Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold326
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: 1352760
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 4 of 8
Found at i:546173 original size:173 final size:173
Alignment explanation
Indices: 545862--546350 Score: 474
Period size: 173 Copynumber: 2.8 Consensus size: 173
545852 AGCCAGTGGC
* * * *
545862 ACGAGCCAGTGGCACCTTTTTCAAAAGCCCACACAAGTTAGTGGCACCCTCTCAAAGCCTACAAG
1 ACGAGCCAGTGGCACCTTTTTCAAAAGCCCACACAAATCAATGGCACCCTCTCAAAGCCCACAAG
* * ** *
545927 TCGATGGCATCCCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTTAAAGCTCATGAGTCATTAGC
66 TCAATGGCATCCCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTTAAAGCCCACAAGTCAGTAGC
* *
545992 ATCCTTTCAAAGCCCACGAA-TCAATGGCACCCTTTTAAAGCGT
131 ACCCTTTCAAAACCCAC-AAGTCAATGGCACCCTTTTAAAGCGT
* * * *
546035 ACGAGTCAGTGGCACCTTTTTCAAAAGCCTACACAAATCAATGGTACCTTCTCAAAGCCCACAAG
1 ACGAGCCAGTGGCACCTTTTTCAAAAGCCCACACAAATCAATGGCACCCTCTCAAAGCCCACAAG
* * * * * *
546100 TTAATGGCATCCCTTTCAAAGCCCACAATTTATTGGCA-TTCTTTTAAAGCCCACAAGTTAGTGG
66 TCAATGGCATCCCTTTCAAAGCCCACAAGTTAGTGGCACCT-TTTTAAAGCCCACAAGTCAGTAG
* *
546164 CACCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTTCAAAAGCCT
130 CACCCTTTCAAAACCCACAAGTCAATGGCACCCTTTT--AAAGCGT
* * * * * * * * *
546210 ACATAAGTCAATGACACC-ATCTC-AAAG-CC-CACAAGT-AAGTGACATCCCTTTCAAAGCCCA
1 AC--GAGCCAGTGGCACCTTTTTCAAAAGCCCACACAAATCAA-TGGCA-CCCTCTCAAAGCCCA
* * ** * * *
546270 CAAGTTAGTGGCA-CCCTTTCAAAGTTCACAAGTTAATGGCACCTTTTCAAAGCCCACGAGTCAG
62 CAAGTCAATGGCATCCCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTTAAAGCCCACAAGTCAG
546334 T-GTCACCCTTTTCAAAA
127 TAG-CACCC-TTTCAAAA
546351 GCTCACACAA
Statistics
Matches: 262, Mismatches: 43, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
172 6 0.02
173 195 0.74
174 35 0.13
175 12 0.05
176 3 0.01
177 11 0.04
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (173 bp):
ACGAGCCAGTGGCACCTTTTTCAAAAGCCCACACAAATCAATGGCACCCTCTCAAAGCCCACAAG
TCAATGGCATCCCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTTAAAGCCCACAAGTCAGTAGC
ACCCTTTCAAAACCCACAAGTCAATGGCACCCTTTTAAAGCGT
Found at i:546632 original size:52 final size:52
Alignment explanation
Indices: 546548--546693 Score: 141
Period size: 52 Copynumber: 2.8 Consensus size: 52
546538 TTCTAAATCT
* * * * * *
546548 AATGTCGTTGCCCTTGAATTAGCATATTGGCACTTTTCTCATATTTAAGTCA
1 AATGTCGCTGGCCTTGAATTAGTACATAGGCACCTTTCTCATATTTAAGTCA
* * * *
546600 AATGTCGCTGGCCTTGAATCAGTACATAGGCACCTTTGTCATCTTTAAGTCC
1 AATGTCGCTGGCCTTGAATTAGTACATAGGCACCTTTCTCATATTTAAGTCA
* * * * *
546652 AATATCACTAGCCTTGAATTAGTATATTA-GCACCTTTATCAT
1 AATGTCGCTGGCCTTGAATTAGTACA-TAGGCACCTTTCTCAT
546694 TCTTCTTATT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
52 75 0.97
53 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (52 bp):
AATGTCGCTGGCCTTGAATTAGTACATAGGCACCTTTCTCATATTTAAGTCA
Found at i:547285 original size:20 final size:19
Alignment explanation
Indices: 547246--547286 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
547236 ATTTACATTC
*
547246 TATAATGAAAATGTACCGA
1 TATAATGAAAATCTACCGA
*
547265 TATAATGAAAAATCTATCGA
1 TATAATG-AAAATCTACCGA
547285 TA
1 TA
547287 CATTCTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (19 bp):
TATAATGAAAATCTACCGA
Found at i:550817 original size:51 final size:51
Alignment explanation
Indices: 550726--550843 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
550716 ATTTACCTGC
** *
550726 ATGTATCGATACATTTGGGTCAAAAACCTAGAATGTTCGATACAATGCAAA
1 ATGTATCGATACATTTGGGTCAAAAACCTAGAACATTCGATACAATGAAAA
*
550777 ATGTATCAATACATTTGGGTC-AAAACCTAGAACATATCGATACAATGAAAA
1 ATGTATCGATACATTTGGGTCAAAAACCTAGAACAT-TCGATACAATGAAAA
550828 ATGTATCGATACATTT
1 ATGTATCGATACATTT
550844 TCATTCCAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 12 0.20
51 49 0.80
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACATTTGGGTCAAAAACCTAGAACATTCGATACAATGAAAA
Found at i:550921 original size:20 final size:20
Alignment explanation
Indices: 550879--550952 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
550869 AACCTCGTCC
* **
550879 TGTATCAATACATTTCAAATA
1 TGTATCGATACA-TTCACTTA
550900 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
550920 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
550940 CTATATCGATACA
1 -TGTATCGATACA
550953 AATTATTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 26 0.54
21 22 0.46
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:552592 original size:13 final size:13
Alignment explanation
Indices: 552574--552600 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
552564 ACATTATGCT
552574 TTGTATCGATACA
1 TTGTATCGATACA
552587 TTGTATCGATACA
1 TTGTATCGATACA
552600 T
1 T
552601 GCTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:552610 original size:19 final size:20
Alignment explanation
Indices: 552586--552639 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
552576 GTATCGATAC
552586 ATTGTATCGATACATGCTT-
1 ATTGTATCGATACATGCTTA
*
552605 ATTGTATC-ATACATACTTA
1 ATTGTATCGATACATGCTTA
552624 ATTGTATCGATACATG
1 ATTGTATCGATACATG
552640 AAACTGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 9 0.29
19 16 0.52
20 6 0.19
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
ATTGTATCGATACATGCTTA
Found at i:552702 original size:13 final size:13
Alignment explanation
Indices: 552684--552713 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
552674 GATATATGGG
552684 ACATTGTATCGAT
1 ACATTGTATCGAT
552697 ACATTGTATCGAT
1 ACATTGTATCGAT
552710 ACAT
1 ACAT
552714 GAAGAATTGT
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:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:558162 original size:20 final size:19
Alignment explanation
Indices: 558116--558171 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
558106 AAAACCCTTA
**
558116 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
558136 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
558156 AATGTATCGATACATG
1 AATGTATCGATACATG
558172 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:558248 original size:13 final size:13
Alignment explanation
Indices: 558230--558255 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
558220 TACAGCAAGT
558230 ATGTATCGATACA
1 ATGTATCGATACA
558243 ATGTATCGATACA
1 ATGTATCGATACA
558256 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:560516 original size:21 final size:21
Alignment explanation
Indices: 560483--560527 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
560473 TTGCAAGTTG
*
560483 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
560505 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
560525 AAA
1 AAA
560528 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:562351 original size:15 final size:15
Alignment explanation
Indices: 562331--562361 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
562321 TAAAAATGTC
*
562331 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
562346 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
