Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008018.1 Hibiscus syriacus cultivar Beakdansim tig00110485_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: 927418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:2336 original size:15 final size:16
Alignment explanation
Indices: 2304--2336 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2294 AAAATCTTTC
2304 TTTCCCGTTCTAGATT
1 TTTCCCGTTCTAGATT
*
2320 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTAGATT
2335 TT
1 TT
2337 GATCTACCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTCCCGTTCTAGATT
Found at i:3109 original size:16 final size:16
Alignment explanation
Indices: 3085--3118 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3075 TATCGCCGAC
*
3085 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
3101 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
3117 CG
1 CG
3119 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:4787 original size:210 final size:209
Alignment explanation
Indices: 4464--5042 Score: 849
Period size: 208 Copynumber: 2.8 Consensus size: 209
4454 AACATTGTAA
* * * * * * * * *
4464 TGGCTTCTTTAGTCCTCTTTTCCTTGCATAAA-CATCGAT-AATGAACTGAAGGTCACAACATCA
1 TGGCTTCTTTGGTTCTCTTTTCCCTGCATAAAGCATTGATAAAAGAATTGAAAGTTACTACATCA
* * * * **
4527 GGATGGACTCCTTCATTCATCATCCTATCAAGCAAGCTCATCGCTTCTTCCCATTTCCCTGAATG
66 GGATCGACTCTTTCATTCATCATTCTATCGAGCAAGCTTGTCGCTTCTTCCCATTTCCCTGAATG
* *
4592 ACAAAATCCGTGAATCAAAGAATTGTAGGTCACGACTTCTGGTTTTACATTTCTTTGACACAGTA
131 ACAAAATCCGTGAATCAAAGAATTGTAGGTCACGACGTCTGATTTTACATTTCTTTGACACAGTA
4657 GCTCCAACATGGTG
196 GCTCCAACATGGTG
* *
4671 TTGGCTTCTTTGGTTCTCTTTTCCCCGCATAAAGCATTGATAAAAGAATTGAAAGTTGCTACATC
1 -TGGCTTCTTTGGTTCTCTTTTCCCTGCATAAAGCATTGATAAAAGAATTGAAAGTTACTACATC
* * *
4736 AGGATCAACTCTTTCATTCATCATTCTATGGAGCAAACTTGTCGCTTCTTCCCATTTCCCTGAAT
65 AGGATCGACTCTTTCATTCATCATTCTATCGAGCAAGCTTGTCGCTTCTTCCCATTTCCCTGAAT
* * * * *
4801 AACAAAATCCGTGAATCAAAGAATTGTAGGTGATGGCGTCTGATTTTACATTTCTTTGACACATT
130 GACAAAATCCGTGAATCAAAGAATTGTAGGTCACGACGTCTGATTTTACATTTCTTTGACACAGT
*
4866 AGTTCCAACATGGTG
195 AGCTCCAACATGGTG
* *
4881 TGGCTTCTTCGGTTCTC-TTTCCCTGCATAAAGAATTGATAAAAGAATTGAAAGTTACTACATCA
1 TGGCTTCTTTGGTTCTCTTTTCCCTGCATAAAGCATTGATAAAAGAATTGAAAGTTACTACATCA
4945 GGATCGACTCTTTCATTCATCATTCTATCGAGCAAGCTTGTCGCTTCTTCCCATTTCCCTGAATG
66 GGATCGACTCTTTCATTCATCATTCTATCGAGCAAGCTTGTCGCTTCTTCCCATTTCCCTGAATG
*
5010 ACAAAATCCATGAATCAAAGAATTGTAGGTCAC
131 ACAAAATCCGTGAATCAAAGAATTGTAGGTCAC
5043 CTTTACGAGT
Statistics
Matches: 330, Mismatches: 39, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
208 163 0.49
209 22 0.07
210 145 0.44
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (209 bp):
TGGCTTCTTTGGTTCTCTTTTCCCTGCATAAAGCATTGATAAAAGAATTGAAAGTTACTACATCA
GGATCGACTCTTTCATTCATCATTCTATCGAGCAAGCTTGTCGCTTCTTCCCATTTCCCTGAATG
ACAAAATCCGTGAATCAAAGAATTGTAGGTCACGACGTCTGATTTTACATTTCTTTGACACAGTA
GCTCCAACATGGTG
Found at i:6681 original size:19 final size:21
Alignment explanation
Indices: 6640--6681 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6630 CCTTTTCTTC
*
6640 TATTTTCTATATAGTTATGAA
1 TATTGTCTATATAGTTATGAA
6661 TATTGTCTA-ATAGTT-TGAA
1 TATTGTCTATATAGTTATGAA
6680 TA
1 TA
6682 AGATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
TATTGTCTATATAGTTATGAA
Found at i:12356 original size:210 final size:210
Alignment explanation
Indices: 11987--12845 Score: 1238
Period size: 210 Copynumber: 4.1 Consensus size: 210
11977 CCATCTTACT
* * ** * * * *
11987 GAGCAAGATTGTGGCTTCT-TCACATTGGCCTGATTTGCACAATCCATGTATTAAACAACCGTAG
1 GAGCAAGCTTGTTGCTTCTGTC-CATTTACCTGAATTGCAGAATCCATGTATCAAACAACTGTAG
* * * * * * *
12051 GTGACTATGTCAGGTTTTACATTTCTTTGACTCATTACTTCCAATAAGGTAATGGCTTCTTCTGT
65 GTGACTATGTCAGGTTTTACATTCCTCTGACTCATCAATTCCAACATGGTAATGGCTTCTTCGGT
* * * * * * **
12116 TCTCTTTTCCTTGCATAAAGCATCGATTAAAGAATTGAAAGTTACTACATTAGGATGGA-TTCTG
130 CCTCTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAAAGTCACAACATCAGGATGGACACCT-
*
12180 TCATTCATCATTCTCTC
194 TCATTCATCATTCTATC
*
12197 GAGCAAGTTTGTTGCTTCTGTCCATTTACCTGAATTGCAGAATCCATGTATCAAACAACTGTAGG
1 GAGCAAGCTTGTTGCTTCTGTCCATTTACCTGAATTGCAGAATCCATGTATCAAACAACTGTAGG
* *
12262 TGACTATGTCAGGTTTTACATTCCTCTGACTCATCAGTTCCAACATGGTAATGGCTTCTTCAGTC
66 TGACTATGTCAGGTTTTACATTCCTCTGACTCATCAATTCCAACATGGTAATGGCTTCTTCGGTC
* *
12327 CTCTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAAAGTCACAACATCAGGATGAACTCCTTC
131 CTCTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAAAGTCACAACATCAGGATGGACACCTTC
12392 ATTCATCATTCTATC
196 ATTCATCATTCTATC
*
12407 GAGCAAGCTTGTTGCTTCTGTCCATTTACCTGAATTGCAGAATCCATGTATCAAACAATTGTAGG
1 GAGCAAGCTTGTTGCTTCTGTCCATTTACCTGAATTGCAGAATCCATGTATCAAACAACTGTAGG
** * *
12472 TGA-TAATGTTGGGTTTTACATTCGTCTGACTCATCAATTCCAACATGGTAATGGCTTCTTTGGT
66 TGACT-ATGTCAGGTTTTACATTCCTCTGACTCATCAATTCCAACATGGTAATGGCTTCTTCGGT
* *
12536 CCTCTTTTCCTTGCAAAAAGCATTGATTAAAGAACTGAAAGTCACAACATTAGGATGGACACCTT
130 CCTCTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAAAGTCACAACATCAGGATGGACACCTT
12601 CATTCATCATTCTATC
195 CATTCATCATTCTATC
* * * *
12617 GAGCAAGCTTGTTGCTTCAGTCCATTTACCTGAATTGCAAAATCCATGTATTAAACAATTGTAGG
1 GAGCAAGCTTGTTGCTTCTGTCCATTTACCTGAATTGCAGAATCCATGTATCAAACAACTGTAGG
* * * *
12682 TTACAATGTCGGGTTTTACATTCCTCTGACTCATCAACTCCAACATGGTAATGGCTTCTTCGGTC
66 TGACTATGTCAGGTTTTACATTCCTCTGACTCATCAATTCCAACATGGTAATGGCTTCTTCGGTC
* *
12747 CTGTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAAAATCACAACATCAGGATGGACACCTTC
131 CTCTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAAAGTCACAACATCAGGATGGACACCTTC
* *
12812 ATTCATCATCCTATT
196 ATTCATCATTCTATC
12827 GAGCAAGCTTGTTGCTTCT
1 GAGCAAGCTTGTTGCTTCT
12846 TCCCATCGCA
Statistics
Matches: 593, Mismatches: 52, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
209 1 0.00
210 587 0.99
211 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (210 bp):
GAGCAAGCTTGTTGCTTCTGTCCATTTACCTGAATTGCAGAATCCATGTATCAAACAACTGTAGG
TGACTATGTCAGGTTTTACATTCCTCTGACTCATCAATTCCAACATGGTAATGGCTTCTTCGGTC
CTCTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAAAGTCACAACATCAGGATGGACACCTTC
ATTCATCATTCTATC
Found at i:12821 original size:105 final size:104
Alignment explanation
Indices: 12300--12821 Score: 248
Period size: 105 Copynumber: 5.0 Consensus size: 104
12290 ACTCATCAGT
* *
12300 TCCAACATGGTAATGGCTTCTTCAGTCCTCTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAA
1 TCCAACATGGTAATGGCTTCTTCGGTCCTATTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAA
* * *
12365 AGTCACAACATCAGGATGAACTCCTTCATTCATCATTCTA
66 AGTCACAACATCAGGATGGACACCTTCATTCATCA-TCAA
* * * * * * * ** * *
12405 TCGAGCAAGCT--T-G-TTGCTTCTGTCC-ATTTACCTGAATTGCAGAATCCA-TGTATCAAACA
1 TCCAACATGGTAATGGCTT-CTTCGGTCCTATTTTCC----TTGCAAAAAGCATTG-ATTAAAGA
* * * * ** ** * ** * *
12464 ATTGTAGGTGATAATGTTGGGTTTTACA--TTCGTCTGACTCATCAA
60 ATTGAAAGTCACAACATCAGGATGGACACCTTCAT-TCA-TCATCAA
* * *
12509 TTCCAACATGGTAATGGCTTCTTTGGTCCTCTTTTCCTTGCAAAAAGCATTGATTAAAGAACTGA
1 -TCCAACATGGTAATGGCTTCTTCGGTCCTATTTTCCTTGCAAAAAGCATTGATTAAAGAATTGA
* *
12574 AAGTCACAACATTAGGATGGACACCTTCATTCATCATTCTA
65 AAGTCACAACATCAGGATGGACACCTTCATTCATCA-TCAA
* * * * * * ** *
12615 TCGAGCAAGCT--T-G-TTGCTTCAGTCC-ATTTACCTGAATTGCAAAATCCA-TGTATTAAACA
1 TCCAACATGGTAATGGCTT-CTTCGGTCCTATTTTCC----TTGCAAAAAGCATTG-ATTAAAGA
* * * ** * * ** * *
12674 ATTGTAGGTTACAATGTCGGGTTTTACA--TTCCTCTGACTCATCAA
60 ATTGAAAGTCACAACATCAGGATGGACACCTTCAT-TCA-TCATCAA
*
12719 CTCCAACATGGTAATGGCTTCTTCGGTCCTGTTTTCCTTGCAAAAAGCATTGATTAAAGAATTGA
1 -TCCAACATGGTAATGGCTTCTTCGGTCCTATTTTCCTTGCAAAAAGCATTGATTAAAGAATTGA
*
12784 AAATCACAACATCAGGATGGACACCTTCATTCATCATC
65 AAGTCACAACATCAGGATGGACACCTTCATTCATCATC
12822 CTATTGAGCA
Statistics
Matches: 281, Mismatches: 101, Indels: 70
0.62 0.22 0.15
Matches are distributed among these distances:
101 14 0.05
102 17 0.06
103 10 0.04
104 14 0.05
105 174 0.62
106 11 0.04
107 10 0.04
108 17 0.06
109 14 0.05
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (104 bp):
TCCAACATGGTAATGGCTTCTTCGGTCCTATTTTCCTTGCAAAAAGCATTGATTAAAGAATTGAA
AGTCACAACATCAGGATGGACACCTTCATTCATCATCAA
Found at i:14541 original size:15 final size:16
Alignment explanation
Indices: 14521--14552 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14511 CATATATATT
14521 TAGGTAAA-TACATAG
1 TAGGTAAACTACATAG
14536 TAGGTAAACTACATAG
1 TAGGTAAACTACATAG
14552 T
1 T
14553 GACCAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (16 bp):
TAGGTAAACTACATAG
Found at i:15264 original size:17 final size:15
Alignment explanation
Indices: 15148--15282 Score: 65
Period size: 16 Copynumber: 8.2 Consensus size: 15
15138 ATCAAAGAAA
15148 AAAATAAATAAAATAAT
1 AAAA-AAATAAAA-AAT
*
15165 AAATCAAAAGAAAAAAT
1 AAA--AAAATAAAAAAT
*
15182 GAAAAAAA-AGAAAATTT
1 -AAAAAAATA-AAAA-AT
* *
15199 AAATAAATTGAAAAAT
1 AAA-AAAATAAAAAAT
* *
15215 AAAAAAAGAATAAAT
1 AAAAAAATAAAAAAT
* *
15230 CAAAGAAAGAAAAAAT
1 -AAAAAAATAAAAAAT
15246 AAAATAAATAAAAATAT
1 AAAA-AAATAAAAA-AT
*
15263 AATGAAAATAAAAAAAT
1 AA-AAAAAT-AAAAAAT
15280 AAA
1 AAA
15283 TCAAAGACAA
Statistics
Matches: 91, Mismatches: 15, Indels: 25
0.69 0.11 0.19
Matches are distributed among these distances:
15 12 0.13
16 36 0.40
17 26 0.29
18 16 0.18
19 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:15277 original size:64 final size:63
Alignment explanation
Indices: 15145--15289 Score: 156
Period size: 64 Copynumber: 2.3 Consensus size: 63
15135 TTAATCAAAG
* *
15145 AAAAAAATAAATAAAATAATAAATCAAAAGAAAAAATGAAAAAAAAGAAAATTTAAAT-AAAT
1 AAAAAAATAAATAAAAGAATAAATCAAAAGAAAAAATGAAAAAAAAGAAAATATAAATAAAAT
**
15207 TGAAAAATAAA-AAAAGAATAAATCAAAGAAAGAAAAAAT-AAAATAAATA-AAAATAT-AATGA
1 AAAAAAATAAATAAAAGAATAAATC--A-AAAGAAAAAATGAAAA-AAA-AGAAAATATAAAT-A
15268 AAAT
60 AAAT
*
15272 AAAAAAATAAATCAAAGA
1 AAAAAAATAAATAAAAGA
15290 CAACGAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
61 12 0.18
62 9 0.13
63 8 0.12
64 20 0.29
65 14 0.21
66 5 0.07
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (63 bp):
AAAAAAATAAATAAAAGAATAAATCAAAAGAAAAAATGAAAAAAAAGAAAATATAAATAAAAT
Found at i:15299 original size:29 final size:27
Alignment explanation
Indices: 15132--15299 Score: 78
Period size: 29 Copynumber: 5.8 Consensus size: 27
15122 CATAAATATT
* *
15132 AAATTAATCAAAGAAAAAAATAAATAAAA
1 AAATAAATCAAAG-AAAGAA-AAATAAAA
*
15161 TAATAAATCAAAAGAAA-AAATGAA-AAAA
1 AAATAAATC-AAAGAAAGAAA--AATAAAA
* *
15189 AAGA-AAATTTAAATAAATTGAAAAATAAAAAA
1 AA-ATAAA-TCAAAGAAA--GAAAAAT--AAAA
15221 AGAATAAATCAAAGAAAGAAAAAATAAAA
1 A-AATAAATCAAAGAAAG-AAAAATAAAA
* *
15250 TAAATAAA--AATATAATG-AAAATAAAA
1 -AAATAAATCAA-AGAAAGAAAAATAAAA
15276 AAATAAATCAAAGACAACGAAAAA
1 AAATAAATCAAAGA-AA-GAAAAA
15300 AGGAAGAATA
Statistics
Matches: 107, Mismatches: 11, Indels: 42
0.67 0.07 0.26
Matches are distributed among these distances:
25 7 0.07
26 11 0.10
27 6 0.06
28 21 0.20
29 30 0.28
30 6 0.06
31 9 0.08
32 13 0.12
33 4 0.04
