Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3884024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:729443 original size:43 final size:43
Alignment explanation
Indices: 729395--729483 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
729385 GTTTTTATCC
*
729395 AAAACATTGCTCTTAATAAGTCCAAGTTAGATCCTAAGTCTTT
1 AAAACATTGCTCCTAATAAGTCCAAGTTAGATCCTAAGTCTTT
729438 AAAACATTGCTCCTAATAAGTCCAAGTTAGATCCTAAGTCTTT
1 AAAACATTGCTCCTAATAAGTCCAAGTTAGATCCTAAGTCTTT
729481 AAA
1 AAA
729484 GTGTACTGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (43 bp):
AAAACATTGCTCCTAATAAGTCCAAGTTAGATCCTAAGTCTTT
Found at i:733769 original size:24 final size:24
Alignment explanation
Indices: 733733--733782 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
733723 AGCGTCTCCA
733733 AGGTATGGCCTACACAATTGGTTG
1 AGGTATGGCCTACACAATTGGTTG
733757 AGGTATGTG-CTACACAATTGGTTG
1 AGGTATG-GCCTACACAATTGGTTG
733781 AG
1 AG
733783 CGTGGGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (24 bp):
AGGTATGGCCTACACAATTGGTTG
Found at i:760702 original size:2 final size:2
Alignment explanation
Indices: 760697--760770 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
760687 TTCAAAAAAA
760697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
760739 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
760771 CTACACACAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:762858 original size:20 final size:20
Alignment explanation
Indices: 762822--762859 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
762812 ATCCTATTCC
**
762822 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
762842 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
762860 GTAAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:765415 original size:20 final size:20
Alignment explanation
Indices: 765347--765423 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
765337 TTCTAGGATG
*
765347 CAAA-GTTTGTAAACTTTCC
1 CAAATGTTTGGAAACTTTCC
*
765366 CAAAATTTTTGG-AACTTCTCC
1 C-AAATGTTTGGAAACTT-TCC
*
765387 TAAATGTTTGGAAACTTTCC
1 CAAATGTTTGGAAACTTTCC
*
765407 CATAA-GTTTTGAAACTT
1 CA-AATGTTTGGAAACTT
765424 CTAATATGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 32 0.68
21 14 0.30
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
CAAATGTTTGGAAACTTTCC
Found at i:767344 original size:27 final size:27
Alignment explanation
Indices: 767314--767379 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
767304 ACATTTATTT
*
767314 TTATATATAATAATATTACATATTTAA
1 TTATATATAATAATATTACATATTAAA
* * *
767341 TTAT-TAATAATTATTTTATATATTAAA
1 TTATAT-ATAATAATATTACATATTAAA
*
767368 TTAAAT-TAATAA
1 TTATATATAATAA
767380 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.19
27 24 0.77
28 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TTATATATAATAATATTACATATTAAA
Found at i:768259 original size:155 final size:155
Alignment explanation
Indices: 767989--768277 Score: 447
Period size: 155 Copynumber: 1.9 Consensus size: 155
767979 TATTTGAACT
* * *
767989 ACATGCTTCTAAGCCATAGTAAAATACATGTGTACTTTCAATTCCTCTTTCTGATAATAAATTTT
1 ACATGCTCCTAAACCATAGTAAAATACATGTGTACTTTAAATTCCTCTTTCTGATAATAAATTTT
**
768054 TTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTTTTTCAA-TTAGTCATTTATT
66 TTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCATTCAATTTAG--ATTTATT
768118 TTAAGTCTTTTTTTTTAAATTTAAGCC
129 TTAAGTCTTTTTTTTTAAATTTAAGCC
* * * **
768145 ACATGCTCCTAAACCATAGTAGAATACATGTGTATTTTAAATTCCTCTTTTTGATAAT-TGTTTT
1 ACATGCTCCTAAACCATAGTAAAATACATGTGTACTTTAAATTCCTCTTTCTGATAATAAATTTT
768209 TTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCATTCAATTTTAGATTTATTT
66 TTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCATTCAA-TTTAGATTTATTT
768274 TAAG
130 TAAG
768278 CTACTTTATT
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
155 65 0.54
156 52 0.43
157 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.50
Consensus pattern (155 bp):
ACATGCTCCTAAACCATAGTAAAATACATGTGTACTTTAAATTCCTCTTTCTGATAATAAATTTT
TTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCATTCAATTTAGATTTATTTT
AAGTCTTTTTTTTTAAATTTAAGCC
Found at i:770877 original size:20 final size:20
Alignment explanation
Indices: 770813--770887 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
770803 CTAGGATGCA
* *
770813 AAGTTTGGAAACTTTCCCAA
1 AAGTTTGGAAACTTTGCCAG
* *
770833 AATTTTTGG-AAC-TTGCCCTG
1 AA-GTTTGGAAACTTTG-CCAG
770853 AAAGTTTGGAAACTTTGCCAG
1 -AAGTTTGGAAACTTTGCCAG
*
770874 AAGTTTTGAAACTT
1 AAGTTTGGAAACTT
770888 ATAATATGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 2 0.05
20 25 0.58
21 13 0.30
22 3 0.07
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (20 bp):
AAGTTTGGAAACTTTGCCAG
Found at i:775644 original size:18 final size:17
Alignment explanation
Indices: 775621--775654 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
775611 TGTCATAGGA
*
775621 TTTTTATTTTTATTTTAG
1 TTTTTAATTTT-TTTTAG
775639 TTTTTAATTTTTTTTA
1 TTTTTAATTTTTTTTA
775655 TATATAGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTAATTTTTTTTAG
Found at i:776971 original size:19 final size:19
Alignment explanation
Indices: 776954--777023 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
776944 TGAAAAGATT
776954 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
** *
776974 TAATAAATAAAAGGGAAAA
1 TAATAAATAAAATAGATAA
* *
776993 TAATAAA-ATAATAAATAA
1 TAATAAATAAAATAGATAA
*
777011 TAGT-AATAAAATA
1 TAATAAATAAAATA
777024 AAAAGGGTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
17 2 0.05
18 14 0.36
19 19 0.49
20 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:777027 original size:27 final size:28
Alignment explanation
Indices: 776960--777027 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
776950 GATTTAATAA
*
776960 AATAAAATAGATAATAATAAATAAAAGGG
1 AATAAAATA-AAAATAATAAATAAAAGGG
* *
776989 AA-AATAAT-AAAATAATAAATAATA-GT
1 AATAA-AATAAAAATAATAAATAAAAGGG
777015 AATAAAATAAAAA
1 AATAAAATAAAAA
777028 GGGTTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
26 6 0.18
27 20 0.61
28 2 0.06
29 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (28 bp):
AATAAAATAAAAATAATAAATAAAAGGG
Found at i:777086 original size:17 final size:18
Alignment explanation
Indices: 777050--777091 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
777040 GTTGTTTTTA
777050 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
777068 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
777085 AAATAAA
1 AAATAAA
777092 TAATTGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:777868 original size:14 final size:13
Alignment explanation
Indices: 777837--777871 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
777827 CTATTTAAAC
*
777837 TAAAATACAAAGA
1 TAAAATATAAAGA
777850 TAAAATATAAAGTA
1 TAAAATATAAAG-A
777864 TAAAATAT
1 TAAAATAT
777872 TACCCTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (13 bp):
TAAAATATAAAGA
Found at i:777868 original size:76 final size:76
Alignment explanation
Indices: 777658--777844 Score: 246
Period size: 76 Copynumber: 2.6 Consensus size: 76
777648 TAAAATCTCT
* * * * *
777658 TAAATCCTAATTAAAA-ACTTAAA--TTTTTAAACTAAAATACCT--AA-AAA-ATAATAT-TTA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
*
777715 AAATAATATTC
66 AAATAATATCC
*
777726 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
777791 AAATAATATCC
66 AAATAATATCC
*
777802 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
777845 AAAGATAAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
68 16 0.15
69 6 0.06
71 18 0.17
73 2 0.02
74 3 0.03
75 6 0.06
76 53 0.51
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (76 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
AAATAATATCC
Found at i:779715 original size:5 final size:5
Alignment explanation
Indices: 779707--779817 Score: 107
Period size: 5 Copynumber: 21.8 Consensus size: 5
779697 GTTCTGAGAA
* * *