562361 C
1 C
562362 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:564450 original size:20 final size:20
Alignment explanation
Indices: 564371--564450 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
564361 AATGTCCAAA
*
564371 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* * *
564391 GTGTATCGATAAATCTAGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
564416 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
564436 TTGTATCGATACATT
1 ATGTATCGATACATT
564451 GTATCGATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 30 0.64
24 1 0.02
25 16 0.34
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:564454 original size:13 final size:13
Alignment explanation
Indices: 564436--564474 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
564426 ACATTTTTCT
564436 TTGTATCGATACA
1 TTGTATCGATACA
564449 TTGTATCGATACA
1 TTGTATCGATACA
*
564462 CTGTATCGATACA
1 TTGTATCGATACA
564475 GGAGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:564619 original size:21 final size:21
Alignment explanation
Indices: 564595--564641 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
564585 AAATCTTTTG
564595 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
564616 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
564636 CAAAAT
1 CAAAAT
564642 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:564638 original size:20 final size:19
Alignment explanation
Indices: 564597--564639 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
564587 ATCTTTTGCA
564597 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
564617 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
564637 AAA
1 AAA
564640 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:566943 original size:20 final size:19
Alignment explanation
Indices: 566897--566952 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
566887 AAAACCCTTA
**
566897 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
566917 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
566937 AATGTATCGATACATG
1 AATGTATCGATACATG
566953 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:567029 original size:13 final size:13
Alignment explanation
Indices: 567011--567036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
567001 TACAGCAAGT
567011 ATGTATCGATACA
1 ATGTATCGATACA
567024 ATGTATCGATACA
1 ATGTATCGATACA
567037 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:568301 original size:155 final size:155
Alignment explanation
Indices: 568088--568399 Score: 491
Period size: 155 Copynumber: 2.0 Consensus size: 155
568078 GATAACTTTT
* * * **
568088 AAATAAATAAGAACTTTAGATCAAAGATTTAGCTTTAAAAGATAGAGTTGCTTCTATATTAATGT
1 AAATAAACAAGAACTTTAAATCAAAGATTTAGCTTTAAAAGATAGAGTTGATTCTATATTAATCC
*
568153 ATTACAATCCTTTAATTTACATTGTAAGCGTAAACTATTGAAAAACTTTT-ATGGTTTAAGAGTA
66 ATTACAATCCTTTAATTTACATTGTAAGAGTAAACTATTG-AAAACTTTTCATGGTTTAAGAGTA
568217 GTAACACTTAGACCTTTGTGTTTTAG
130 GTAACACTTAGACCTTTGTGTTTTAG
* * *
568243 AAATAAACAAGAACTTTAAATCAAAGATTTAGCTTTAGAAGGTAGAGTTGATTTTATATTAATCC
1 AAATAAACAAGAACTTTAAATCAAAGATTTAGCTTTAAAAGATAGAGTTGATTCTATATTAATCC
* *
568308 ATTACAATCCTTTAATTTATATTGTAAGAGTAAACTATTGAAAACTTTTCATGGTTTAAGAGTGG
66 ATTACAATCCTTTAATTTACATTGTAAGAGTAAACTATTGAAAACTTTTCATGGTTTAAGAGTAG
* *
568373 TAAGATTTAGACCTTTGTGTTTTAG
131 TAACACTTAGACCTTTGTGTTTTAG
568398 AA
1 AA
568400 CTGACTCTTA
Statistics
Matches: 143, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 9 0.06
155 134 0.94
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (155 bp):
AAATAAACAAGAACTTTAAATCAAAGATTTAGCTTTAAAAGATAGAGTTGATTCTATATTAATCC
ATTACAATCCTTTAATTTACATTGTAAGAGTAAACTATTGAAAACTTTTCATGGTTTAAGAGTAG
TAACACTTAGACCTTTGTGTTTTAG
Found at i:568419 original size:35 final size:36
Alignment explanation
Indices: 568373--568446 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 36
568363 TTAAGAGTGG
568373 TAAGATTTAGACCTTTGTGTTTTAG-AACTGACTCT
1 TAAGATTTAGACCTTTGTGTTTTAGAAACTGACTCT
568408 TAAGATTTAGACCTTTGTGTTTTAGAAACTGACTCT
1 TAAGATTTAGACCTTTGTGTTTTAGAAACTGACTCT
568444 TAA
1 TAA
568447 TTTTTCTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 25 0.66
36 13 0.34
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (36 bp):
TAAGATTTAGACCTTTGTGTTTTAGAAACTGACTCT
Found at i:568943 original size:14 final size:14
Alignment explanation
Indices: 568907--568949 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
568897 ATACTTATAT
**
568907 TATATTTTTTAATT
1 TATATTTTTTAAAA
568921 TAT-TATTTTTAAAA
1 TATAT-TTTTTAAAA
568935 TATATTTTTTAAAA
1 TATATTTTTTAAAA
568949 T
1 T
568950 TTTAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTTTTTAAAA
Found at i:568959 original size:18 final size:18
Alignment explanation
Indices: 568936--568989 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 18
568926 TTTTTAAAAT
568936 ATATTTTTTAAAATTTTA
1 ATATTTTTTAAAATTTTA
**
568954 ATATTTAAT-AAA--TTA
1 ATATTTTTTAAAATTTTA
568969 ATATTTTTTATTAAATTTTA
1 ATATTTTTTA--AAATTTTA
568989 A
1 A
568990 AAATCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
15 10 0.37
17 3 0.11
18 10 0.37
20 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTTTTAAAATTTTA
Found at i:572169 original size:8 final size:8
Alignment explanation
Indices: 572170--572325 Score: 63
Period size: 8 Copynumber: 18.4 Consensus size: 8
572160 ATATTTATAT
572170 TATATTTA
1 TATATTTA
* *
572178 TATTTTTT
1 TATATTTA
572186 TATATTATAA
1 TATATT-T-A
*
572196 TTATGTTTA
1 -TATATTTA
*
572205 AATTATTT-
1 TA-TATTTA
572213 TATATTTA
1 TATATTTA
572221 TATAAATTTTAA
1 TAT--A-TTT-A
* *
572233 TAAATTAA
1 TATATTTA
572241 TA-ATTTA
1 TATATTTA
*
572248 TAT-TTAAA
1 TATATT-TA
572256 TATATATT-
1 TATAT-TTA
572264 TATATTATA
1 TATATT-TA
572273 TTATATTT-
1 -TATATTTA
572281 T-TATTATA
1 TATATT-TA
*
572289 TGATATGTA
1 T-ATATTTA
572298 TCATATTTA
1 T-ATATTTA
572307 TATATTTA
1 TATATTTA
572315 TATATTTA
1 TATATTTA
572323 TAT
1 TAT
572326 TTAAAATTAT
Statistics
Matches: 112, Mismatches: 16, Indels: 40
0.67 0.10 0.24
Matches are distributed among these distances:
6 4 0.04
7 16 0.14
8 48 0.43
9 20 0.18
10 13 0.12
11 8 0.07
12 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATTTA
Found at i:572170 original size:6 final size:6
Alignment explanation
Indices: 572159--572328 Score: 80
Period size: 6 Copynumber: 29.3 Consensus size: 6
572149 CGATAATTCA
* *
572159 TATATT TATA-T TATATT TATATT T-T-TT TATA-T TATAAT TATGTT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
* * * *
572203 TA-AAT TAT-TT TATATT TATATA AAT-TT TAATAAATT AATAATT TATATT
1 TATATT TATATT TATATT TATATT TATATT T-AT--ATT TAT-ATT TATATT
* * * *
572252 TAAATA TATATT TATA-T TATA-T TATATT TTTA-T TATA-T GATATGT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATAT-T
572297 ATCATATT TATA-- TAT-TT ATATATT TATATT TA
1 -T-ATATT TATATT TATATT -TATATT TATATT TA
572329 AAATTATCTA
Statistics
Matches: 126, Mismatches: 19, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
4 6 0.05
5 38 0.30
6 63 0.50