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.16
Consensus pattern (27 bp):
AAATAAATCAAAGAAAGAAAAATAAAA
Found at i:15309 original size:29 final size:25
Alignment explanation
Indices: 15215--15311 Score: 79
Period size: 28 Copynumber: 3.6 Consensus size: 25
15205 ATTGAAAAAT
15215 AAAAAAAGAATAAATCAAAGAAAGA
1 AAAAAAAGAATAAATCAAAGAAAGA
* *
15240 AAAAATAA-AATAAATAAAAATATAATGA
1 AAAAA-AAGAATAAAT-CAAAGA-AA-GA
*
15268 AAATAAAAAAATAAATCAAAGACAACGA
1 AAA-AAAAGAATAAATCAAAGA-AA-GA
15296 AAAAAGGAAGAATAAA
1 AAAAA--AAGAATAAA
15312 AAATAATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
25 12 0.21
26 6 0.11
27 4 0.07
28 18 0.32
29 17 0.30
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.12
Consensus pattern (25 bp):
AAAAAAAGAATAAATCAAAGAAAGA
Found at i:15400 original size:16 final size:15
Alignment explanation
Indices: 15367--15406 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
15357 GTTAAATTTT
*
15367 AAAAATAATAAAATA
1 AAAAATAATAAAAGA
*
15382 AAAAATAATATGAAGA
1 AAAAATAATA-AAAGA
15398 AAAAATAAT
1 AAAAATAAT
15407 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (15 bp):
AAAAATAATAAAAGA
Found at i:15444 original size:39 final size:42
Alignment explanation
Indices: 15304--15441 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 42
15294 GAAAAAAGGA
* ** * *
15304 AGAATAAAAAATAATTAAAAAAATTAATGAAATAAAAAGA-AAA
1 AGAAGAAAAAATAATTTTAAAAA-TAATAAAATAAAAA-ATAAT
*
15347 AGAA-AAAAAGGTTAAATTTTAAAAATAATAAAATAAAAAATAAT
1 AGAAGAAAAA--AT-AATTTTAAAAATAATAAAATAAAAAATAAT
15391 ATGAAGAAAAAATAATTTTATAAAA-AATAAAA-AAAAAATAAT
1 A-GAAGAAAAAATAATTTTA-AAAATAATAAAATAAAAAATAAT
*
15433 A-AAGTAAAA
1 AGAAGAAAAA
15442 TAAAAAACTT
Statistics
Matches: 81, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
40 7 0.09
42 16 0.20
43 19 0.23
44 22 0.27
45 12 0.15
46 5 0.06
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (42 bp):
AGAAGAAAAAATAATTTTAAAAATAATAAAATAAAAAATAAT
Found at i:17290 original size:164 final size:163
Alignment explanation
Indices: 16822--17982 Score: 1360
Period size: 164 Copynumber: 7.0 Consensus size: 163
16812 AGCCTTCTTC
* * *
16822 CCTTGAGCTATTCTGTAAATTTGATTTGCCTCTG-AGCTGAGTGTAATCGAACTCGAAGGTCTTT
1 CCTTGAGTTATGCTGTAAA--TGATGTGCCTC-GAAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* * *
16886 GGCAGATAGCCATTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCG
63 GGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
* *
16951 AACTCGAAGGTCTTTTGGTGGCATATAACCCTTCTAG
128 AACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAG
*
16988 CCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTCGG
1 CCTTGAGTTATGCTGTAAATGATGTG-CCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-T---
* * *
17053 TTGGAAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCTAAGCGTAGT
61 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
*
17118 CGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAG
126 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAG
* *
17156 CCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGG
1 CCTTGAGTTATGCTGTAAATGATGTG-CCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
* *
17221 CAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAA
65 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
17286 CTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAG
130 CTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAG
* * * * *
17321 CCTTGAGTTATACTGTAAATGATTTACCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAGC
1 CCTTGAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
* * * * *
17386 AGATAACCCTTCTCGATTTAAGTTATGTTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAAC
66 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
17451 TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
131 TCGAAGGTCTTTGG-TGACAGATAACCCTTCTAG
* * * * * * * * *
17485 ACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAGTCGAAATCGAAGATCTTTTTG
1 CCTTGAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--TTTG
* * * * * * * * * *** *
17550 GTCACAGATAACCCTTCTAGTCTTGAGTTATGTTGTAAATGGTGTGCCCTTGAAGCTGAATATAA
64 G---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
* * * * *
17615 TCAAACTTGAGGGTCTTT-G-G-CAGATAGCCCTTCTCG
125 TCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAG
* * * * * * * * *
17651 ACTTAAGCTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGT
1 CCTTGAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--T
* * * * * *
17716 TGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATAATATGCCTTGGAGCTGAGCGTAGTC
62 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
17781 GAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAG
127 GAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAG
* * * *
17819 CCTTGAGTTATGCTGTAAATGATGTGCCCCAGAAGATGAGTGTAATTGAACTCG-AGAGTCTTTA
1 CCTTGAGTTATGCTGTAAATGATGTGCCTC-GAAGCTGAGTGTAATCGAACTCGAAG-GTCTTTG
*
17883 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTTGA
64 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
17948 ACTCGAAGGTCTTTGGTTACAGATAACCCTTCTAG
129 ACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAG
17983 AGTTAGCCCT
Statistics
Matches: 862, Mismatches: 111, Indels: 46
0.85 0.11 0.05
Matches are distributed among these distances:
163 5 0.01
164 296 0.34
165 185 0.21
166 93 0.11
167 4 0.00
168 122 0.14
169 130 0.15
170 27 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (163 bp):
CCTTGAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTGACAGATAACCCTTCTAG
Found at i:17342 original size:84 final size:82
Alignment explanation
Indices: 16855--17983 Score: 1067
Period size: 84 Copynumber: 13.6 Consensus size: 82
16845 ATTTGCCTCT
* * * * * * *
16855 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG--CAGATAGCCATTCTCGACTTAAGCTATGTT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACTTAAGTTATGCT
16918 GCAAATGATGTGCCTTG
66 GCAAATGATGTGCCTTG
* * * * *
16935 GAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTGGCATATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-ACAGATAACCCTTCTAGACTTAAGTTATG
* * *
17000 TTGTAAATGATGTGCCCTCG
64 CTGCAAATGATGTG-CCTTG
* * * * * * **
17020 AAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGA-AGATAGCCCTTCTCGACTTAAACTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T--ACAGATAACCCTTCTAGACTTAAGTTAT
17084 GCTGCAAATGATGTGCCTTG
63 GCTGCAAATGATGTGCCTTG
* * *
17104 GAGCTAAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-ACAGATAACCCTTCTAGACTTAAGTTATGC
* *
17169 TGTAAATGATGTGCCCTCG
65 TGCAAATGATGTG-CCTTG
* * * * * * * * *
17188 AAGCTGAGTGTAATCGAACTTGAGGGTCTTTGG--CAGATAGCCCTTATCGACTTAAGCTATGCT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACTTAAGTTATGCT
17251 GCAAATGATGTGCCTTG
66 GCAAATGATGTGCCTTG
* * * *
17268 GAGCTGAACGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-ACAGATAACCCTTCTAGACTTAAGTTATG
* * * *
17333 CTGTAAATGATTTACCTCG
64 CTGCAAATGATGTGCCTTG
* * * * * * * *
17352 AAGCTGAGTGTAATCGAACTCGAGGGTCTTTAG--CAGATAACCCTTCTCGATTTAAGTTATGTT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACTTAAGTTATGCT
*
17415 GCAAATGATGTGCCTTA
66 GCAAATGATGTGCCTTG
* *
17432 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-ACAGATAACCCTTCTAGACTTAAGTTATG
*
17497 CTGCAAATGATATGCCTTG
64 CTGCAAATGATGTGCCTTG
* * * * *
17516 AAGCTGAGCGTAGTCGAAATCGAAGATCTTTTTGGTCACAGATAACCCTTCTAGTCTTGAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC--TTTGGT-ACAGATAACCCTTCTAGACTTAAGTTAT
* * *
17581 GTTGTAAATGGTGTGCCCTTG
63 GCTGCAAATGATGTG-CCTTG
* *** * * * * * * *
17602 AAGCTGAATATAATCAAACTTGAGGGTCTTTGG--CAGATAGCCCTTCTCGACTTAAGCTATGCT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACTTAAGTTATGCT
* *
17665 GTAAATGATATGCCTTG
66 GCAAATGATGTGCCTTG
* * ** *
17682 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGTAGATAACCCTTCTTGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GGT-ACAGATAACCCTTCTAGACTTAAGTTATG
* *
17747 CTGCAAATAATATGCCTTG
64 CTGCAAATGATGTGCCTTG
* *
17766 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-ACAGATAACCCTTCTAGACTTAAGTTATG
* **
17831 CTGTAAATGATGTGCCCCAG
64 CTGCAAATGATGTG-CCTTG
* * * * * * * * *
17851 AAGATGAGTGTAATTGAACTCG-AGAGTCTTTAG--CAGATAGCCCTTCTCGACTTAAGCTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAG-GTCTTTGGTACAGATAACCCTTCTAGACTTAAGTTATGC
17913 TGCAAATGATGTGCCTTG
65 TGCAAATGATGTGCCTTG
*
17931 GAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTTACAGATAACCCTTCTAGA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TACAGATAACCCTTCTAGA
17984 GTTAGCCCTC
Statistics
Matches: 841, Mismatches: 177, Indels: 59
0.78 0.16 0.05
Matches are distributed among these distances:
80 170 0.20
81 118 0.14
82 1 0.00
83 54 0.06
84 345 0.41
85 123 0.15
86 30 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (82 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTACAGATAACCCTTCTAGACTTAAGTTATGCT
GCAAATGATGTGCCTTG
Found at i:17930 original size:249 final size:249
Alignment explanation
Indices: 16822--17980 Score: 1338
Period size: 249 Copynumber: 4.7 Consensus size: 249
16812 AGCCTTCTTC
* * * *
16822 CCTTGAGCTATTCTGTAAATTTGATTTGCCTCTG-AGCTGAGTGTAATCGAACTCGA-AGGTCTT
1 CCTTGAGTTATGCTGTAAA--TGATGTGCCCCTGAAGCTGAGTGTAATCGAACTCGAGA-GTCTT
* * *
16885 TGGCAGATAGCCATTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTC
63 TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * * * * *
16950 GAACTCGAAGGTCTTTTGG-TGGCATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTG
128 GAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG
* * * * *
17014 CCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGG--A-AGATAGCCCTTCTCG
192 -CCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTT---TTGGTCACAGATAACCCTTCTAG
* * ** * * * * * *
17073 ACTTAAACTATGCTGCAAATGATGTG-CCTTGGAGCTAAGCGTAGTCGAACTCGA-AGGTCTTTG
1 CCTTGAGTTATGCTGTAAATGATGTGCCCCTGAAGCTGAGTGTAATCGAACTCGAGA-GTCTTTG
* * * * * * * * * *
17136 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
65 G---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
* * * * * *
17201 TCGAACTTGAGGGTC--T--TTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGT
126 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
* *
17262 GCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAG
191 GCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAG
* * * * * *
17321 CCTTGAGTTATACTGTAAATGATTTACCTC-GAAGCTGAGTGTAATCGAACTCGAGGGTCTTTAG
1 CCTTGAGTTATGCTGTAAATGATGTGCCCCTGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
* * * * *
17385 CAGATAACCCTTCTCGATTTAAGTTATGTTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
66 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
17450 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
131 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* *
17515 GAAGCTGAGCGTAGTCGAAATCGAAGATCTTTTTGGTCACAGATAACCCTTCTAG
196 GAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTTGGTCACAGATAACCCTTCTAG
* * * * * * * * *
17570 TCTTGAGTTATGTTGTAAATGGTGTGCCCTTGAAGCTGAATATAATCAAACTTGAGGGTCTTTGG
1 CCTTGAGTTATGCTGTAAATGATGTGCCCCTGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
* *
17635 CAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
66 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * * *
17700 CTCAAAGGTCTTTAGTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATAATATGCCTT
131 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* *
17765 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAG
196 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAG
* * * *
17819 CCTTGAGTTATGCTGTAAATGATGTGCCCCAGAAGATGAGTGTAATTGAACTCGAGAGTCTTTAG
1 CCTTGAGTTATGCTGTAAATGATGTGCCCCTGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
*
17884 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAA
66 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
17949 CTCGAAGGTCTTTGGTT-ACAGATAACCCTTCT
131 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
17981 AGAGTTAGCC
Statistics
Matches: 763, Mismatches: 128, Indels: 37
0.82 0.14 0.04
Matches are distributed among these distances:
244 26 0.03
245 40 0.05
246 1 0.00
247 1 0.00
248 175 0.23
249 272 0.36
250 174 0.23
251 14 0.02
252 34 0.04
253 26 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (249 bp):
CCTTGAGTTATGCTGTAAATGATGTGCCCCTGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTGG
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAG
Found at i:18014 original size:23 final size:23
Alignment explanation
Indices: 17991--18037 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
17981 AGAGTTAGCC
17991 CTCGAAGCTGAAATAGATGTGCCCTT
1 CTCGAAGCTGAAATA-ATGTG-CC-T
*
18017 CTCGATGCTGAAATAATGTGC
1 CTCGAAGCTGAAATAATGTGC
18038 GTGAGTCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 1 0.05
25 5 0.25
26 14 0.70
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (23 bp):
CTCGAAGCTGAAATAATGTGCCT
Found at i:22585 original size:21 final size:21
Alignment explanation
Indices: 22560--22604 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
22550 TTCTAAAAAA
*
22560 GGTACTCAAGTTCTCCTTGCT
1 GGTACCCAAGTTCTCCTTGCT
*
22581 GGTACCCGAGTTCTCCTTGCT
1 GGTACCCAAGTTCTCCTTGCT
22602 GGT
1 GGT
22605 GCCCCCTTGG
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:0.11, C:0.29, G:0.24, T:0.36
Consensus pattern (21 bp):
GGTACCCAAGTTCTCCTTGCT
Found at i:23435 original size:29 final size:28
Alignment explanation
Indices: 23389--23443 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
23379 AAATAAATAT
*
23389 TAAAATAATCAAAGAAAAAAATAAAATTA
1 TAAAATAATCAAACAAAAAAA-AAAATTA
*
23418 TAAAATAAT-AAATCAAAAGAAAAAAT
1 TAAAATAATCAAA-CAAAAAAAAAAAT
23444 GAAAAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (28 bp):
TAAAATAATCAAACAAAAAAAAAAATTA
Found at i:23513 original size:16 final size:14
Alignment explanation
Indices: 23475--23554 Score: 65
Period size: 15 Copynumber: 5.5 Consensus size: 14
23465 AAATAAATTG
23475 AAAAATAAGAAAAAT
1 AAAAA-AAGAAAAAT
23490 AAAAAAAGAATAAAT
1 AAAAAAAGAA-AAAT
*
23505 CAAAGAAAGAAAAAAT
1 -AAAAAAAG-AAAAAT
*
23521 AAAATAAATAAAAAT
1 AAAA-AAAGAAAAAT
* *
23536 --ATAATGAAAAAT
1 AAAAAAAGAAAAAT
23548 AAAAAAA
1 AAAAAAA
23555 AAACGAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
12 8 0.16
13 1 0.02
14 8 0.16
15 18 0.35
16 14 0.27
17 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.14
Consensus pattern (14 bp):
AAAAAAAGAAAAAT
Found at i:23562 original size:18 final size:18
Alignment explanation
Indices: 23526--23564 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23516 AAAATAAAAT
* * *
23526 AAATAAAAATATAATGAA
1 AAATAAAAAAAAAACGAA
23544 AAATAAAAAAAAAACGAA
1 AAATAAAAAAAAAACGAA
23562 AAA
1 AAA
23565 ATGAAGAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (18 bp):
AAATAAAAAAAAAACGAA
Found at i:23564 original size:45 final size:49
Alignment explanation
Indices: 23513--23606 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 49
23503 ATCAAAGAAA
*
23513 GAAAAAAT-AA-AATAAATAAA-AATATAATGAAA-AATAAAA-AAAAAAC
1 GAAAAAATGAAGAATAAA-AAATAAT-TAATAAAATAATAAAATAAAAAAC
23559 GAAAAAATGAAGAATAAAAAATAATTAATAAAATAATAAAATAAAAAA
1 GAAAAAATGAAGAATAAAAAATAATTAATAAAATAATAAAATAAAAAA
23607 GGTTAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
46 8 0.19
47 12 0.29
48 16 0.38
49 6 0.14
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (49 bp):
GAAAAAATGAAGAATAAAAAATAATTAATAAAATAATAAAATAAAAAAC
Found at i:23577 original size:14 final size:12
Alignment explanation
Indices: 23514--23606 Score: 59
Period size: 12 Copynumber: 7.5 Consensus size: 12
23504 TCAAAGAAAG
23514 AAAAAATAAAAT
1 AAAAAATAAAAT
*
23526 -AAATA-AAAAT
1 AAAAAATAAAAT
**
23536 ATAATGA-AAAAT
1 A-AAAAATAAAAT
*
23548 AAAAAA-AAAACG
1 AAAAAATAAAA-T
23560 AAAAAATGAAGAAT
1 AAAAAAT-AA-AAT
23574 AAAAAATAATTAAT
1 AAAAAATAA--AAT
23588 AAAATAATAAAAT
1 AAAA-AATAAAAT
23601 AAAAAA
1 AAAAAA
23607 GGTTAAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
10 5 0.08
11 11 0.17
12 17 0.26
13 9 0.14
14 16 0.25
15 7 0.11
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:24673 original size:28 final size:28
Alignment explanation
Indices: 24595--24688 Score: 107
Period size: 28 Copynumber: 3.1 Consensus size: 28
24585 TTTAAAAATG
24595 TATATTTTATTTTTATTTTTATTTAAATTTAAA
1 TATATTTTATTTTTATTTTTATTT--A---AAA
* *
24628 TATATATATATATATTATTTTTATTTAAAA
1 TATAT-TTTAT-TTTTATTTTTATTTAAAA
24658 TATATTTTATTTTTATTTTTATTTAAAA
1 TATATTTTATTTTTATTTTTATTTAAAA
24686 TAT
1 TAT
24689 TATAAGAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
28 20 0.36
29 4 0.07
30 8 0.15
33 6 0.11
34 4 0.07
35 13 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
TATATTTTATTTTTATTTTTATTTAAAA
Found at i:24783 original size:53 final size:56
Alignment explanation
Indices: 24698--24822 Score: 130
Period size: 53 Copynumber: 2.3 Consensus size: 56
24688 TTATAAGAAT
* * *** ** *
24698 AAAATATAAATATTTAAGTTAAGGTAAGAATAACTTATATTTTTAA-TTTA-AT-A
1 AAAAAATATATATTTAAGTTAAAACAAGAATAAAATATATTTTTAAGTTAAGATAA
* *
24751 AAAAAATATATATTTAAGTTAAAACAATAATAAAATATTTTTTTAAGTTAAGATAA
1 AAAAAATATATATTTAAGTTAAAACAAGAATAAAATATATTTTTAAGTTAAGATAA
24807 AATAAAATATATATTT
1 AA-AAAATATATATTT
24823 TTAATGTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
53 37 0.64
54 3 0.05
55 2 0.03
56 3 0.05
57 13 0.22
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (56 bp):
AAAAAATATATATTTAAGTTAAAACAAGAATAAAATATATTTTTAAGTTAAGATAA
Found at i:24823 original size:29 final size:30
Alignment explanation
Indices: 24690--24835 Score: 121
Period size: 29 Copynumber: 5.1 Consensus size: 30
24680 TTAAAATATT
*
24690 ATAAGAATAAAATATAAATATTTAAGTTAAG
1 ATAAGAATAAAATATATAT-TTTAAGTTAAG
* ** *
24721 GTAAGAATAACTTATAT-TTTTAA-TTTA-
1 ATAAGAATAAAATATATATTTTAAGTTAAG
*
24748 AT-A-AA-AAAATATATA-TTTAAGTTAAA
1 ATAAGAATAAAATATATATTTTAAGTTAAG
* * *
24774 ACAATAATAAAATAT-TTTTTTAAGTTAAG
1 ATAAGAATAAAATATATATTTTAAGTTAAG
24803 ATAA-AATAAAATATATATTTTTAATGTTAAG
1 ATAAGAATAAAATATATA-TTTTAA-GTTAAG
24834 AT
1 AT
24836 GTTTAATTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
24 12 0.13
25 5 0.05
26 2 0.02
27 2 0.02
28 16 0.18
29 26 0.29
30 7 0.08
31 21 0.23
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (30 bp):
ATAAGAATAAAATATATATTTTAAGTTAAG
Found at i:25136 original size:20 final size:20
Alignment explanation
Indices: 25111--25149 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25101 TGACATACGA
25111 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
25131 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
25150 ATGGAGAGGT
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:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:25143 original size:9 final size:9
Alignment explanation
Indices: 25111--25149 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
25101 TGACATACGA
25111 ATACGAGCC
1 ATACGAGCC
*
25120 ATACAAGCC
1 ATACGAGCC
25129 ATATACGAGCC
1 --ATACGAGCC
25140 ATACGAGCC
1 ATACGAGCC
25149 A
1 A
25150 ATGGAGAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (9 bp):
ATACGAGCC
Found at i:25200 original size:29 final size:29
Alignment explanation
Indices: 25156--25259 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
25146 GCCAATGGAG
* ** *
25156 AGGTCGCCATGCAGTCTGGGAGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
25185 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
**
25214 AGGTCGCCATGTAGTCCCGGCGACCAAGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
25243 AGGTCGCCATGTAGTCC
1 AGGTCGCCATGTAGTCC
25260 TAGCTCACGA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:25588 original size:26 final size:28
Alignment explanation
Indices: 25559--25613 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
25549 CTTGGTCGCC
25559 GAGATTGCAGCC-G-AAGAAAGGGAGAA
1 GAGATTGCAGCCAGAAAGAAAGGGAGAA
25585 GAGATTGCAGCCGAGAAAGAAAGGGAGAA
1 GAGATTGCAGCC-AGAAAGAAAGGGAGAA
25614 AGGAAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 12 0.46
28 1 0.04
29 13 0.50
ACGTcount: A:0.44, C:0.11, G:0.38, T:0.07
Consensus pattern (28 bp):
GAGATTGCAGCCAGAAAGAAAGGGAGAA
Found at i:25894 original size:46 final size:48
Alignment explanation
Indices: 25828--25918 Score: 134
Period size: 46 Copynumber: 1.9 Consensus size: 48
25818 AGTTATAGTT
*
25828 AAAAATAATTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATATAAA
1 AAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAAA
*
25873 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAA-TAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
25919 TTGTTTGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 5 0.12
46 15 0.38
47 5 0.12
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (48 bp):
AAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAAA
Found at i:25995 original size:32 final size:33
Alignment explanation
Indices: 25959--26035 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
25949 TTAGTTAGTA
25959 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
25991 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
26025 ATTTTATTAGT
1 AGTTTATTAGT
26036 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:26108 original size:15 final size:14
Alignment explanation
Indices: 26088--26118 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
26078 GTTTATTAGT
26088 TTATTATATTATAAG
1 TTATTATATTA-AAG
26103 TTATTATATTAAAG
1 TTATTATATTAAAG
26117 TT
1 TT
26119 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:28285 original size:17 final size:17
Alignment explanation
Indices: 28263--28295 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28253 CAATGATTTT
*
28263 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
28280 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
28296 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:28312 original size:24 final size:22
Alignment explanation