779707 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT AAAAT AAAAT -AAAT AGAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* * ** *
779756 GAAAAT AAAGT TAGCT AAAAAT AAAAT AAAAAT AGAAT AAAAT AAAAT
1 -AAAAT AAAAT AAAAT -AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
*
779804 AAAAT GAAAT AAAA
1 AAAAT AAAAT AAAA
779818 AATTGAACGA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
4 4 0.05
5 70 0.82
6 11 0.13
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:785475 original size:17 final size:18
Alignment explanation
Indices: 785439--785480 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
785429 TTTATTTGTA
785439 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
785457 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
785474 AAATAAA
1 AAATAAA
785481 TAATTAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:786153 original size:19 final size:19
Alignment explanation
Indices: 786125--786233 Score: 55
Period size: 19 Copynumber: 5.8 Consensus size: 19
786115 AAATAATATT
*
786125 CTAAATCCTAATTAAAATA
1 CTAAAACCTAATTAAAATA
* *
786144 CTAAAACCTATTTAAACTA
1 CTAAAACCTAATTAAAATA
* *
786163 --AAATACCTAA-AACAAAGA
1 CTAAA-ACCTAATTA-AAATA
*** * * *
786181 -TAAAATAAAAATAATATC
1 CTAAAACCTAATTAAAATA
*
786199 CTAAAACTTAATTAAAATA
1 CTAAAACCTAATTAAAATA
*
786218 CTAAAACCTATTTAAA
1 CTAAAACCTAATTAAA
786234 CTAAAAATAC
Statistics
Matches: 63, Mismatches: 22, Indels: 10
0.66 0.23 0.11
Matches are distributed among these distances:
17 4 0.06
18 13 0.21
19 46 0.73
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.28
Consensus pattern (19 bp):
CTAAAACCTAATTAAAATA
Found at i:786215 original size:74 final size:71
Alignment explanation
Indices: 786056--786239 Score: 237
Period size: 74 Copynumber: 2.6 Consensus size: 71
786046 TAAAACATAT
* * * * * *
786056 TAAATCCTAATTAAAACACTTAAA-CTATTTAAACTAAAATACCTAAAAACTAATATTTAAAATA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAATAATAATAAAAATA
*
786120 ATATTC
66 ATATCC
*
786126 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAA-AGATAAAATAAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAA-AATA-AT--AATAAA
786190 AATAATATCC
62 AATAATATCC
*
786200 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAA
786240 ATACAAAGAT
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
70 22 0.22
71 25 0.25
72 3 0.03
74 51 0.50
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.29
Consensus pattern (71 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAATAATAATAAAAATA
ATATCC
Found at i:796312 original size:20 final size:20
Alignment explanation
Indices: 796283--796320 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
796273 AGAGCTCATA
*
796283 TAGGATCATATAGATGCACT
1 TAGGAGCATATAGATGCACT
*
796303 TAGGAGCATATAGTTGCA
1 TAGGAGCATATAGATGCA
796321 TTTGGTGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (20 bp):
TAGGAGCATATAGATGCACT
Found at i:797640 original size:2 final size:2
Alignment explanation
Indices: 797633--797659 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
797623 TATACACTGT
797633 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 T
797660 TCATTTATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:797977 original size:81 final size:80
Alignment explanation
Indices: 797788--797966 Score: 241
Period size: 81 Copynumber: 2.2 Consensus size: 80
797778 GATTTTTCTA
* * *
797788 CCAAATACATTGCTAGACATTTAGTCTTTTACCAAAGGTATTTAACCTTTCATCTAATTGACATG
1 CCAAATACATAGCTAGGCATTTAGTCTTTCACCAAAGGTATTTAACCTTTCATCTAATTGACATG
797853 ATTGACACCTTTATG
66 ATTGACACCTTTATG
** * ** ** *
797868 CCAAAGGCACAATTAGGGTTTTAGTCTTTCACTCAAAGGTATTTAACCTTTCATCTAATTGGCAT
1 CCAAATACATAGCTAGGCATTTAGTCTTTCAC-CAAAGGTATTTAACCTTTCATCTAATTGACAT
797933 GATTGACACCTTTATG
65 GATTGACACCTTTATG
*
797949 TCAAATACATAGCTAGGC
1 CCAAATACATAGCTAGGC
797967 CATTCATCTT
Statistics
Matches: 80, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
80 22 0.28
81 58 0.73
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (80 bp):
CCAAATACATAGCTAGGCATTTAGTCTTTCACCAAAGGTATTTAACCTTTCATCTAATTGACATG
ATTGACACCTTTATG
Found at i:798421 original size:26 final size:26
Alignment explanation
Indices: 798390--798871 Score: 306
Period size: 26 Copynumber: 20.0 Consensus size: 26
798380 ATGCCTTAAT
798390 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
*
798416 GCATCCTTTCATTCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
798442 GAATCCTTTCATGCATTTCACTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
798468 GCATCCTTTCAT--A---CCTTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
798488 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
798514 GCATCTTTTTCATGC----C-TTAAT-
1 GCATC-CTTTCATGCATTTCATTTATG
*
798535 GCATCCTTTCATGC----C-TTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
*
798555 GCATCATTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
** *
798581 TTATCCTTTCATGC----C-TTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
798601 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
*
798627 GCATCCTTTCATGC----C-TTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
798647 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
*
798673 GCATCCTTTCATGCATATCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
798699 GTATCCTTTCATGC----C-TTAATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
798720 CGC--CATTTCATGCATTTCTTTTATG
1 -GCATCCTTTCATGCATTTCATTTATG
*
798745 GCATCTTTTCATGCCTTAATGCATTTCATTTATG
1 GCATC----C-T---TTCATGCATTTCATTTATG
* *
798779 GTATCCTTTCATGC----C-TTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
* *
798799 GCATCCTTTAATGAATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
*
798825 GCACCCTTTCATGC----C-TTTAT-
1 GCATCCTTTCATGCATTTCATTTATG
*
798845 GCATCCTATCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
798871 G
1 G
798872 ATTCGTTTTA
Statistics
Matches: 358, Mismatches: 45, Indels: 106
0.70 0.09 0.21
Matches are distributed among these distances:
20 97 0.27
21 31 0.09
22 11 0.03
23 1 0.00
24 9 0.03
25 31 0.09
26 146 0.41
27 8 0.02
29 1 0.00
30 1 0.00
31 1 0.00
34 21 0.06
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTCATTTATG
Found at i:798425 original size:46 final size:46
Alignment explanation
Indices: 798358--798871 Score: 334
Period size: 46 Copynumber: 11.3 Consensus size: 46
798348 TTATTAGTTA
* *
798358 ATTTCATTTAGGGAATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
798404 ATTTCATTTATGGCATCCTTTCATTCATTTCATTTATGGAATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC----C-TTAAT-GCATCCTTTCATGC
* *
798456 ATTTCACTTATGGCATCCTTTCATACCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
798502 ATTTCATTTATGGCATCTTTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATC-CTTTCATGCCTTAATGCATCCTTTCATGC
* * * *
798549 ----C-TTAAT-GCATCATTTCATGCATTTCATTTATGTTATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC----C-TTAATG-CATCCTTTCATGC
* *
798595 ----C-TTAAT-GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC----C-TTAAT-GCATCCTTTCATGC
* *
798641 ----C-TTAAT-GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC----C-TTAAT-GCATCCTTTCATGC
* * *
798687 ATATCATTTATGGTATCCTTTCATGCCTTAATGC-GCCATTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCC-TTTCATGC
* *
798733 ATTTCTTTTATGGCAT-CTTT--T--C---ATG---CC-TTAATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
798767 ATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTAATGA
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
798813 ATTTCATTTATGGCACCCTTTCATGCCTTTATGCATCCTATCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
798859 ATTTCATTTATGG
1 ATTTCATTTATGG
798872 ATTCGTTTTA
Statistics
Matches: 400, Mismatches: 35, Indels: 66
0.80 0.07 0.13
Matches are distributed among these distances:
34 20 0.05
35 4 0.01
36 2 0.00
37 1 0.00
38 3 0.01
39 1 0.00
40 8 0.02
41 6 0.01
42 7 0.02
43 2 0.00
44 1 0.00
45 13 0.03
46 234 0.58
47 36 0.09
48 2 0.00
50 2 0.00
51 8 0.02
52 50 0.12