7 10 0.08
8 3 0.02
9 6 0.05
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (6 bp):
TATATT
Found at i:572198 original size:27 final size:27
Alignment explanation
Indices: 572159--572289 Score: 102
Period size: 27 Copynumber: 4.6 Consensus size: 27
572149 CGATAATTCA
* *
572159 TATATTTATATTATATTTATATTTTTT
1 TATATTTATATTATATTTAAATTATTT
*
572186 TATA-TTATAATTATGTTTAAATTATTT
1 TATATTTAT-ATTATATTTAAATTATTT
* *
572213 TATATTTATATAAATTTTAATAAATTAATAATT
1 TATATTTATAT-TATATT--TAAATT-AT--TT
* * *
572246 TATATTTAAATATATATTTATATTATAT
1 TATATTTATAT-TATATTTAAATTATTT
*
572274 TATATTTTTATTATAT
1 TATATTTATATTATAT
572290 GATATGTATC
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
26 4 0.05
27 30 0.36
28 18 0.21
30 8 0.10
31 7 0.08
33 17 0.20
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
TATATTTATATTATATTTAAATTATTT
Found at i:572263 original size:12 final size:11
Alignment explanation
Indices: 572185--572274 Score: 50
Period size: 11 Copynumber: 8.6 Consensus size: 11
572175 TTATATTTTT
572185 TTATA-TTATAA
1 TTATATTTA-AA
*
572196 TTATGTTTAAA
1 TTATATTTAAA
*
572207 TTAT-TTTATA
1 TTATATTTAAA
*
572217 TT-TATATAAA
1 TTATATTTAAA
* *
572227 TTTTA-ATAAA
1 TTATATTTAAA
*
572237 TTA-A--TAAT
1 TTATATTTAAA
572245 TTATATTTAAA
1 TTATATTTAAA
*
572256 TATATATTTATA
1 T-TATATTTAAA
572268 TTATATT
1 TTATATT
572275 ATATTTTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
8 6 0.09
9 3 0.05
10 20 0.31
11 22 0.34
12 13 0.20
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (11 bp):
TTATATTTAAA
Found at i:573066 original size:15 final size:16
Alignment explanation
Indices: 573025--573092 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 16
573015 ATAAGTATTA
573025 TATATAAATTTTGATAT
1 TATATAAATTTT-ATAT
*
573042 GATA-ATAA-TTTATAT
1 TATATA-AATTTTATAT
* *
573057 TATATAAATTTTAAAA
1 TATATAAATTTTATAT
* *
573073 AATATATA-TTTATAT
1 TATATAAATTTTATAT
573088 TATAT
1 TATAT
573093 TTATATAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
15 18 0.46
16 16 0.41
17 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATATAAATTTTATAT
Found at i:573093 original size:11 final size:11
Alignment explanation
Indices: 573077--573123 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
573067 TTAAAAAATA
573077 TATATTTATAT
1 TATATTTATAT
573088 TATATTTATAT
1 TATATTTATAT
* * *
573099 AATTTTTTTAT
1 TATATTTATAT
573110 T-T-TTTATAT
1 TATATTTATAT
573119 TATAT
1 TATAT
573124 CATAACAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
9 7 0.24
10 2 0.07
11 20 0.69
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATATTTATAT
Found at i:577459 original size:2 final size:2
Alignment explanation
Indices: 577452--577476 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
577442 ATATTTCAGC
577452 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 T
577477 GGAGAGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:579901 original size:15 final size:15
Alignment explanation
Indices: 579881--579911 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
579871 ATGAGTAGAC
*
579881 AATGGATTTAGCCAA
1 AATGGATTTAACCAA
579896 AATGGATTTAACCAA
1 AATGGATTTAACCAA
579911 A
1 A
579912 CCTTAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (15 bp):
AATGGATTTAACCAA
Found at i:588616 original size:88 final size:88
Alignment explanation
Indices: 588470--588701 Score: 258
Period size: 87 Copynumber: 2.7 Consensus size: 88
588460 ATTTTTTAGA
* * *
588470 AACCCGAAAA-ATGTGACAGATGCATGGG-TATCAGATTCTTTCTGACATGATAGAAAATATTTG
1 AACCC-AAAAGATGTGATAGATGCATGGGTTATCAAATTCTTTCTGACAAGATAGAAAATATTTG
588533 ACTAATACCTAATAAATTTCTTGG
65 ACTAATACCTAATAAATTTCTTGG
* * *
588557 AACCCAAAAGATATGATAGATGCATGGGTTGTCAAATTTCTTT-TGACAAGATTGAAAATATTTG
1 AACCCAAAAGATGTGATAGATGCATGGGTTATCAAA-TTCTTTCTGACAAGATAGAAAATATTTG
* *
588621 ACTAATGCTTAATAAATTTCTTGG
65 ACTAATACCTAATAAATTTCTTGG
* ** * * * * *
588645 AA-TCTGAAGATGTGATAGATGCATAGGG-TATTAGATTCCTTCTGACATGATAAAAAA
1 AACCCAAAAGATGTGATAGATGCAT-GGGTTATCAAATTCTTTCTGACAAGATAGAAAA
588702 GTTGATTAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
86 9 0.07
87 55 0.45
88 51 0.42
89 6 0.05
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (88 bp):
AACCCAAAAGATGTGATAGATGCATGGGTTATCAAATTCTTTCTGACAAGATAGAAAATATTTGA
CTAATACCTAATAAATTTCTTGG
Found at i:591874 original size:13 final size:13
Alignment explanation
Indices: 591856--591890 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
591846 TCAAAGGTCT
591856 TTCAATTTTTATA
1 TTCAATTTTTATA
591869 TTCAATTTTTATA
1 TTCAATTTTTATA
591882 TTCAATTTT
1 TTCAATTTT
591891 CAAATATCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCAATTTTTATA
Found at i:592689 original size:36 final size:36
Alignment explanation
Indices: 592633--592704 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
592623 CTAATTTTTT
*
592633 TTAATATTTTGATTACGATTATAAGATCATAATCTC
1 TTAATATTTTGATTACGATTACAAGATCATAATCTC
* **
592669 TTAATATTTCT-ATTAGGATTACAAGATTGTAATCTC
1 TTAATATTT-TGATTACGATTACAAGATCATAATCTC
592705 CATAATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (36 bp):
TTAATATTTTGATTACGATTACAAGATCATAATCTC
Found at i:594115 original size:20 final size:20
Alignment explanation
Indices: 594090--594143 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
594080 GTTTGAGACA
594090 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATATGC--C
594110 ATGTATCGATACAATATGCC
1 ATGTATCGATACAATATGCC
594130 ATGTATCGATACAA
1 ATGTATCGATACAA
594144 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATATGCC
Found at i:594217 original size:19 final size:18
Alignment explanation
Indices: 594171--594228 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
594161 ACTGCCAGTT
594171 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
*
594190 TGTATGTATCGATACAATG
1 T-CATGTATCGATACAATG
594209 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
594228 T
1 T
594229 ATAGATACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.54
20 15 0.43
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:601422 original size:12 final size:12
Alignment explanation
Indices: 601405--601435 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
601395 CGAGTCAACC
601405 TCATCATTATCA
1 TCATCATTATCA
*
601417 TCATCATTATCT
1 TCATCATTATCA
601429 TCATCAT
1 TCATCAT
601436 CTTTGACGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:603024 original size:20 final size:20
Alignment explanation
Indices: 602999--603052 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
602989 GTTTGAGACA
602999 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
603019 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
603039 ATGTATCGATACAA
1 ATGTATCGATACAA
603053 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:603139 original size:13 final size:13
Alignment explanation
Indices: 603121--603147 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
603111 TACAATGATC
603121 ATGTATTGATACA
1 ATGTATTGATACA
603134 ATGTATTGATACA
1 ATGTATTGATACA
603147 A
1 A