Indices: 28280--28348 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
28270 AAATCATTAC
28280 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
28302 TAGTAAATCAACTATTTTAAAT-TAT
1 TAGT--ATCAAATA-ATTAAATAT-T
28327 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
28349 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
22 11 0.29
23 8 0.21
24 8 0.21
25 11 0.29
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:28568 original size:35 final size:37
Alignment explanation
Indices: 28487--28573 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
28477 TTAGTATTCT
* * *
28487 ATAATTATTAGT-AATAATTATTAAATCATTAGTATTAA
1 ATAATTATTA-TAAATAATTACTAAATCAATAG-ACTAA
*
28525 ATCATTATTATAAATAATTACTAAAT-AATA-ACTAA
1 ATAATTATTATAAATAATTACTAAATCAATAGACTAA
28560 ATAATTATTATAAA
1 ATAATTATTATAAA
28574 ATCATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (37 bp):
ATAATTATTATAAATAATTACTAAATCAATAGACTAA
Found at i:28594 original size:12 final size:13
Alignment explanation
Indices: 28503--29102 Score: 273
Period size: 14 Copynumber: 44.1 Consensus size: 13
28493 ATTAGTAATA
28503 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
28517 AGTATTAAATCATT
1 ATTA-TAAATCATT
28531 ATTATAAAT-A--
1 ATTATAAATCATT
28541 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
28552 ATAACTAAATAATT
1 ATTA-TAAATCATT
28566 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
28580 ATTAT-AATGATT
1 ATTATAAATCATT
28592 ATTATCAAATCATT
1 ATTAT-AAATCATT
28606 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
28625 AAATATTTAAATCATT
1 --AT-TATAAATCATT
28641 A-T-TAAATCATT
1 ATTATAAATCATT
* *
28652 TTTAT-AATGATT
1 ATTATAAATCATT
28664 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
28678 ATTAT-AATGATT
1 ATTATAAATCATT
28690 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
28704 ACTAT-AATGATT
1 ATTATAAATCATT
28716 ATTATCAAATCATT
1 ATTAT-AAATCATT
28730 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
28749 AAATATTTAAATCATT
1 --AT-TATAAATCATT
28765 A-T-TAAATCATT
1 ATTATAAATCATT
* *
28776 TTTAT-AATGATT
1 ATTATAAATCATT
28788 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
28802 ATTAT-AATGATT
1 ATTATAAATCATT
28814 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
28828 ACTAT-AATGATT
1 ATTATAAATCATT
28840 ATTATCAAATCATT
1 ATTAT-AAATCATT
28854 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
28873 AAATATTTAAATCATT
1 --AT-TATAAATCATT
28889 A-T-TAAATCATT
1 ATTATAAATCATT
* *
28900 TTTAT-AATGATT
1 ATTATAAATCATT
28912 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
28926 ATTAT-AATGATT
1 ATTATAAATCATT
28938 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
28952 ACTAT-AATGATT
1 ATTATAAATCATT
28964 ATTATCAAATCATT
1 ATTAT-AAATCATT
28978 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
28997 AAATATTTAAATCATT
1 --AT-TATAAATCATT
29013 A-T-TAAATCATT
1 ATTATAAATCATT
* *
29024 TTTAT-AATGATT
1 ATTATAAATCATT
29036 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
29050 ATTAT-AATGATT
1 ATTATAAATCATT
29062 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
29076 ACTAT-AATGATT
1 ATTATAAATCATT
29088 ATTATCAAATCATT
1 ATTAT-AAATCATT
29102 A
1 A
29103 CTAAATCATC
Statistics
Matches: 468, Mismatches: 51, Indels: 134
0.72 0.08 0.21
Matches are distributed among these distances:
10 4 0.01
11 51 0.11
12 141 0.30
13 18 0.04
14 150 0.32
15 4 0.01
16 32 0.07
17 4 0.01
18 12 0.03
19 44 0.09
20 4 0.01
21 4 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:28601 original size:26 final size:26
Alignment explanation
Indices: 28503--29102 Score: 447
Period size: 26 Copynumber: 24.2 Consensus size: 26
28493 ATTAGTAATA
* * *
28503 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
28528 ATTATTATAA--ATAATTA-CTAAATA
1 ATTATTATAATGATTATTATC-AAATC
* * * *
28552 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
28577 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
28603 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
28626 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
28649 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
28675 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
28701 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
28727 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
28750 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
28773 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
28799 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
28825 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
28851 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
28874 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
28897 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
28923 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
28949 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
28975 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
28998 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
29021 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
29047 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
29073 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
29099 ATTA
1 ATTA
29103 CTAAATCATC
Statistics
Matches: 455, Mismatches: 82, Indels: 75
0.74 0.13 0.12
Matches are distributed among these distances:
21 16 0.04
22 8 0.02
23 58 0.13
24 38 0.08
25 46 0.10
26 285 0.63
27 4 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:28704 original size:124 final size:124
Alignment explanation
Indices: 28519--29160 Score: 1182
Period size: 124 Copynumber: 5.2 Consensus size: 124
28509 AAATCATTAG
* * * * * * *
28519 TATTAAATCATTATTATAA--ATAATTACTAAATAATAACTA-AATAATTATTATAAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
*
28581 TTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
28640 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
28705 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
28764 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
28829 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
28888 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
28953 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
29012 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
29077 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
*
29136 TATTAAATAATTTTTATAATGATTA
1 TATTAAATCATTTTTATAATGATTA
29161 ATAAATACAT
Statistics
Matches: 509, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
121 18 0.04
123 17 0.03
124 474 0.93
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (124 bp):
TATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTA
CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
Found at i:32028 original size:15 final size:15
Alignment explanation
Indices: 32005--32049 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
31995 TAATTACTAT
*
32005 TAATCTAATGATTTGA
1 TAAT-TAATGATTTAA
*
32021 TATTTAATGATTTAA
1 TAATTAATGATTTAA
*
32036 TAATAAATGATTTA
1 TAATTAATGATTTA
32050 GTCATAATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (15 bp):
TAATTAATGATTTAA
Found at i:32039 original size:26 final size:24
Alignment explanation
Indices: 31981--32039 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
31971 CTAATAAACC
*
31981 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
32005 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
32033 TAATAAT
1 TAATAAT
32040 AAATGATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:32809 original size:41 final size:43
Alignment explanation
Indices: 32764--32870 Score: 130
Period size: 46 Copynumber: 2.4 Consensus size: 43
32754 GTTTAAAGAC
* *
32764 ACTAACAAATTAATTAATATTTTT-TATAT-TTA-ATAACTTAA
1 ACTAA-AAACTAATTAATATTTTTATATATATAATATAACTTAA
32805 ACTAAGAAACTAATTAACTAATTTTTATATATATAATATAACTTAA
1 ACTAA-AAACTAATTAA-T-ATTTTTATATATATAATATAACTTAA
32851 ACTAAAAACTAATATAATAT
1 ACTAAAAACTAAT-TAATAT
32871 AACTTAAACT
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
41 15 0.26
42 1 0.02
43 6 0.11
44 7 0.12
45 11 0.19
46 17 0.30
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.40
Consensus pattern (43 bp):
ACTAAAAACTAATTAATATTTTTATATATATAATATAACTTAA
Found at i:32870 original size:27 final size:28
Alignment explanation
Indices: 32835--32892 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
32825 ATTTTTATAT
32835 ATATAATATAACTTAAACTAA-AAACTA
1 ATATAATATAACTTAAACTAACAAACTA
32862 ATATAATATAACTTAAACTAACAAACTA
1 ATATAATATAACTTAAACTAACAAACTA
32890 ATA
1 ATA
32893 ATTTATACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (28 bp):
ATATAATATAACTTAAACTAACAAACTA
Found at i:32893 original size:21 final size:21
Alignment explanation
Indices: 32869--32917 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
32859 CTAATATAAT
32869 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
32890 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
32911 ATTAACT
1 A-TAACT
32918 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:33466 original size:20 final size:20
Alignment explanation
Indices: 33441--33478 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33431 ACGTGCATGG
*
33441 CCCATGCACAGTTCCCACGT
1 CCCATGCACAGCTCCCACGT
33461 CCCATGCACAGCTCCCAC
1 CCCATGCACAGCTCCCAC
33479 ATGCATCCCA
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:0.21, C:0.50, G:0.13, T:0.16
Consensus pattern (20 bp):
CCCATGCACAGCTCCCACGT
Found at i:33490 original size:20 final size:20
Alignment explanation
Indices: 33467--33504 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33457 ACGTCCCATG
*
33467 CACAGCTCCCACATGCATCC
1 CACAACTCCCACATGCATCC
*
33487 CACAACTCCCCCATGCAT
1 CACAACTCCCACATGCAT
33505 GCTCCAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.50, G:0.08, T:0.16
Consensus pattern (20 bp):
CACAACTCCCACATGCATCC
Found at i:33598 original size:29 final size:29
Alignment explanation
Indices: 33556--33649 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
33546 AACACCACAC
*
33556 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
33585 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
*
33614 AGGTCGCCCGGATGTCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
33643 AGGTCGC
1 AGGTCGC
33650 GGTAGAATTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.17, C:0.35, G:0.32, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:55458 original size:16 final size:16
Alignment explanation
Indices: 55437--55490 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
55427 TTAATTTTGA
*
55437 AATTAAATAAAACTTT
1 AATTAAATAAAAATTT
** *
55453 AATT-AATTTAATTTT
1 AATTAAATAAAAATTT
*
55468 AATTAAATAAAAATAT
1 AATTAAATAAAAATTT
55484 AATTAAA
1 AATTAAA
55491 AGTAAATTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAATAAAAATTT
Found at i:55475 original size:31 final size:32
Alignment explanation
Indices: 55427--55489 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
55417 TAAATTGTAG
* *
