Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 143 of 210
Found at i:43577041 original size:17 final size:17
Alignment explanation
Indices: 43576934--43577031 Score: 55
Period size: 17 Copynumber: 5.8 Consensus size: 17
43576924 ATCTGTAAGA
43576934 TAAATATTAAATTAAAT
1 TAAATATTAAATTAAAT
*
43576951 TTAATATTAAGA-TAATTATT
1 TAAATATTAA-ATTAA--A-T
*
43576971 TTAATATTAAATTAACA-
1 TAAATATTAAATTAA-AT
* *
43576988 -AAATACT--ATCAAGA-
1 TAAATATTAAATTAA-AT
*
43577002 TAAGTATTAAATTAAAT
1 TAAATATTAAATTAAAT
43577019 TAAATATTAAATT
1 TAAATATTAAATT
43577032 TATTAAAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.08
15 5 0.08
16 6 0.10
17 28 0.45
18 1 0.02
19 3 0.05
20 14 0.23
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:43581658 original size:18 final size:17
Alignment explanation
Indices: 43581632--43581679 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
43581622 ATAATAAAAA
43581632 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
43581650 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
43581668 AATGTTTTGAAA
1 AACGTTTTGAAA
43581680 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:43582327 original size:21 final size:21
Alignment explanation
Indices: 43582301--43582362 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
43582291 CGTTATTCCC
43582301 TAAATACATAATAACTATAAT
1 TAAATACATAATAACTATAAT
43582322 TAAAT--ATAGATAA-TATAAT
1 TAAATACATA-ATAACTATAAT
43582341 TAAGA-ACATAAATAAC-ATAAT
1 TAA-ATACAT-AATAACTATAAT
43582362 T
1 T
43582363 TAAGAGAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
19 12 0.34
20 5 0.14
21 17 0.49
22 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (21 bp):
TAAATACATAATAACTATAAT
Found at i:43583186 original size:19 final size:18
Alignment explanation
Indices: 43583164--43583246 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 18
43583154 TAATTACAAT
43583164 ATTTAATTTAGAATTATTA
1 ATTTAATTTAGAATTA-TA
43583183 ATTTAAAAATTTAGAATTATA
1 ATTT---AATTTAGAATTATA
43583204 ATTATAATTT--AATTATA
1 ATT-TAATTTAGAATTATA
** *
43583221 CATTTAA-AAATAATTATA
1 -ATTTAATTTAGAATTATA
43583239 ATTTAATT
1 ATTTAATT
43583247 GAAGTTGTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
17 16 0.30
18 10 0.19
19 9 0.17
21 5 0.09
22 13 0.25
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTTAATTTAGAATTATA
Found at i:43583208 original size:6 final size:6
Alignment explanation
Indices: 43583197--43583246 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
43583187 AAAAATTTAG
**
43583197 AATTAT AATTAT AATT-T AATTAT ACATT-T AAAAAT AATTAT AATT-T
1 AATTAT AATTAT AATTAT AATTAT A-ATTAT AATTAT AATTAT AATTAT
43583243 AATT
1 AATT
43583247 GAAGTTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
5 11 0.30
6 23 0.62
7 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:43583218 original size:11 final size:12
Alignment explanation
Indices: 43583197--43583246 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
43583187 AAAAATTTAG
43583197 AATTATAATTAT
1 AATTATAATTAT
43583209 AATT-TAATTAT
1 AATTATAATTAT
**
43583220 ACATT-TAAAAAT
1 A-ATTATAATTAT
43583232 AATTATAATT-T
1 AATTATAATTAT
43583243 AATT
1 AATT
43583247 GAAGTTGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 16 0.50
12 16 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTATAATTAT
Found at i:43584380 original size:34 final size:34
Alignment explanation
Indices: 43584337--43584409 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
43584327 GGATGTCACA
* * *
43584337 ACGACATGACAGCGACATCCTAACGAGAAGGCAT
1 ACGACATGACAACAACATCCTAACAAGAAGGCAT
43584371 ACGACATGACAACAACATCCTAACAAGAAGGCAT
1 ACGACATGACAACAACATCCTAACAAGAAGGCAT
43584405 ACGAC
1 ACGAC
43584410 GTCACAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.27, G:0.19, T:0.11
Consensus pattern (34 bp):
ACGACATGACAACAACATCCTAACAAGAAGGCAT
Found at i:43588497 original size:2 final size:2
Alignment explanation
Indices: 43588490--43588526 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
43588480 AATTCTAGCC
43588490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43588527 CACAACTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43591068 original size:20 final size:20
Alignment explanation
Indices: 43591040--43591078 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43591030 CAAGAGAGAG
43591040 AAAAGAAAATAATAAAACAT
1 AAAAGAAAATAATAAAACAT
* *
43591060 AAAATAAAATAATATAACA
1 AAAAGAAAATAATAAAACA
43591079 ACAATTCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAGAAAATAATAAAACAT
Found at i:43592521 original size:19 final size:18
Alignment explanation
Indices: 43592497--43592569 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
43592487 TGGTAGAAAA
43592497 ATTATAAATATGATTAAAT
1 ATTATAAATAT-ATTAAAT
*
43592516 ATTATAACATATTATTTATAT
1 ATTATAA-ATA-TA-TTAAAT
* * *
43592537 GTTATAAAAATATGAAAT
1 ATTATAAATATATTAAAT
*
43592555 AATTATAAAAATATT
1 -ATTATAAATATATT
43592570 TTAGAAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 4 0.09
19 21 0.49
20 6 0.14
21 12 0.28
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (18 bp):
ATTATAAATATATTAAAT
Found at i:43592585 original size:41 final size:41
Alignment explanation
Indices: 43592540--43592660 Score: 108
Period size: 40 Copynumber: 3.0 Consensus size: 41
43592530 TTTATATGTT
*
43592540 ATAAAAATATGAAATAATTATAAAAATATTTTAGAAA-TTAA
1 ATAAAAATAT-AAATAATTATAAAAATATTTTAAAAAGTTAA
* * * *
43592581 ATAAAATTTATTAAA-AATT-TAAAAAAACTATAAAAAGTTAA
1 ATAAAA-ATA-TAAATAATTATAAAAATATTTTAAAAAGTTAA
* *
43592622 AT-AAAATATATATTATTATAAAAAT-TATTTAAAAAGTTA
1 ATAAAAATATAAATAATTATAAAAATAT-TTTAAAAAGTTA
43592661 TAAACATTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
38 3 0.05
39 5 0.08
40 33 0.52
41 16 0.25
42 5 0.08
43 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (41 bp):
ATAAAAATATAAATAATTATAAAAATATTTTAAAAAGTTAA
Found at i:43592614 original size:19 final size:19
Alignment explanation
Indices: 43592577--43592631 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 19
43592567 ATTTTAGAAA
*
43592577 TTAAATAAAATTTATTAAAAAT
1 TTAAATAAAA--TA-TAAAAAG
43592599 TTAAA-AAAACTATAAAAAG
1 TTAAATAAAA-TATAAAAAG
43592618 TTAAATAAAATATA
1 TTAAATAAAATATA
43592632 TATTATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.50
20 6 0.20
21 4 0.13
22 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAATAAAATATAAAAAG
Found at i:43593043 original size:29 final size:29
Alignment explanation
Indices: 43592978--43593058 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
43592968 AATATCAAAA
*
43592978 TTATACATGAAATTTGATATAATGTGCAATG
1 TTATACATGAAATTTGAT-T-TTGTGCAATG
* * * *
43593009 TCATACATGAACTTTGATTTTGTGCGATT
1 TTATACATGAAATTTGATTTTGTGCAATG
43593038 TTATACATGAAATTTTGATTT
1 TTATACATGAAA-TTTGATTT
43593059 AAGTCATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 9 0.21
31 16 0.38
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (29 bp):
TTATACATGAAATTTGATTTTGTGCAATG
Found at i:43593068 original size:29 final size:30
Alignment explanation
Indices: 43592978--43593062 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
43592968 AATATCAAAA
* *
43592978 TTATACATGAAATTTGATATAATGTGCAATG
1 TTATACATGAAATTTGATTTAA-GTGCAATT
* * * *
43593009 TCATACATGAACTTTGATTT-TGTGCGATT
1 TTATACATGAAATTTGATTTAAGTGCAATT
43593038 TTATACATGAAATTTTGATTTAAGT
1 TTATACATGAAA-TTTGATTTAAGT
43593063 CATTTTTCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 16 0.37
30 8 0.19
31 19 0.44
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (30 bp):
TTATACATGAAATTTGATTTAAGTGCAATT
Found at i:43594484 original size:113 final size:114
Alignment explanation
Indices: 43594313--43595062 Score: 734
Period size: 114 Copynumber: 6.6 Consensus size: 114
43594303 CGTTTTTGTA
* * * *
43594313 ATAAGCGCCACTAATTCTTA-CATACCTCAAGA-CTAAACTCTGCGTTTTGGTTAAGATATTTTG
1 ATAAGCGCCACTAATTC-TAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTG
* * * ** *
43594376 CGGCACTTTTAGCAAAGCACCGCTAATACTATGGTTTAACGGCG-TTTCCC
65 CGGCGCTTTCA-CAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCC
43594426 -TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
1 ATAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
* * * * * * * *
43594490 GGCGCTTCTCACAAAGCGCCACTATTAATATTCTTTTGCGGCGGTTTACT
66 GGCGCTT-TCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCC
* *
43594540 GTAAGCGCCACTAATTTTA-TATACATCAAGACCAAAAC-ACTGCGTTTTGGTTAAGATATTTTG
1 ATAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTA-TGCGTTTTGGTTAAGATATTTTG
** * * * *
43594603 CGGCGCTAGCCACGAATCGCCGCTAATACTATACTTTAGCGACG-TTTCACC
65 CGGCGCT-TTCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTC-CC
* * * * *
43594654 GTAGGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGTGTTTTGGTTCAGATATTTTGC
1 ATAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
* * * * * *
43594719 GGCGCTTCCATAAAGCGCTGCTATTACTGTCCTTTTGCGGCGTTTTCCC
66 GGCGCTTTCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCC
* * * *
43594768 ATAAACGCCACTAATTCTAAG-ATACCTCAAGATC-AAACTCTGCGTTTTGGTTAAGATATTTTG
1 ATAAGCGCCACTAATTCT-AGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTG
* * * * * *
43594831 CGGCGCTTCCAAAAAGCGCCGCTATTACTGTCCTTTAACAGCGTTTTCCC
65 CGGCGCTTTCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCC
* * * * * * *
43594881 TTAAACGCCACTACTTTTAGGATACATCAAGACCGAAACGATGCGTTTTGGTTAAGATATTTTGC
1 ATAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
**** * * *
43594946 GGCGCTTTTTGGAAGCCGCCGGTAATAC---GCTGTAGCGGCGTTTTCCC
66 GGCGCTTTCACAAAG-CGCCGCTAATACTATCCTTTAGCGGCGTTTTCCC
* * * * *
43594993 ATAATCGCCACTAATTCTAGTATACATTAAGACGAAAAC-ACTGCGTTTTGGTTAAGAGATTTCG
1 ATAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTA-TGCGTTTTGGTTAAGATATTTTG
43595057 CGGCGC
65 CGGCGC
43595063 ATTGTGGTAA
Statistics
Matches: 536, Mismatches: 85, Indels: 33
0.82 0.13 0.05
Matches are distributed among these distances:
111 3 0.01
112 101 0.19
113 160 0.30
114 191 0.36
115 80 0.15
116 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (114 bp):
ATAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
GGCGCTTTCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCC
Found at i:43594948 original size:227 final size:223
Alignment explanation
Indices: 43594313--43595062 Score: 828
Period size: 227 Copynumber: 3.3 Consensus size: 223
43594303 CGTTTTTGTA
* * * *
43594313 ATAAGCGCCACTAATTCTTACATACCTCAAGACTAAACTCTGCGTTTTGGTTAAGATATTTTGCG