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:798577 original size:118 final size:116
Alignment explanation
Indices: 798455--798768 Score: 396
Period size: 118 Copynumber: 2.7 Consensus size: 116
798445 TCCTTTCATG
*
798455 CATTTCACTTATGGCATCCTTTCATACCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCT
1 CATTTCA-TTATGG-ATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATC-
798520 TTTTCATGCCTTAATGCATCCTTTCATGC-C-TTAAT-GCATCATTTCATG---
63 TTTTCATGCCTTAATGCATCCTTTCATGCTCATTAATGGCATCATTTCATGCAT
* *
798568 CATTTCATTTATGTTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCC
1 CATTTCA-TTATG-GATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCT
* *
798633 TTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCAT
64 TTTCATGCCTTAATGCATCCTTTCATGC---TCATTAATGGCATCATTTCATGCAT
* *
798689 -A--TCATTTATGGTATCCTTTCATGCCTTAATGC-GCCATTTCATGCATTTCTTTTATGGCATC
1 CATTTCA-TTATGG-ATCCTTTCATGCCTTAATGCATCC-TTTCATGCATTTCATTTATGGCATC
798750 TTTTCATGCCTTAATGCAT
63 TTTTCATGCCTTAATGCAT
798769 TTCATTTATG
Statistics
Matches: 179, Mismatches: 10, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
112 28 0.16
113 60 0.34
116 1 0.01
117 6 0.03
118 83 0.46
120 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.45
Consensus pattern (116 bp):
CATTTCATTATGGATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCTTT
TCATGCCTTAATGCATCCTTTCATGCTCATTAATGGCATCATTTCATGCAT
Found at i:798659 original size:20 final size:20
Alignment explanation
Indices: 798468--798660 Score: 152
Period size: 20 Copynumber: 8.7 Consensus size: 20
798458 TTCACTTATG
*
798468 GCATCCTTTCATACCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
798488 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
*
798513 GGCATCTTTTTCATGCCTTAAT
1 -GCATC-CTTTCATGCCTTAAT
798535 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
798555 GCATCATTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
*
798580 GTTATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
*
798601 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
798626 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
798647 GCATCCTTTCATGC
1 GCATCCTTTCATGC
798661 ATTTCATTTA
Statistics
Matches: 141, Mismatches: 13, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
20 66 0.47
21 14 0.10
22 6 0.04
23 1 0.01
24 3 0.02
25 13 0.09
26 30 0.21
27 8 0.06
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:798680 original size:72 final size:72
Alignment explanation
Indices: 798601--798838 Score: 316
Period size: 72 Copynumber: 3.2 Consensus size: 72
798591 ATGCCTTAAT
*
798601 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTC
1 GCATCCTTTCATGCATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTC
798666 ATTTATG
66 ATTTATG
* *
798673 GCATCCTTTCATGCATATCATTTATGGTATCCTTTCATGCCTTAATGC-GCCATTTCATGCATTT
1 GCATCCTTTCATGCATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCC-TTTCATGCATTT
*
798737 CTTTTATG
65 CATTTATG
* *
798745 GCATCTTTTCATGCCTTAATGCATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTAA
1 GCATC----C-T---TTCATGCATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCA
*
798810 TGAATTTCATTTATG
58 TGCATTTCATTTATG
*
798825 GCACCCTTTCATGC
1 GCATCCTTTCATGC
798839 CTTTATGCAT
Statistics
Matches: 144, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
71 2 0.01
72 76 0.53
75 1 0.01
76 2 0.01
77 1 0.01
80 60 0.42
81 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (72 bp):
GCATCCTTTCATGCATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTC
ATTTATG
Found at i:798777 original size:34 final size:34
Alignment explanation
Indices: 798729--798802 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
798719 GCGCCATTTC
* *
798729 ATGCATTTCTTTTATGGCATCTTTTCATGCCTTA
1 ATGCATTTCATTTATGGCATCCTTTCATGCCTTA
*
798763 ATGCATTTCATTTATGGTATCCTTTCATGCCTTA
1 ATGCATTTCATTTATGGCATCCTTTCATGCCTTA
798797 ATGCAT
1 ATGCAT
798803 CCTTTAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (34 bp):
ATGCATTTCATTTATGGCATCCTTTCATGCCTTA
Found at i:798817 original size:80 final size:80
Alignment explanation
Indices: 798683--798848 Score: 244
Period size: 80 Copynumber: 2.1 Consensus size: 80
798673 GCATCCTTTC
* * *
798683 ATGCATATCATTTATGGTATCCTTTCATGCCTTAATGCGCCATTTCATGCATTTCTTTTATGGCA
1 ATGCATATCATTTATGGTATCCTTTCATGCCTTAATGCGCCATTTAATGAATTTCATTTATGGCA
* *
798748 TCTTTTCATGCCTTA
66 CCCTTTCATGCCTTA
* *
798763 ATGCATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCC-TTTAATGAATTTCATTTATGGC
1 ATGCATATCATTTATGGTATCCTTTCATGCCTTAATGC-GCCATTTAATGAATTTCATTTATGGC
*
798827 ACCCTTTCATGCCTTT
65 ACCCTTTCATGCCTTA
798843 ATGCAT
1 ATGCAT
798849 CCTATCATGC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 75 0.97
81 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (80 bp):
ATGCATATCATTTATGGTATCCTTTCATGCCTTAATGCGCCATTTAATGAATTTCATTTATGGCA
CCCTTTCATGCCTTA
Found at i:798858 original size:20 final size:21
Alignment explanation
Indices: 798819--798858 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
798809 ATGAATTTCA
*
798819 TTTATGGCACCCTTTCATGCC
1 TTTATGGCACCCTATCATGCC
*
798840 TTTAT-GCATCCTATCATGC
1 TTTATGGCACCCTATCATGC
798859 ATTTCATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.17, C:0.30, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTATGGCACCCTATCATGCC
Found at i:799308 original size:17 final size:18
Alignment explanation
Indices: 799271--799310 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
799261 TTCAGGCTCA
799271 ATAGTATCGATACCCCTACT
1 ATAGTATCGATA--CCTACT
799291 ATAGTATCGATA-CTACT
1 ATAGTATCGATACCTACT
799308 ATA
1 ATA
799311 CTATGGTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (18 bp):
ATAGTATCGATACCTACT
Found at i:799340 original size:42 final size:41
Alignment explanation
Indices: 799289--799381 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 41
799279 GATACCCCTA
* * * * *
799289 CTAT-AGTATCGATACTACTATACTATGGTACCAATACCTTT
1 CTATCAGTATCGACACTAATACACTATAGTACCAATA-CTCT
799330 CTATCAGTATCGACACTAATACACTATAGTACCAATACTCT
1 CTATCAGTATCGACACTAATACACTATAGTACCAATACTCT
*
799371 CTTTCAGTATC
1 CTATCAGTATC
799382 AATGCCATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 17 0.38
42 28 0.62
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (41 bp):
CTATCAGTATCGACACTAATACACTATAGTACCAATACTCT
Found at i:802470 original size:20 final size:20
Alignment explanation
Indices: 802441--802483 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
802431 ATTTCACCAC
802441 ATGCAACTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
*
802461 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
802481 ATG
1 ATG
802484 GGATTTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:810949 original size:20 final size:20
Alignment explanation
Indices: 810920--810962 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
810910 ATTTCACCAC
*
810920 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
810940 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
810960 ATG
1 ATG
810963 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:819590 original size:76 final size:78
Alignment explanation
Indices: 819474--819618 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 78
819464 TTCGAATTAA
*
819474 TTAAAATCTTATTTAATTTATTCAAACTAAATATAAATT-AAAGAATTATAATC-GAATTACAAT
1 TTAAAATCTTATTTAATTTATTCAAACTAAATATAAATTAAAAGAATTATAATCAAAATTACAAT
819537 ATTTAACATTTAT
66 ATTTAACATTTAT
* * ** * * *
819550 TTAAACTCTTATTTAA-TTATTCAGAATTAAATATTTATTAAAAGAGTTGTAATCAAAATTACAT
1 TTAAAATCTTATTTAATTTATTCA-AACTAAATATAAATTAAAAGAATTATAATCAAAATTACAA
819614 TATTT
65 TATTT
819619 TAATAGTTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
75 7 0.12
76 27 0.47
77 12 0.21
78 12 0.21
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (78 bp):
TTAAAATCTTATTTAATTTATTCAAACTAAATATAAATTAAAAGAATTATAATCAAAATTACAAT
ATTTAACATTTAT
Found at i:826467 original size:78 final size:79
