTATATATTGT
1 TATTATTATATA-TAT
141675 TATTATTATATATAT
1 TATTATTATATATAT
141690 TATTATTA
1 TATTATTA
141698 AATGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTATATATAT
Found at i:141688 original size:18 final size:19
Alignment explanation
Indices: 141659--141697 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
141649 TAATTTTTCA
*
141659 TATTATTATATATTGTTAT
1 TATTATTATATATTATTAT
141678 TATTA-TATATATTATTAT
1 TATTATTATATATTATTAT
141696 TA
1 TA
141698 AATGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTATTATATATTATTAT
Found at i:141749 original size:22 final size:22
Alignment explanation
Indices: 141722--141763 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
141712 TAATAATACA
141722 AACCCACAGCCCA-TTTACAAAG
1 AACCCA-AGCCCAGTTTACAAAG
*
141744 AACCCATGCCCAGTTTACAA
1 AACCCAAGCCCAGTTTACAA
141764 GCCCAACCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.36, G:0.10, T:0.17
Consensus pattern (22 bp):
AACCCAAGCCCAGTTTACAAAG
Found at i:143005 original size:19 final size:20
Alignment explanation
Indices: 142973--143011 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
142963 TATATATATA
142973 TATAGTTTTATTCATATTAT
1 TATAGTTTTATTCATATTAT
* *
142993 TATA-TTTTCTTCATTTTAT
1 TATAGTTTTATTCATATTAT
143012 ATTTCTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (20 bp):
TATAGTTTTATTCATATTAT
Found at i:143078 original size:31 final size:33
Alignment explanation
Indices: 143018--143079 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
143008 TTATATTTCT
*
143018 TTAATTTTAGTCATATTAATATATATTATTTGA
1 TTAATTTTAGTCAAATTAATATATATTATTTGA
143051 TTAATTTTA-T-AAATTAATA-ATATTTATTT
1 TTAATTTTAGTCAAATTAATATATA-TTATTT
143080 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 14 0.52
32 1 0.04
33 9 0.33
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (33 bp):
TTAATTTTAGTCAAATTAATATATATTATTTGA
Found at i:143334 original size:2 final size:2
Alignment explanation
Indices: 143327--143355 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
143317 TACAAAACCC
143327 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
143356 ACTTTTTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:143348 original size:13 final size:13
Alignment explanation
Indices: 143330--143356 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
143320 AAAACCCTAT
143330 ATATATATATATA
1 ATATATATATATA
143343 ATATATATATATA
1 ATATATATATATA
143356 A
1 A
143357 CTTTTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATATA
Found at i:144693 original size:56 final size:56
Alignment explanation
Indices: 144626--144747 Score: 217
Period size: 56 Copynumber: 2.2 Consensus size: 56
144616 AATGAGCAAA
*
144626 GATGTACATTTGTTGTATGTTACTAAAATGTATATGGAGTTAATATATTTATATTT
1 GATGTACATTTGTTGTATGTTACTAAAATGTATATGGAGTTAATATATGTATATTT
* *
144682 GATGTATATTTGTTGTATGTTACTAAAATGTATCTGGAGTTAATATATGTATATTT
1 GATGTACATTTGTTGTATGTTACTAAAATGTATATGGAGTTAATATATGTATATTT
144738 GATGTACATT
1 GATGTACATT
144748 GATTTTAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (56 bp):
GATGTACATTTGTTGTATGTTACTAAAATGTATATGGAGTTAATATATGTATATTT
Done.