1 ATAAGCGCCACTAATTCTTAGATACATCAAGACAAAACACTGCGTTTTGGTTAAGATATTTTGCG
* ** * **
43594378 GCACTTTTAGCAAAGCACCGCTAATACTATGGTTTAACGGCGTTTCCCTAAGCGCCACTAATTCT
66 GCGCTTCCA-CAAAGCGCCGCTAATACTATACTTTAAC-GCGTTTCCCTAAGCGCCACTAATTCT
* *
43594443 AGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCG
129 AGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTC-CATAAAGCG
* * * * * *
43594508 CCACTATTAATATTCTTTTGCGGCGGTTTACT
193 CCGCTATTACT-GTCTTTTGCGGCGTTTTCCC
* *
43594540 GTAAGCGCCACTAATT-TTATATACATCAAGACCAAAACACTGCGTTTTGGTTAAGATATTTTGC
1 ATAAGCGCCACTAATTCTTAGATACATCAAGA-CAAAACACTGCGTTTTGGTTAAGATATTTTGC
* * * * *
43594604 GGCGCTAGCCACGAATCGCCGCTAATACTATACTTTAGCGACGTTTCACCGTAGGCGCCACTAAT
65 GGCGCT-TCCACAAAGCGCCGCTAATACTATACTTTAACG-CGTTTC-CC-TAAGCGCCACTAAT
* *
43594669 TCTAGTATACATCAAGACCAAAACGATGTGTTTTGGTTCAGATATTTTGCGGCGCTTCCATAAAG
126 TCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAAG
*
43594734 CGCTGCTATTACTGTCCTTTTGCGGCGTTTTCCC
191 CGCCGCTATTACTGT-CTTTTGCGGCGTTTTCCC
* * * *
43594768 ATAAACGCCACTAATTCTAAGATACCTCAAGATC-AAACTCTGCGTTTTGGTTAAGATATTTTGC
1 ATAAGCGCCACTAATTCTTAGATACATCAAGA-CAAAACACTGCGTTTTGGTTAAGATATTTTGC
* * * * * *
43594832 GGCGCTTCCAAAAAGCGCCGCTATTACTGTCCTTTAACAGCGTTTTCCCTTAAACGCCACTACTT
65 GGCGCTTCCACAAAGCGCCGCTAATACTATACTTTAAC-GCG-TTTCCC-TAAGCGCCACTAATT
* * * ** *
43594897 TTAGGATACATCAAGACCGAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTT-TTTGGAAG
127 CTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCAT-AAAG
* * * *
43594961 CCGCCGGTAATAC-G-CTGTAGCGGCGTTTTCCC
191 -CGCCGCTATTACTGTCTTTTGCGGCGTTTTCCC
* * * *
43594993 ATAATCGCCACTAATTC-TAGTATACATTAAGACGAAAACACTGCGTTTTGGTTAAGAGATTTCG
1 ATAAGCGCCACTAATTCTTAG-ATACATCAAGAC-AAAACACTGCGTTTTGGTTAAGATATTTTG
43595057 CGGCGC
64 CGGCGC
43595063 ATTGTGGTAA
Statistics
Matches: 443, Mismatches: 66, Indels: 29
0.82 0.12 0.05
Matches are distributed among these distances:
224 3 0.01
225 41 0.09
226 47 0.11
227 174 0.39
228 97 0.22
229 81 0.18
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (223 bp):
ATAAGCGCCACTAATTCTTAGATACATCAAGACAAAACACTGCGTTTTGGTTAAGATATTTTGCG
GCGCTTCCACAAAGCGCCGCTAATACTATACTTTAACGCGTTTCCCTAAGCGCCACTAATTCTAG
TATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAAGCGCCG
CTATTACTGTCTTTTGCGGCGTTTTCCC
Found at i:43595433 original size:22 final size:21
Alignment explanation
Indices: 43595387--43595439 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
43595377 AAAGTGTTAT
*
43595387 AAAAATTTAGAAAATTATAGG
1 AAAAATTTAGAAAATTATAGA
*
43595408 AAAAATTTATGTAAATTATTA-A
1 AAAAATTTA-GAAAATTA-TAGA
43595430 AAAATATTTA
1 AAAA-ATTTA
43595440 ATATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.33
22 11 0.41
23 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAAATTTAGAAAATTATAGA
Found at i:43595434 original size:21 final size:20
Alignment explanation
Indices: 43595387--43595426 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43595377 AAAGTGTTAT
43595387 AAAAATTTAGAAAATTATAGG
1 AAAAATTTAGAAAATTATA-G
*
43595408 AAAAATTTATGTAAATTAT
1 AAAAATTTA-GAAAATTAT
43595427 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
AAAAATTTAGAAAATTATAG
Found at i:43596631 original size:7 final size:8
Alignment explanation
Indices: 43596618--43596664 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
43596608 ATTTTTTAAT
43596618 AATTTTTA
1 AATTTTTA
43596626 AATTTTTA
1 AATTTTTA
43596634 AATTTTT-
1 AATTTTTA
*
43596641 --TTTTTG
1 AATTTTTA
43596647 AATTTTTA
1 AATTTTTA
*
43596655 AAATTTTA
1 AATTTTTA
43596663 AA
1 AA
43596665 AACTAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.15
8 29 0.85
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
AATTTTTA
Found at i:43596650 original size:21 final size:21
Alignment explanation
Indices: 43596620--43596661 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43596610 TTTTTAATAA
*
43596620 TTTTTAAATTTTTAAATTTTT
1 TTTTTAAATTTTTAAAATTTT
*
43596641 TTTTTGAATTTTTAAAATTTT
1 TTTTTAAATTTTTAAAATTTT
43596662 AAAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTAAATTTTTAAAATTTT
Found at i:43603628 original size:2 final size:2
Alignment explanation
Indices: 43603623--43603657 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
43603613 TTGAGAAAAG
43603623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43603658 TGAATAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43608292 original size:20 final size:19
Alignment explanation
Indices: 43608254--43608293 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
43608244 GCTAATTAAT
43608254 AACTAAATTATTAAAATTA
1 AACTAAATTATTAAAATTA
* *
43608273 AACTTAATTAATTAAGATTA
1 AACTAAATT-ATTAAAATTA
43608293 A
1 A
43608294 TTAAAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
AACTAAATTATTAAAATTA
Found at i:43608316 original size:2 final size:2
Alignment explanation
Indices: 43608309--43608338 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43608299 ACTAATCATA
43608309 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
43608339 GAAATTAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43612601 original size:8 final size:8
Alignment explanation
Indices: 43612580--43612613 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
43612570 AGGGTTTGGG
*
43612580 GGTTTTTA
1 GGTTTTAA
*
43612588 GATTTTAA
1 GGTTTTAA
43612596 GGTTTTAA
1 GGTTTTAA
43612604 GGTTTTAA
1 GGTTTTAA
43612612 GG
1 GG
43612614 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (8 bp):
GGTTTTAA
Found at i:43612818 original size:42 final size:43
Alignment explanation
Indices: 43612766--43612923 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 43
43612756 ATTTTAAAAA
*
43612766 AAATAGATTA-GGTTTAAGGTTTAGGGTTTTTAAGAAAAAATT
1 AAATAAATTAGGGTTTAAGGTTTAGGGTTTTTAAGAAAAAATT
* * * ** * **
43612808 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTT
1 AAATAAATTAGGGTTTAAGGTT--TAGGGT-TTTTAA-GA-AAAAATT
*
43612856 AAA-AAAATAGATTAGGTTTAAGGTTTAGGGTTTTTAAGAAAAAATT
1 AAATAAATTAG----GGTTTAAGGTTTAGGGTTTTTAAGAAAAAATT
*
43612902 AAATAAATTAGGGTTTAGGGTT
1 AAATAAATTAGGGTTTAAGGTT
43612924 ACTTGAGTAA
Statistics
Matches: 85, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
42 9 0.11
43 20 0.24
45 4 0.05
46 12 0.14
47 14 0.16
48 12 0.14
49 4 0.05
51 10 0.12
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (43 bp):
AAATAAATTAGGGTTTAAGGTTTAGGGTTTTTAAGAAAAAATT
Found at i:43613020 original size:96 final size:95
Alignment explanation
Indices: 43612606--43613115 Score: 718
Period size: 96 Copynumber: 5.4 Consensus size: 95
43612596 GGTTTTAAGG
* *
43612606 TTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGG----TT---TAAGTTAATTATAAA-TTTT
1 TTTTAAGG-AAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT
*
43612663 AAAAAATTAGATTAGGGTTTAGCGTTTATGGT
65 AAAAAATTAGATTAGGGTTTAG-GTTTAGGGT
**
43612695 TTTTAAGGAAAAAAGAAGAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTT
1 TTTTAAGG--AAAA-ATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTT
* *
43612760 TAAAAAAAATAGATTA-GGTTTAAGGTTTAGGGT
63 TTAAAAAATTAGATTAGGGTTT-AGGTTTAGGGT
*
43612793 TTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTTA
1 TTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
*
43612857 AAAAAATAGATTA-GGTTTAAGGTTTAGGGT
66 AAAAATTAGATTAGGGTTT-AGGTTTAGGGT
*
43612887 TTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
1 TTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
* *
43612952 AAAAATTAGACTAGGGTTTAGTGTTTAGGAT
66 AAAAATTAGATTAGGGTTTAG-GTTTAGGGT
* *
43612983 TTTTAAGGAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTTA
1 TTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
43613048 AAAAATTAGATTAGGGTTTAGTGTTTAGGGT
66 AAAAATTAGATTAGGGTTTAG-GTTTAGGGT
* *
43613079 TTTTAAGGAAAAATTAAATACATTAGGGTTTGGGGTT
1 TTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTT
43613116 TAAGGTTATT
Statistics
Matches: 386, Mismatches: 21, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
89 8 0.02
90 5 0.01
91 20 0.05
94 93 0.24
95 65 0.17
96 143 0.37
98 34 0.09
99 18 0.05
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.38
Consensus pattern (95 bp):
TTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
AAAAATTAGATTAGGGTTTAGGTTTAGGGT
Found at i:43613423 original size:125 final size:124
Alignment explanation
Indices: 43613152--43613561 Score: 572
Period size: 125 Copynumber: 3.3 Consensus size: 124
43613142 TAATTTAAAA
* * *
43613152 AAGCTCCCACGTGGATGCTCTTTTACTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAA-A-GTTT
** * * * *
43613217 CTGAGCAAATAGTGTCAAAAACATTTTAAGCAGGATGCATTGTCAGTAAAAATACTGAAAG
64 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
* *
43613278 AAACTCCCACGTGGACGCTCTTTTCCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAA-A-GTTT
* *
43613343 CTGAGCAAATAGTGT-AAAAACGCTTCAAGCAGGATGCAATGTCAACAAAAGTATTGAAAG
64 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
* * *
43613403 AAGCTCCCACGTGGATGCTCTTTTGCTACAGTAATTTTTGAAAAAATAATTTTGAG-AAGTTTCT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAGTTTCT
* * * * *
43613467 AAGTAAATAGTGTCAAAAATGCTTCAAACAGGATGCAATGTTAGCAAAAGTACTGAAAG
66 GAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
*
43613526 AAGCTCCCACGTGGACGCTCTTATGCTACAGTAGTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
43613562 CCTATTTGGC
Statistics
Matches: 254, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
122 17 0.07
123 74 0.29
124 1 0.00
125 88 0.35
126 74 0.29
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (124 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAGTTTCT
GAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAG
Found at i:43616879 original size:21 final size:20
Alignment explanation
Indices: 43616833--43616893 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
43616823 TTGTCCAACT
* * *
43616833 TCCGACGGGGGTTGTGGTTGC
1 TCCGGCGGGGATT-TGGTTCC
43616854 TCCGGCGGGGATTCTGGTTCC
1 TCCGGCGGGGATT-TGGTTCC
*
43616875 TCCGGTAGGGGATTTGGTT
1 TCCGG-CGGGGATTTGGTT
43616894 GTCGATATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.07, C:0.20, G:0.43, T:0.31
Consensus pattern (20 bp):
TCCGGCGGGGATTTGGTTCC
Found at i:43619474 original size:34 final size:35
Alignment explanation
Indices: 43619430--43619496 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43619420 CAGTCAAATG
* *
43619430 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAACGATTTACTGGAAAATATTTTAC
*
43619464 TTTTCTGTAAAACGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAACGATTTACTGGAAAATATTTT
43619497 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAACGATTTACTGGAAAATATTTTAC
Found at i:43619482 original size:20 final size:20
Alignment explanation
Indices: 43619445--43619484 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43619435 CGTAAAATGA
* *
43619445 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAACGATTTACT
*
43619465 TTTCTGTAAAACGATTTACT
1 TTTCTGGAAAACGATTTACT
43619485 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAACGATTTACT
Found at i:43628312 original size:2 final size:2
Alignment explanation
Indices: 43628305--43628350 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
43628295 AATTATATTT
*
43628305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43628347 TA TA
1 TA TA
43628351 CCTATTGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:43628563 original size:18 final size:18
Alignment explanation
Indices: 43628540--43628579 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
43628530 TGATTTTTTA
43628540 AAAAATA-TATAATACATT
1 AAAAATACTA-AATACATT
*
43628558 AAAAATACTAAATACGTT
1 AAAAATACTAAATACATT
43628576 AAAA
1 AAAA
43628580 TAAATGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAATACTAAATACATT
Found at i:43634378 original size:58 final size:58
Alignment explanation
Indices: 43634306--43634422 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
43634296 GAATGATAGA
43634306 AAATAATAAGGTATGCAACAAGGAAGGAGAACTTGAAGTTTCAAAGAGAAGAAAAAGG
1 AAATAATAAGGTATGCAACAAGGAAGGAGAACTTGAAGTTTCAAAGAGAAGAAAAAGG
43634364 AAATAATAAGGTATGCAACAAGGAAGGAGAACTTGAAGTTTCAAAGAGAAGAAAAAGG
1 AAATAATAAGGTATGCAACAAGGAAGGAGAACTTGAAGTTTCAAAGAGAAGAAAAAGG
43634422 A
1 A
43634423 TGATTTATCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.15
Consensus pattern (58 bp):
AAATAATAAGGTATGCAACAAGGAAGGAGAACTTGAAGTTTCAAAGAGAAGAAAAAGG
Found at i:43651459 original size:34 final size:33
Alignment explanation
Indices: 43651407--43651474 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 33
43651397 TGAATAGGTT
*
43651407 GCTCCCCCTTAATAAAAATCATTTTCAATTTAA
1 GCTCCCCCCTAATAAAAATCATTTTCAATTTAA
*
43651440 GCTCCCCCCTATATGAAAATCATTTTCAATTTAA
1 GCTCCCCCCTA-ATAAAAATCATTTTCAATTTAA
43651474 G
1 G
43651475 GCATAAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 10 0.31
34 22 0.69
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (33 bp):
GCTCCCCCCTAATAAAAATCATTTTCAATTTAA
Found at i:43662111 original size:42 final size:42
Alignment explanation
Indices: 43662039--43662168 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 42
43662029 GCCCCAAGGC
* * * * * *
43662039 TGAACAGAAGCTTTTGAGAGCTAAATGGAAACCCTTAAGGGT
1 TGAATAGAAGCTTATAAGAGCTGAACGGAAACCCATAAGGGT
* *
43662081 TGAATGGAAGCTTGTAAGAGCTGAACGGAAACCCATAAGGGT
1 TGAATAGAAGCTTATAAGAGCTGAACGGAAACCCATAAGGGT
* * * ** *
43662123 TAAATAGAAGCTCAAAAGAGCTGAACAAAAACCCATGAGGGT
1 TGAATAGAAGCTTATAAGAGCTGAACGGAAACCCATAAGGGT
43662165 TGAA
1 TGAA
43662169 CGAAAACTCA
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (42 bp):
TGAATAGAAGCTTATAAGAGCTGAACGGAAACCCATAAGGGT
Found at i:43664649 original size:20 final size:20
Alignment explanation
Indices: 43664621--43664670 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
43664611 TGGAGCAGGA
*
43664621 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
43664641 ATATTGATACCTTAAGAAA-
1 ATATCGATACCTTAAGAAAT
43664660 AGTATCGATAC
1 A-TATCGATAC
43664671 TGGATCGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:43670490 original size:20 final size:19
Alignment explanation
Indices: 43670465--43670535 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
43670455 AAATATAAAA
*
43670465 TTTGAAATTTTTATAAATAT
1 TTTG-AATTTTTAAAAATAT
**
43670485 TTTGAATTTAAAAAAATAT
1 TTTGAATTTTTAAAAATAT
43670504 TTTGAATTTTTGAAAAATAT
1 TTTGAATTTTT-AAAAATAT
43670524 TTTGTAATTTTT
1 TTTG-AATTTTT
43670536 TGAGAGAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
19 21 0.48
20 16 0.36
21 7 0.16
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TTTGAATTTTTAAAAATAT
Found at i:43677625 original size:3 final size:3
Alignment explanation
Indices: 43677617--43677649 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
43677607 TCTTTTTACC
43677617 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43677650 AGTTGTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:43682210 original size:20 final size:21
Alignment explanation
Indices: 43682185--43682224 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
43682175 TTTTTTTTCT
43682185 TATAAAA-ATATTAAAAAAAC
1 TATAAAATATATTAAAAAAAC
43682205 TATAAAATTATATTAAAAAA
1 TATAAAA-TATATTAAAAAA
43682225 TTATAGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
TATAAAATATATTAAAAAAAC
Found at i:43683139 original size:63 final size:63
Alignment explanation
Indices: 43683040--43683166 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
43683030 GAATGATCTG
43683040 TACTTTTAGCGTCCTCGATGGAAGTTCTTGTAGAAAAAAGAAACCGTCGAAATCTTTCATTTT
1 TACTTTTAGCGTCCTCGATGGAAGTTCTTGTAGAAAAAAGAAACCGTCGAAATCTTTCATTTT
43683103 TACTTTTAGCGTCCTCGATGGAAGTTCTTGTAGAAAAAAGAAACCGTCGAAATCTTTCATTTT
1 TACTTTTAGCGTCCTCGATGGAAGTTCTTGTAGAAAAAAGAAACCGTCGAAATCTTTCATTTT
43683166 T
1 T
43683167 CATTTTTTGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (63 bp):
TACTTTTAGCGTCCTCGATGGAAGTTCTTGTAGAAAAAAGAAACCGTCGAAATCTTTCATTTT
Found at i:43700738 original size:15 final size:15
Alignment explanation
Indices: 43700715--43700744 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43700705 AAAAGCAAAG
43700715 CAAAATGGAAAAACA
1 CAAAATGGAAAAACA
*
43700730 CAAATTGGAAAAACA
1 CAAAATGGAAAAACA
43700745 TACTTCATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.10
Consensus pattern (15 bp):
CAAAATGGAAAAACA
Found at i:43712276 original size:16 final size:17
Alignment explanation
Indices: 43712255--43712290 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
43712245 CATTCCAAAT
43712255 AAACAAGAATCG-AATG
1 AAACAAGAATCGTAATG
*
43712271 AAACAATAATCGTAATG
1 AAACAAGAATCGTAATG
43712288 AAA
1 AAA
43712291 ATCATATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.17
Consensus pattern (17 bp):
AAACAAGAATCGTAATG
Found at i:43719863 original size:49 final size:48
Alignment explanation
Indices: 43719792--43719885 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 48
43719782 AGCTAGCGAG
43719792 TAGCTCCTGAATTGATGTATACCAATTGATAGATTCCCAATAAATCGC
1 TAGCTCCTGAATTGATGTATACCAATTGATAGATTCCCAATAAATCGC
*
43719840 TAGCTTCCTGAATTGATGTATACCAATTGATAGATTCCTAATAAAT
1 TAGC-TCCTGAATTGATGTATACCAATTGATAGATTCCCAATAAAT
43719886 AACTATTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 4 0.09
49 40 0.91
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (48 bp):
TAGCTCCTGAATTGATGTATACCAATTGATAGATTCCCAATAAATCGC
Found at i:43727452 original size:20 final size:21
Alignment explanation
Indices: 43727424--43727463 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
43727414 TTTTATTGAA
43727424 TGAAAAAAAA-ATAAAGAAAC
1 TGAAAAAAAACATAAAGAAAC
* *
43727444 TGAATAAAAACATAATGAAA
1 TGAAAAAAAACATAAAGAAA
43727464 ATGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.70, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
TGAAAAAAAACATAAAGAAAC
Found at i:43727458 original size:21 final size:20
Alignment explanation
Indices: 43727424--43727463 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43727414 TTTTATTGAA
43727424 TGAAAAAAAAATAAAGAAAC
1 TGAAAAAAAAATAAAGAAAC
* *
43727444 TGAATAAAAACATAATGAAA
1 TGAA-AAAAAAATAAAGAAA
43727464 ATGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.70, C:0.05, G:0.10, T:0.15
Consensus pattern (20 bp):
TGAAAAAAAAATAAAGAAAC
Found at i:43731280 original size:32 final size:32
Alignment explanation
Indices: 43731244--43731304 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
43731234 TTGTTTTATT
43731244 TTATTTCAAGTGATTTATGAGTTGATGCTATG
1 TTATTTCAAGTGATTTATGAGTTGATGCTATG
43731276 TTATTTCAAGTGATTTATGAGTTGATGCT
1 TTATTTCAAGTGATTTATGAGTTGATGCT
43731305 CTAACATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.48
Consensus pattern (32 bp):
TTATTTCAAGTGATTTATGAGTTGATGCTATG
Found at i:43731778 original size:20 final size:20
Alignment explanation
Indices: 43731753--43731819 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
43731743 GCTAAAGAAA
*
43731753 GTAAATGCAATGGGAAGTAT
1 GTAAATGCAATGGAAAGTAT
*
43731773 GTAAATACAATGGAAAGTAT
1 GTAAATGCAATGGAAAGTAT
*
43731793 GTAAATGCAATGGAAAGTAA
1 GTAAATGCAATGGAAAGTAT
43731813 GTAAATG
1 GTAAATG
43731820 AAAGGGGTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.46, C:0.04, G:0.25, T:0.24
Consensus pattern (20 bp):
GTAAATGCAATGGAAAGTAT
Found at i:43737490 original size:20 final size:20
Alignment explanation
Indices: 43737458--43737531 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
43737448 TATTTGAGCT
*
43737458 AAAGAAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGG
* * *
43737478 GAAGTATGTAAATGAAATGG
1 AAAGTAAGTAAATGCAATGG
*
43737498 AAAGTAAGTAAATGCAATGA
1 AAAGTAAGTAAATGCAATGG
43737518 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
43737532 AAAGGGGTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGG
Found at i:43737512 original size:40 final size:40
Alignment explanation
Indices: 43737458--43737534 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
43737448 TATTTGAGCT
** *
43737458 AAAGAAAGTAAATGCAATGGGAAGTATGTAAATGAAATGG
1 AAAGAAAGTAAATGCAATGAAAAGTAAGTAAATGAAATGG
*
43737498 AAAGTAAGTAAATGCAATGAAAAGTAAGTAAATGAAA
1 AAAGAAAGTAAATGCAATGAAAAGTAAGTAAATGAAA
43737535 GGGGTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.55, C:0.03, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAGAAAGTAAATGCAATGAAAAGTAAGTAAATGAAATGG
Found at i:43738867 original size:21 final size:23
Alignment explanation
Indices: 43738842--43738891 Score: 77
Period size: 21 Copynumber: 2.2 Consensus size: 23
43738832 TTTTCTATCT
43738842 TTTTCCATAATG-TTCTA-AATG
1 TTTTCCATAATGTTTCTATAATG
43738863 TTTTCCATAATGTTTTCTATAATG
1 TTTTCCATAATG-TTTCTATAATG
43738887 TTTTC
1 TTTTC
43738892 TAAGGCCCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.46
23 5 0.19
24 9 0.35
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (23 bp):
TTTTCCATAATGTTTCTATAATG
Found at i:43738892 original size:12 final size:12
Alignment explanation
Indices: 43738842--43738893 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
43738832 TTTTCTATCT
*
43738842 TTTTCCATAATG
1 TTTTCTATAATG
43738854 --TTCTA-AATG