Alignment explanation
Indices: 826332--826476 Score: 181
Period size: 77 Copynumber: 1.8 Consensus size: 79
826322 TATTAGAGAT
*
826332 TTTAATTTAATTCGAACTAAATATCCATTAAAGACTTATAATTCAAATTACAATC-TTTAACGTT
1 TTTAATTTAATTCGAACTAAATATCCATTAAAGACATATAATTCAAATTACAATCTTTTAACGTT
826396 TATTTAAACTCTTA
66 TATTTAAACTCTTA
* * * * *
826410 TTTAA-TTATTTCGAATTAAATATCTATTAAAAGA-ATAGTAA-TCAAAATTACATTCTTTTAAT
1 TTTAATTTAATTCGAACTAAATATCCATT-AAAGACATA-TAATTC-AAATTACAATCTTTTAAC
826472 GTTTA
63 GTTTA
826477 CTTACTATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
77 24 0.42
78 23 0.40
79 10 0.18
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (79 bp):
TTTAATTTAATTCGAACTAAATATCCATTAAAGACATATAATTCAAATTACAATCTTTTAACGTT
TATTTAAACTCTTA
Found at i:837073 original size:2 final size:2
Alignment explanation
Indices: 837066--837096 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
837056 AACAGCTTTA
837066 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 A
837097 GTTTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:839041 original size:53 final size:54
Alignment explanation
Indices: 838954--839057 Score: 156
Period size: 53 Copynumber: 1.9 Consensus size: 54
838944 CCTAAAATTG
* * * *
838954 TTAATAATATTGATACTATCCTCTGATTAACGATACTTCTTGTTGAAGTATAGA
1 TTAATAATATCGATACTATCCTCTGAGTAACGATACTTCTTGCTAAAGTATAGA
*
839008 TTAA-AATATCGATACTATCCTCTGAGTATCGATACTTCTTGCTAAAGTAT
1 TTAATAATATCGATACTATCCTCTGAGTAACGATACTTCTTGCTAAAGTAT
839058 CGATACTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 41 0.91
54 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (54 bp):
TTAATAATATCGATACTATCCTCTGAGTAACGATACTTCTTGCTAAAGTATAGA
Found at i:850376 original size:20 final size:21
Alignment explanation
Indices: 850353--850392 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
850343 TATCATTATT
850353 CCTTGAACA-GTATCGATACC
1 CCTTGAACAGGTATCGATACC
850373 CCTTGAACAGGTATCGATAC
1 CCTTGAACAGGTATCGATAC
850393 TCCTCTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
CCTTGAACAGGTATCGATACC
Found at i:851108 original size:14 final size:15
Alignment explanation
Indices: 851089--851118 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
851079 CTTCCACTTG
851089 AGAGGAA-ATGAAGA
1 AGAGGAATATGAAGA
851103 AGAGGAATATGAAGA
1 AGAGGAATATGAAGA
851118 A
1 A
851119 TACAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (15 bp):
AGAGGAATATGAAGA
Found at i:864841 original size:30 final size:30
Alignment explanation
Indices: 864803--864894 Score: 80
Period size: 30 Copynumber: 3.0 Consensus size: 30
864793 CCCGAAGGAC
864803 CTATCCATATGTTCCGAAGAACATAGGTAA
1 CTATCCATATGTTCCGAAGAACATAGGTAA
* * * * *
864833 CTTTCCATATATCCCGAA-AGATATATGTAAA
1 CTATCCATATGTTCCGAAGA-ACATAGGT-AA
**
864864 CTATCCATATGTCTCAAAAG-ACATAGGTAA
1 CTATCCATATGT-TCCGAAGAACATAGGTAA
864894 C
1 C
864895 CCTCGACTCT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
29 1 0.02
30 24 0.52
31 18 0.39
32 3 0.07
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (30 bp):
CTATCCATATGTTCCGAAGAACATAGGTAA
Found at i:864884 original size:31 final size:31
Alignment explanation
Indices: 864823--864893 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
864813 GTTCCGAAGA
* *
864823 ACATAGGT-AACTTTCCATATATCCCGAAAG
1 ACATAGGTAAACTATCCATATATCCCAAAAG
* * * *
864853 ATATATGTAAACTATCCATATGTCTCAAAAG
1 ACATAGGTAAACTATCCATATATCCCAAAAG
864884 ACATAGGTAA
1 ACATAGGTAA
864894 CCCTCGACTC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (31 bp):
ACATAGGTAAACTATCCATATATCCCAAAAG
Found at i:869441 original size:30 final size:31
Alignment explanation
Indices: 869406--869479 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
869396 CCCGAAGGAC
* *
869406 CTATCCATATGTTCTGAATAACATAGAT-AA
1 CTATCCATATGTCCTAAATAACATAGATAAA
* * *
869436 CTATCCATATATCCTAAATGACATAGGTAAA
1 CTATCCATATGTCCTAAATAACATAGATAAA
869467 CTATCCATATGTC
1 CTATCCATATGTC
869480 TCGAAAGACA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 23 0.62
31 14 0.38
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (31 bp):
CTATCCATATGTCCTAAATAACATAGATAAA
Found at i:869472 original size:31 final size:31
Alignment explanation
Indices: 869406--869496 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
869396 CCCGAAGGAC
* * * *
869406 CTATCCATATGTTCTGAATAACATAGAT-AA
1 CTATCCATATGTCCTAAATGACATAGGTAAA
*
869436 CTATCCATATATCCTAAATGACATAGGTAAA
1 CTATCCATATGTCCTAAATGACATAGGTAAA
*
869467 CTATCCATATGTCTCGAAA-GACATAGGTAA
1 CTATCCATATGTC-CTAAATGACATAGGTAA
869497 CCCTCGACCC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 23 0.44
31 25 0.48
32 4 0.08
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (31 bp):
CTATCCATATGTCCTAAATGACATAGGTAAA
Found at i:876860 original size:128 final size:128
Alignment explanation
Indices: 876728--877248 Score: 463
Period size: 128 Copynumber: 4.0 Consensus size: 128
876718 GAAATTGAAA
* *
876728 AAAAAAATT-AGAGGCCTTAATTATAAAGGTAAAAATTGAGA-TAAAAAAATT-AGGGCCTCAAT
1 AAAAAAATTAAG-GGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCCTCAAT
* * * * *
876790 TACAAAGGT-ATAATTGAGATTGAAAAAGCTTAGGGCCTCAATTATAAATATAGAAAGTGAGATT
65 TATAAAGTTAAAAAATGAGATT-AAAAA-ATTAGGGCCTCAATTATAAATATAGAAAGTGAGATT
876854 G
128 G
* ** * * * * * *
876855 CAAAAAACTTAAGGATCTCAATTATAAAGTTAAAAAGTGAGATTGAAAAACTTGACGACCAT-AA
1 -AAAAAAATTAAGGGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCC-TCAA
** * *
876919 TTATAAAGTTAAAAAATGAGATTAAAAAATTAGGAGCCTCAATTATAAAGGTAGAAATTGATATT
64 TTATAAAGTTAAAAAATGAGATTAAAAAATTAGG-GCCTCAATTATAAATATAGAAAGTGAGATT
876984 G
128 G
* *
876985 -AAAAACTTAAGGGCCTCAATTATAAAGGTAGAAAA-TGAGGTTGAAAAAAAACTTAAGGGCCTC
1 AAAAAAATTAAGGGCCTCAATTATAAAGGTA-AAAAGTGAGATT--AAAAAAA-TTAAGGGCCTC
*
877048 AATTATAAAGTTAAAAAGTG-G-TATAACAAAATTAAGGGCCTCAATTATAAAGGTAGAAGAGGT
62 AATTATAAAGTTAAAAAATGAGAT-TAA-AAAATT-AGGGCCTCAATTATAAA--T-----A--T
877111 AGAAAGTGAGATTG
115 AGAAAGTGAGATTG
*
877125 AAAAAAACTTAAGGGCCTCAATTATAAA-GTAAAAAGTGAGATTAAAAAAATTAGGGGCCTCAAT
1 AAAAAAA-TTAAGGGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCCTCAAT
* ** * * * *
877189 TATAAAG-TAAAAAA-GGGATTGGAAAATTAGAGACTTCAATTATAAAGATAAAAAGTGAGA
65 TATAAAGTTAAAAAATGAGATTAAAAAATTAG-GGCCTCAATTATAAATATAGAAAGTGAGA
877249 CTAGATAATA
Statistics
Matches: 321, Mismatches: 43, Indels: 59
0.76 0.10 0.14
Matches are distributed among these distances:
127 11 0.03
128 65 0.20
129 21 0.07
130 56 0.17
131 56 0.17
132 3 0.01
135 2 0.01
136 20 0.06
137 8 0.02
138 21 0.07
139 7 0.02
140 17 0.05
141 14 0.04
142 20 0.06
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.25
Consensus pattern (128 bp):
AAAAAAATTAAGGGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGGCCTCAATT
ATAAAGTTAAAAAATGAGATTAAAAAATTAGGGCCTCAATTATAAATATAGAAAGTGAGATTG
Found at i:876921 original size:43 final size:43
Alignment explanation
Indices: 876729--877248 Score: 347
Period size: 42 Copynumber: 11.9 Consensus size: 43
876719 AAATTGAAAA
* * * * *
876729 AAAAAATTAGAGG-CCTTAATTATAAAGGTAAAAATTGAGA-TA
1 AAAAACTTA-AGGACCTCAATTATAAAGTTAAAAAGTGAGATTG
* * * * * *
876771 AAAAAATT-AGGGCCTCAATTACAAAGGT-ATAATTGAGATTG
1 AAAAACTTAAGGACCTCAATTATAAAGTTAAAAAGTGAGATTG
* *
876812 AAAAAGCTT-AGGGCCTCAATTATAAA-TATAGAAAGTGAGATTG
1 AAAAA-CTTAAGGACCTCAATTATAAAGT-TAAAAAGTGAGATTG
*
876855 CAAAAAACTTAAGGATCTCAATTATAAAGTTAAAAAGTGAGATTG
1 --AAAAACTTAAGGACCTCAATTATAAAGTTAAAAAGTGAGATTG
* * *
876900 AAAAACTTGACGACCAT-AATTATAAAGTTAAAAAATGAGATT-
1 AAAAACTTAAGGACC-TCAATTATAAAGTTAAAAAGTGAGATTG
* * * * *
876942 AAAAAATT-AGGAGCCTCAATTATAAAGGTAGAAATTGATATTG
1 AAAAACTTAAGGA-CCTCAATTATAAAGTTAAAAAGTGAGATTG
* * *
876985 AAAAACTTAAGGGCCTCAATTATAAAGGTAGAAAA-TGAGGTTG
1 AAAAACTTAAGGACCTCAATTATAAAGTTA-AAAAGTGAGATTG
*
877028 AAAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAAGTG-G-TAT-
1 ---AAAAACTTAAGGACCTCAATTATAAAGTTAAAAAGTGAGAT-TG
* * *
877072 AACAAAATTAAGGGCCTCAATTATAAAGGTAGAAGAGGTAGAAAGTGAGATTG
1 AA-AAACTTAAGGACCTCAATTATAAA-GT--------TAAAAAGTGAGATTG