55427 TTAATTTTGAAATTAAATAAAACTTTAATTAAT
1 TTAATTTT-AAATTAAATAAAAATATAATTAAT
55460 TTAATTTT-AATTAAATAAAAATATAATTAA
1 TTAATTTTAAATTAAATAAAAATATAATTAA
55490 AAGTAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 20 0.71
33 8 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
TTAATTTTAAATTAAATAAAAATATAATTAAT
Found at i:56610 original size:14 final size:14
Alignment explanation
Indices: 56588--56618 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56578 TCCATTTACA
56588 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
56602 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
56616 TTA
1 TTA
56619 AAGTTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:56624 original size:14 final size:14
Alignment explanation
Indices: 56593--56626 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56583 TTACATTAGG
**
56593 GTTTATGGTTTAGT
1 GTTTATGGTTTAAA
56607 GTTTATGGTTTAAA
1 GTTTATGGTTTAAA
56621 GTTTAT
1 GTTTAT
56627 AAACTATATA
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:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (14 bp):
GTTTATGGTTTAAA
Found at i:56765 original size:22 final size:25
Alignment explanation
Indices: 56736--56793 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
56726 TACATACATG
56736 TTATATAAAATTATTT-AAT-AAAA
1 TTATATAAAATTATTTAAATGAAAA
* *
56759 TTA-ATAAATTTATTTAAATGTAAA
1 TTATATAAAATTATTTAAATGAAAA
56783 TTATATAAAAT
1 TTATATAAAAT
56794 ATGATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.38
23 6 0.21
24 6 0.21
25 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTATATAAAATTATTTAAATGAAAA
Found at i:57114 original size:21 final size:20
Alignment explanation
Indices: 57089--57149 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
57079 TTTATATTAG
57089 AGTTTAGGGTTTATGGTTTAA
1 AGTTTAGGGTTTA-GGTTTAA
* * *
57110 AGTTTAGGATTTAGGGTTCA
1 AGTTTAGGGTTTAGGTTTAA
*
57130 TGATTTAGGGTTTAAGGTTT
1 AG-TTTAGGGTTT-AGGTTT
57150 TTATAAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.19
21 21 0.66
22 5 0.16
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.46
Consensus pattern (20 bp):
AGTTTAGGGTTTAGGTTTAA
Found at i:57260 original size:2 final size:2
Alignment explanation
Indices: 57249--57418 Score: 58
Period size: 2 Copynumber: 88.0 Consensus size: 2
57239 TTAGTGTTTC
* *
57249 TA TA -A TA TA TA TA TA TA TA TA TA TA -A TC TA TA GA T- TA CT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
57288 TA TA T- TA GT- TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * * *
57328 -A TT TA TA -A TT TA TA -A TT TA TA AA CTA TA TA T- TT 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
* * * * * * *
57367 GTT TA TA CA TA TA TA GTT TA TA TA CA TA CA TA CA TA CA 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
57411 TA TA TA TA
1 TA TA TA TA
57419 GAAAATTAAA
Statistics
Matches: 119, Mismatches: 31, Indels: 36
0.64 0.17 0.19
Matches are distributed among these distances:
1 12 0.10
2 100 0.84
3 7 0.06
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:57334 original size:7 final size:7
Alignment explanation
Indices: 57324--57349 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57314 ACTATATTAA
57324 TATAATT
1 TATAATT
57331 TATAATT
1 TATAATT
57338 TATAATT
1 TATAATT
57345 TATAA
1 TATAA
57350 ACTATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TATAATT
Found at i:57669 original size:19 final size:19
Alignment explanation
Indices: 57604--57687 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
57594 ATAAAATCTG
* *
57604 AATTCTTAATTTCCCTCCAA
1 AATTCTCAATTTCCCT-CTA
* *
57624 AATTTTCCA-TTCCCTCTA
1 AATTCTCAATTTCCCTCTA
57642 AATTTCTCAATTTCCCTCTA
1 AA-TTCTCAATTTCCCTCTA
57662 AATTCTCAATTT--CTCTA
1 AATTCTCAATTTCCCTCTA
*
57679 TATTCTCAA
1 AATTCTCAA
57688 AATTTCCCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
17 13 0.24
18 4 0.07
19 21 0.38
20 17 0.31
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTCTCAATTTCCCTCTA
Found at i:57693 original size:19 final size:17
Alignment explanation
Indices: 57637--57687 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 17
57627 TTTCCATTCC
57637 CTCTAAATTTCTCAATTT
1 CTCTAAA-TTCTCAATTT
57655 CCCTCTAAATTCTCAATTT
1 --CTCTAAATTCTCAATTT
*
57674 CTCTATATTCTCAA
1 CTCTAAATTCTCAA
57688 AATTTCCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 13 0.43
19 10 0.33
20 7 0.23
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (17 bp):
CTCTAAATTCTCAATTT
Found at i:57833 original size:29 final size:29
Alignment explanation
Indices: 57784--57841 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
57774 TCACTTTGAA
* *
57784 TAATATATATATATATATATATACTATAT
1 TAATATAAATATATATATATAAACTATAT
*
57813 TAATATAAAT-TATAGTTTATAAACTATAT
1 TAATATAAATATATA-TATATAAACTATAT
57842 ACTTTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (29 bp):
TAATATAAATATATATATATAAACTATAT
Found at i:57934 original size:48 final size:46
Alignment explanation
Indices: 57871--57986 Score: 133
Period size: 49 Copynumber: 2.4 Consensus size: 46
57861 TATATAGTTT
* * *
57871 ACTTATATAATTTATATATTTTTTATATAAACATAATTTTTATATATA
1 ACTTATATAA-TTATATATTTATAATATAAACATAATTTATATATA-A
* *
57919 ACTTATAATAATTATATAGTTTATAATATAAATATAGTTTATATATAA
1 ACTTAT-ATAATTATATA-TTTATAATATAAACATAATTTATATATAA
*
57967 ACTTATATTATATATATATT
1 ACTTATATAAT-TATATATT
57987 ATATTTTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
47 6 0.10
48 26 0.44
49 27 0.46
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (46 bp):
ACTTATATAATTATATATTTATAATATAAACATAATTTATATATAA
Found at i:57966 original size:17 final size:18
Alignment explanation
Indices: 57932--57967 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57922 TATAATAATT
57932 ATATAGTTTATAATATAA
1 ATATAGTTTATAATATAA
57950 ATATAGTTTAT-ATATAA
1 ATATAGTTTATAATATAA
57967 A
1 A
57968 CTTATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATATAGTTTATAATATAA
Found at i:57977 original size:17 final size:16
Alignment explanation
Indices: 57939--57991 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
57929 ATTATATAGT
57939 TTATAATATAAA-TATA
1 TTAT-ATATAAATTATA
57955 GTTTATATATAAACTTATA
1 --TTATATATAAA-TTATA
*
57974 TTATATATATATTATA
1 TTATATATAAATTATA
57990 TT
1 TT
57992 TTTTCAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.22
17 17 0.53
18 4 0.12
19 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TTATATATAAATTATA
Found at i:64956 original size:31 final size:31
Alignment explanation
Indices: 64900--64966 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
64890 CAGTTACGTC
* * * *
64900 AGGGACCATATTGTAAACGACCTAAATGTTG
1 AGGGACCATATTGAAAAAGACCTAAATATTA
64931 AGGGACCATATTGAAAATAGA-CTAAATATTA
1 AGGGACCATATTGAAAA-AGACCTAAATATTA
64962 AGGGA
1 AGGGA
64967 TTATATTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (31 bp):
AGGGACCATATTGAAAAAGACCTAAATATTA
Found at i:70130 original size:17 final size:17
Alignment explanation
Indices: 70099--70131 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
70089 TTATGTATTA
70099 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
70116 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
70132 AATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:70177 original size:25 final size:25
Alignment explanation
Indices: 70098--70177 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
70088 CTTATGTATT
* *
70098 ATTAAATATAAAAATAATTTAAAATA
1 ATTAAAT-TTAAAATTATTTAAAATA
* * *
70124 AAT-AA--TAAAATAATATTTTAGAATT
1 ATTAAATTTAAAAT--TA-TTTAAAATA
70149 ATTAAATTTAAAATTATTTAAAATA
1 ATTAAATTTAAAATTATTTAAAATA
70174 ATTA
1 ATTA
70178 TCGTCTCTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 13
0.66 0.13 0.21
Matches are distributed among these distances:
22 5 0.12
24 1 0.03
25 22 0.55
26 6 0.15
28 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (25 bp):
ATTAAATTTAAAATTATTTAAAATA
Found at i:71216 original size:150 final size:151
Alignment explanation
Indices: 70936--71240 Score: 594
Period size: 150 Copynumber: 2.0 Consensus size: 151
70926 AATGCTACTG
70936 ATTGTGACAATAAAATATAATAAAAAATTCATCTACTATTACTTGTATATATAATCTTTCAATTT
1 ATTGTGACAATAAAATATAATAAAAAATTCATCTACTATTACTTGTATATATAATCTTTCAATTT
71001 AAAAATTTATTAACTAAAACAAGTATAATTACTGTTCTGAAAGTACTTTAAGATTTATGTAAAAA
66 AAAAATTTATTAACTAAAACAAGTATAATTACTGTTCTGAAAGTACTTTAAGATTTATGTAAAAA
71066 ATACAAAG-TCGAAATATAAT
131 ATACAAAGTTCGAAATATAAT
71086 ATTGTGACAATAAAATATAATAAAAAATTCATCTACTATTACTTGTATATATAATCTTTCAATTT
1 ATTGTGACAATAAAATATAATAAAAAATTCATCTACTATTACTTGTATATATAATCTTTCAATTT
71151 AAAAATTTATTAACTAAAACAAGTATAATTACATGTTCTGAAAGTACTTTAAGATTTATGTAAAA
66 AAAAATTTATTAACTAAAACAAGTATAATTAC-TGTTCTGAAAGTACTTTAAGATTTATGTAAAA
71216 AATACAAAGTTCGAAATATAAT
130 AATACAAAGTTCGAAATATAAT
71238 ATT
1 ATT
71241 TCCATCGATT
Statistics
Matches: 153, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
150 97 0.63
151 41 0.27
152 15 0.10
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (151 bp):
ATTGTGACAATAAAATATAATAAAAAATTCATCTACTATTACTTGTATATATAATCTTTCAATTT
AAAAATTTATTAACTAAAACAAGTATAATTACTGTTCTGAAAGTACTTTAAGATTTATGTAAAAA
ATACAAAGTTCGAAATATAAT
Found at i:74842 original size:39 final size:39
Alignment explanation
Indices: 74785--75610 Score: 1074
Period size: 39 Copynumber: 21.3 Consensus size: 39
74775 ACTTATAGAT
*
74785 GAGATAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* *
74824 GAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGT
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* ** * *
74863 GAGATAAAATCTTTTGTTTCGAGTTAAACTATCTTAAGT
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * *
74902 GATATAAAATCTTCTGTTTCAAGGGAAACTACCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* *
74941 GAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGT
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * **
74980 GAGATAAAATCTTTTGTTTTGAGTTAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * *
75019 GAGATAAAATCTTATGTTTCAAGGGAAACTACCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
*
75058 GAGATAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * *
75097 GATATAAAATCTTTTGTTTCGAGAGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * * * *
75136 ---AT----TCTTTTATTTTGAGAGAAACTATCTCAAGT
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* *
75168 GAGATAAAATCTTCTGTTTTGAGTGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* *
75207 GAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGA
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * *
75246 GAGATAAAATATTATGTTTCAAGGGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * * * *
75285 GAGATGAAATCTTTTGTTTCGAGAGAAACAACCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
*
75324 GAGATAAAATCTTCTATTTCGAGGGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* *
75363 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * * *
75402 AAGATGAAATCTTATGTTTCGAGAGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