603148 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:604540 original size:25 final size:25
Alignment explanation
Indices: 604506--604556 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
604496 TGGTGCTTAG
*
604506 ACATAGAGATTCAGCTAGAAGGATT
1 ACATAGAGATTCAGCTACAAGGATT
604531 ACATAGAGATTCAGCTACAAGGATT
1 ACATAGAGATTCAGCTACAAGGATT
604556 A
1 A
604557 GGATTGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (25 bp):
ACATAGAGATTCAGCTACAAGGATT
Found at i:610726 original size:19 final size:18
Alignment explanation
Indices: 610702--610764 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
610692 TAGCCAATCT
610702 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
610721 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
610734 TGTATCGATACACAAAAA
1 TGTATCGATACACAAAAA
610752 TTGTATCGATACA
1 -TGTATCGATACA
610765 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
18 2 0.05
19 21 0.55
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:610738 original size:13 final size:13
Alignment explanation
Indices: 610720--610745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
610710 TACACAAAAT
610720 ATGTATCGATACA
1 ATGTATCGATACA
610733 ATGTATCGATACA
1 ATGTATCGATACA
610746 CAAAAATTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:610743 original size:32 final size:32
Alignment explanation
Indices: 610702--610764 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
610692 TAGCCAATCT
610702 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
610734 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
610765 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:617056 original size:13 final size:13
Alignment explanation
Indices: 617038--617063 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
617028 CATGGGATAA
617038 TGTATCGATACAT
1 TGTATCGATACAT
617051 TGTATCGATACAT
1 TGTATCGATACAT
617064 AAGGAGATTG
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:617081 original size:34 final size:33
Alignment explanation
Indices: 617017--617085 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 33
617007 CTATCACTAT
* *
617017 TTGTATCGATACATGGGATAATGTATCGATACA
1 TTGTATCGATACATAGGAGAATGTATCGATACA
*
617050 TTGTATCGATACATAAGGAGATTGTATCGATACA
1 TTGTATCGATACAT-AGGAGAATGTATCGATACA
617084 TT
1 TT
617086 ACTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATAGGAGAATGTATCGATACA
Found at i:623254 original size:13 final size:13
Alignment explanation
Indices: 623236--623264 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
623226 ACAACATTCC
623236 TTGTATCGATACA
1 TTGTATCGATACA
623249 TTGTATCGATACA
1 TTGTATCGATACA
623262 TTG
1 TTG
623265 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:625109 original size:15 final size:15
Alignment explanation
Indices: 625089--625117 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
625079 GGAAGAAGAT
625089 ATTGAAGATAAATAA
1 ATTGAAGATAAATAA
625104 ATTGAAGATAAATA
1 ATTGAAGATAAATA
625118 TATTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (15 bp):
ATTGAAGATAAATAA
Found at i:625208 original size:21 final size:20
Alignment explanation
Indices: 625147--625209 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
625137 AATGGGGAGA
* *
625147 AAGAGTAGAAATGCTTTGATT
1 AAGAGGAGAAATTCTTT-ATT
*
625168 AAG-GGGGAGAATT-TTT-TT
1 AAGAGGAGA-AATTCTTTATT
625186 AAGAGGAGAAATTCTTTAATT
1 AAGAGGAGAAATTCTTT-ATT
625207 AAG
1 AAG
625210 GGGGAGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
18 9 0.27
19 7 0.21
20 6 0.18
21 11 0.33
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.33
Consensus pattern (20 bp):
AAGAGGAGAAATTCTTTATT
Found at i:625677 original size:20 final size:20
Alignment explanation
Indices: 625652--625703 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
625642 ATGCTTCAAA
625652 GTATCGATACATAGATATTT
1 GTATCGATACATAGATATTT
*
625672 GTATCGATACATAGGTATTT
1 GTATCGATACATAGATATTT
625692 GTATCGATACAT
1 GTATCGATACAT
625704 TATGATTGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATACATAGATATTT
Found at i:625804 original size:33 final size:32
Alignment explanation
Indices: 625762--625826 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
625752 CATTTCCAGA
*
625762 TGTATCGATACATACTGCTTTGTATCAATACAT
1 TGTATCGATACATACT-CATTGTATCAATACAT
* *
625795 TGTATCGATACATGCTCATTGTATCGATACAT
1 TGTATCGATACATACTCATTGTATCAATACAT
625827 AGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCAATACAT
Found at i:625816 original size:19 final size:19
Alignment explanation
Indices: 625792--625848 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
625782 TGTATCAATA
625792 CATTGTATCGATACATG-C
1 CATTGTATCGATACATGAC
625810 TCATTGTATCGATACATAGAC
1 -CATTGTATCGATACAT-GAC
*
625831 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
625849 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 16 0.46
21 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAC
Found at i:632828 original size:2 final size:2
Alignment explanation
Indices: 632821--632850 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
632811 TCAAACTGTG
632821 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
632851 GAGTAAAATG
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):
TA
Found at i:633123 original size:32 final size:32
Alignment explanation
Indices: 633085--633146 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
633075 AATATATATT
*
633085 TATATATGTATATATACAACCAAATGAACCTA
1 TATATATATATATATACAACCAAATGAACCTA
*
633117 TATATATATATATATATAACCAAATGAACC
1 TATATATATATATATACAACCAAATGAACC
633147 AAGTCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (32 bp):
TATATATATATATATACAACCAAATGAACCTA
Found at i:634882 original size:19 final size:20
Alignment explanation
Indices: 634858--634908 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
634848 GATATAAATG
*
634858 TATCGATACATGCTC-ATTA
1 TATCGATACATACTCAATTA
*
634877 TATCGATACATACTCAATTG
1 TATCGATACATACTCAATTA
634897 TATCGATACATA
1 TATCGATACATA
634909 AAATTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCGATACATACTCAATTA
Found at i:634902 original size:20 final size:19
Alignment explanation
Indices: 634856--634908 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
634846 TCGATATAAA
*
634856 TGTATCGATACATGCTCAT
1 TGTATCGATACATACTCAT
*
634875 TATATCGATACATACTCAAT
1 TGTATCGATACATACTC-AT
634895 TGTATCGATACATA
1 TGTATCGATACATA
634909 AAATTAGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATACTCAT
Found at i:643992 original size:13 final size:13
Alignment explanation
Indices: 643974--643999 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
643964 ACATTTGGTC
643974 ATGTATCGATACA
1 ATGTATCGATACA
643987 ATGTATCGATACA
1 ATGTATCGATACA
644000 TCTTGTATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:643994 original size:33 final size:32
Alignment explanation
Indices: 643952--644019 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
643942 CGTTACAAGC
643952 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