1 TTTTCTATAATG
*
43738863 TTTTCCATAATG
1 TTTTCTATAATG
43738875 TTTTCTATAATG
1 TTTTCTATAATG
43738887 TTTTCTA
1 TTTTCTA
43738894 AGGCCCCGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 4 0.12
12 22 0.65
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.54
Consensus pattern (12 bp):
TTTTCTATAATG
Found at i:43740441 original size:27 final size:27
Alignment explanation
Indices: 43740403--43740483 Score: 162
Period size: 27 Copynumber: 3.0 Consensus size: 27
43740393 TCACCCATCA
43740403 TTAGATTTGATTCCTTCTACTTTTTCT
1 TTAGATTTGATTCCTTCTACTTTTTCT
43740430 TTAGATTTGATTCCTTCTACTTTTTCT
1 TTAGATTTGATTCCTTCTACTTTTTCT
43740457 TTAGATTTGATTCCTTCTACTTTTTCT
1 TTAGATTTGATTCCTTCTACTTTTTCT
43740484 ATCTCTTGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (27 bp):
TTAGATTTGATTCCTTCTACTTTTTCT
Found at i:43741481 original size:13 final size:14
Alignment explanation
Indices: 43741460--43741506 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
43741450 CATATACAGT
*
43741460 CAGACTCAGATA-A
1 CAGAATCAGATATA
*
43741473 CAGAATCAGAAATA
1 CAGAATCAGATATA
*
43741487 TAGAAT-AGATATA
1 CAGAATCAGATATA
43741500 CAGAATC
1 CAGAATC
43741507 CTACCCCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (14 bp):
CAGAATCAGATATA
Found at i:43742032 original size:17 final size:18
Alignment explanation
Indices: 43742004--43742037 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
43741994 GTAGCATGCC
43742004 TGTGTGGGCCCACACGCT
1 TGTGTGGGCCCACACGCT
43742022 TGTGT-GGCCCACACGC
1 TGTGTGGGCCCACACGC
43742038 CCTACTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.12, C:0.35, G:0.32, T:0.21
Consensus pattern (18 bp):
TGTGTGGGCCCACACGCT
Found at i:43754012 original size:84 final size:83
Alignment explanation
Indices: 43753887--43754055 Score: 241
Period size: 84 Copynumber: 2.0 Consensus size: 83
43753877 GGCACTTAGT
* *
43753887 TGCTAGACATATAATCTGAAATGTTTCACCGGCATTAAGCCTACTAGACATAAAGTCTGATATTG
1 TGCTAGACATATAATCTGAAATATTTCACCGACATTAAGCCTACTAGACATAAAGTCTGATATTG
43753952 TTTCACTAGCAATAAGCC
66 TTTCACTAGCAATAAGCC
* * ** *
43753970 TGCTAGACGTA-AAGTCTGAAATTATTTCACCGACCTTAAGCCTGTTATACATAAAGTCTGATAT
1 TGCTAGACATATAA-TCTGAAA-TATTTCACCGACATTAAGCCTACTAGACATAAAGTCTGATAT
*
43754034 TGTTTCACTGGCAATAAGCC
64 TGTTTCACTAGCAATAAGCC
43754054 TG
1 TG
43754056 TTAGGCGCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
82 2 0.03
83 17 0.22
84 57 0.75
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (83 bp):
TGCTAGACATATAATCTGAAATATTTCACCGACATTAAGCCTACTAGACATAAAGTCTGATATTG
TTTCACTAGCAATAAGCC
Found at i:43754058 original size:42 final size:42
Alignment explanation
Indices: 43753887--43754055 Score: 189
Period size: 42 Copynumber: 4.0 Consensus size: 42
43753877 GGCACTTAGT
* *
43753887 TGCTAGACATATAA-TCTGA-AATGTTTCACCGGCATTAAGCC
1 TGCTAGACATA-AAGTCTGATATTGTTTCACCGGCAATAAGCC
* **
43753928 TACTAGACATAAAGTCTGATATTGTTTCACTAGCAATAAGCC
1 TGCTAGACATAAAGTCTGATATTGTTTCACCGGCAATAAGCC
* * * * **
43753970 TGCTAGACGTAAAGTCTGAAATTATTTCACCGACCTTAAGCC
1 TGCTAGACATAAAGTCTGATATTGTTTCACCGGCAATAAGCC
* * *
43754012 TGTTATACATAAAGTCTGATATTGTTTCACTGGCAATAAGCC
1 TGCTAGACATAAAGTCTGATATTGTTTCACCGGCAATAAGCC
43754054 TG
1 TG
43754056 TTAGGCGCTA
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
40 2 0.02
41 15 0.15
42 86 0.83
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (42 bp):
TGCTAGACATAAAGTCTGATATTGTTTCACCGGCAATAAGCC
Found at i:43754073 original size:84 final size:84
Alignment explanation
Indices: 43753902--43754075 Score: 235
Period size: 84 Copynumber: 2.1 Consensus size: 84
43753892 GACATATAAT
* *
43753902 CTGAAA-TGTTTCACCGGCATTAAGCCTACTAGACATAAAGTCTGATATTGTTTCACTAGCAATA
1 CTGAAATTATTTCACCGACATTAAGCCTACTAGACATAAAGTCTGATATTGTTTCACTAGCAATA
*
43753966 AGCCTGCTAGACGTAAAGT
66 AGCCTGCTAGACGTAAAGC
* ** * *
43753985 CTGAAATTATTTCACCGACCTTAAGCCTGTTATACATAAAGTCTGATATTGTTTCACTGGCAATA
1 CTGAAATTATTTCACCGACATTAAGCCTACTAGACATAAAGTCTGATATTGTTTCACTAGCAATA
* *
43754050 AGCCTGTTAGGCGCT-AAGC
66 AGCCTGCTAGACG-TAAAGC
43754069 CTGAAAT
1 CTGAAAT
43754076 CTCAATTTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 6 0.08
84 72 0.91
85 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (84 bp):
CTGAAATTATTTCACCGACATTAAGCCTACTAGACATAAAGTCTGATATTGTTTCACTAGCAATA
AGCCTGCTAGACGTAAAGC
Found at i:43764923 original size:3 final size:3
Alignment explanation
Indices: 43764917--43764960 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
43764907 ATAATAATAT
43764917 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
43764961 TAGAGTACGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:43767191 original size:36 final size:36
Alignment explanation
Indices: 43767151--43767227 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
43767141 TGATGGTTGT
43767151 TGTGAAAG-AGAATATGTGGGTATGA-TATTCATGCCA
1 TGTGAAAGTA-AATATGTGGGTAT-ATTATTCATGCCA
* * *
43767187 TGTGACAGTAAATATGTGGGTATATTTTTCATTCCA
1 TGTGAAAGTAAATATGTGGGTATATTATTCATGCCA
43767223 TGTGA
1 TGTGA
43767228 CAGTGATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 1 0.03
36 34 0.94
37 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (36 bp):
TGTGAAAGTAAATATGTGGGTATATTATTCATGCCA
Found at i:43767228 original size:36 final size:36
Alignment explanation
Indices: 43767161--43767231 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
43767151 TGTGAAAGAG
43767161 AATATGTGGGTATGATATTCATGCCATGTGACAGTA
1 AATATGTGGGTATGATATTCATGCCATGTGACAGTA
* *
43767197 AATATGTGGGTAT-ATTTTTCATTCCATGTGACAGT
1 AATATGTGGGTATGA-TATTCATGCCATGTGACAGT
43767232 GATTATAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (36 bp):
AATATGTGGGTATGATATTCATGCCATGTGACAGTA
Found at i:43770737 original size:28 final size:28
Alignment explanation
Indices: 43770697--43770753 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
43770687 GGAAGGTACA
43770697 TCTCATACATTATTCTAGTGTTATATAG
1 TCTCATACATTATTCTAGTGTTATATAG
43770725 TCTCATACATTATTCTAGTGTTATATAG
1 TCTCATACATTATTCTAGTGTTATATAG
43770753 T
1 T
43770754 GTGATTACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (28 bp):
TCTCATACATTATTCTAGTGTTATATAG
Found at i:43789069 original size:43 final size:45
Alignment explanation
Indices: 43788984--43789071 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 45
43788974 TCCTAGAAAA
* * *
43788984 AAAAAAGAATTTCAAAGAAAAGGAAAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTTCAAAGAAAAGGAAAAGATAAACATGAGTTGTTG
* *
43789029 AAAAAAGAATTT-AAA-AAGAGGAGAAGATAAACATGAGTTGTTG
1 AAAAAAGAATTTCAAAGAAAAGGAAAAGATAAACATGAGTTGTTG
43789072 GATTTACCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 23 0.61
44 3 0.08
45 12 0.32
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.23
Consensus pattern (45 bp):
AAAAAAGAATTTCAAAGAAAAGGAAAAGATAAACATGAGTTGTTG
Found at i:43789943 original size:26 final size:26
Alignment explanation
Indices: 43789914--43789964 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43789904 CAGATAATCA
*
43789914 CTCTCA-TTATTGCCATGACATTTCTG
1 CTCTCACTT-TTGCCATAACATTTCTG
*
43789940 CTCTCACTTTTTCCATAACATTTCT
1 CTCTCACTTTTGCCATAACATTTCT
43789965 AGTTATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.20, C:0.29, G:0.06, T:0.45
Consensus pattern (26 bp):
CTCTCACTTTTGCCATAACATTTCTG
Found at i:43797908 original size:13 final size:13
Alignment explanation
Indices: 43797890--43797915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43797880 GACCTACTTC
43797890 GGTGACTTTGCAA
1 GGTGACTTTGCAA
43797903 GGTGACTTTGCAA
1 GGTGACTTTGCAA
43797916 CTAGTTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
GGTGACTTTGCAA
Found at i:43799127 original size:22 final size:21
Alignment explanation
Indices: 43799093--43799133 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
43799083 GTAACTACTA
*
43799093 AGTACTATTTTACCTATGAGG
1 AGTACAATTTTACCTATGAGG
*
43799114 AGTACAATCTTTACTTATGA
1 AGTACAAT-TTTACCTATGA
43799134 TGTTCAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (21 bp):
AGTACAATTTTACCTATGAGG
Found at i:43800491 original size:43 final size:43
Alignment explanation
Indices: 43800442--43800526 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
43800432 ATCCTAGAAC
* *
43800442 AAAAAGAATTTAAAAA-AAGGAGAAGATAATCTTGGGTTGTTGA
1 AAAAAGAATTTAAAAAGAA-GAGAAGATAAACATGGGTTGTTGA
43800485 AAAAAGAATTTAAAAAGAAGAGAAGATAAACATGGGTTGTTG
1 AAAAAGAATTTAAAAAGAAGAGAAGATAAACATGGGTTGTTG
43800527 GATTTACCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 37 0.95
44 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.24, T:0.24
Consensus pattern (43 bp):
AAAAAGAATTTAAAAAGAAGAGAAGATAAACATGGGTTGTTGA
Found at i:43811108 original size:42 final size:42
Alignment explanation
Indices: 43811062--43811163 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
43811052 ACACACGTCT
*
43811062 ATGTCCTTGCCCGTGTGGCCCACACGGCCTGGACACGCACCC
1 ATGTCCTTGCCCGTGTGGCCCACACGGCCTGGACACACACCC
* * * * * * * *
43811104 ATGTCCTTGCTCGTATGACTCACACGTCTTGGGCACACGCCC
1 ATGTCCTTGCCCGTGTGGCCCACACGGCCTGGACACACACCC
* *
43811146 ATGTCCCTGGCCGTGTGG
1 ATGTCCTTGCCCGTGTGG
43811164 TCCTAAGTCA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.14, C:0.37, G:0.26, T:0.23
Consensus pattern (42 bp):
ATGTCCTTGCCCGTGTGGCCCACACGGCCTGGACACACACCC
Found at i:43814067 original size:7 final size:7
Alignment explanation
Indices: 43814015--43814066 Score: 88
Period size: 7 Copynumber: 7.6 Consensus size: 7
43814005 AAAGTATTTT
43814015 AAAATTA
1 AAAATTA
43814022 AAAATTA
1 AAAATTA
43814029 AAAATTA
1 AAAATTA
43814036 AAAATTA
1 AAAATTA
43814043 AAAATTA
1 AAAATTA
*
43814050 AAAAATA
1 AAAATTA
43814057 AAAA-TA
1 AAAATTA
43814063 AAAA
1 AAAA
43814067 AATATATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
6 6 0.14
7 38 0.86
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:43815384 original size:2 final size:2
Alignment explanation
Indices: 43815377--43815405 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43815367 ATCCACTAAC
43815377 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43815406 CACTTAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43815902 original size:33 final size:34
Alignment explanation
Indices: 43815843--43815921 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
43815833 GTCAATCAGT
*
43815843 ATACAATAAGCAGTGACAGCCTGAGCCTGAACCCT
1 ATACAATAA-CAGTGACAGCCTGAGCCTGAACCCA
* ** * *
43815878 ATTCAATAACAGT-ACAGTGTGAGCCTTAGCCCA
1 ATACAATAACAGTGACAGCCTGAGCCTGAACCCA
43815911 ATACAATAACA
1 ATACAATAACA