*
75441 GAGATAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * *
75480 GAGACAAAATCTCCTGTTTCGAGGGAAACTATCACAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
* * *
75519 GAGACAAAATCTTATGTTTCGAGTGAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
*
75558 GAGATAAAATCTTCTGTTTC-AGGGGAAACTATCTCAATAC
1 GAGATAAAATCTTCTGTTTCGA-GGGAAACTATCTCAA-GC
75598 GAGATAAAATCTT
1 GAGATAAAATCTT
75611 ATTTAAAAAT
Statistics
Matches: 692, Mismatches: 86, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
32 27 0.04
35 2 0.00
36 2 0.00
38 1 0.00
39 646 0.93
40 14 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (39 bp):
GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGC
Found at i:75153 original size:32 final size:32
Alignment explanation
Indices: 75106--75166 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
75096 CGATATAAAA
*
75106 TCTTTTGTTTCGAGAGAAACTATCTCAAGCAT
1 TCTTTTATTTCGAGAGAAACTATCTCAAGCAT
*
75138 TCTTTTATTTTGAGAGAAACTATCTCAAG
1 TCTTTTATTTCGAGAGAAACTATCTCAAG
75167 TGAGATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (32 bp):
TCTTTTATTTCGAGAGAAACTATCTCAAGCAT
Found at i:75706 original size:75 final size:76
Alignment explanation
Indices: 75615--75929 Score: 334
Period size: 76 Copynumber: 4.1 Consensus size: 76
75605 AATCTTATTT
* * *
75615 AAAAATAATCTTGAGTGAAATGAAAT-GTCTT-TTTTTAGTAAAAACTGTCTCAAGCAAGACAAA
1 AAAAACAATCTTGAGTGAAAT-AAATCGTCTTCTTTCTAGTAAAAACTGTCTCAAGCGAGACAAA
75678 TCTTGTTTTAAG
65 TCTTGTTTTAAG
* * * * * *
75690 AAAAACAATCATGAGTGAAATAAATCTTCTTCTTTTTTGAGTAAAATCTGTCTCAAGTGAGATAA
1 AAAAACAATCTTGAGTGAAATAAATCGTCTTC-TTTCT-AGTAAAAACTGTCTCAAGCGAGACAA
75755 ATCTTGTTTTAAG
64 ATCTTGTTTTAAG
** * * * *
75768 AAAAACGGTCTTGAGTGAAATAAATCTTCTTGTTTCAAGTAAAAACTGTCTCAAGCGAGATAAAT
1 AAAAACAATCTTGAGTGAAATAAATCGTCTTCTTTCTAGTAAAAACTGTCTCAAGCGAGACAAAT
*
75833 ATTGTTTTAAG
66 CTTGTTTTAAG
* * ** * *
75844 AAAAACAATCTTGAGTCAAATGAAAT-GTATTCTTTCGGGT-AAAATTGTCTCAAGTGAGACAAA
1 AAAAACAATCTTGAGTGAAAT-AAATCGTCTTCTTTCTAGTAAAAACTGTCTCAAGCGAGAC-AA
*
75907 AT-ATGTTTTAAG
64 ATCTTGTTTTAAG
*
75919 AAAAATAATCT
1 AAAAACAATCT
75930 CAAATGAGAT
Statistics
Matches: 205, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
74 4 0.02
75 59 0.29
76 67 0.33
77 12 0.06
78 63 0.31
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (76 bp):
AAAAACAATCTTGAGTGAAATAAATCGTCTTCTTTCTAGTAAAAACTGTCTCAAGCGAGACAAAT
CTTGTTTTAAG
Found at i:75715 original size:36 final size:35
Alignment explanation
Indices: 75675--75869 Score: 102
Period size: 36 Copynumber: 5.1 Consensus size: 35
75665 CAAGCAAGAC
*
75675 AAATCTTGTTTTAAGAAAAACAATCATGAGTGAAAT
1 AAATCTTGTTTTAAGAAAAACAGTC-TGAGTGAAAT
* * * * * *
75711 AAATCTTCTTCTTTTTTGAGTAAAATCTGTCTCAAGTGAGAT
1 AAA---TC-T-TGTTTTAAG-AAAAACAGTCT-GAGTGAAAT
*
75753 AAATCTTGTTTTAAGAAAAACGGTCTTGAGTGAAAT
1 AAATCTTGTTTTAAGAAAAACAGTC-TGAGTGAAAT
* * * * *
75789 AAATCTTCTTGTTTCAAGTAAAAACTGTCTCAAGCGAGAT
1 AAA---TCTTGTTTTAAG-AAAAACAGTCT-GAGTGAAAT
* * *
75829 AAATATTGTTTTAAGAAAAACAATCTTGAGTCAAAT
1 AAATCTTGTTTTAAGAAAAACAGTC-TGAGTGAAAT
75865 GAAAT
1 -AAAT
75870 GTATTCTTTC
Statistics
Matches: 118, Mismatches: 26, Indels: 29
0.68 0.15 0.17
Matches are distributed among these distances:
36 34 0.29
37 23 0.19
38 1 0.01
39 16 0.14
40 19 0.16
41 8 0.07
42 17 0.14
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (35 bp):
AAATCTTGTTTTAAGAAAAACAGTCTGAGTGAAAT
Found at i:75735 original size:78 final size:77
Alignment explanation
Indices: 75615--75869 Score: 329
Period size: 78 Copynumber: 3.3 Consensus size: 77
75605 AATCTTATTT
* * * *
75615 AAAAATAATCTTGAGTGAAATGAAAT-GTCT-TTTTTT-AGTAAAAACTGTCTCAAGCAAGACAA
1 AAAAACAATCTTGAGTGAAAT-AAATCTTCTCTTTTTTAAGTAAAAACTGTCTCAAGCGAGATAA
75677 ATCTTGTTTTAAG
65 ATCTTGTTTTAAG
* * * *
75690 AAAAACAATCATGAGTGAAATAAATCTTCTTCTTTTTTGAGTAAAATCTGTCTCAAGTGAGATAA
1 AAAAACAATCTTGAGTGAAATAAATCTTC-TCTTTTTTAAGTAAAAACTGTCTCAAGCGAGATAA
75755 ATCTTGTTTTAAG
65 ATCTTGTTTTAAG
** * *
75768 AAAAACGGTCTTGAGTGAAATAAATCTTCT-TGTTTCAAGTAAAAACTGTCTCAAGCGAGATAAA
1 AAAAACAATCTTGAGTGAAATAAATCTTCTCTTTTTTAAGTAAAAACTGTCTCAAGCGAGATAAA
*
75832 TATTGTTTTAAG
66 TCTTGTTTTAAG
*
75844 AAAAACAATCTTGAGTCAAATGAAAT
1 AAAAACAATCTTGAGTGAAAT-AAAT
75870 GTATTCTTTC
Statistics
Matches: 156, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
74 4 0.03
75 21 0.13
76 59 0.38
77 11 0.07
78 61 0.39
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (77 bp):
AAAAACAATCTTGAGTGAAATAAATCTTCTCTTTTTTAAGTAAAAACTGTCTCAAGCGAGATAAA
TCTTGTTTTAAG
Found at i:75831 original size:40 final size:38
Alignment explanation
Indices: 75729--75849 Score: 115
Period size: 36 Copynumber: 3.2 Consensus size: 38
75719 TTCTTTTTTG
* *
75729 AGTAAAATCTGTCTCAAGTGAGATAAA-TCTTGTTTTA
1 AGTAAAAACTGTCTCAAGTGAGATAAATTCTTGTTTCA
* ** *
75766 AG-AAAAACGGTCTTGAGTGAAATAAATCTTCTTGTTTCA
1 AGTAAAAACTGTCTCAAGTGAGATAAA--TTCTTGTTTCA
* * *
75805 AGTAAAAACTGTCTCAAGCGAGATAAA-TATTGTTTTA
1 AGTAAAAACTGTCTCAAGTGAGATAAATTCTTGTTTCA
75842 AG-AAAAAC
1 AGTAAAAAC
75850 AATCTTGAGT
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
36 25 0.37
37 12 0.18
39 11 0.16
40 19 0.28
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.32
Consensus pattern (38 bp):
AGTAAAAACTGTCTCAAGTGAGATAAATTCTTGTTTCA
Found at i:75838 original size:154 final size:150
Alignment explanation
Indices: 75623--75923 Score: 392
Period size: 154 Copynumber: 2.0 Consensus size: 150
75613 TTAAAAATAA
** *
75623 TCTTGAGTGAAATGAAATGTCTTTTTTTAGTAAAAACTGTCTCAAGCAAGACAAATCTTGTTTTA
1 TCTTGAGTGAAATGAAATGTCTTTTTCAAGTAAAAACTGTCTCAAGCAAGACAAATATTGTTTTA
* * * *
75688 AGAAAAACAATCATGAGTGAAAT-AAATCTTCTTCTTTTTTGAGTAAAATCTGTCTCAAGTGAGA
66 AGAAAAACAATCATGAGTCAAATGAAAT-GTATTC--TTTCGAGTAAAAT-TGTCTCAAGTGAGA
* *
75752 -TAAATCTTGTTTTAAGAAAAACGG
127 CAAAAT-ATGTTTTAAGAAAAACGG
* * *
75776 TCTTGAGTGAAAT-AAATCTTCTTGTTTCAAGTAAAAACTGTCTCAAGCGAGATAAATATTGTTT
1 TCTTGAGTGAAATGAAAT-GTCTT-TTTCAAGTAAAAACTGTCTCAAGCAAGACAAATATTGTTT
* *
75840 TAAGAAAAACAATCTTGAGTCAAATGAAATGTATTCTTTCGGGTAAAATTGTCTCAAGTGAGACA
64 TAAGAAAAACAATCATGAGTCAAATGAAATGTATTCTTTCGAGTAAAATTGTCTCAAGTGAGACA
75905 AAATATGTTTTAAGAAAAA
129 AAATATGTTTTAAGAAAAA
75924 TAATCTCAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
151 28 0.22
152 19 0.15
153 17 0.13
154 62 0.48
155 4 0.03
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (150 bp):
TCTTGAGTGAAATGAAATGTCTTTTTCAAGTAAAAACTGTCTCAAGCAAGACAAATATTGTTTTA
AGAAAAACAATCATGAGTCAAATGAAATGTATTCTTTCGAGTAAAATTGTCTCAAGTGAGACAAA
ATATGTTTTAAGAAAAACGG
Found at i:80531 original size:23 final size:18
Alignment explanation
Indices: 80473--80523 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
80463 AAATCGGGTG
80473 ATTTTAATAAAATATTTT
1 ATTTTAATAAAATATTTT
80491 ATTTTAATAAAATATTTT
1 ATTTTAATAAAATATTTT
80509 ATTTTAATAAAATAT
1 ATTTTAATAAAATAT
80524 CGAGTTTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATAAAATATTTT
Found at i:83940 original size:21 final size:20
Alignment explanation
Indices: 83908--83951 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
83898 CACTTTTTAA
*
83908 ATTTAAATAATAATTAATAT
1 ATTTAAAGAATAATTAATAT
83928 ATTTGAAAGAATAATTAATAT
1 ATTT-AAAGAATAATTAATAT
83949 ATT
1 ATT
83952 CGAATGACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (20 bp):
ATTTAAAGAATAATTAATAT
Found at i:84626 original size:137 final size:137
Alignment explanation
Indices: 84376--84640 Score: 352
Period size: 137 Copynumber: 1.9 Consensus size: 137
84366 CCACACTGTC
* * *
84376 GCGTCCCATCAAACATAATAGGTGTTGACATGAATAGTGCTCTGTCGGGGGACATCACACATAAT
1 GCGTCCCATCAAACATAATAGATGTTGACATCAATAGTGCCCTGTCGGGGGACATCACACATAAT
* * *
84441 AGGGCAATTATAACTTATTCTCTGACAAAAAGGAAAGACACATTCCACAAGAAGCTCTTTCACCA
66 AGGGCAATTAAAACTTATTCTCTGACAAAAAGGAAAGACACATCCCACAAGAAGCACTTTCACCA
84506 TATTGTT
131 TATTGTT
* ** * * * *
84513 GCGTCCCATTAAACATAATAGATGTT-ATGTCAATAGTGCCCTGTTGGGGTATATCACACATAGT
1 GCGTCCCATCAAACATAATAGATGTTGACATCAATAGTGCCCTGTCGGGGGACATCACACATAAT
* * ***
84577 AGGGCAATTACAAACTTATTTTTTGACAAAAAGGAAAGACGTGTCCCACAAGAAGCACTTTCAC
66 AGGGCAATTA-AAACTTATTCTCTGACAAAAAGGAAAGACACATCCCACAAGAAGCACTTTCAC
84641 ATGAATAGTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
136 40 0.37
137 69 0.63
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (137 bp):
GCGTCCCATCAAACATAATAGATGTTGACATCAATAGTGCCCTGTCGGGGGACATCACACATAAT
AGGGCAATTAAAACTTATTCTCTGACAAAAAGGAAAGACACATCCCACAAGAAGCACTTTCACCA
TATTGTT
Found at i:86858 original size:26 final size:28
Alignment explanation
Indices: 86821--86884 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
86811 TATGTCTTTG
86821 TTTCTA-ATATTT-CAATGTAAT-TGCAT
1 TTTCTATATATTTACAATGT-ATGTGCAT
*
86847 TTTCTATA-ATTTACCAATGTATGTGTAT
1 TTTCTATATATTTA-CAATGTATGTGCAT
86875 TTTCTATATA
1 TTTCTATATA
86885 AATTTCCTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 10 0.31
27 3 0.09
28 18 0.56
29 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (28 bp):
TTTCTATATATTTACAATGTATGTGCAT
Found at i:87078 original size:26 final size:25
Alignment explanation
Indices: 86990--87086 Score: 99
Period size: 25 Copynumber: 3.8 Consensus size: 25
86980 TCTCACCTTA
*
86990 AAAACCCTAAACCACTTTAACCTAC
1 AAAACCCTATACCACTTTAACCTAC
*
87015 AAAATCCT-TAACCACTTTAACCTAC
1 AAAACCCTAT-ACCACTTTAACCTAC
* * *
87040 AAAATCCTTTACCACTTTTACCTTA-
1 AAAACCCTATACCACTTTAACC-TAC
*
87065 ACAAACCCTATACCATTTTAAC
1 A-AAACCCTATACCACTTTAAC
87087 ATAAATCACT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
25 42 0.69
26 19 0.31
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAACCCTATACCACTTTAACCTAC
Found at i:87981 original size:19 final size:19
Alignment explanation
Indices: 87957--88007 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
87947 AAACCGGTTT
87957 AACCGGTTTGACCAGTTCG
1 AACCGGTTTGACCAGTTCG
* *
87976 AACCGGTTTGAACCGGTTTG
1 AACCGGTTTG-ACCAGTTCG
87996 -ACCGGTTTGACC
1 AACCGGTTTGACC
88008 GGTCTGACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCAGTTCG
Found at i:88015 original size:9 final size:9
Alignment explanation
Indices: 87949--88016 Score: 82
Period size: 9 Copynumber: 7.3 Consensus size: 9
87939 GCTGCTGGAA
*
87949 ACCGGTTTA
1 ACCGGTTTG
87958 ACCGGTTTG
1 ACCGGTTTG
* *
87967 ACCAGTTCG
1 ACCGGTTTG
87976 AACCGGTTTG
1 -ACCGGTTTG
87986 AACCGGTTTG
1 -ACCGGTTTG
87996 ACCGGTTTG
1 ACCGGTTTG
*
88005 ACCGGTCTG
1 ACCGGTTTG
88014 ACC
1 ACC
88017 CGACCCGACC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
9 35 0.67
10 17 0.33
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:88023 original size:5 final size:5
Alignment explanation
Indices: 88013--88070 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
88003 TGACCGGTCT
* *
88013 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
88062 GACCC GACC
1 GACCC GACC
88071 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:88039 original size:22 final size:22
Alignment explanation
Indices: 88013--88077 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