* *
877125 AAAAAAACTTAAGGGCCTCAATTATAAAG-TAAAAAGTGAGATTA
1 --AAAAACTTAAGGACCTCAATTATAAAGTTAAAAAGTGAGATTG
* * * *
877169 AAAAAATTAGGGGCCTCAATTATAAAGTAAAAAAG-G-GATTG
1 AAAAACTTAAGGACCTCAATTATAAAGTTAAAAAGTGAGATTG
* * *
877210 GAAAA-TT-AGAGACTTCAATTATAAAGATAAAAAGTGAGA
1 AAAAACTTAAG-GACCTCAATTATAAAGTTAAAAAGTGAGA
877249 CTAGATAATA
Statistics
Matches: 395, Mismatches: 44, Indels: 78
0.76 0.09 0.15
Matches are distributed among these distances:
39 1 0.00
40 34 0.09
41 35 0.09
42 108 0.27
43 84 0.21
44 24 0.06
45 40 0.10
46 32 0.08
51 8 0.02
52 2 0.01
53 2 0.01
54 23 0.06
55 2 0.01
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAACTTAAGGACCTCAATTATAAAGTTAAAAAGTGAGATTG
Found at i:876991 original size:85 final size:85
Alignment explanation
Indices: 876729--877202 Score: 387
Period size: 88 Copynumber: 5.4 Consensus size: 85
876719 AAATTGAAAA
* * *
876729 AAAAAATTAGAGGCCTTAATTATAAAGGTAAAAATTGAGA-TAAAAAAA-TT-AGGGCCTCAATT
1 AAAAACTTAG-GGCCTCAATTATAAAGGTAAAAAATGAGATTAAAAAAACTTAAGGGCCTCAATT
* *
876791 ACAAAGGTATAATTGAGATTG
65 ATAAAGGTAAAATTGAGATTG
** * * * **
876812 AAAAAGCTTAGGGCCTCAATTATAAATATAGAAAGTGAGATTGCAAAAAACTTAAGGATCTCAAT
1 AAAAA-CTTAGGGCCTCAATTATAAAGGTAAAAAATGAGATT-AAAAAAACTTAAGGGCCTCAAT
* *
876877 TATAAAGTTAAAAAGTGAGATTG
64 TATAAAGGT-AAAATTGAGATTG
* * *
876900 AAAAACTTGACGACCAT-AATTATAAAGTTAAAAAATGAGATT-AAAAAA-TT-AGGAGCCTCAA
1 AAAAACTT-AGGGCC-TCAATTATAAAGGTAAAAAATGAGATTAAAAAAACTTAAGG-GCCTCAA
*
876961 TTATAAAGGTAGAAATTGATATTG
63 TTATAAAGGTA-AAATTGAGATTG
* *
876985 AAAAACTTAAGGGCCTCAATTATAAAGGTAGAAAATGAGGTTGAAAAAAAACTTAAGGGCCTCAA
1 AAAAACTT-AGGGCCTCAATTATAAAGGTAAAAAATGAGATT--AAAAAAACTTAAGGGCCTCAA
* *
877050 TTATAAAGTTAAAAAGTG-G-TAT-
63 TTATAAAGGT-AAAATTGAGAT-TG
*
877072 AACAAAATTAAGGGCCTCAATTATAAAGGTAGAAGAGGTAGAAAGTGAGATTGAAAAAAACTTAA
1 AA-AAACTT-AGGGCCTCAATTATAAAGGT---A-A---A-AAA-TGAGATT-AAAAAAACTTAA
* *
877137 GGGCCTCAATTATAAA-GTAAAAAGTGAGATTA
54 GGGCCTCAATTATAAAGGT-AAAATTGAGATTG
*
877169 AAAAAATTAGGGGCCTCAATTATAAA-GTAAAAAA
1 AAAAACTTA-GGGCCTCAATTATAAAGGTAAAAAA
877203 GGGATTGGAA
Statistics
Matches: 321, Mismatches: 38, Indels: 60
0.77 0.09 0.14
Matches are distributed among these distances:
83 29 0.09
84 10 0.03
85 66 0.21
86 8 0.02
87 25 0.08
88 75 0.23
89 24 0.07
90 4 0.01
91 2 0.01
92 1 0.00
95 13 0.04
96 55 0.17
97 9 0.03
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (85 bp):
AAAAACTTAGGGCCTCAATTATAAAGGTAAAAAATGAGATTAAAAAAACTTAAGGGCCTCAATTA
TAAAGGTAAAATTGAGATTG
Found at i:877143 original size:96 final size:97
Alignment explanation
Indices: 877010--877195 Score: 297
Period size: 96 Copynumber: 1.9 Consensus size: 97
877000 TCAATTATAA
*
877010 AGGTAGAAAATGAGGTTGAAAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAAGTG-G-TATA
1 AGGTAGAAAATGAGATTGAAAAAAAACTTAAGGGCCTCAATTATAAAG-TAAAAAGTGAGAT-TA
*
877073 ACAAAATTAAGGGCCTCAATTATAAAGGTAGAAG
64 AAAAAATTAAGGGCCTCAATTATAAAGGTAGAAG
*
877107 AGGTAGAAAGTGAGATTG-AAAAAAACTTAAGGGCCTCAATTATAAAGTAAAAAGTGAGATTAAA
1 AGGTAGAAAATGAGATTGAAAAAAAACTTAAGGGCCTCAATTATAAAGTAAAAAGTGAGATTAAA
*
877171 AAAATTAGGGGCCTCAATTATAAAG
66 AAAATTAAGGGCCTCAATTATAAAG
877196 TAAAAAAGGG
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
95 9 0.11
96 57 0.69
97 17 0.20
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.23
Consensus pattern (97 bp):
AGGTAGAAAATGAGATTGAAAAAAAACTTAAGGGCCTCAATTATAAAGTAAAAAGTGAGATTAAA
AAAATTAAGGGCCTCAATTATAAAGGTAGAAG
Found at i:877216 original size:40 final size:43
Alignment explanation
Indices: 877113--877248 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 43
877103 GAAGAGGTAG
*
877113 AAAGTGAGATTGAAAAAAACTTAAGGGCCTCAATTATAAAGT-AA
1 AAAGTGAGATT-AAAAAAA-TTAGGGGCCTCAATTATAAAGTAAA
877157 AAAGTGAGATTAAAAAAATTAGGGGCCTCAATTATAAAGTAAA
1 AAAGTGAGATTAAAAAAATTAGGGGCCTCAATTATAAAGTAAA
** * * *
877200 AAAG-G-GATT-GGAAAATTAGAGACTTCAATTATAAAG-ATAA
1 AAAGTGAGATTAAAAAAATTAGGGGCCTCAATTATAAAGTA-AA
877240 AAAGTGAGA
1 AAAGTGAGA
877249 CTAGATAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
39 1 0.01
40 28 0.34
41 5 0.06
42 24 0.29
43 13 0.16
44 11 0.13
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.23
Consensus pattern (43 bp):
AAAGTGAGATTAAAAAAATTAGGGGCCTCAATTATAAAGTAAA
Found at i:877345 original size:28 final size:28
Alignment explanation
Indices: 877312--877383 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
877302 AGGAGCTTAT
877312 AAAGATGAAAAAATGGTGCCCTAATTGC
1 AAAGATGAAAAAATGGTGCCCTAATTGC
877340 AAAGATGAAAAAATGGTGCCCTAATTGC
1 AAAGATGAAAAAATGGTGCCCTAATTGC
*
877368 AAAGATGAAAATATGG
1 AAAGATGAAAAAATGG
877384 AGGCCCTCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (28 bp):
AAAGATGAAAAAATGGTGCCCTAATTGC
Found at i:878837 original size:37 final size:37
Alignment explanation
Indices: 878787--878943 Score: 203
Period size: 38 Copynumber: 4.2 Consensus size: 37
878777 GTTGAGACTG
* *
878787 ATATAATATATATATTCCAAAAATTGTTTTCAAAACT
1 ATATAATATATATATTTCAAAAATCGTTTTCAAAACT
*
878824 ATATAATATATATATTTTCAAAAATCATTTTCAAAAACT
1 ATATAATATATATA-TTTCAAAAATCGTTTTC-AAAACT
*
878863 ATAT-A-ATATAT-TTTCAAAAATCGTTTTCAAAATT
1 ATATAATATATATATTTCAAAAATCGTTTTCAAAACT
* * *
878897 ATATAATATATGTTTTTTTAAAAATCGTTTTCAAAACT
1 ATATAATATAT-ATATTTCAAAAATCGTTTTCAAAACT
878935 ATATAATAT
1 ATATAATAT
878944 GTGTTTTTTT
Statistics
Matches: 106, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
34 9 0.08
35 17 0.16
36 4 0.04
37 21 0.20
38 45 0.42
39 10 0.09
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (37 bp):
ATATAATATATATATTTCAAAAATCGTTTTCAAAACT
Found at i:878889 original size:73 final size:75
Alignment explanation
Indices: 878787--878943 Score: 230
Period size: 73 Copynumber: 2.1 Consensus size: 75
878777 GTTGAGACTG
*
878787 ATATAATATATATATTCCAAAAATTGTTTTCAAAACTATATAATATATATATTTTCAAAAATCAT
1 ATATAATATATATATTCCAAAAATCGTTTTCAAAACTATATAATATATATATTTTCAAAAATCAT
878852 TTTCAAAAACT
66 TTTC-AAAACT
* * * * *
878863 ATATAATATAT-T-TT-CAAAAATCGTTTTCAAAATTATATAATATATGTTTTTTTAAAAATCGT
1 ATATAATATATATATTCCAAAAATCGTTTTCAAAACTATATAATATATATATTTTCAAAAATCAT
878925 TTTCAAAACT
66 TTTCAAAACT
878935 ATATAATAT
1 ATATAATAT
878944 GTGTTTTTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 15 0.20
73 46 0.61
74 2 0.03
75 1 0.01
76 11 0.15
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (75 bp):
ATATAATATATATATTCCAAAAATCGTTTTCAAAACTATATAATATATATATTTTCAAAAATCAT
TTTCAAAACT
Found at i:881800 original size:42 final size:42
Alignment explanation
Indices: 881741--881837 Score: 194
Period size: 42 Copynumber: 2.3 Consensus size: 42
881731 CCATGATGAA
881741 TAATTTGTTTGATTCCCATTAATCAAGCACTTGATTTAGGAC
1 TAATTTGTTTGATTCCCATTAATCAAGCACTTGATTTAGGAC
881783 TAATTTGTTTGATTCCCATTAATCAAGCACTTGATTTAGGAC
1 TAATTTGTTTGATTCCCATTAATCAAGCACTTGATTTAGGAC
881825 TAATTTGTTTGAT
1 TAATTTGTTTGAT
881838 CCCTAAAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (42 bp):
TAATTTGTTTGATTCCCATTAATCAAGCACTTGATTTAGGAC
Found at i:894997 original size:42 final size:42
Alignment explanation
Indices: 894931--895029 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
894921 CTCATCAGTC
* *
894931 TCATCATCATCATCATCAGCTTCTTCATTTACTGTGCTGTCA
1 TCATCATCATCATCAACAGCTTCTTCATTTACCGTGCTGTCA
* *
894973 TCATCACCATCATCAACAGTTTCTTCATTTACCGTGCTGTCA
1 TCATCATCATCATCAACAGCTTCTTCATTTACCGTGCTGTCA
*
895015 TCATCGTCATCATCA
1 TCATCATCATCATCA
895030 GATGATGATG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (42 bp):
TCATCATCATCATCAACAGCTTCTTCATTTACCGTGCTGTCA
Found at i:895330 original size:162 final size:159
Alignment explanation
Indices: 895144--895434 Score: 363
Period size: 159 Copynumber: 1.8 Consensus size: 159
895134 TTGTAGTTCA
* **
895144 TCAGCTGATGATTTGCTGTCAGATCCTGTGTCATCA-TCAATGTTGGAATCACCAAGGAACGCAT
1 TCAGCTGATGATTTACTGTCAGATCCTGTGTCATCATTCAA-GTCCGAATCACCAAGGAACG---
* * * * *
895208 CATCATCATCATTAGATTCTTCATTTCCCTT-TTTTGCAGAGGATTCCATATGAACTTCTGCAGG