643985 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
644017 CAA
1 CAA
644020 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:644107 original size:20 final size:21
Alignment explanation
Indices: 644060--644112 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
644050 GCCAATCACC
*
644060 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
644081 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
644101 TGTATCGATACA
1 TGTATCGATACA
644113 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Found at i:644118 original size:13 final size:13
Alignment explanation
Indices: 644100--644124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
644090 ACATTTGGTC
644100 ATGTATCGATACA
1 ATGTATCGATACA
644113 ATGTATCGATAC
1 ATGTATCGATAC
644125 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:644943 original size:20 final size:19
Alignment explanation
Indices: 644914--644965 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
644904 CCCCTAGAAA
* *
644914 GTATCAATACATATCCAGTT
1 GTATCGATACATATAC-GTT
*
644934 GTATCGATACATTATACTTT
1 GTATCGATACA-TATACGTT
644954 GTATCGATACAT
1 GTATCGATACAT
644966 GCTTATTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.82
21 4 0.14
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (19 bp):
GTATCGATACATATACGTT
Found at i:645003 original size:20 final size:19
Alignment explanation
Indices: 644952--645005 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
644942 ACATTATACT
*
644952 TTGTATCGATACATGCTTA
1 TTGTATCGATACATACTTA
* * *
644971 TTATCTTGATACATACTTAA
1 TTGTATCGATACATACTT-A
644991 TTGTATCGATACATA
1 TTGTATCGATACATA
645006 AAACTGGTCG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACATACTTA
Found at i:653515 original size:19 final size:20
Alignment explanation
Indices: 653491--653548 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
653481 ACATTATGCT
* *
653491 TTGTATCGATACA-AGTTCA
1 TTGTATCGATACATAGATAA
* *
653510 TTGTATTGATACATTGATAA
1 TTGTATCGATACATAGATAA
653530 TTGTATCGATACATGAGAT
1 TTGTATCGATACAT-AGAT
653549 TGGCAGTAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 12 0.39
20 16 0.52
21 3 0.10
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATAGATAA
Found at i:661657 original size:22 final size:20
Alignment explanation
Indices: 661632--661704 Score: 80
Period size: 22 Copynumber: 3.6 Consensus size: 20
661622 AGATTTTACA
661632 AAGGGGGAGAAATGTTTTGATT
1 AAGGGGGAGAAAT-TTTT-ATT
661654 AAGGGGGAGAAA-TTTT-TT
1 AAGGGGGAGAAATTTTTATT
*
661672 -AGAGGAGAGAAATTTTTAATT
1 AAG-GGGGAGAAATTTTT-ATT
661693 AAGGGGGAGAAA
1 AAGGGGGAGAAA
661705 AATGAAAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
17 2 0.05
18 10 0.23
19 4 0.09
20 4 0.09
21 10 0.23
22 14 0.32
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.27
Consensus pattern (20 bp):
AAGGGGGAGAAATTTTTATT
Found at i:662284 original size:19 final size:19
Alignment explanation
Indices: 662259--662315 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
662249 TTGTATTGAT
*
662259 ACATTGTACCGATACATGC
1 ACATTGTATCGATACATGC
* * *
662278 TCATTGTATTGATACATGG
1 ACATTGTATCGATACATGC
662297 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
662316 AGATTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:662378 original size:13 final size:13
Alignment explanation
Indices: 662360--662410 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
662350 CGATACATGG
662360 TACAATGTATCGA
1 TACAATGTATCGA
662373 TACAATGTATCGA
1 TACAATGTATCGA
662386 TA-AATG-AT-GA
1 TACAATGTATCGA
*
662396 -A-ATTGTATCGA
1 TACAATGTATCGA
662407 TACA
1 TACA
662411 TTACTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 4 0.12
12 5 0.15
13 16 0.48
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:662474 original size:20 final size:20
Alignment explanation
Indices: 662449--662503 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
662439 ATTTCAAATC
662449 AATGTATCGATACATTATGA
1 AATGTATCGATACATTATGA
662469 AATGTATCGATACATTATGA
1 AATGTATCGATACATTATGA
*
662489 ATTGTATCGATACAT
1 AATGTATCGATACAT
662504 GGCTACAGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTATGA
Found at i:663476 original size:77 final size:78
Alignment explanation
Indices: 663351--663500 Score: 180
Period size: 77 Copynumber: 1.9 Consensus size: 78
663341 AAAATACGTC
* *
663351 TTAAGAGCATTTTAGTAATTTTATGTTAGAACCGAGTCCATTAGGATCACAAG-ATACTTTCATG
1 TTAAGAGCATTTTAGTAATTTTATGTTAGAACCGAGTCCATTAAGATCACAAGAATACTTTCATA
663415 TTAAAGGTATGTT
66 TTAAAGGTATGTT
* * ** **
663428 TTAAGGGCATTTTTA-TAATTTTACT-TTAGAGCCGAGTCTTTTAAGATCACCTGAATACTTTCA
1 TTAAGAGCA-TTTTAGTAATTTTA-TGTTAGAACCGAGTCCATTAAGATCACAAGAATACTTTCA
*
663491 TATTGAAGGT
64 TATTAAAGGT
663501 GTCCTTTAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
77 38 0.62
78 23 0.38
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (78 bp):
TTAAGAGCATTTTAGTAATTTTATGTTAGAACCGAGTCCATTAAGATCACAAGAATACTTTCATA
TTAAAGGTATGTT
Found at i:663954 original size:19 final size:19
Alignment explanation
Indices: 663911--663984 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
663901 CACACCTAGG
* * *
663911 TGTATCAATACATTATGCTT
1 TGTATCGATACATGAT-CAT
663931 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
663950 TGTATCGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AT
663970 TGTATCGATACATGA
1 TGTATCGATACATGA
663985 AACTGGCAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.37
20 31 0.63
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:667765 original size:33 final size:33
Alignment explanation
Indices: 667688--667767 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
667678 CTGTTGGACT
* *
667688 CAATGTGGCGATACTATTCACAATGTATTGATA
1 CAATGTGTCGATACTATTCACAATGTATCGATA
* * *
667721 CACTATATCGATACTATTCACAATGTATCGATA
1 CAATGTGTCGATACTATTCACAATGTATCGATA
667754 CAATGTGTCGATAC
1 CAATGTGTCGATAC
667768 ATGAACAGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (33 bp):
CAATGTGTCGATACTATTCACAATGTATCGATA
Found at i:667946 original size:13 final size:13
Alignment explanation
Indices: 667928--667952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
667918 CTGCCAGTTT
667928 ATGTATCGATACA
1 ATGTATCGATACA
667941 ATGTATCGATAC
1 ATGTATCGATAC
667953 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:669837 original size:13 final size:13
Alignment explanation
Indices: 669819--669844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
669809 ACATTAAAAT
669819 TATATCGATATAA
1 TATATCGATATAA
669832 TATATCGATATAA
1 TATATCGATATAA
669845 ATTTGATTGT
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TATATCGATATAA
Found at i:671215 original size:21 final size:21
Alignment explanation
Indices: 671186--671238 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
671176 CTTGCAACTT
*
671186 ATTTCTTTTCTCCTCTAATTC
1 ATTTATTTTCTCCTCTAATTC
**
671207 ATTTATTTTCTTTTCTAATTC
1 ATTTATTTTCTCCTCTAATTC
* *
671228 ACTTAATTTCT
1 ATTTATTTTCT
671239 TTTCAAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTATTTTCTCCTCTAATTC
Found at i:671239 original size:21 final size:21
Alignment explanation
Indices: 671199--671242 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
671189 TCTTTTCTCC
* *
671199 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
671220 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
671241 TC
1 TC
671243 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:673156 original size:13 final size:13
Alignment explanation
Indices: 673138--673162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
673128 TTAGACTCAA
673138 TGTATCGATACAC
1 TGTATCGATACAC
673151 TGTATCGATACA
1 TGTATCGATACA
673163 TGAACAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:673293 original size:10 final size:10
Alignment explanation
Indices: 673255--673289 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
673245 GTATCGATAC
*
673255 ATGAACAGTT
1 ATGAACAGTG
673265 ATGAACAGTG
1 ATGAACAGTG
*
673275 ATGAATAGTG
1 ATGAACAGTG
673285 ATGAA
1 ATGAA
673290 TAGTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:673341 original size:13 final size:13
Alignment explanation
Indices: 673323--673347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
673313 CTGCCAGTTT
673323 ATGTATCGATACA
1 ATGTATCGATACA
673336 ATGTATCGATAC
1 ATGTATCGATAC
673348 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:675570 original size:13 final size:13
Alignment explanation
Indices: 675552--675576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
675542 ATGTTGCACA
675552 GTATCGATACATT
1 GTATCGATACATT
675565 GTATCGATACAT
1 GTATCGATACAT
675577 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:675571 original size:33 final size:33
Alignment explanation
Indices: 675529--675594 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
675519 TACACATTTA
675529 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
**
675562 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
675595 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:675685 original size:13 final size:13
Alignment explanation
Indices: 675667--675692 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
675657 TACACAAAGT
675667 ATGTATCGATACA
1 ATGTATCGATACA
675680 ATGTATCGATACA
1 ATGTATCGATACA
675693 CCATAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:675709 original size:33 final size:32
Alignment explanation
Indices: 675649--675712 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
675639 TAGCCAAACT
*
675649 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
675681 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
675713 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:681911 original size:13 final size:13
Alignment explanation
Indices: 681893--681931 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
681883 ACATCATTCT
681893 TTGTATCGATACA
1 TTGTATCGATACA
681906 TTGTATCGATACA
1 TTGTATCGATACA
*
681919 CTGTATCGATACA
1 TTGTATCGATACA
681932 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:682459 original size:22 final size:22
Alignment explanation
Indices: 682431--682474 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
682421 TAAACACTTT
* *
682431 CGATTCATTTCGATGGCCCCTC
1 CGATTCATTCCAATGGCCCCTC
682453 CGATTCATTCCAATGGCCCCTC
1 CGATTCATTCCAATGGCCCCTC
682475 GGATGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.39, G:0.16, T:0.30
Consensus pattern (22 bp):
CGATTCATTCCAATGGCCCCTC
Found at i:684398 original size:13 final size:13
Alignment explanation
Indices: 684380--684404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
684370 ATGTTGCACA
684380 GTATCGATACATT
1 GTATCGATACATT
684393 GTATCGATACAT
1 GTATCGATACAT
684405 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:684513 original size:13 final size:13
Alignment explanation
Indices: 684495--684520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
684485 TACACAAAGT
684495 ATGTATCGATACA
1 ATGTATCGATACA
684508 ATGTATCGATACA
1 ATGTATCGATACA
684521 CCATAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:684537 original size:33 final size:32
Alignment explanation
Indices: 684477--684540 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
684467 TAGCCAAACT
*
684477 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
684509 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
684541 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:684682 original size:14 final size:14
Alignment explanation
Indices: 684663--684699 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
684653 ATAACGACTA
684663 CAAACTCCACCAAT
1 CAAACTCCACCAAT
684677 CAAACTCCACCAAT
1 CAAACTCCACCAAT
684691 CAAACTCCA
1 CAAACTCCA
684700 ACGGCTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (14 bp):
CAAACTCCACCAAT
Found at i:686298 original size:23 final size:23
Alignment explanation
Indices: 686268--686314 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
686258 AAGTGCGATG
686268 ATGCTAGTGCAATATGCCTCACC
1 ATGCTAGTGCAATATGCCTCACC
686291 ATGCTAGTGCAATATGCCTCACC
1 ATGCTAGTGCAATATGCCTCACC
686314 A
1 A
686315 AAAATCCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (23 bp):
ATGCTAGTGCAATATGCCTCACC
Found at i:688326 original size:22 final size:22
Alignment explanation
Indices: 688301--688346 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
688291 TGTACACATG
*
688301 AAAAGCAAGGAAAAAACAAAAA
1 AAAAACAAGGAAAAAACAAAAA
*
688323 AAAAACAAGGAAAAAATAAAAA
1 AAAAACAAGGAAAAAACAAAAA
688345 AA
1 AA
688347 CAAGGGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (22 bp):
AAAAACAAGGAAAAAACAAAAA
Found at i:694554 original size:18 final size:18
Alignment explanation
Indices: 694535--694569 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
694525 TATAGGAAAT
694535 TTTTC-AAAATACAAAAA
1 TTTTCTAAAATACAAAAA
*
694552 TTTTCTAAAATATAAAAA
1 TTTTCTAAAATACAAAAA
694570 ATCTAGACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
TTTTCTAAAATACAAAAA
Found at i:695890 original size:32 final size:32
Alignment explanation
Indices: 695847--695912 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
695837 TTCACTGTTT
*
695847 ATCACTATTCATCATTATTCATCTATCGATAC
1 ATCACTATTCATCACTATTCATCTATCGATAC
* * *
695879 ATCACTGTTCATCACTGTTCATGTATCGATAC
1 ATCACTATTCATCACTATTCATCTATCGATAC
695911 AT
1 AT
695913 TATGAATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (32 bp):
ATCACTATTCATCACTATTCATCTATCGATAC
Found at i:698041 original size:21 final size:21
Alignment explanation
Indices: 697992--698076 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 21
697982 TAATATTCTT
* *
697992 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAATGAATGAATTA
**
698013 GAGGAGAAAATGAATGAATTA
1 GAAAAGAAAATGAATGAATTA
*
698034 GAAAAGAAAA-GAAATGAGTT-
1 GAAAAGAAAATG-AATGAATTA
*
698054 GCAAAATGAAAATG-ATGAGTTA
1 G-AAAA-GAAAATGAATGAATTA
698076 G
1 G
698077 CTAATAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
20 2 0.04
21 43 0.83
22 6 0.12
23 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.24, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATGAATGAATTA
Found at i:701318 original size:10 final size:10
Alignment explanation
Indices: 701299--701385 Score: 52
Period size: 10 Copynumber: 8.3 Consensus size: 10
701289 TGTATCGATA
701299 CATCACTGTT
1 CATCACTGTT
*
701309 CATCATTGTT
1 CATCACTGTT
* *
701319 CAT-ATATCGATA
1 CATCA-CT-G-TT
701331 CATCACTGTT
1 CATCACTGTT
*
701341 CATCATTGTT
1 CATCACTGTT
* *
701351 CATGTA-TCGATA
1 CAT-CACT-G-TT
701363 CATCACTGTT
1 CATCACTGTT
701373 CATCACTGTT
1 CATCACTGTT
701383 CAT
1 CAT
701386 GTATCGATAC
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
9 1 0.02
10 41 0.69
11 6 0.10
12 10 0.17
13 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.40
Consensus pattern (10 bp):
CATCACTGTT
Found at i:701319 original size:32 final size:32
Alignment explanation
Indices: 701275--701397 Score: 219
Period size: 32 Copynumber: 3.8 Consensus size: 32
701265 TTCATTACTA
701275 TTCATCACTGTTCATGTATCGATACATCACTG
1 TTCATCACTGTTCATGTATCGATACATCACTG
* *
701307 TTCATCATTGTTCATATATCGATACATCACTG
1 TTCATCACTGTTCATGTATCGATACATCACTG
*
701339 TTCATCATTGTTCATGTATCGATACATCACTG
1 TTCATCACTGTTCATGTATCGATACATCACTG
701371 TTCATCACTGTTCATGTATCGATACAT
1 TTCATCACTGTTCATGTATCGATACAT
701398 TATGAATAGT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 87 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (32 bp):
TTCATCACTGTTCATGTATCGATACATCACTG
Found at i:702281 original size:21 final size:21
Alignment explanation
Indices: 702230--702285 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
702220 TATAAACAGT
702230 AAATGTATCGATACATAAGTG
1 AAATGTATCGATACATAAGTG
* * *
702251 -AATGTTTCGATACATGATTG
1 AAATGTATCGATACATAAGTG
702271 AAATGTATCGATACA
1 AAATGTATCGATACA
702286 AAACCACCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (21 bp):
AAATGTATCGATACATAAGTG
Found at i:703156 original size:13 final size:13
Alignment explanation
Indices: 703138--703163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
703128 CAATTTTTTG
703138 TGTATCGATACAT
1 TGTATCGATACAT
703151 TGTATCGATACAT
1 TGTATCGATACAT
703164 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:703175 original size:32 final size:33
Alignment explanation
Indices: 703118--703181 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
703108 TACAAGCCAA
**
703118 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
703151 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
703182 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:705742 original size:13 final size:13
Alignment explanation
Indices: 705724--705762 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
705714 ATAATCCCCC
*
705724 TGTATCGATACAG
1 TGTATCGATACAA
705737 TGTATCGATACAA
1 TGTATCGATACAA
705750 TGTATCGATACAA
1 TGTATCGATACAA
705763 AGAAAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:709705 original size:21 final size:21
Alignment explanation
Indices: 709676--709720 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
709666 AAGTTTTTAT
*
709676 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
709696 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
709718 TTT
1 TTT
709721 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:711971 original size:13 final size:13
Alignment explanation
Indices: 711953--711978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
711943 AATTTTTTTG
711953 TGTATCGATACAT
1 TGTATCGATACAT
711966 TGTATCGATACAT
1 TGTATCGATACAT
711979 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:711989 original size:32 final size:34
Alignment explanation
Indices: 711932--711996 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
711922 TACAAGCCAA
*
711932 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
711966 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
711997 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:713246 original size:27 final size:27
Alignment explanation
Indices: 713208--713273 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
713198 CCAGGGACAT
713208 TCCAACCCCATTCCTCTGAAAGGATAC
1 TCCAACCCCATTCCTCTGAAAGGATAC
**
713235 TCCAACCCCATTCCTCTGAGGGGATAC
1 TCCAACCCCATTCCTCTGAAAGGATAC
*
713262 TACAACCCCATT
1 TCCAACCCCATT
713274 TTTCAAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.23
Consensus pattern (27 bp):
TCCAACCCCATTCCTCTGAAAGGATAC
Found at i:720450 original size:139 final size:139
Alignment explanation
Indices: 720200--720477 Score: 529
Period size: 139 Copynumber: 2.0 Consensus size: 139
720190 CTTTTAAAGA
*
720200 TCAATTTCAAACAGTCAATTTGCACTGGTGAAGTTGATCATGAAGAAGATTTCGAAAAAAACTTT
1 TCAATTTCAAACAGTCAATTTGCACTGGTGAAATTGATCATGAAGAAGATTTCGAAAAAAACTTT
720265 GTGCCACTAGACCTCTTACTATTGGTTGAGCAAAAAGAAAAGCAAATCATACCCCATGAAGACTC
66 GTGCCACTAGACCTCTTACTATTGGTTGAGCAAAAAGAAAAGCAAATCATACCCCATGAAGACTC
720330 GATCGAAGT
131 GATCGAAGT
*
720339 TCAATTTCGAACAGTCAATTTGCACTGGTGAAATTGATCATGAAGAAGATTTCGAAAAAAACTTT
1 TCAATTTCAAACAGTCAATTTGCACTGGTGAAATTGATCATGAAGAAGATTTCGAAAAAAACTTT
*
720404 GTGCCACTAGACCTCTTACTATTGGTTGAGCAAAAAGAAAAGCAAATCATACCCCATGAAGACTT
66 GTGCCACTAGACCTCTTACTATTGGTTGAGCAAAAAGAAAAGCAAATCATACCCCATGAAGACTC
720469 GATCGAAGT
131 GATCGAAGT
720478 GATAAATCTA
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (139 bp):
TCAATTTCAAACAGTCAATTTGCACTGGTGAAATTGATCATGAAGAAGATTTCGAAAAAAACTTT
GTGCCACTAGACCTCTTACTATTGGTTGAGCAAAAAGAAAAGCAAATCATACCCCATGAAGACTC
GATCGAAGT
Found at i:721663 original size:51 final size:51
Alignment explanation
Indices: 721608--721718 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
721598 TCGGGATTTA
* * * *
721608 AGTATCCCCGATTGT-AGAAAATTATTGTTTTAGAAATAAAACCGAGGTCGG
1 AGTATCCCCGATTATGAG-AAATCAATATTTTAGAAATAAAACCGAGGTCGG
* * * * *
721659 AGTATCCCTGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGG
1 AGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGAGGTCGG
721710 AGTATCCCC
1 AGTATCCCC
721719 TCGGAGGTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
51 47 0.96
52 2 0.04
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGAGGTCGG
Found at i:721830 original size:52 final size:51
Alignment explanation
Indices: 721761--721893 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
721751 AAATAACGAG
* * * *
721761 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGAAAATAAAACCGGA
* * * *
721813 GTTGGAGTATCCCCGATTAAAGGAGAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAACCGGA
*
721865 GTTGGAGTATCTCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
721894 AGAAACTTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 8 0.12
52 50 0.74
53 10 0.15
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGGA
Found at i:724276 original size:13 final size:13
Alignment explanation
Indices: 724258--724285 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
724248 ATACAAAGAT
724258 CAATGTATCGATA
1 CAATGTATCGATA
724271 CAATGTATCGATA
1 CAATGTATCGATA
724284 CA
1 CA
724286 TTTCTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:724362 original size:19 final size:19
Alignment explanation