43815922 ATGTGGGCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
33 25 0.68
34 4 0.11
35 8 0.22
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (34 bp):
ATACAATAACAGTGACAGCCTGAGCCTGAACCCA
Found at i:43815913 original size:28 final size:27
Alignment explanation
Indices: 43815881--43815946 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
43815871 GAACCCTATT
*
43815881 CAATAACAGTACAGTGTGAGCCTTAGCC
1 CAAT-ACAGTACAATGTGAGCCTTAGCC
* *
43815909 CAATACAATAACAATGTGGGCCTTAGCC
1 CAATACAGT-ACAATGTGAGCCTTAGCC
43815937 CAATACAGTA
1 CAATACAGTA
43815947 TCGGTACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (27 bp):
CAATACAGTACAATGTGAGCCTTAGCC
Found at i:43816330 original size:27 final size:27
Alignment explanation
Indices: 43816278--43816388 Score: 84
Period size: 27 Copynumber: 4.0 Consensus size: 27
43816268 ACATAAGGTC
*
43816278 ATAACAGTCATTTCATCTCCTA--GGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGGT
*
43816305 ATAACAGTCATTTTACCCTATGGGGGG
1 ATAACAGTCATTTTACCCTATGGGGGT
* *
43816332 ATAATTCAGTCATTTTACCCTGTAGGGGT
1 ATAA--CAGTCATTTTACCCTATGGGGGT
* * * *
43816361 A-ATTCGGTCATTTTACCTTAAGGGGGT
1 ATA-ACAGTCATTTTACCCTATGGGGGT
43816388 A
1 A
43816389 ATTGGGTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
25 4 0.06
26 1 0.01
27 41 0.60
28 1 0.01
29 21 0.31
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATGGGGGT
Found at i:43816389 original size:27 final size:27
Alignment explanation
Indices: 43816309--43816427 Score: 123
Period size: 27 Copynumber: 4.3 Consensus size: 27
43816299 AGGGGTATAA
*
43816309 CAGTCATTTTACCCTATGGGGGGATAATT
1 CAGTCATTTTACCCTA-AGGGGG-TAATT
*
43816338 CAGTCATTTTACCCTGTA-GGGGTAATT
1 CAGTCATTTTACCCT-AAGGGGGTAATT
* *
43816365 CGGTCATTTTACCTTAAGGGGGTAATT
1 CAGTCATTTTACCCTAAGGGGGTAATT
** * **
43816392 GGGTCATTATACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTAAGGGGGTAATT
43816419 CAGTCATTT
1 CAGTCATTT
43816428 ATTGACCTCT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 55 0.73
28 4 0.05
29 15 0.20
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (27 bp):
CAGTCATTTTACCCTAAGGGGGTAATT
Found at i:43816414 original size:54 final size:56
Alignment explanation
Indices: 43816309--43816427 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 56
43816299 AGGGGTATAA
* *
43816309 CAGTCATTTTACCCTATGGGGGGATAATTCAGTCATTTTACCCTGTAGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGGATAATTCAGTCATTATACCCTGTAGGGGTAATT
* * ** *
43816365 CGGTCATTTTACCTTA-AGGGGG-TAATTGGGTCATTATACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGGATAATTCAGTCATTATACCCTGTAGGGGTAATT
43816419 CAGTCATTT
1 CAGTCATTT
43816428 ATTGACCTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 36 0.65
55 5 0.09
56 14 0.25
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (56 bp):
CAGTCATTTTACCCTATAGGGGGATAATTCAGTCATTATACCCTGTAGGGGTAATT
Found at i:43819664 original size:35 final size:34
Alignment explanation
Indices: 43819618--43819729 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
43819608 AACAAAATAA
*
43819618 AACCATTAAATTATCCATCATATGTTAACTAACTG
1 AACCATCAAATTATCCATCATATGTTAACTAA-TG
* * *
43819653 AACCATCAAATTATCCATCGTATGTTAACAAAATAA
1 AACCATCAAATTATCCATCATATGTTAAC-TAAT-G
*
43819689 AACCATCAAATTATCCATGATATGTTAACTAATG
1 AACCATCAAATTATCCATCATATGTTAACTAATG
43819723 AAACCAT
1 -AACCAT
43819730 ATTGACATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 37 0.56
36 29 0.44
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (34 bp):
AACCATCAAATTATCCATCATATGTTAACTAATG
Found at i:43819700 original size:36 final size:36
Alignment explanation
Indices: 43819607--43819717 Score: 154
Period size: 36 Copynumber: 3.1 Consensus size: 36
43819597 CAAAATGATC
* *
43819607 TAACAAAATAAAACCATTAAATTATCCATCATATGT
1 TAACAAAATAAAACCATCAAATTATCCATCGTATGT
* * *
43819643 TAACTAACT-GAACCATCAAATTATCCATCGTATGT
1 TAACAAAATAAAACCATCAAATTATCCATCGTATGT
43819678 TAACAAAATAAAACCATCAAATTATCCAT-GATATGT
1 TAACAAAATAAAACCATCAAATTATCCATCG-TATGT
43819714 TAAC
1 TAAC
43819718 TAATGAAACC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
35 31 0.48
36 34 0.52
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (36 bp):
TAACAAAATAAAACCATCAAATTATCCATCGTATGT
Found at i:43822967 original size:13 final size:12
Alignment explanation
Indices: 43822949--43823083 Score: 52
Period size: 13 Copynumber: 11.1 Consensus size: 12
43822939 ATAAACTGTA
43822949 ATATACATACAT
1 ATATACATACAT
43822961 GATATACATACAT
1 -ATATACATACAT
* *
43822974 ACATACATA-AA
1 ATATACATACAT
* *
43822985 AAATTATATACAT
1 ATA-TACATACAT
43822998 A-A-A-ATACAT
1 ATATACATACAT
43823007 AATATACATACATT
1 -ATATACATACA-T
* *
43823021 ACAGACATAC-T
1 ATATACATACAT
* *
43823032 AATAGACATCCAT
1 -ATATACATACAT
43823045 A-A-ACA-ACAAT
1 ATATACATAC-AT
43823055 ATACGTAACATACAT
1 ATA--T-ACATACAT
43823070 AATATACATACAT
1 -ATATACATACAT
43823083 A
1 A
43823084 ACAGACATAC
Statistics
Matches: 95, Mismatches: 10, Indels: 35
0.68 0.07 0.25
Matches are distributed among these distances:
9 7 0.07
10 8 0.08
11 7 0.07
12 25 0.26
13 36 0.38
14 2 0.02
15 5 0.05
16 5 0.05
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.27
Consensus pattern (12 bp):
ATATACATACAT
Found at i:43822997 original size:16 final size:18
Alignment explanation
Indices: 43822976--43823016 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
43822966 ACATACATAC
*
43822976 ATACATAAAA-A-ATTAT
1 ATACATAAAATACATAAT
43822992 ATACATAAAATACATAAT
1 ATACATAAAATACATAAT
43823010 ATACATA
1 ATACATA
43823017 CATTACAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 1 0.05
18 11 0.50
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (18 bp):
ATACATAAAATACATAAT
Found at i:43823013 original size:59 final size:61
Alignment explanation
Indices: 43822947--43823125 Score: 173
Period size: 63 Copynumber: 2.9 Consensus size: 61
43822937 ATATAAACTG
* * **
43822947 TAATATACATACATGATATACATAC-AT-ACATACATAAAAAATTATATACATAAAATACA
1 TAATATACATACATGACAGACATACAATAACATACATAAAAAACAATATACATAAAATACA
* * * * *
43823006 TAATATACATACATTACAGACATACTAATAGACATCCATAAACAACAATATACGTAACATACA
1 TAATATACATACATGACAGACATAC-AATA-ACATACATAAAAAACAATATACATAAAATACA
* * * * **
43823069 TAATATACATACATAACAGACATACTAACATGCATACACAAAAAGTAATATACATAA
1 TAATATACATACATGACAGACATAC-AATA-ACATACATAAAAAACAATATACATAA
43823126 CAGATTGACC
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
59 22 0.23
61 2 0.02
63 73 0.75
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (61 bp):
TAATATACATACATGACAGACATACAATAACATACATAAAAAACAATATACATAAAATACA
Found at i:43823105 original size:12 final size:13
Alignment explanation
Indices: 43823001--43823098 Score: 55
Period size: 13 Copynumber: 7.8 Consensus size: 13
43822991 TATACATAAA
* *
43823001 ATACATAATATAC
1 ATACATAACAGAC
*
43823014 ATACATTACAGAC
1 ATACATAACAGAC
*
43823027 ATAC-TAATAGAC
1 ATACATAACAGAC
*
43823039 ATCCATAAACA-AC
1 ATACAT-AACAGAC
*
43823052 A-ATAT-AC-GTAAC
1 ATACATAACAG--AC
* *
43823064 ATACATAATATAC
1 ATACATAACAGAC
43823077 ATACATAACAGAC
1 ATACATAACAGAC
43823090 ATAC-TAACA
1 ATACATAACA
43823099 TGCATACACA
Statistics
Matches: 63, Mismatches: 14, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
10 2 0.03
12 19 0.30
13 38 0.60
14 4 0.06
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.23
Consensus pattern (13 bp):
ATACATAACAGAC
Found at i:43823119 original size:63 final size:62
Alignment explanation
Indices: 43822970--43823127 Score: 192
Period size: 63 Copynumber: 2.5 Consensus size: 62
43822960 TGATATACAT
* * * *
43822970 ACATACATACATAAAAAATTATATACATAAAATACATAATATACATACATTACAGACATACTA
1 ACATGCATACAT-AAAAATAATATACATAACATACATAATATACATACATAACAGACATACTA
* * * *
43823033 ATA-GACATCCATAAACAACAATATACGTAACATACATAATATACATACATAACAGACATACTA
1 ACATG-CATACATAAA-AATAATATACATAACATACATAATATACATACATAACAGACATACTA
*
43823096 ACATGCATACACAAAAAGTAATATACATAACA
1 ACATGCATACATAAAAA-TAATATACATAACA
43823128 GATTGACCTT
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
62 5 0.06
63 72 0.92
64 1 0.01
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.23
Consensus pattern (62 bp):
ACATGCATACATAAAAATAATATACATAACATACATAATATACATACATAACAGACATACTA
Found at i:43823914 original size:15 final size:15
Alignment explanation
Indices: 43823894--43823923 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43823884 GATGGAAAAC
43823894 ATTTATTTGTTATTT
1 ATTTATTTGTTATTT
43823909 ATTTATTTGTTATTT
1 ATTTATTTGTTATTT
43823924 TAATAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
ATTTATTTGTTATTT
Found at i:43824125 original size:27 final size:28
Alignment explanation
Indices: 43824095--43824164 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
43824085 AAAAGTTCGA
* *
43824095 GTACCAATCTGAGAC-AAAAAATCATAG
1 GTACTAATCTGAGACAAAAAAACCATAG
43824122 GTACTAATCTGAGACAAAAAAAACCATAG
1 GTACTAATCTGAGAC-AAAAAAACCATAG
43824151 GTACTAATCTGAGA
1 GTACTAATCTGAGA
43824165 GAAGTGAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 14 0.36
29 25 0.64
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (28 bp):
GTACTAATCTGAGACAAAAAAACCATAG
Found at i:43828796 original size:29 final size:29
Alignment explanation
Indices: 43828764--43828828 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
43828754 AGCAACACCA
*
43828764 AAGTGCAATATCATAATAGAATGACACTG
1 AAGTGCAATAGCATAATAGAATGACACTG
** * *
43828793 AAGTGCTTTAGCATAATAGAGTGGCACTG
1 AAGTGCAATAGCATAATAGAATGACACTG
43828822 AAGTGCA
1 AAGTGCA
43828829 TTAATAGAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (29 bp):
AAGTGCAATAGCATAATAGAATGACACTG
Found at i:43833806 original size:35 final size:35
Alignment explanation
Indices: 43833739--43833838 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 35
43833729 AATAAAGTTT
* * *
43833739 TGTGCCTAGCGCTAGTCGGATAAACTGGCAATAGG
1 TGTGCCTAGCACTAGTCGGATAAACCGACAATAGG
* * *
43833774 TGTGCCTAGCACTGGTCGGGTAAACCGACAATA-T
1 TGTGCCTAGCACTAGTCGGATAAACCGACAATAGG
* * *
43833808 TTTGCACCCAACACTAGTCGGATAAACCGAC
1 TGTG--CCTAGCACTAGTCGGATAAACCGAC
43833839 GATATCAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
34 3 0.06
35 28 0.54
36 21 0.40
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (35 bp):
TGTGCCTAGCACTAGTCGGATAAACCGACAATAGG
Found at i:43840343 original size:22 final size:22
Alignment explanation
Indices: 43840313--43840355 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
43840303 ACACCAAAAC
*
43840313 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