62 CATCATCATCATTAGATTCTTCATTCCCCTTCTCTT-CAGAGGAATCCATATGAACTTCCGCAAG
895272 GAGATCTGGAACACTTAGAGCAGTGATTTGCTCT
126 GAGATCTGGAACACTTAGAGCAGTGATTTGCTCT
* * * * * *
895306 TCAGCT-AGTGATTTACTTTCAGATCCTGTGTCATTATTGAAGTCCGAGTCGCCAAGGAATGCAT
1 TCAGCTGA-TGATTTACTGTCAGATCCTGTGTCATCATTCAAGTCCGAATCACCAAGGAACGCAT
* *
895370 CATCATCATTAGATTCTTCATTCCCCTTCTCTTCTGAGGAATCCATATGACCTTCCGCAAGGAGA
65 CATCATCATTAGATTCTTCATTCCCCTTCTCTTCAGAGGAATCCATATGAACTTCCGCAAGGAGA
895435 ACCGAAACGT
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
159 57 0.52
160 3 0.03
161 1 0.01
162 46 0.42
163 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (159 bp):
TCAGCTGATGATTTACTGTCAGATCCTGTGTCATCATTCAAGTCCGAATCACCAAGGAACGCATC
ATCATCATTAGATTCTTCATTCCCCTTCTCTTCAGAGGAATCCATATGAACTTCCGCAAGGAGAT
CTGGAACACTTAGAGCAGTGATTTGCTCT
Found at i:901653 original size:29 final size:29
Alignment explanation
Indices: 901611--901694 Score: 150
Period size: 29 Copynumber: 2.9 Consensus size: 29
901601 ATTTGAGGTA
*
901611 GAATAAGCCTCAACAACTTCTAAGATGTG
1 GAATAAGCCTCAACAACTTCTAAGATATG
901640 GAATAAGCCTCAACAACTTCTAAGATATG
1 GAATAAGCCTCAACAACTTCTAAGATATG
*
901669 GAATAATCCTCAACAACTTCTAAGAT
1 GAATAAGCCTCAACAACTTCTAAGAT
901695 CTCCATCATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (29 bp):
GAATAAGCCTCAACAACTTCTAAGATATG
Found at i:902370 original size:4 final size:4
Alignment explanation
Indices: 902347--902459 Score: 55
Period size: 4 Copynumber: 29.0 Consensus size: 4
902337 TTCCTTATTC
* * * * *
902347 TCTT TCTT ATCTA TCTTT TCTT TCTT TCTT TCTTT TATT TTTT TATT TTTT
1 TCTT TCTT -TCTT TC-TT TCTT TCTT TCTT TC-TT TCTT TCTT TCTT TCTT
*
902398 TCCTT T-TCT T-TT TCTT TCTTT TCTT T-TT TC-T T-TT TCTT T-AT T-TT
1 T-CTT TCT-T TCTT TCTT TC-TT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
902442 TCTT TC-T T-TT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT
902460 CGAGTGCGGT
Statistics
Matches: 87, Mismatches: 9, Indels: 26
0.71 0.07 0.21
Matches are distributed among these distances:
3 18 0.21
4 53 0.61
5 16 0.18
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (4 bp):
TCTT
Found at i:902404 original size:6 final size:6
Alignment explanation
Indices: 902394--902456 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
902384 TTTTTTTATT
* *
902394 TTTTTC CTTTTC TTTTTC --TTTC -TTTTC TTTTTTC TTTTTC TTTATTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTT-TTC
902441 TTCTTTC TTTTTC TTT
1 TT-TTTC TTTTTC TTT
902457 CTTCGAGTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 4 0.08
5 4 0.08
6 26 0.54
7 13 0.27
8 1 0.02
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:902415 original size:10 final size:10
Alignment explanation
Indices: 902367--902459 Score: 82
Period size: 10 Copynumber: 9.0 Consensus size: 10
902357 CTATCTTTTC
902367 TTTCTTTCTT
1 TTTCTTTCTT
*
902377 TCTT-TTATTTT
1 T-TTCTT-TCTT
*
902388 TTTATTT-TT
1 TTTCTTTCTT
*
902397 TTCCTTTTCTT
1 TTTC-TTTCTT
902408 TTTCTTTCTTT
1 TTTCTTTC-TT
*
902419 TCTTTTTTCTT
1 T-TTCTTTCTT
*
902430 TTTCTTTATT
1 TTTCTTTCTT
902440 TTTCTTTCTT
1 TTTCTTTCTT
902450 TTTCTTTCTT
1 TTTCTTTCTT
902460 CGAGTGCGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
9 4 0.06
10 39 0.57
11 19 0.28
12 6 0.09
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:902415 original size:16 final size:15
Alignment explanation
Indices: 902367--902459 Score: 85
Period size: 14 Copynumber: 6.7 Consensus size: 15
902357 CTATCTTTTC
902367 TTTCTTTC-TTTC-T
1 TTTCTTTCTTTTCTT
* *
902380 TTTATTT-TTTTATT
1 TTTCTTTCTTTTCTT
*
902394 TTT-TTCCTTTTCTT
1 TTTCTTTCTTTTCTT
902408 TTTCTTTCTTTTCTT
1 TTTCTTTCTTTTCTT
*
902423 TTT-TCT-TTTTCTT
1 TTTCTTTCTTTTCTT
902436 TATT-TTTC-TTTCTT
1 T-TTCTTTCTTTTCTT
902450 TTTCTTTCTT
1 TTTCTTTCTT
902460 CGAGTGCGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
13 21 0.32
14 30 0.46
15 14 0.22
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTTTCTTTTCTT
Found at i:902432 original size:42 final size:42
Alignment explanation
Indices: 902367--902459 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 42
902357 CTATCTTTTC
902367 TTTCTTTC-TTTCTTTTATTTTTTTATTT-TTTTCCTTTTCTT
1 TTTCTTTCTTTTCTTTTATTTTTTTATTTATTTTCC-TTTCTT
* *
902408 TTTCTTTCTTTTCTTTT-TTCTTTTTCTTTATTTTTCTTTCTT
1 TTTCTTTCTTTTCTTTTATT-TTTTTATTTATTTTCCTTTCTT
902450 TTTCTTTCTT
1 TTTCTTTCTT
902460 CGAGTGCGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
41 10 0.21
42 32 0.68
43 5 0.11
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (42 bp):
TTTCTTTCTTTTCTTTTATTTTTTTATTTATTTTCCTTTCTT
Found at i:904220 original size:47 final size:45
Alignment explanation
Indices: 904141--904270 Score: 160
Period size: 47 Copynumber: 2.9 Consensus size: 45
904131 AAAATAATAT
*
904141 AAAAT-CTTACCATTTA-TCTCATAAGCTTGTAAGCTTATTTTACC
1 AAAATACTTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTACC
*
904185 AAAATACTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATC
1 AAAATACTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACC
* * *
904232 AATATACTTGCCA-TTATT-CATAAGCTCATAAGCTTATTT
1 AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
904271 GCATACTTAC
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
43 20 0.26
44 8 0.10
45 10 0.13
46 2 0.03
47 35 0.45
48 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (45 bp):
AAAATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
Found at i:915208 original size:15 final size:15
Alignment explanation
Indices: 915188--915218 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
915178 TCCTTCTAGG
915188 ACCTACAAGGGGAAA
1 ACCTACAAGGGGAAA
915203 ACCTACAAGGGGAAA
1 ACCTACAAGGGGAAA
915218 A
1 A
915219 GAGTACTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.26, T:0.06
Consensus pattern (15 bp):
ACCTACAAGGGGAAA
Found at i:925489 original size:19 final size:20
Alignment explanation
Indices: 925467--925504 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
925457 GCTACTAAAT
*
925467 TACTTGCATCGA-TTGTGTA
1 TACTTGCATAGATTTGTGTA
925486 TACTTGCATAGATTTGTGT
1 TACTTGCATAGATTTGTGT
925505 GCCACAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (20 bp):
TACTTGCATAGATTTGTGTA
Found at i:926878 original size:62 final size:62
Alignment explanation
Indices: 926803--926967 Score: 233
Period size: 62 Copynumber: 2.7 Consensus size: 62
926793 AATAATAGTC
* *
926803 AAAACTT-AGCTTATGGTTTCGAAACCCCCTTAGGTGGTTTCAAAACCAATAAGGCAGTAGCA
1 AAAACTTCA-CTTATGGTTTTGAAACCCCCTTAGGTGGTTTCAAAACCAATAAGACAGTAGCA
* * *
926865 AAAACTTCACTTATGGTTTTGAAACCCCCTCAGGTGGTTTCAAAACCACTAATACAGTAGCA
1 AAAACTTCACTTATGGTTTTGAAACCCCCTTAGGTGGTTTCAAAACCAATAAGACAGTAGCA
* * * *
926927 AAAAATTCACTTACGGTTTTGAAACCCCCATAAGTGGTTTC
1 AAAACTTCACTTATGGTTTTGAAACCCCCTTAGGTGGTTTC
926968 GAACCCTCTA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 91 0.99
63 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (62 bp):
AAAACTTCACTTATGGTTTTGAAACCCCCTTAGGTGGTTTCAAAACCAATAAGACAGTAGCA
Found at i:927384 original size:136 final size:138
Alignment explanation
Indices: 927140--927426 Score: 359
Period size: 136 Copynumber: 2.1 Consensus size: 138
927130 AAATAATTTT
* * * *
927140 TATTTCAACACTGACTTAATCGAGTATAATCTTAAAATAAAAAATAGTTCAACATTATGATAATT
1 TATTTCAATACTGACTAAATCGAATATAATCTTAAAATAAAAAATAGTTCAACAATATGATAATT
* * * *
927205 GTTTGTTTGGTTCGATGTGTAAATACTTTGACCAGTCATATTTTA-AAATATTTA-TAATAGCAC
66 GTTTGTTTGGTTCGATGTATAAATACGTTGACCAGTCATATTTTATAAATATTTATTAACAACAC
*
927268 ATTATTAA
131 AATATTAA
** * *
927276 TATTTCAATACTGA-TCAAATCGAATATAATCTTAAAATCGAATATAGTTCAAGAATATGATAAT
1 TATTTCAATACTGACT-AAATCGAATATAATCTTAAAATAAAAAATAGTTCAACAATATGATAAT
* **
927340 T-TCTTGTTTGGTTTGATGTATAAATACGTTGACTCA-TCATATTTTATGGATATTTATTTAACA
65 TGT-TTGTTTGGTTCGATGTATAAATACGTTGAC-CAGTCATATTTTATAAATATTTA-TTAACA
927403 ACACAATATTAA
127 ACACAATATTAA
927415 TATTTCAATACT
1 TATTTCAATACT
927427 AATGCGTAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
135 2 0.02
136 92 0.71
137 9 0.07
139 26 0.20