Indices: 724338--724400 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
724328 AGCGATACAT
724338 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
724357 TGTATCGAT---ATA--T-
1 TGTATCGATACAAAACTTA
*
724370 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
724389 TGTATCGATACA
1 TGTATCGATACA
724401 TTTGTAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 4 0.11
18 1 0.03
19 21 0.58
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:724372 original size:32 final size:32
Alignment explanation
Indices: 724330--724402 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
724320 AGCTTCGTAG
724330 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
724362 CGATATATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
724394 CGATACATT
1 CGATACATT
724403 TGTAGATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:724490 original size:21 final size:21
Alignment explanation
Indices: 724460--724515 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
724450 GTTGGGACCT
*
724460 TGTATGGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
724481 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
724502 TGTATCGATACATT
1 TGTATCGATACATT
724516 TGGATAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:730591 original size:52 final size:52
Alignment explanation
Indices: 730443--730571 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
730433 CGAAATATGA
730443 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
730495 AAATTTGCCTGTATGTATCGATATATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
730547 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
730572 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:730700 original size:32 final size:32
Alignment explanation
Indices: 730649--730734 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
730639 AGCTTCGTAG
*
730649 CGATACATTGTATCAATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
730681 CGATACATTTTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
730713 CGATATATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
730735 TCGTTGAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:730715 original size:19 final size:19
Alignment explanation
Indices: 730657--730717 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
730647 AGCGATACAT
* *
730657 TGTATCAATACAAAACTTA
1 TGTATCGATACAACACTTA
730676 TGTATCGAT---ACA-TT-
1 TGTATCGATACAACACTTA
730690 T-TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
730708 TGTATCGATA
1 TGTATCGATA
730718 TATTGTATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 7 0.21
14 1 0.03
15 2 0.06
16 5 0.15
17 2 0.06
18 1 0.03
19 16 0.47
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:732519 original size:21 final size:21
Alignment explanation
Indices: 732490--732530 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
732480 AAAGGTCAAA
732490 ACCCTAGAAAGTATCGATACAG
1 ACCCTAG-AAGTATCGATACAG
732512 ACCC-AGAAGTATCGATACA
1 ACCCTAGAAGTATCGATACA
732531 TATGGCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 2 0.11
22 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:747690 original size:21 final size:21
Alignment explanation
Indices: 747639--747699 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
747629 GGTGAAAAAC
747639 CTAGAATGTATCGATACA-TT
1 CTAGAATGTATCGATACATTT
*
747659 -GAGTAATGTATCGATACATTT
1 CTAG-AATGTATCGATACATTT
* **
747680 CTAGCATGTATTAATACATT
1 CTAGAATGTATCGATACATT
747700 CACTTATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.42
21 15 0.45
22 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
CTAGAATGTATCGATACATTT
Found at i:751490 original size:3 final size:3
Alignment explanation
Indices: 751484--751541 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
751474 CTTCTGTGCT
*
751484 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
751530 T-A TAA AAA TAA T
1 TAA TAA TAA TAA T
751542 TAAATTGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:754721 original size:37 final size:37
Alignment explanation
Indices: 754671--754741 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
754661 TGAATTTAGA
754671 TAGGGTATAAAGCATATTCAATAAAGGTACAAAGGAC
1 TAGGGTATAAAGCATATTCAATAAAGGTACAAAGGAC
*
754708 TAGGGTATAAAGCATATTCAATAAGGGTACAAAG
1 TAGGGTATAAAGCATATTCAATAAAGGTACAAAG
754742 TGTAGTCCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (37 bp):
TAGGGTATAAAGCATATTCAATAAAGGTACAAAGGAC
Found at i:760461 original size:5 final size:5
Alignment explanation
Indices: 760423--760464 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
760413 GATTCAATTT
* * *
760423 AAAA- AAAAA AAAAA AAAAA AAAAC AAAAC AAAAC AAAAC AAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA
760465 CAGCATTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:760461 original size:15 final size:14
Alignment explanation
Indices: 760423--760464 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
760413 GATTCAATTT
760423 AAAAAAAAAA-AAA
1 AAAAAAAAAACAAA
760436 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
*
760450 ACAAAACAAAACAAA
1 A-AAAAAAAAACAAA
760465 CAGCATTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 10 0.38
14 4 0.15
15 12 0.46
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:760464 original size:10 final size:10
Alignment explanation
Indices: 760423--760460 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
760413 GATTCAATTT
760423 AAAAA-AAAA
1 AAAAACAAAA
760432 AAAAA-AAAA
1 AAAAACAAAA
760441 AAAAACAAAA
1 AAAAACAAAA
*
760451 CAAAACAAAA
1 AAAAACAAAA
760461 CAAACAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:763894 original size:5 final size:5
Alignment explanation
Indices: 763884--763938 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
763874 GTTTAATATT
* **
763884 TTAAA TTAAA TTTAA TCGAA TTAAA TTTAAA TTTAAA -TAAA TTAAA TT-AA
1 TTAAA TTAAA TTAAA TTAAA TTAAA -TTAAA -TTAAA TTAAA TTAAA TTAAA
763934 TTAAA
1 TTAAA
763939 AATTAAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
4 8 0.19
5 23 0.55
6 11 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:763926 original size:21 final size:21
Alignment explanation
Indices: 763884--763931 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
763874 GTTTAATATT
*
763884 TTAAA-TTAAATTTAATCGAA
1 TTAAATTTAAATTTAATCAAA
763904 TTAAATTTAAATTTAAAT-AAA
1 TTAAATTTAAATTT-AATCAAA
763925 TTAAATT
1 TTAAATT
763932 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 5 0.20
21 17 0.68
22 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAATTTAAATTTAATCAAA
Found at i:765868 original size:19 final size:18
Alignment explanation
Indices: 765844--765907 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
765834 CAAACAGAAA
765844 TTGTATCGATACATAAGT
1 TTGTATCGATACATAAGT
765862 GTTGTATCGATAC--AA--
1 -TTGTATCGATACATAAGT
765877 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAG-T
765895 TTGTATCGATACA
1 TTGTATCGATACA
765908 ATGTATCGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTGTATCGATACATAAGT
Done.