43840335 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
43840356 AGCATCGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:43840828 original size:21 final size:21
Alignment explanation
Indices: 43840769--43840838 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
43840759 TTTTACGCTG
*
43840769 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
43840790 TTCTACTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
43840811 CTCTGCTTCTCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTAGC
*
43840832 ATCTGCT
1 CTCTGCT
43840839 GGAGTTCTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.06, C:0.41, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:43840942 original size:66 final size:66
Alignment explanation
Indices: 43840836--43840966 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
43840826 TGTCGCATCT
* * *
43840836 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGTATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
43840901 A
66 A
* * *
43840902 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
43840966 T
65 T
43840967 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:43846362 original size:25 final size:25
Alignment explanation
Indices: 43846328--43846540 Score: 168
Period size: 25 Copynumber: 9.0 Consensus size: 25
43846318 GCTATGTAAG
*
43846328 TTATGTAAGTTATATAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
*
43846353 TAATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTATGTA
*
43846378 TTATGTAAGTTAT-TAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
* * * *
43846402 TTATGTAAGTCATGTAGGCTATGTA
1 TTATGTAAGTTATATAAGTTATGTA
43846427 TTATGTAAGTTATGA-AAGTT-T-TA
1 TTATGTAAGTTAT-ATAAGTTATGTA
* **
43846450 -TA--TAAGTGAT-TAA-AAATGTA
1 TTATGTAAGTTATATAAGTTATGTA
* *
43846470 TTATGTAATTTATTTAAG---T-TA
1 TTATGTAAGTTATATAAGTTATGTA
43846491 TTATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTATGTA
* *
43846516 TTATGTAATTTATTTAAGTTATGTA
1 TTATGTAAGTTATATAAGTTATGTA
43846541 AGTTGTCTAT
Statistics
Matches: 149, Mismatches: 21, Indels: 36
0.72 0.10 0.17
Matches are distributed among these distances:
19 3 0.02
20 9 0.06
21 19 0.13
22 3 0.02
23 8 0.05
24 26 0.17
25 80 0.54
26 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATATAAGTTATGTA
Found at i:43846396 original size:8 final size:9
Alignment explanation
Indices: 43846315--43846616 Score: 149
Period size: 9 Copynumber: 34.9 Consensus size: 9
43846305 TAAGTATAAT
*
43846315 TAAGCTATG
1 TAAGTTATG
43846324 TAAGTTATG
1 TAAGTTATG
*
43846333 TAAGTTATA
1 TAAGTTATG
*
43846342 TAAGTTGTG
1 TAAGTTATG
*
43846351 T-A-TAATG
1 TAAGTTATG
43846358 TAAGTTATG
1 TAAGTTATG
*
43846367 AAAGTTATG
1 TAAGTTATG
43846376 T-A-TTATG
1 TAAGTTATG
43846383 TAAGTTAT-
1 TAAGTTATG
*
43846391 TAAGTTGTG
1 TAAGTTATG
43846400 T-A-TTATG
1 TAAGTTATG
*
43846407 TAAGTCATG
1 TAAGTTATG
* *
43846416 TAGGCTATG
1 TAAGTTATG
43846425 T-A-TTATG
1 TAAGTTATG
43846432 TAAGTTATG
1 TAAGTTATG
* *
43846441 AAAGTTTTATA
1 TAAG--TTATG
*
43846452 TAAGTGAT-
1 TAAGTTATG
**
43846460 TAA-AAATG
1 TAAGTTATG
43846468 T-A-TTATG
1 TAAGTTATG
* *
43846475 TAATTTATT
1 TAAGTTATG
43846484 TAAGTTATTATG
1 TAAG---TTATG
43846496 TAAGTTATG
1 TAAGTTATG
*
43846505 AAAGTTATG
1 TAAGTTATG
43846514 T-A-TTATG
1 TAAGTTATG
* *
43846521 TAATTTATT
1 TAAGTTATG
43846530 TAAGTTATG
1 TAAGTTATG
* *
43846539 TAAGTTGTC
1 TAAGTTATG
43846548 T-A-TTATG
1 TAAGTTATG
* *
43846555 CAAGTCATG
1 TAAGTTATG
* *
43846564 TAGGCTATG
1 TAAGTTATG
43846573 T-A-TTATG
1 TAAGTTATG
43846580 TAAGTTAT-
1 TAAGTTATG
*
43846588 TATGTTATTATG
1 TAAG---TTATG
43846600 TAAGTTATG
1 TAAGTTATG
*
43846609 AAAGTTAT
1 TAAGTTAT
43846617 ATATAAGTTA
Statistics
Matches: 218, Mismatches: 48, Indels: 54
0.68 0.15 0.17
Matches are distributed among these distances:
7 41 0.19
8 27 0.12
9 128 0.59
11 11 0.05
12 11 0.05
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43846440 original size:16 final size:18
Alignment explanation
Indices: 43846315--43846616 Score: 149
Period size: 16 Copynumber: 17.4 Consensus size: 18
43846305 TAAGTATAAT
*
43846315 TAAGCTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
* *
43846333 TAAGTTATATAAGTTGTG
1 TAAGTTATGTAAGTTATG
*
43846351 T-A-TAATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
*
43846367 AAAGTTATGT-A-TTATG
1 TAAGTTATGTAAGTTATG
*
43846383 TAAGTTAT-TAAGTTGTG
1 TAAGTTATGTAAGTTATG
*
43846400 T-A-TTATGTAAGTCATG
1 TAAGTTATGTAAGTTATG
* *
43846416 TAGGCTATGT-A-TTATG
1 TAAGTTATGTAAGTTATG
* *
43846432 TAAGTTATGAAAGTTTTATA
1 TAAGTTATGTAAG--TTATG
* **
43846452 TAAGTGAT-TAA-AAATG
1 TAAGTTATGTAAGTTATG
* *
43846468 T-A-TTATGTAATTTATT
1 TAAGTTATGTAAGTTATG
43846484 TAAGTTATTATGTAAGTTATG
1 TAAG---TTATGTAAGTTATG
*
43846505 AAAGTTATGT-A-TTATG
1 TAAGTTATGTAAGTTATG
* *
43846521 TAATTTATTTAAGTTATG
1 TAAGTTATGTAAGTTATG
* *
43846539 TAAGTTGTCT-A-TTATG
1 TAAGTTATGTAAGTTATG
* * * *
43846555 CAAGTCATGTAGGCTATG
1 TAAGTTATGTAAGTTATG
43846573 T-A-TTATGTAAGTTAT-
1 TAAGTTATGTAAGTTATG
*
43846588 TATGTTATTATGTAAGTTATG
1 TAAG---TTATGTAAGTTATG
*
43846609 AAAGTTAT
1 TAAGTTAT
43846617 ATATAAGTTA
Statistics
Matches: 206, Mismatches: 50, Indels: 56
0.66 0.16 0.18
Matches are distributed among these distances:
14 3 0.01
15 10 0.05
16 83 0.40
17 15 0.07
18 52 0.25
19 2 0.01
20 24 0.12
21 17 0.08
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (18 bp):
TAAGTTATGTAAGTTATG
Found at i:43846470 original size:43 final size:45
Alignment explanation
Indices: 43846422--43846537 Score: 128
Period size: 46 Copynumber: 2.6 Consensus size: 45
43846412 CATGTAGGCT
* *
43846422 ATGTATTATGTAAGTTATGAAAGTT-TTATATAAGTGATTAAA-A
1 ATGTATTATGTAATTTATGAAAGTTATTATATAAGTGATGAAAGA
** * * *
43846465 ATGTATTATGTAATTTATTTAAGTTATTATGTAAGTTATGAAAGTT
1 ATGTATTATGTAATTTATGAAAGTTATTATATAAGTGATGAAAG-A
**
43846511 ATGTATTATGTAATTTATTTAAGTTAT
1 ATGTATTATGTAATTTATGAAAGTTAT
43846538 GTAAGTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 22 0.35
44 14 0.22
46 27 0.43
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (45 bp):
ATGTATTATGTAATTTATGAAAGTTATTATATAAGTGATGAAAGA
Found at i:43846492 original size:21 final size:21
Alignment explanation
Indices: 43846468--43846537 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
43846458 ATTAAAAATG
43846468 TATTATGTAATTTATTTAAGT
1 TATTATGTAATTTATTTAAGT
* **
43846489 TATTATGTAAGTTATGAAAGTTAT
1 TATTATGTAATTTATTTAAG---T
43846513 GTATTATGTAATTTATTTAAGT
1 -TATTATGTAATTTATTTAAGT
43846535 TAT
1 TAT
43846538 GTAAGTTGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 20 0.51
22 1 0.03
24 1 0.03
25 17 0.44
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (21 bp):
TATTATGTAATTTATTTAAGT
Found at i:43846559 original size:25 final size:24
Alignment explanation
Indices: 43846525--43846614 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
43846515 ATTATGTAAT
*
43846525 TTATTTAAGTTATGTAAGTTGTCTA
1 TTATGTAAGTTATGTAAGTTGT-TA
* * *
43846550 TTATGCAAGTCATGTAGGCTATG-TA
1 TTATGTAAGTTATGTAAG-T-TGTTA
43846575 TTATGTAAGTTAT-T-A--TGTTA
1 TTATGTAAGTTATGTAAGTTGTTA
*
43846595 TTATGTAAGTTATGAAAGTT
1 TTATGTAAGTTATGTAAGTT
43846615 ATATATAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
19 2 0.04
20 15 0.30
22 1 0.02
24 2 0.04
25 27 0.54
26 1 0.02
27 2 0.04
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (24 bp):
TTATGTAAGTTATGTAAGTTGTTA
Found at i:43846598 original size:20 final size:20
Alignment explanation
Indices: 43846569--43846629 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
43846559 TCATGTAGGC
43846569 TATG-TATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
43846588 TATGTTATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
* * *
43846608 GAAAGTTA-TATATAAGTTAT
1 -TATGTTATTATGTAAGTTAT
43846628 TA
1 TA
43846630 AAAATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TATGTTATTATGTAAGTTAT
Found at i:43846637 original size:20 final size:20
Alignment explanation
Indices: 43846600--43846642 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43846590 TGTTATTATG
**
43846600 TAAGTTATGAAAGTTATATA
1 TAAGTTATGAAAAATATATA
*
43846620 TAAGTTATTAAAAATATATA
1 TAAGTTATGAAAAATATATA
43846640 TAA
1 TAA
43846643 ATTTTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
TAAGTTATGAAAAATATATA
Found at i:43846650 original size:20 final size:19
Alignment explanation
Indices: 43846614--43846659 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
43846604 TTATGAAAGT
*
43846614 TATATATAAGTTATTAAAAA
1 TATATATAAATTATT-AAAA
* *
43846634 TATATATAAATTTTTAATA
1 TATATATAAATTATTAAAA
43846653 TATATAT
1 TATATAT
43846660 TAAAACTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATATAAATTATTAAAA
Found at i:43846878 original size:13 final size:13
Alignment explanation
Indices: 43846860--43846889 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
43846850 AATCCTAAAG
43846860 TTAGCATGGGTTT
1 TTAGCATGGGTTT
43846873 TTAGCATGGGTTT
1 TTAGCATGGGTTT
43846886 TTAG
1 TTAG
43846890 AACATAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.47
Consensus pattern (13 bp):
TTAGCATGGGTTT
Found at i:43848787 original size:104 final size:101
Alignment explanation
Indices: 43848664--43848874 Score: 307
Period size: 101 Copynumber: 2.1 Consensus size: 101
43848654 CGCAAAATAT
* *
43848664 TATTTCATTTTGAACAAAATGACG-TCGTTTTGCTATGCACAAAATTTTTTATTTTGTTTTTTAA
1 TATTTCATTTTGAACAAAATGACGCT-GTTTTGCTATGCA-AAAATTTTTT-TATT-TTTTATAA
* *
43848728 ATTGATTTATTTTTTGCAGCGTTTTTATGGAAAACGCCGC
62 ATTGATTTATATTTTGCAGCGTTTTTATAGAAAACGCCGC
* * *
43848768 TATTTCATTTTGAACAAAATGACGCTGTTTTGCTATGCAAATATTTTTTTATTTTTTATAATTTT
1 TATTTCATTTTGAACAAAATGACGCTGTTTTGCTATGCAAAAATTTTTTTATTTTTTATAAATTG
*
43848833 ATTTATATTTTGCGGCGTTTTTATAGAAAACGCCGC
66 ATTTATATTTTGCAGCGTTTTTATAGAAAACGCCGC
43848869 TATTTC
1 TATTTC
43848875 TTATCTTTTG
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
101 48 0.49
102 3 0.03
103 9 0.09
104 37 0.38
105 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.48
Consensus pattern (101 bp):
TATTTCATTTTGAACAAAATGACGCTGTTTTGCTATGCAAAAATTTTTTTATTTTTTATAAATTG
ATTTATATTTTGCAGCGTTTTTATAGAAAACGCCGC
Found at i:43848996 original size:128 final size:130
Alignment explanation
Indices: 43848824--43849078 Score: 363
Period size: 135 Copynumber: 1.9 Consensus size: 130
43848814 TTTTATTTTT
* * *
43848824 TATAATTTTATTTATATTTTGCGGCGTTTTTATAGAAAACGCCGCTATTTCTTATCTTTTGCGGC
1 TATAAATTGATTTATATTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTATCTTTTGCGGC
*