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.40
Consensus pattern (138 bp):
TATTTCAATACTGACTAAATCGAATATAATCTTAAAATAAAAAATAGTTCAACAATATGATAATT
GTTTGTTTGGTTCGATGTATAAATACGTTGACCAGTCATATTTTATAAATATTTATTAACAACAC
AATATTAA
Found at i:930642 original size:73 final size:74
Alignment explanation
Indices: 930519--930664 Score: 213
Period size: 73 Copynumber: 2.0 Consensus size: 74
930509 AGCATTCAGT
* *
930519 ATTATATTCATCAACTTTTTTCAAATGTAAATGTATTGAACATCACAGCATAAGTATCGATATTT
1 ATTATATTCATCAACTTTTTTCAAATGTAAATATATTGAACATCACAGCATAAGTATCAATATTT
930584 TAACTTTTG
66 TAACTTTTG
* * * * * *
930593 ATTATCTTCATCAA-TTTTTTCAAATTTAAATATATTGAACATTATAGCATAAGTGTCAATTTTT
1 ATTATATTCATCAACTTTTTTCAAATGTAAATATATTGAACATCACAGCATAAGTATCAATATTT
930657 TAACTTTT
66 TAACTTTT
930665 TAATTAACTA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 51 0.80
74 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (74 bp):
ATTATATTCATCAACTTTTTTCAAATGTAAATATATTGAACATCACAGCATAAGTATCAATATTT
TAACTTTTG
Found at i:931125 original size:200 final size:200
Alignment explanation
Indices: 930771--931253 Score: 600
Period size: 200 Copynumber: 2.4 Consensus size: 200
930761 GCTTCGAATA
* *
930771 ATTTTCAATGTAATTTTTATCCCACTTATAATATCTCGTATGTGCTGATATTACCCTCAAATGAA
1 ATTTTCAATGCAATTTTTATCCCACTTACAATATCTCGTATGTGCTGATATTACCCTCAAATGAA
*** **** *
930836 AGATAAGTTGCAATACTATGTCTCTAAGCTTAAAAATTACAAATTGTTTTTATTAACTTCCCTGA
66 AGATAAGTTGCAATACTACACCTCTAAGCTTAAAAATTACAAATAAAATTGATTAACTTCCCTGA
* * * * *
930901 AAAACCCCTTGAGCATTCCTATCAAGCCATTTTAGATT-GTTCTTCATGTACAAAACCAAGCTTT
131 AAAACCCCTCGAACATTCCTATCAAGCAATTTTAG-TTAGCTCTTCATGCACAAAACCAAGCTTT
*
930965 -GGAACT
195 AGG-ACC
* * * * *
930971 ATTTTCAATG-AGATTTTTACCCCACTTACGATGTCTCGTATGTGTTGATATTACCCTCAACTGA
1 ATTTTCAATGCA-ATTTTTATCCCACTTACAATATCTCGTATGTGCTGATATTACCCTCAAATGA
* * * *
931035 AAGATAAGTTGTAATAGTACACCTTTAAGCTTAAAAATTATTAAA-AAAATTGATTAACTT-CCT
65 AAGATAAGTTGCAATACTACACCTCTAAGCTTAAAAATTA-CAAATAAAATTGATTAACTTCCCT
*
931098 AGAAATACCCCTCGAACATGT-CTATCAAGCAATTTTAGTTAGCTCTTCATGCACAAAACCAAGC
129 -GAAAAACCCCTCGAACAT-TCCTATCAAGCAATTTTAGTTAGCTCTTCATGCACAAAACCAAGC
931162 TTTAGGACC
192 TTTAGGACC
* *
931171 ATTTTCAACGCAATTTTTATCCCGCTTACAATATCTCGTATGTGCTGATATTACCCTCAAATGAA
1 ATTTTCAATGCAATTTTTATCCCACTTACAATATCTCGTATGTGCTGATATTACCCTCAAATGAA
* *
931236 AGATAAGTTACAACACTA
66 AGATAAGTTGCAATACTA
931254 TGCCACTAAT
Statistics
Matches: 240, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
199 6 0.03
200 227 0.95
201 7 0.03
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (200 bp):
ATTTTCAATGCAATTTTTATCCCACTTACAATATCTCGTATGTGCTGATATTACCCTCAAATGAA
AGATAAGTTGCAATACTACACCTCTAAGCTTAAAAATTACAAATAAAATTGATTAACTTCCCTGA
AAAACCCCTCGAACATTCCTATCAAGCAATTTTAGTTAGCTCTTCATGCACAAAACCAAGCTTTA
GGACC
Found at i:931797 original size:23 final size:22
Alignment explanation
Indices: 931758--931819 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
931748 ATTTAAATGT
*
931758 TTAAAAAAGT-AATATTAAAAATA
1 TTAAAAAA-TAAAAATT-AAAATA
*
931781 TTAAAAAATAAAAATTAAATTA
1 TTAAAAAATAAAAATTAAAATA
*
931803 CTAAAAAATGAAAAATT
1 TTAAAAAAT-AAAAATT
931820 CTATTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (22 bp):
TTAAAAAATAAAAATTAAAATA
Found at i:932586 original size:21 final size:19
Alignment explanation
Indices: 932562--932600 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
932552 TAAAATAAAA
932562 AATAAAATGATGCAAATTTAC
1 AATAAAAT-ATG-AAATTTAC
*
932583 AATAATATATGAAATTTA
1 AATAAAATATGAAATTTA
932601 AATCGCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (19 bp):
AATAAAATATGAAATTTAC
Found at i:936604 original size:16 final size:16
Alignment explanation
Indices: 936581--936641 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
936571 TAATAAATAA
936581 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
936597 ATGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
936613 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
936629 ACGAACATAAACG
1 ACGAACATAAACG
936642 TTCGATACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:939044 original size:16 final size:15
Alignment explanation
Indices: 939023--939053 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
939013 ATAAACGAAC
939023 ATAAACGAACACAAAT
1 ATAAACGAACA-AAAT
939039 ATAAACGAACAAAAT
1 ATAAACGAACAAAAT
939054 TTTTTTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.16, G:0.06, T:0.13
Consensus pattern (15 bp):
ATAAACGAACAAAAT
Found at i:939129 original size:10 final size:10
Alignment explanation
Indices: 939114--939204 Score: 61
Period size: 10 Copynumber: 10.7 Consensus size: 10
939104 CATTTAATAA
939114 ATAAACGAAC
1 ATAAACGAAC
939124 ATAAACGAAC
1 ATAAACGAAC
939134 AT----GAAC
1 ATAAACGAAC
939140 ATAAACGAAC
1 ATAAACGAAC
939150 ----ACGAAC
1 ATAAACGAAC
939156 ATAAACGAAC
1 ATAAACGAAC
939166 ----ACGAAC
1 ATAAACGAAC
*
939172 ATAAATGAAC
1 ATAAACGAAC
939182 AT----GAAC
1 ATAAACGAAC
939188 ATAAACGAAC
1 ATAAACGAAC
939198 ATAAACG
1 ATAAACG
939205 TTGGATACCC
Statistics
Matches: 64, Mismatches: 1, Indels: 32
0.66 0.01 0.33
Matches are distributed among these distances:
6 24 0.38
10 40 0.62
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:939141 original size:16 final size:16
Alignment explanation
Indices: 939120--939199 Score: 133
Period size: 16 Copynumber: 5.0 Consensus size: 16
939110 ATAAATAAAC
939120 GAACATAAACGAACAT
1 GAACATAAACGAACAT
*
939136 GAACATAAACGAACAC
1 GAACATAAACGAACAT
*
939152 GAACATAAACGAACAC
1 GAACATAAACGAACAT
*
939168 GAACATAAATGAACAT
1 GAACATAAACGAACAT
939184 GAACATAAACGAACAT
1 GAACATAAACGAACAT
939200 AAACGTTGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 60 1.00
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.11
Consensus pattern (16 bp):
GAACATAAACGAACAT
Found at i:940772 original size:81 final size:80
Alignment explanation
Indices: 940674--940835 Score: 279
Period size: 81 Copynumber: 2.0 Consensus size: 80
940664 TCAGATTGAC
* *
940674 TATCAGTTACTGGAATGTAATCGAGTATCCAATGTCTCATAAAATTTTTCTTAAAATCTCAAAGC
1 TATCAGTTACTGAAATGTAATCGAATATCCAATGTCTCATAAAA-TTTTCTTAAAATCTCAAAGC
940739 GAACCTAAGGTCTCTA
65 GAACCTAAGGTCTCTA
* *
940755 TATCAGTTACTGAAATGTAATCGAATATCCAATGTCTCATAAAATTTTCTTAAAATTTCGAAGCG
1 TATCAGTTACTGAAATGTAATCGAATATCCAATGTCTCATAAAATTTTCTTAAAATCTCAAAGCG
940820 AACCTAAGGTCTCTA
66 AACCTAAGGTCTCTA
940835 T
1 T
940836 TTAATACAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 35 0.45
81 42 0.55
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (80 bp):
TATCAGTTACTGAAATGTAATCGAATATCCAATGTCTCATAAAATTTTCTTAAAATCTCAAAGCG
AACCTAAGGTCTCTA
Found at i:941489 original size:2 final size:2
Alignment explanation
Indices: 941484--941514 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
941474 TAAAAAAATA
941484 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 A
941515 AATTTGATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:946563 original size:11 final size:11
Alignment explanation
Indices: 946529--946556 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
946519 CTAAGAAACC
946529 TGGGAAAATGT
1 TGGGAAAATGT
946540 TGGGAAAATGT
1 TGGGAAAATGT
946551 TGGGAA
1 TGGGAA
946557 TGTGTTGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.25
Consensus pattern (11 bp):
TGGGAAAATGT
Found at i:946994 original size:31 final size:31
Alignment explanation
Indices: 946928--946994 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
946918 TTGGTATTAG
**
946928 GTCGGATTTTTTTAAAAAAATTCGGGATCGG
1 GTCGGATTTTTTTAAAAAAATTCGGGATCAA
* *
946959 GTCGGATTTTTTTAAAAAATTTCGGGTTCAA
1 GTCGGATTTTTTTAAAAAAATTCGGGATCAA
946990 GTCGG
1 GTCGG
946995 GTCGGGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (31 bp):
GTCGGATTTTTTTAAAAAAATTCGGGATCAA
Found at i:947036 original size:33 final size:33
Alignment explanation
Indices: 946990--947103 Score: 165
Period size: 33 Copynumber: 3.4 Consensus size: 33
946980 TCGGGTTCAA
* *