88003 TGACCGGTCT
88013 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
88035 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
88057 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
88078 GTTGACTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:90673 original size:3 final size:3
Alignment explanation
Indices: 90665--90737 Score: 74
Period size: 3 Copynumber: 24.3 Consensus size: 3
90655 GTCCTATTCA
* * * * * *
90665 ATT ATT ATT AAT ATT ATT ATT ATC ATC ATC ATT ATT ATT ATT ACT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
90713 ACT ATT ATT ATT AAT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
90738 CATTTTTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:93951 original size:15 final size:16
Alignment explanation
Indices: 93933--93962 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93923 TAGAATATAA
93933 TAAAAT-TATTTTGTT
1 TAAAATGTATTTTGTT
93948 TAAAATGTATTTTGT
1 TAAAATGTATTTTGT
93963 ATCGTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
TAAAATGTATTTTGTT
Found at i:96044 original size:17 final size:17
Alignment explanation
Indices: 96019--96057 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
96009 TCAGTGAAGT
*
96019 AATTAAAATATGTCAGG
1 AATTGAAATATGTCAGG
96036 AATTGAAATATGTCAGG
1 AATTGAAATATGTCAGG
96053 AATTG
1 AATTG
96058 GAATCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31
Consensus pattern (17 bp):
AATTGAAATATGTCAGG
Found at i:96100 original size:44 final size:44
Alignment explanation
Indices: 96052--96177 Score: 198
Period size: 44 Copynumber: 2.9 Consensus size: 44
96042 AATATGTCAG
* *
96052 GAATTGGAATCTAATTCCATATTCTGTTTGGTTGGCAGGAAGTA
1 GAATTAGAATCCAATTCCATATTCTGTTTGGTTGGCAGGAAGTA
* * *
96096 GAATTAGAATCCAATTCTATATTCTGTTTGGCTGGCAGGAAGTG
1 GAATTAGAATCCAATTCCATATTCTGTTTGGTTGGCAGGAAGTA
*
96140 GAATTAGAATCCAATTCCATATTCTGTTTGGTTCGCAG
1 GAATTAGAATCCAATTCCATATTCTGTTTGGTTGGCAG
96178 ACATATCAGA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (44 bp):
GAATTAGAATCCAATTCCATATTCTGTTTGGTTGGCAGGAAGTA
Found at i:97009 original size:254 final size:261
Alignment explanation
Indices: 96498--97016 Score: 763
Period size: 254 Copynumber: 2.0 Consensus size: 261
96488 ATTTTTATTC
96498 AATATATGAATTAGAAACTCGACCCGACATGTCACGAAATAAAAAAAATTATTTTTATTCAATAA
1 AATATATGAATTAGAAACTCGACCCGA-A-GTCACGAAATAAAAAAAATTATTTTTATTCAATAA
* * *
96563 AAGCATTGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATA
64 AAACAGTGACTTAATTGAAAAAAATTATATATAAAGGGGTATTATTGTAATTATTCCTAAATATA
* * * *
96628 TAATGTAAAATTATATTTTTTTCGGGTCGGGTCCGATTTTTTCACCCTAAACCCGAATCCGACCC
129 TAAGGTAAAATTATATTATTTTCGGGACGGGT-C-ATTTTTTCACCCTAAACCCAAATCCGACCC
*
96693 GACTCAACCTAAATATCACACTTAAAAAATCCGACCCGACCCGAACAAAATAAAGTTTCACCCGA
192 G----AACCTAAATATCACACTTAAAAAAACCGACCCGACCCGAACAAAATAAAGTTTCACCCGA
96758 CCCGACCCG
253 CCCGACCCG
96767 AATATATGAATTAGAAA-TCCGACCCG-A-TC-CGAAAT-AAAAAAA-TATTTTTATTCAATAAA
1 AATATATGAATTAGAAACT-CGACCCGAAGTCACGAAATAAAAAAAATTATTTTTATTCAATAAA
96826 AACAGTGACTTAATT-AAAAAAATTATATATAAAGGGGTATTATTGTAATTATTCCTAAATATAT
65 AACAGTGACTTAATTGAAAAAAATTATATATAAAGGGGTATTATTGTAATTATTCCTAAATATAT
96890 AAGGATAAAATTATATATATTTTCGGGACGGGT-A-TTTTTCACCCTAAACCCAAA-CTCGACCC
130 AAGG-TAAAATTATAT-TATTTTCGGGACGGGTCATTTTTTCACCCTAAACCCAAATC-CGACCC
* *
96952 G-ACCTGAATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCCG
192 GAACCTAAATATCACACTTAAAAAAACCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCG
97016 A
257 A
97017 ATATATGAAT
Statistics
Matches: 236, Mismatches: 10, Indels: 23
0.88 0.04 0.09
Matches are distributed among these distances:
254 61 0.26
258 1 0.00
259 26 0.11
260 1 0.00
261 51 0.22
262 41 0.17
263 21 0.09
264 6 0.03
265 2 0.01
267 1 0.00
268 1 0.00
269 24 0.10
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (261 bp):
AATATATGAATTAGAAACTCGACCCGAAGTCACGAAATAAAAAAAATTATTTTTATTCAATAAAA
ACAGTGACTTAATTGAAAAAAATTATATATAAAGGGGTATTATTGTAATTATTCCTAAATATATA
AGGTAAAATTATATTATTTTCGGGACGGGTCATTTTTTCACCCTAAACCCAAATCCGACCCGAAC
CTAAATATCACACTTAAAAAAACCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACCC
G
Found at i:97571 original size:60 final size:60
Alignment explanation
Indices: 97387--97572 Score: 205
Period size: 60 Copynumber: 3.1 Consensus size: 60
97377 GCATCACATG
* * *
97387 TCCCTAAACTATGA-CCTTTATTTTAAATTGGTCCCTAAACTTTTGAATATTCTAATTTCA
1 TCCCTAAAATATGACCCTCT-TTCTAAATTGGTCCCTAAACTTTTGAATATTCTAATTTCA
* * * ** * * *
97447 TCCCCAAAATACT-ACTCTCATTCTAAATAAGTCCTTAAACTTTTGAACATTCTAATTTTA
1 TCCCTAAAATA-TGACCCTCTTTCTAAATTGGTCCCTAAACTTTTGAATATTCTAATTTCA
* * * *
97507 TCCCTAAATTATGACCCTCTTTCTAAATTGGTCCCCAAACTTTTGAATATTCCAATTCCA
1 TCCCTAAAATATGACCCTCTTTCTAAATTGGTCCCTAAACTTTTGAATATTCTAATTTCA
97567 TCCCTA
1 TCCCTA
97573 GATTCATTCG
Statistics
Matches: 100, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
59 1 0.01
60 96 0.96
61 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (60 bp):
TCCCTAAAATATGACCCTCTTTCTAAATTGGTCCCTAAACTTTTGAATATTCTAATTTCA
Found at i:97792 original size:59 final size:58
Alignment explanation
Indices: 97678--97795 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 58
97668 ATTAGTATAT
*
97678 ATGTATAGTTTGGATAAAATTGGAATGTTCAAAAAGTTTAGGGGACTAATTTAGAATGA
1 ATGTATAGTTTGGATAAAATTGAAATGTTCAAAAAGTTTA-GGGACTAATTTAGAATGA
* **
97737 ATGTCATAGTTTGGGGATGAAATTGAAATGTTC-ATCAGTTTA-GGACTAATTTAGAATGA
1 ATGT-ATAGTTT--GGATAAAATTGAAATGTTCAAAAAGTTTAGGGACTAATTTAGAATGA
97796 TAATCACAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
59 21 0.40
60 7 0.13
61 7 0.13
62 17 0.33
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (58 bp):
ATGTATAGTTTGGATAAAATTGAAATGTTCAAAAAGTTTAGGGACTAATTTAGAATGA
Found at i:100872 original size:16 final size:17
Alignment explanation
Indices: 100844--100911 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 17
100834 ATATATATTT
*
100844 TTAATAT-TTATAAATA
1 TTAATATATGATAAATA
*
100860 TTAA-ATATGATAAATT
1 TTAATATATGATAAATA
*
100876 TTAATATAT-ATATATA
1 TTAATATATGATAAATA
*
100892 TATATATATAT-ATATATA
1 T-TA-ATATATGATAAATA
100910 TT
1 TT
100912 CCAAAACTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.05
16 21 0.48
17 7 0.16
18 14 0.32
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
TTAATATATGATAAATA
Found at i:100886 original size:2 final size:2
Alignment explanation
Indices: 100879--100910 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
100869 ATAAATTTTA
100879 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
100911 TCCAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101087 original size:231 final size:231
Alignment explanation
Indices: 100684--101130 Score: 894
Period size: 231 Copynumber: 1.9 Consensus size: 231
100674 AAAATACTCC
100684 AAACTAAATAAATCTAGCTTACAACCCAACGGTTTTCATTATAATTAAATCATAATAATAAATAT
1 AAACTAAATAAATCTAGCTTACAACCCAACGGTTTTCATTATAATTAAATCATAATAATAAATAT
100749 ATCATTAATATTTCTTTAAGAATAAGGAGATCCAAAATATAAATCTGCATATGTTAAGATTTTTT
66 ATCATTAATATTTCTTTAAGAATAAGGAGATCCAAAATATAAATCTGCATATGTTAAGATTTTTT
100814 TTGTTATGTTTATAATATTAATATATATTTTTAATATTTATAAATATTAAATATGATAAATTTTA
131 TTGTTATGTTTATAATATTAATATATATTTTTAATATTTATAAATATTAAATATGATAAATTTTA
100879 ATATATATATATATATATATATATATATATATTCCA
196 ATATATATATATATATATATATATATATATATTCCA
100915 AAACTAAATAAATCTAGCTTACAACCCAACGGTTTTCATTATAATTAAATCATAATAATAAATAT
1 AAACTAAATAAATCTAGCTTACAACCCAACGGTTTTCATTATAATTAAATCATAATAATAAATAT
100980 ATCATTAATATTTCTTTAAGAATAAGGAGATCCAAAATATAAATCTGCATATGTTAAGATTTTTT
66 ATCATTAATATTTCTTTAAGAATAAGGAGATCCAAAATATAAATCTGCATATGTTAAGATTTTTT
101045 TTGTTATGTTTATAATATTAATATATATTTTTAATATTTATAAATATTAAATATGATAAATTTTA
131 TTGTTATGTTTATAATATTAATATATATTTTTAATATTTATAAATATTAAATATGATAAATTTTA
101110 ATATATATATATATATATATA
196 ATATATATATATATATATATA
101131 ACGCGAGGAT
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 216 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (231 bp):
AAACTAAATAAATCTAGCTTACAACCCAACGGTTTTCATTATAATTAAATCATAATAATAAATAT
ATCATTAATATTTCTTTAAGAATAAGGAGATCCAAAATATAAATCTGCATATGTTAAGATTTTTT
TTGTTATGTTTATAATATTAATATATATTTTTAATATTTATAAATATTAAATATGATAAATTTTA
ATATATATATATATATATATATATATATATATTCCA
Found at i:101103 original size:16 final size:17
Alignment explanation
Indices: 101075--101115 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
101065 ATATATATTT
*
101075 TTAATAT-TTATAAATA
1 TTAATATATGATAAATA
*
101091 TTAA-ATATGATAAATT
1 TTAATATATGATAAATA
101107 TTAATATAT
1 TTAATATAT
101116 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 15 0.71
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAATATATGATAAATA
Found at i:101344 original size:31 final size:29
Alignment explanation
Indices: 101257--101344 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
101247 AATTTGATAT
* * *
101257 TTTATTTAAATTTTAGGAGTTAAAATAATA
1 TTTATATAAAATTTAGG-GTTAAATTAATA
* * *
101287 TTTATCTAAAATTTAAGTTTAAATTAATA
1 TTTATATAAAATTTAGGGTTAAATTAATA
*
101316 TTATATATAAAGTTTAGGGTTCAAATTAA
1 TT-TATATAAAATTTAGGGTT-AAATTAA
101345 AAGTTAGCTC
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 12 0.26
30 28 0.60
31 7 0.15
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (29 bp):
TTTATATAAAATTTAGGGTTAAATTAATA
Found at i:104121 original size:18 final size:18
Alignment explanation
Indices: 104098--104135 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
104088 ACTTTGTACT
104098 TATTTCCTTTACGTTCGA
1 TATTTCCTTTACGTTCGA
104116 TATTTCCTTTACGTTCGA
1 TATTTCCTTTACGTTCGA
104134 TA
1 TA
104136 GATTATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (18 bp):
TATTTCCTTTACGTTCGA
Found at i:114467 original size:45 final size:45
Alignment explanation
Indices: 114403--114493 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
114393 TATCTATGCC
*
114403 AACAATTTCTAACATGCTTCTACAAAGGATGACTGGTTTAATTCA
1 AACAATCTCTAACATGCTTCTACAAAGGATGACTGGTTTAATTCA
114448 AACAATCTCTAACATGCTTCTACAAAGGATGACTGGTTTAATTCA
1 AACAATCTCTAACATGCTTCTACAAAGGATGACTGGTTTAATTCA
114493 A
1 A
114494 TGTGAGAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (45 bp):
AACAATCTCTAACATGCTTCTACAAAGGATGACTGGTTTAATTCA
Found at i:119388 original size:27 final size:27
Alignment explanation
Indices: 119355--119407 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
119345 TATTTTTTAG
*
119355 GAATTATCATTTAGAACTATCTCTTAA
1 GAATTATCATCTAGAACTATCTCTTAA
* * *
119382 GAATTATTATCTAGAATTATTTCTTA
1 GAATTATCATCTAGAACTATCTCTTA
119408 TTTATTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
GAATTATCATCTAGAACTATCTCTTAA
Found at i:119639 original size:21 final size:20
Alignment explanation
Indices: 119594--119645 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
119584 CTGAATAAAG
*
119594 TTTTCTTTTTTCCTTTTTTAC
1 TTTT-TTTTTTCATTTTTTAC
119615 TTTTTTTTTTCAATTTCTTTA-
1 TTTTTTTTTTC-ATTT-TTTAC
119636 TTTTTCTTTT
1 TTTTT-TTTT
119646 AATGTCAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 12 0.44
22 8 0.30