43848889 G-TA-AAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATTTTGTTTC
66 GTTAGAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCATTTTGCTATTTTGTTTC
* * * *
43848952 TATAAATTGATTTAT-TTTTGCGGTGTTTTTCTAGAAAAACGCCGCTATTGGTTATCTTTTGTGG
1 TATAAATTGATTTATATTTTGCGGCGTTTTTATAG-AAAACGCCGCTATTGCTTATCTTTTGCGG
43849016 CGTTTTCATAGAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCATTTTGCTAT
65 CG---T--TAGAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCATTTTGCTAT
43849079 GCTAAAATTT
Statistics
Matches: 111, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
127 17 0.15
128 41 0.37
134 2 0.02
135 51 0.46
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (130 bp):
TATAAATTGATTTATATTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTATCTTTTGCGGC
GTTAGAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGACGCCATTTTGCTATTTTGTTTC
Found at i:43849142 original size:10 final size:10
Alignment explanation
Indices: 43849113--43849151 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
43849103 TAAATTGATT
43849113 TTTTATAAAA
1 TTTTATAAAA
43849123 TAATTGTATAAAA
1 T--TT-TATAAAA
43849136 TTTTATAAAA
1 TTTTATAAAA
43849146 TTTTAT
1 TTTTAT
43849152 CATTTAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 14 0.54
11 2 0.08
12 2 0.08
13 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (10 bp):
TTTTATAAAA
Found at i:43849396 original size:15 final size:15
Alignment explanation
Indices: 43849373--43849450 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
43849363 TCGACCCCTG
43849373 AATCCCTAAACCTTA
1 AATCCCTAAACCTTA
*
43849388 AATCTCTAAACCTTA
1 AATCCCTAAACCTTA
* *
43849403 AACCCCT-AACGTCT-
1 AATCCCTAAACCT-TA
* *
43849417 AACCCCTAAACCCCT-
1 AATCCCTAAA-CCTTA
*
43849432 AACCCCTAAACCTTA
1 AATCCCTAAACCTTA
43849447 AATC
1 AATC
43849451 TCAACCCTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 14 0.27
15 36 0.71
16 1 0.02
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.23
Consensus pattern (15 bp):
AATCCCTAAACCTTA
Found at i:43849417 original size:22 final size:22
Alignment explanation
Indices: 43849391--43849448 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
43849381 AACCTTAAAT
43849391 CTCTAAACCTTAAACCCCTAAC
1 CTCTAAACCTTAAACCCCTAAC
* * *
43849413 GTCTAACCCCTAAACCCCTAAC
1 CTCTAAACCTTAAACCCCTAAC
*
43849435 CCCTAAACCTTAAA
1 CTCTAAACCTTAAA
43849449 TCTCAACCCT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.41, G:0.02, T:0.21
Consensus pattern (22 bp):
CTCTAAACCTTAAACCCCTAAC
Found at i:43849480 original size:14 final size:14
Alignment explanation
Indices: 43849463--43849489 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43849453 AACCCTTAAA
43849463 CCATAATCCCTAAT
1 CCATAATCCCTAAT
43849477 CCATAATCCCTAA
1 CCATAATCCCTAA
43849490 ACCCATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:43849505 original size:15 final size:15
Alignment explanation
Indices: 43849459--43849507 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
43849449 TCTCAACCCT
43849459 TAAA-CCATAATCCC
1 TAAACCCATAATCCC
*
43849473 T-AATCCATAATCCC
1 TAAACCCATAATCCC
* *
43849487 TAAACCCATACTCCT
1 TAAACCCATAATCCC
43849502 TAAACC
1 TAAACC
43849508 TTAAAATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 2 0.07
14 12 0.40
15 16 0.53
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:43849724 original size:14 final size:15
Alignment explanation
Indices: 43849680--43849747 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
43849670 ATCCCTGAAT
*
43849680 CCCTAAACCT-TAAAT
1 CCCTAAACCTCT-AAC
43849695 CCCT-AA-CTCTTAAC
1 CCCTAAACCTC-TAAC
*
43849709 CCC-AAACGTCTAAC
1 CCCTAAACCTCTAAC
*
43849723 CCCTAACCCTCTAAC
1 CCCTAAACCTCTAAC
43849738 CCCTAAACCT
1 CCCTAAACCT
43849748 TAAATCTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.05
14 16 0.37
15 25 0.58
ACGTcount: A:0.32, C:0.44, G:0.01, T:0.22
Consensus pattern (15 bp):
CCCTAAACCTCTAAC
Found at i:43849783 original size:14 final size:14
Alignment explanation
Indices: 43849766--43849792 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43849756 AACCCTTAAA
43849766 CCATAATCCCTAAT
1 CCATAATCCCTAAT
43849780 CCATAATCCCTAA
1 CCATAATCCCTAA
43849793 ACCCATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:43849786 original size:303 final size:303
Alignment explanation
Indices: 43849277--43849878 Score: 984
Period size: 303 Copynumber: 2.0 Consensus size: 303
43849267 ATATATTTGT
43849277 TTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATTA
1 TTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAAATAATTA
* *
43849342 ATCTAAACTCAAAACCTTAACTCGACCCCTGAATCCCTAAACCTTAAATCTCTAAACCTTAAACC
65 ATCTAAACCCAAAACCTTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAAACCTTAAACC
*
43849407 CCTAACGTCTAACCCCTAAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATCC
130 CCAAACGTCTAACCCCTAAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATCC
*
43849472 CTAATCCATAATCCCTAAACCCATACTCCTTAAACCTTAAAATA-TGAACTCCTAAACCGGCCTT
195 CTAATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAA-ACT-AACTCCTAAACCGGCCTT
* *
43849536 AAGTCTTAAATAAATCATATACCCTAAACCAAAAACCCTAAACAAA
258 AAATCTTAAATAAATCATAGACCCTAAACCAAAAACCCTAAACAAA
43849582 TTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAA-AATTAA
1 TTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAA
*
43849645 TCTAAACGCCCAAAATCC-TAACTCGATCCCTGAATCCCTAAACCTTAAATCCCT-AACTCTT-A
66 TCTAAA--CCCAAAA-CCTTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAAAC-CTTAA
43849707 ACCCCAAACGTCTAACCCCT-AACCCTCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATA
127 ACCCCAAACGTCTAACCCCTAAACCC-CTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATA
* * *
43849771 ATCCCTAATCCATAATCCCTAAACCCATACTCCATATACCTTAAAAACCTAACTCTTAAACTGGC
191 ATCCCTAATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAAA-CTAACTCCTAAACCGGC
43849836 CTTAAATCTTAAATAAATCATAGACCCTAAACCAAAAACCCTA
255 CTTAAATCTTAAATAAATCATAGACCCTAAACCAAAAACCCTA
43849879 TGCTTTTTTT
Statistics
Matches: 280, Mismatches: 10, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
302 18 0.06
303 164 0.59
304 44 0.16
305 54 0.19
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.28
Consensus pattern (303 bp):
TTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAA
TCTAAACCCAAAACCTTAACTCGACCCCTGAATCCCTAAACCTTAAATCCCTAAACCTTAAACCC
CAAACGTCTAACCCCTAAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATCCC
TAATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAAACTAACTCCTAAACCGGCCTTAAA
TCTTAAATAAATCATAGACCCTAAACCAAAAACCCTAAACAAA
Found at i:43850049 original size:114 final size:114
Alignment explanation
Indices: 43849925--43850138 Score: 326
Period size: 114 Copynumber: 1.9 Consensus size: 114
43849915 AAATCCCCCT
* *
43849925 AAAGCTCAGAAAACGGCGTCATTGGGCTTATGTCT-TTTTGCGGCG-TTTTCTCACAAACGCCGC
1 AAAGCTCAGAAAACGGCGTCATTGGGCTTA-GTCTATTTTGCGGCGCTTTAC-CAAAAACGCCGC
*
43849988 TAAAGCCCTGAGCATTAGCGGC-ATATCCTAAAAAACGACACTAAATTCGTA
64 AAAAGCCCTGAGCATTAGCGGCGAT-TCCTAAAAAACGACACTAAATTCGTA
* *
43850039 AAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTATTTTGCGGCGCTTTACCAAAAACGCCGCAA
1 AAAGCTCAGAAAACGGCGTCATTGGGCTTAGTCTATTTTGCGGCGCTTTACCAAAAACGCCGCAA
*
43850104 AAGCCCTGAGCATTAGCGGCGCTTCCTAAAAAACG
66 AAGCCCTGAGCATTAGCGGCGATTCCTAAAAAACG
43850139 CCNNNNNNNN
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
113 3 0.03
114 83 0.91
115 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (114 bp):
AAAGCTCAGAAAACGGCGTCATTGGGCTTAGTCTATTTTGCGGCGCTTTACCAAAAACGCCGCAA
AAGCCCTGAGCATTAGCGGCGATTCCTAAAAAACGACACTAAATTCGTA
Found at i:43850390 original size:15 final size:15
Alignment explanation
Indices: 43850372--43850428 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
43850362 CCCAAACATC
43850372 TAACCCTTAAACCCT
1 TAACCCTTAAACCCT
43850387 TAACCCTCT-AACCCT
1 TAACCCT-TAAACCCT
** *
43850402 TAAATCTTAAA-TCT
1 TAACCCTTAAACCCT
*
43850416 CAACCCTTAAACC
1 TAACCCTTAAACC
43850429 ATAATCCCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
14 11 0.34
15 20 0.62
16 1 0.03
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (15 bp):
TAACCCTTAAACCCT
Found at i:43850444 original size:14 final size:14
Alignment explanation
Indices: 43850427--43850453 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43850417 AACCCTTAAA
43850427 CCATAATCCCTAAT
1 CCATAATCCCTAAT
43850441 CCATAATCCCTAA
1 CCATAATCCCTAA
43850454 ACTCATACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:43850724 original size:115 final size:115
Alignment explanation
Indices: 43850538--43851260 Score: 908
Period size: 115 Copynumber: 6.3 Consensus size: 115
43850528 CCAAAAACCC
*
43850538 TATGTTTTTTTGCGGCGCTTTAC-CAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCC
1 TATGTTTTTTTGCGGCGCTTT-CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCC
*** * *
43850602 TAAAAAACGCTGTTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTAGGCT
65 TAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* *
43850653 TATGTCTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA-CACCTGAGCATTAGTGGCGCTTTCC
1 TATGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGC-CCTGAGCATTAGCGGCGCTTTCC
* ** *
43850717 TAAAAAACGTCGTTAAATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCT
65 TAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* * *
43850768 TATGTCTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGTCTC-TTCCT
1 TATGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
* *** *
43850832 -AAAAATGCCACTAAATCAGTGAAAGCTCAGAAAACGGCGTCGTTGAGCT
66 AAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
** * * * *
43850881 TA-GTTTATTTTGCGGCGCTTTCTCAAAAACATCTCTAAATCCCTCAGCATTAGCGGCGCTTTCT
1 TATGTTT-TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCC
* * * * ** *
43850945 TAAGAAACGCCACTAAATCCCCAAAAACTCAAAAAACGAAGTCGTTGGGTT
65 TAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* * * *
43850996 TATGTTTCTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTT-CT
1 TATGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
* * *
43851060 AAAAAACGCCACTAAATCCCCGAAAGCCCAGAAAACGGGGTCTTTGGGCT
66 AAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* * *
43851110 TAGGTTTTTTTGCGGCGCTTTATCAAAATCGCCGCTAAAGCCCTG-GCAATTAGCGGCGCTTTCC
1 TATGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGC-ATTAGCGGCGCTTTCC
** *
43851174 T-AAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCT
65 TAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
43851224 TA-GATTTTTTGCGGCGCTTTC-CGAAAAACGCCGCTAA
1 TATGTTTTTTTGCGGCGCTTTCTC-AAAAACGCCGCTAA
43851261 TGCTTATTTT
Statistics
Matches: 522, Mismatches: 76, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
112 4 0.01
113 118 0.23
114 150 0.29
115 245 0.47
116 5 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (115 bp):
TATGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCT
AAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
Found at i:43850932 original size:228 final size:224
Alignment explanation
Indices: 43850538--43851260 Score: 889
Period size: 228 Copynumber: 3.2 Consensus size: 224
43850528 CCAAAAACCC
*
43850538 TATGTTTTTTTGCGGCGCTTTACCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCCT
1 TATG-TTTTTTGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTCCT
*** * * *
43850603 AAAAAACGCTGTTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTT-AGGCTTATGTCTTTTTGCG
63 AAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGA-GCTTAGGTTTTTTTGCG
* *
43850667 GCGCTTTCTCAAAAACGCCGCTAAACACCTGAGCATTAGTGGCGCTTTCCTAAAAAACGTCGTTA
127 GCGCTTTCTCAAAAACGCCGCTAAAC-CCT-AGCATTAGCGGCGCTTTCCTAAAAAACG-CGCTA
43850732 AATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCT
189 AATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCT
* *
43850768 TATGTCTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGTCTCTTCCT-
1 TATGT-TTTTTGCGGCGCTTTC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTA
* ***
43850832 AAAAATGCCACTAAATCAGTGAAAGCTCAGAAAACGGCGTCGTTGAGCTTA-GTTTATTTTGCGG
64 AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTT-TTTTGCGG
** * * * *
43850896 CGCTTTCTCAAAAACATCTCTAAATCCCTCAGCATTAGCGGCGCTTTCTTAAGAAACGCCACTAA
128 CGCTTTCTCAAAAACGCCGCTAAA-CCCT-AGCATTAGCGGCGCTTTCCTAAAAAACG-CGCTAA
* * ** *
43850961 ATCCCCAAAAACTCAAAAAACGAAGTCGTTGGGTT
190 ATCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCT
* * *
43850996 TATGTTTCTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTA
1 TATGTTT-TTTGCGGCGCTT-TCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTA
* * * *
43851061 AAAAACGCCACTAAATCCCCGAAAGCCCAGAAAACGGGGTCTTTGGGCTTAGGTTTTTTTGCGGC
64 AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTTGCGGC
* * *
43851126 GCTTTATCAAAATCGCCGCTAAAGCCCTGGCAATTAGCGGCGCTTTCCT-AAAAACGCTGCTAAA
129 GCTTTCTCAAAAACGCCGCTAAA-CCCTAGC-ATTAGCGGCGCTTTCCTAAAAAACGC-GCTAAA
* *
43851190 TCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCT
191 TCCCCGAAAACTCAGAAAACGGCGTCGTTGGGCT
43851224 TA-GATTTTTTGCGGCGCTTTCCGAAAAACGCCGCTAA
1 TATG-TTTTTTGCGGCGCTTTCC-AAAAACGCCGCTAA
43851261 TGCTTATTTT
Statistics
Matches: 422, Mismatches: 58, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
226 2 0.00
227 33 0.08
228 231 0.55
229 100 0.24
230 56 0.13
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (224 bp):
TATGTTTTTTGCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAA
AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGAGCTTAGGTTTTTTTGCGGCGC
TTTCTCAAAAACGCCGCTAAACCCTAGCATTAGCGGCGCTTTCCTAAAAAACGCGCTAAATCCCC
GAAAACTCAGAAAACGGCGTCGTTGGGCT
Found at i:43851176 original size:343 final size:341
Alignment explanation
Indices: 43850541--43851260 Score: 926
Period size: 343 Copynumber: 2.1 Consensus size: 341
43850531 AAAACCCTAT
* *
43850541 GTTTTTTTGCGGCGCTTTACCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCCTAAA
1 GTTTTTTTGCGGCGCTTT-CCAAAAACACCGCTAAAGACCTCAGCATTAGCGGCGCTTTCCTAAA
*** * * * **
43850606 AAACGCTGTTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTAGGCTTATGTCTTTTTGCGGCGC
65 AAACGCCACTAAATCCCCAAAAACTCAAAAAACGAAGCCGTTAGGCTTATGTCTTTTTGCGGCGC
* * * * * **
43850671 TTTCTCAAAAACGCCGCTAAACACCTGAGCATTAGTGGCGCTTTCCTAAAAAACGTCGTTAAATC
130 TTCCCCAAAAACGCCGCTAAACACCTGAACATTAGCGGCGCTTTCCTAAAAAACGCCACTAAATC
* * *
43850736 CCCGAAAACTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTGCGGCGCTTTCTCAAAAACGCC
195 CCCGAAAACCCAGAAAACGGCGTCGTTGGGCTTAGGTCTTTTTGCGGCGCTTTATCAAAAACGCC
* * * **
43850801 GCTAAAGCCCTGAGCATTAGCGTCTCTTCCTAAAAATGCCACTAAATCAGTGAAAGCTCAGAAAA
260 GCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAACGCCACTAAATCACCGAAAGCTCAGAAAA
43850866 CGGCGTCGTTGAGCTTA
325 CGGCGTCGTTGAGCTTA
* * ** *
43850883 GTTTATTTTGCGGCGCTTTCTCAAAAACATCTCTAAATCCCTCAGCATTAGCGGCGCTTTCTTAA
1 GTTT-TTTTGCGGCGCTTTC-CAAAAACACCGCTAAAGACCTCAGCATTAGCGGCGCTTTCCTAA
* * * *
43850948 GAAACGCCACTAAATCCCCAAAAACTCAAAAAACGAAGTCGTTGGGTTTATGT-TTCTTTGCGGC
64 AAAACGCCACTAAATCCCCAAAAACTCAAAAAACGAAGCCGTTAGGCTTATGTCTT-TTTGCGGC
43851012 GCTTCCCCAAAAACGCCGCTAAAGC-CCTGAACATTAGCGGCGCTTT-CTAAAAAACGCCACTAA
128 GCTTCCCCAAAAACGCCGCTAAA-CACCTGAACATTAGCGGCGCTTTCCTAAAAAACGCCACTAA
* * * * *
43851075 ATCCCCGAAAGCCCAGAAAACGGGGTCTTTGGGCTTAGGTTTTTTTGCGGCGCTTTATCAAAATC
192 ATCCCCGAAAACCCAGAAAACGGCGTCGTTGGGCTTAGGTCTTTTTGCGGCGCTTTATCAAAAAC
** *
43851140 GCCGCTAAAGCCCTG-GCAATTAGCGGCGCTTTCCTAAAAACGCTGCTAAATCCCCGAAAGCTCA
257 GCCGCTAAAGCCCTGAGC-ATTAGCGGCGC-TTCCTAAAAACGCCACTAAATCACCGAAAGCTCA
* *
43851204 GAAAATGGCGTCGTTGGGCTTA
320 GAAAACGGCGTCGTTGAGCTTA
* *
43851226 GATTTTTTGCGGCGCTTTCCGAAAAACGCCGCTAA
1 GTTTTTTTGCGGCGCTTTCC-AAAAACACCGCTAA
43851261 TGCTTATTTT
Statistics
Matches: 323, Mismatches: 48, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
341 3 0.01
342 128 0.40
343 191 0.59
344 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (341 bp):
GTTTTTTTGCGGCGCTTTCCAAAAACACCGCTAAAGACCTCAGCATTAGCGGCGCTTTCCTAAAA
AACGCCACTAAATCCCCAAAAACTCAAAAAACGAAGCCGTTAGGCTTATGTCTTTTTGCGGCGCT
TCCCCAAAAACGCCGCTAAACACCTGAACATTAGCGGCGCTTTCCTAAAAAACGCCACTAAATCC
CCGAAAACCCAGAAAACGGCGTCGTTGGGCTTAGGTCTTTTTGCGGCGCTTTATCAAAAACGCCG
CTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAACGCCACTAAATCACCGAAAGCTCAGAAAAC
GGCGTCGTTGAGCTTA
Found at i:43862510 original size:34 final size:34
Alignment explanation
Indices: 43862470--43862703 Score: 116
Period size: 35 Copynumber: 6.6 Consensus size: 34
43862460 AAGAGTTTGC
43862470 GCCCAGCACTAGTCGGATAAACCGACAAATGTGT
1 GCCCAGCACTAGTCGGATAAACCGACAAATGTGT
* * * *
43862504 GCCCAGCACTAGTCAGATAAATTC-ACAGAGGT-T
1 GCCCAGCACTAGTCGGATAAA-CCGACAAATGTGT
* * *
43862537 GCACCCAACACTAGTCGAATAAACCGACGAATAATTAGTGA
1 G--CCCAGCACTAGTCGGATAAACCGAC--A-AA-T-GTGT
* * * * * * * *
43862578 GCCCAACTCTAGTTGGATAAATCAACGATATTTTT
1 GCCCAGCACTAGTCGGATAAACCGAC-AAATGTGT
* ** *
43862613 GCCCAGCGCTAGTCAAATAAACCGACGAATGTGT
1 GCCCAGCACTAGTCGGATAAACCGACAAATGTGT
* * * * *
43862647 GCCGAGCGCTAGTCAGATAAACTGATGAAA-GT-T
1 GCCCAGCACTAGTCGGATAAACCGA-CAAATGTGT
43862680 GCGCGCAGCACTAGTCGGATAAAC
1 GC-C-CAGCACTAGTCGGATAAAC
43862704 TAACTAATAA
Statistics
Matches: 147, Mismatches: 40, Indels: 25
0.69 0.19 0.12
Matches are distributed among these distances:
33 5 0.03
34 56 0.38
35 58 0.39
36 1 0.01
37 2 0.01
38 2 0.01
39 20 0.14
40 2 0.01
41 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (34 bp):
GCCCAGCACTAGTCGGATAAACCGACAAATGTGT
Found at i:43862633 original size:35 final size:34
Alignment explanation
Indices: 43862594--43862668 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
43862584 CTCTAGTTGG
* * *
43862594 ATAAATCAACGATATTTTTGCCCAGCGCTAGTCAA
1 ATAAACCAACGA-ATGTGTGCCCAGCGCTAGTCAA
* * *
43862629 ATAAACCGACGAATGTGTGCCGAGCGCTAGTCAG
1 ATAAACCAACGAATGTGTGCCCAGCGCTAGTCAA
43862663 ATAAAC
1 ATAAAC
43862669 TGATGAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 24 0.71
35 10 0.29
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (34 bp):
ATAAACCAACGAATGTGTGCCCAGCGCTAGTCAA
Found at i:43862731 original size:143 final size:143
Alignment explanation
Indices: 43862465--43862783 Score: 388
Period size: 143 Copynumber: 2.2 Consensus size: 143
43862455 CACGAAAGAG
* * * *
43862465 TTTGCGCCCAGCACTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAGATAAATTCAC
1 TTTGCGCCCAGCGCTAGTCGAATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTCAC
* *
43862530 AGAGGTTGCACCCAACACTAGTCGAATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTTGGA
66 AGAAGTTGCACCCAACACTAGTCGAATAAACCAACGAATAATTAGTGAGCCCAACTCTAGTTGGA
* * *
43862595 TAAATCAACGATA
131 TAAACCAACAAAA
** * * * *
43862608 TTTTTGCCCAGCGCTAGTCAAATAAACCGACGAATGTGTGCCGAGCGCTAGTCAGATAAACTGA-
1 TTTGCGCCCAGCGCTAGTCGAATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTCAC
* * * * * * * * *
43862672 TGAAAGTTGCGCGCAGCACTAGTCGGATAAACTAACTAATAATTAGTGAGCCTAGCTCTAGTTGG
66 AG-AAGTTGCACCCAACACTAGTCGAATAAACCAACGAATAATTAGTGAGCCCAACTCTAGTTGG
43862737 ATAAACCAACAAAA
130 ATAAACCAACAAAA
* *
43862751 TTTGCGCCCAGCGCTAGTCGAACAAATCGACGA
1 TTTGCGCCCAGCGCTAGTCGAATAAACCGACGA
43862784 TGTCAATTAC
Statistics
Matches: 146, Mismatches: 29, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
142 1 0.01
143 145 0.99
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (143 bp):
TTTGCGCCCAGCGCTAGTCGAATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTCAC
AGAAGTTGCACCCAACACTAGTCGAATAAACCAACGAATAATTAGTGAGCCCAACTCTAGTTGGA
TAAACCAACAAAA
Found at i:43870841 original size:33 final size:33
Alignment explanation
Indices: 43870798--43870875 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
43870788 AGCTAATATG
*
43870798 CTTGATTTCCAACAGCAGATACAACGACAAACT
1 CTTGATTTCCAACAGCAAATACAACGACAAACT
* * *
43870831 GTTGATTTCCAGCAGTAAATACAACGACAAACT
1 CTTGATTTCCAACAGCAAATACAACGACAAACT
43870864 CTTGATTTCCAA
1 CTTGATTTCCAA
43870876 AAGGAAACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (33 bp):
CTTGATTTCCAACAGCAAATACAACGACAAACT
Found at i:43872279 original size:18 final size:18
Alignment explanation
Indices: 43872256--43872307 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
43872246 AGGCAACCCA
43872256 ATTTTATTTTTATTTTTT
1 ATTTTATTTTTATTTTTT
43872274 ATTTTATTTATATATTTTTT
1 ATTTTATTT-T-TATTTTTT
*
43872294 -TATT-TTTTTATTTT
1 ATTTTATTTTTATTTT
43872308 CTTGCATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 6 0.19
17 1 0.03
18 12 0.39
19 4 0.13
20 8 0.26
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
ATTTTATTTTTATTTTTT
Found at i:43872297 original size:8 final size:8
Alignment explanation
Indices: 43872257--43872307 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
43872247 GGCAACCCAA
43872257 TTTTATTT
1 TTTTATTT
*
43872265 TTATTTTTT
1 TT-TTATTT
43872274 ATTTTATTT
1 -TTTTATTT
* *
43872283 ATATATTT
1 TTTTATTT
43872291 TTTTATTT
1 TTTTATTT
43872299 TTTTATTT
1 TTTTATTT
43872307 T
1 T
43872308 CTTGCATGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 23 0.66
9 10 0.29
10 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Done.