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTTCATTTTTTAC
Found at i:120736 original size:20 final size:21
Alignment explanation
Indices: 120706--120746 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
120696 GTAATAATCT
* *
120706 CTTTATATTTTTTCAATTAAA
1 CTTTATATTTTATCAAATAAA
120727 CTTT-TATTTTATCAAATAAA
1 CTTTATATTTTATCAAATAAA
120747 AATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTTATATTTTATCAAATAAA
Found at i:122764 original size:43 final size:43
Alignment explanation
Indices: 122701--122813 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
122691 AATTAGCGGT
** * *
122701 GTTTGTATAAAAAAAGGCCGCTATAGATCTGACATT-TTGTGAC
1 GTTTGTACCAAAAAACGCCGCTATAGATCTGAC-TTATTGCGAC
*
122744 GTTTGTACCAAAAAACGCCGCTATAGATCTGACTTATTGCGGC
1 GTTTGTACCAAAAAACGCCGCTATAGATCTGACTTATTGCGAC
* * *
122787 GTTTGTTCC-AAAAACACCACTATAGAT
1 GTTTGTACCAAAAAACGCCGCTATAGAT
122814 ATCATCATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 18 0.30
43 43 0.70
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (43 bp):
GTTTGTACCAAAAAACGCCGCTATAGATCTGACTTATTGCGAC
Found at i:122891 original size:43 final size:43
Alignment explanation
Indices: 122843--122945 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
122833 TTGGAATAAA
* * *
122843 CCAAAAATGTCGCTATAAATATCAACTTTTTGCGACGTTTGTT
1 CCAAAAACGTCGCTATAAATATCAACCTTTTACGACGTTTGTT
* * *
122886 CCAAAAACG-CTGTTATAAATATCGACCTTTTACGGCGTTTGTT
1 CCAAAAACGTC-GCTATAAATATCAACCTTTTACGACGTTTGTT
122929 CCAAAAACGTCGCTATA
1 CCAAAAACGTCGCTATA
122946 GATCTTGACC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 49 0.96
44 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (43 bp):
CCAAAAACGTCGCTATAAATATCAACCTTTTACGACGTTTGTT
Found at i:127079 original size:24 final size:24
Alignment explanation
Indices: 127052--127126 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
127042 GTTCGTGAAC
* *
127052 GTTCGGTTATATTCGTTCGGTTAT
1 GTTCGTTTATATTCGTTCGATTAT
*
127076 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATATTCGTTCGATTAT
* *
127100 GTTCGTTTATGTTCTTTC-ATTTAT
1 GTTCGTTTATATTCGTTCGA-TTAT
127124 GTT
1 GTT
127127 TAACCCAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATATTCGTTCGATTAT
Found at i:127093 original size:14 final size:14
Alignment explanation
Indices: 127051--127106 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
127041 CGTTCGTGAA
* *
127051 CGTTCGGTTATATT
1 CGTTCGATTATGTT
*
127065 CGTTCGGTTATGTT
1 CGTTCGATTATGTT
127079 CG-T---TTATGTT
1 CGTTCGATTATGTT
127089 CGTTCGATTATGTT
1 CGTTCGATTATGTT
127103 CGTT
1 CGTT
127107 TATGTTCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:128125 original size:10 final size:10
Alignment explanation
Indices: 128107--128181 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
128097 GGGTCTCCAA
*
128107 CGTTGATGTT
1 CGTTTATGTT
128117 CGTTTATGTT
1 CGTTTATGTT
128127 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* *
128138 ATGTTCATGTT
1 -CGTTTATGTT
128149 CGTTTATGTT
1 CGTTTATGTT
128159 CG----TGTT
1 CGTTTATGTT
128165 CGTTTATGTT
1 CGTTTATGTT
128175 CGTTTAT
1 CGTTTAT
128182 TTATTAAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.12
10 35 0.67
11 7 0.13
12 4 0.08
ACGTcount: A:0.11, C:0.12, G:0.21, T:0.56
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:128138 original size:16 final size:16
Alignment explanation
Indices: 128113--128177 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
128103 CCAACGTTGA
128113 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
128129 TGTTCATTTATGTTCA
1 TGTTCGTTTATGTTCG
128145 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
128161 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
128177 T
1 T
128178 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.09, C:0.12, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:128268 original size:16 final size:16
Alignment explanation
Indices: 128247--128279 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
128237 AAAAAAATTT
128247 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
128263 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
128279 T
1 T
128280 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:131986 original size:32 final size:32
Alignment explanation
Indices: 131946--132009 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
131936 CACGAACTAC
131946 TATATATATTATGTAGTTCAATACCGAAAATT
1 TATATATATTATGTAGTTCAATACCGAAAATT
131978 TATATATATTATGTAGTTCAATACCGAAAATT
1 TATATATATTATGTAGTTCAATACCGAAAATT
132010 CAGTCTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (32 bp):
TATATATATTATGTAGTTCAATACCGAAAATT
Found at i:143017 original size:14 final size:15
Alignment explanation
Indices: 142973--143019 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 15
142963 AACCGAAACT
142973 GGTTTTTTCGGTTCG
1 GGTTTTTTCGGTTCG
142988 GGTTTTTTAACGGTTCG
1 GGTTTTTT--CGGTTCG
143005 GG-TTTTTCGGTTCG
1 GGTTTTTTCGGTTCG
143019 G
1 G
143020 TTCGGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.27
15 8 0.27
16 5 0.17
17 9 0.30
ACGTcount: A:0.04, C:0.13, G:0.34, T:0.49
Consensus pattern (15 bp):
GGTTTTTTCGGTTCG
Found at i:143026 original size:18 final size:19
Alignment explanation
Indices: 142998--143034 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
142988 GGTTTTTTAA
142998 CGGTTCGGGTTTTTCGGTT
1 CGGTTCGGGTTTTTCGGTT
143017 CGGTTC-GGTTTTTCGGTT
1 CGGTTCGGGTTTTTCGGTT
143035 TTTTAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.00, C:0.16, G:0.35, T:0.49
Consensus pattern (19 bp):
CGGTTCGGGTTTTTCGGTT
Found at i:143464 original size:30 final size:29
Alignment explanation
Indices: 143430--143493 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
143420 ACACAATTAT
**
143430 CACCCTAATAGGAATTAATTACAAAACTAA
1 CACCCTAATAACAA-TAATTACAAAACTAA
** *
143460 CACCCTTTTAACAATATTTACAAAACTAA
1 CACCCTAATAACAATAATTACAAAACTAA
143489 CACCC
1 CACCC
143494 AGTCAACGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.25
Consensus pattern (29 bp):
CACCCTAATAACAATAATTACAAAACTAA
Found at i:143581 original size:20 final size:19
Alignment explanation
Indices: 143536--143588 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
143526 CGGTTCAGAC
* *
143536 CGGTCAACCCGGTTTAAAA
1 CGGTCAAACCGGTTAAAAA
*
143555 CGATCAAACCGGTTAAAAA
1 CGGTCAAACCGGTTAAAAA
143574 TCGGTCAAACCGGTT
1 -CGGTCAAACCGGTT
143589 TTAAGCTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (19 bp):
CGGTCAAACCGGTTAAAAA
Found at i:150550 original size:15 final size:16
Alignment explanation
Indices: 150532--150570 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
150522 TCAAATATCC
150532 AACAA-CCAAAGTAAA
1 AACAATCCAAAGTAAA
150547 AACAATCCAAAGT-AA
1 AACAATCCAAAGTAAA
150562 AACAATCCA
1 AACAATCCA
150571 TGAACATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.62, C:0.23, G:0.05, T:0.10
Consensus pattern (16 bp):
AACAATCCAAAGTAAA
Found at i:153316 original size:28 final size:28
Alignment explanation
Indices: 153276--153340 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
153266 TCAAAGTCAA
153276 TGGGTTTGACTGACGATTTGGAGACTTT
1 TGGGTTTGACTGACGATTTGGAGACTTT
153304 TGGGTTTGACTGACGATTTGGAGACTTT
1 TGGGTTTGACTGACGATTTGGAGACTTT
153332 TGGGTTTGA
1 TGGGTTTGA
153341 ATTTGGCAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.17, C:0.09, G:0.34, T:0.40
Consensus pattern (28 bp):
TGGGTTTGACTGACGATTTGGAGACTTT
Found at i:153532 original size:30 final size:29
Alignment explanation
Indices: 153498--153559 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
153488 ACACAATTAT
**
153498 CACCCTAATAGGAATTAATTACAAAACTAA
1 CACCCTAATAACAA-TAATTACAAAACTAA
** *
153528 CACCCTTTTAACAATATTTACAAAACTAA
1 CACCCTAATAACAATAATTACAAAACTAA
153557 CAC
1 CAC
153560 TCGATCAACG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (29 bp):
CACCCTAATAACAATAATTACAAAACTAA
Found at i:153607 original size:17 final size:17
Alignment explanation
Indices: 153569--153607 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
153559 CTCGATCAAC
*
153569 GGTCAACGGTCGGGTCA
1 GGTCAACGGTCGAGTCA
* *
153586 AGTCAACGGTCGAGTCG
1 GGTCAACGGTCGAGTCA
153603 GGTCA
1 GGTCA
153608 GGTCAGATCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGAGTCA
Found at i:154916 original size:32 final size:32
Alignment explanation
Indices: 154880--154943 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
154870 CATAATTTAA
154880 GTGGCAATAATGAATTTAGTTTTATTACTTTT
1 GTGGCAATAATGAATTTAGTTTTATTACTTTT
154912 GTGGCAATAATGAATTTAGTTTTATTACTTTT
1 GTGGCAATAATGAATTTAGTTTTATTACTTTT
154944 ATTATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (32 bp):
GTGGCAATAATGAATTTAGTTTTATTACTTTT
Found at i:159874 original size:23 final size:22
Alignment explanation
Indices: 159847--159903 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
159837 AAAATTGTTT
159847 CTTTTTCATTTTTTTAAATGTA
1 CTTTTTCATTTTTTTAAATGTA
*
159869 CTTTTTTATTTTTTTTAAATGTA
1 CTTTTTCA-TTTTTTTAAATGTA
*
159892 CTTTCTCATTTT
1 CTTTTTCATTTT
159904 CATTTTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.67
Consensus pattern (22 bp):
CTTTTTCATTTTTTTAAATGTA
Found at i:162494 original size:13 final size:13
Alignment explanation
Indices: 162476--162523 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
162466 TGCGTCATAA
162476 ATTTATGACGCGC
1 ATTTATGACGCGC
*
162489 ATTTATGACACGC
1 ATTTATGACGCGC
**
162502 ATTTATGACGCAA
1 ATTTATGACGCGC
162515 ATTTATGAC
1 ATTTATGAC
162524 TTACATTGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:165688 original size:14 final size:14
Alignment explanation
Indices: 165669--165697 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
165659 TTAACGCATG
165669 TAATTTACTATATT
1 TAATTTACTATATT
165683 TAATTTACTATATT
1 TAATTTACTATATT
165697 T
1 T
165698 GTGCTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTACTATATT
Found at i:171210 original size:27 final size:24
Alignment explanation
Indices: 171169--171225 Score: 62
Period size: 27 Copynumber: 2.3 Consensus size: 24
171159 AAAAAATTAA
171169 AATAAAAAATTAAATAATTAAAAT
1 AATAAAAAATTAAATAATTAAAAT
**
171193 AATACAAAAACTTAAAATTTTTAAAAT
1 AATA-AAAAA-TT-AAATAATTAAAAT
171220 -ATAAAA
1 AATAAAA
171226 GTATCCAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 8 0.29
26 5 0.18
27 11 0.39
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AATAAAAAATTAAATAATTAAAAT
Found at i:180534 original size:36 final size:36
Alignment explanation
Indices: 180487--180560 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
180477 CTTCCACAAC
180487 TTTTTTTTTTAAAAT-T-CGGGTTCGAGTCGGGTCGGG
1 TTTTTTTTTT-AAATGTAC-GGTTCGAGTCGGGTCGGG
* *
180523 TTTTTTTTTTAAATGTACTGTTCGGGTCGGGTCGGG
1 TTTTTTTTTTAAATGTACGGTTCGAGTCGGGTCGGG
180559 TT
1 TT
180561 AGGGTGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 4 0.12
36 29 0.85
37 1 0.03
ACGTcount: A:0.12, C:0.11, G:0.30, T:0.47
Consensus pattern (36 bp):
TTTTTTTTTTAAATGTACGGTTCGAGTCGGGTCGGG
Done.