946990 GTCGGGTCGGGTTTTTTTAAGTTTGATATTCGG
1 GTCGAGTCGGGTTTTTTTAAGTGTGATATTCGG
*
947023 GTCGAGTCGGGTTTTTTTAAGCGTGATATTCGG
1 GTCGAGTCGGGTTTTTTTAAGTGTGATATTCGG
* *
947056 GTCGGGTCGGGTTTTTTTAAGTGTGATATCCGG
1 GTCGAGTCGGGTTTTTTTAAGTGTGATATTCGG
*
947089 GTCAAGTTCGGGTTT
1 GTCGAG-TCGGGTTT
947104 AGGGTGAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 64 0.89
34 8 0.11
ACGTcount: A:0.13, C:0.11, G:0.34, T:0.41
Consensus pattern (33 bp):
GTCGAGTCGGGTTTTTTTAAGTGTGATATTCGG
Found at i:947705 original size:16 final size:18
Alignment explanation
Indices: 947684--947731 Score: 73
Period size: 16 Copynumber: 2.8 Consensus size: 18
947674 GTTTCAGATT
947684 CAGATTCCAATTCC-T-A
1 CAGATTCCAATTCCTTCA
947700 CAGATTCCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
*
947718 CAGATTTCAATTCC
1 CAGATTCCAATTCC
947732 CTCAGAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 14 0.48
17 1 0.03
18 14 0.48
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.33
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:954428 original size:21 final size:21
Alignment explanation
Indices: 954402--954459 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
954392 AGGCTTGATA
954402 GTATCGATACTATTGTTCAAG
1 GTATCGATACTATTGTTCAAG
* * *
954423 GTATCGATATTACTGTTCATG
1 GTATCGATACTATTGTTCAAG
954444 GTATCGATACTATTGT
1 GTATCGATACTATTGT
954460 AGCACTATCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (21 bp):
GTATCGATACTATTGTTCAAG
Found at i:955885 original size:19 final size:20
Alignment explanation
Indices: 955849--955896 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
955839 TGTAAATCCT
*
955849 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTGG
*
955869 TTTTCAAAA-TCCATTTTTG
1 TTTTCAAAATTCCATTTTGG
*
955888 CTTTCAAAA
1 TTTTCAAAA
955897 GAAAATCGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTGG
Found at i:963812 original size:23 final size:23
Alignment explanation
Indices: 963765--963813 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
963755 AATAACATAT
**
963765 TAGGTAGCGCTTAGATAATGTAA
1 TAGGTAGCGCTTAGATAATAAAA
*
963788 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTAGATAATAAAA
963811 TAG
1 TAG
963814 ACATTTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (23 bp):
TAGGTAGCGCTTAGATAATAAAA
Found at i:964614 original size:182 final size:180
Alignment explanation
Indices: 964303--964950 Score: 834
Period size: 182 Copynumber: 3.6 Consensus size: 180
964293 ATTAAACTAA
* ** * * *
964303 CGACACTTTCAACATAAT-CGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCGATTTTATCAT
1 CGACACTTTCAATAT-ATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCAT
* * * *
964367 ATTTTTACCT-ATTATATTGTTATGGATCGATACATTTTCTTAAAGTATTGACACTTTTTAGGCG
65 ATTATTACCTGA-TATATTGCTATGGATCGATACATTTT-ATAAAGTATCGACAC-TTTTAGGCG
* *
964431 CTATAATTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
127 CTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* * * * * **
964485 CGACACTTTAAATATATCTGGTATCTTTTTACCGGTTTTATTATTTCGAGGCCTCTTTTATCATA
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* *
964550 TTATTACCGGATATATTACTATGGATCGATACATTTGTATAAAGTATCGACACTTTTCAGGCGCT
66 TTATTACCTGATATATTGCTATGGATCGATACATTT-TATAAAGTATCGACACTTTT-AGGCGCT
*
964615 ATAACTTCTTCTCTTTTAAATTAAAAAAGTGTCGATACTTATATTAATTTAT
129 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
* ** *
964667 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCAAGACATGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* * * * * *
964732 TTATTACATGTTATATTGCTATAGATCGACATATTTTTATAAAATATCGACACCTTTTAGGCGCT
66 TTATTACCTGATATATTGCTATGGATCGATACA-TTTTATAAAGTATCGACA-CTTTTAGGCGCT
*
964797 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGACACTTATATTAATTTAT
129 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
** * *
964849 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATAAT-GACACCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTATCAT
* * *
964913 ATTTTTACCTGTTATATTGCTATGAATCGATACATTTT
65 ATTATTACCTGATATATTGCTATGGATCGATACATTTT
964951 TAATTTGTAT
Statistics
Matches: 405, Mismatches: 54, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
181 10 0.02
182 384 0.95
183 11 0.03
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (180 bp):
CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
TTATTACCTGATATATTGCTATGGATCGATACATTTTATAAAGTATCGACACTTTTAGGCGCTAT
AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
Found at i:966836 original size:20 final size:20
Alignment explanation
Indices: 966811--966848 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
966801 CTTAATTTTA
966811 AATTAATT-AAATCTAAAATT
1 AATTAATTCAAAT-TAAAATT
966831 AATTAATTCAAATTAAAA
1 AATTAATTCAAATTAAAA
966849 ATATTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTAATTCAAATTAAAATT
Found at i:968411 original size:16 final size:18
Alignment explanation
Indices: 968380--968412 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
968370 CTAAAGTGAA
968380 TAAACAAATAATTTTGAT
1 TAAACAAATAATTTTGAT
968398 TAAA-AAAT-ATTTTGA
1 TAAACAAATAATTTTGA
968413 GAGTCGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (18 bp):
TAAACAAATAATTTTGAT
Found at i:968766 original size:23 final size:21
Alignment explanation
Indices: 968724--968767 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
968714 ATTAATATAT
*
968724 ATATATATATTTTTATAAATA
1 ATATATATATTTTTAGAAATA
*
968745 ATATATTTATTTAATTAGAAATA
1 ATATATATATTT--TTAGAAATA
968768 TCAAAAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATATATATTTTTAGAAATA
Found at i:969159 original size:21 final size:22
Alignment explanation
Indices: 969101--969159 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
969091 ATATGACTAC
969101 ATAATAA-T-AATA-AT-AACA
1 ATAATAATTAAATATATAAACA
969119 ATAATAATTAAATATATAAACA
1 ATAATAATTAAATATATAAACA
969141 TATAA-AATTAAA-ATATAAA
1 -ATAATAATTAAATATATAAA
969160 TAAACAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.19
19 1 0.03
20 4 0.11
21 9 0.25
22 11 0.31
23 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATAATTAAATATATAAACA
Found at i:969212 original size:37 final size:34
Alignment explanation
Indices: 969103--969221 Score: 91
Period size: 37 Copynumber: 3.3 Consensus size: 34
969093 ATGACTACAT
969103 AATAATAATAA-TAACAATA-ATAATTAAATATATAAA
1 AATAATAA-AATTAA-AATATA-AATTAAA-ATATAAA
* * *
969139 CAT-ATAAAATTAAAATATAAATAAACAATGACAAA
1 AATAATAAAATTAAAATATAAATTAA-AAT-ATAAA
*
969174 AATAAATAAAATTAAAACTATAGTATTAAAATATAAA
1 AAT-AATAAAATTAAAA-TATA-AATTAAAATATAAA
969211 AAGTAATAAAA
1 AA-TAATAAAA
969222 CTTGTAAGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
34 13 0.19
35 15 0.22
36 2 0.03
37 25 0.37
38 8 0.12
39 4 0.06
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (34 bp):
AATAATAAAATTAAAATATAAATTAAAATATAAA
Found at i:970030 original size:13 final size:13
Alignment explanation
Indices: 970012--970036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
970002 GTGGTAAGTG
970012 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
970025 TTTTTTTCTTTT
1 TTTTTTTCTTTT
970037 CGAATGGTTG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:970535 original size:3 final size:3
Alignment explanation
Indices: 970527--970605 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
970517 GGCCTGTTTG
970527 TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
970574 T-A TAAA TAA -AA AAA TAA TAA TAT TAA AAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
970606 AAAACAAATG
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
2 6 0.09
3 59 0.88
4 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:970558 original size:23 final size:23
Alignment explanation
Indices: 970528--970595 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
970518 GCCTGTTTGT
970528 AATAATAATAATAATAATAATAA
1 AATAATAATAATAATAATAATAA
970551 AATAATAATAATAATAATAATAA
1 AATAATAATAATAATAATAATAA
* *
970574 TATAAATAA-AAAAATAATAATA
1 AAT-AATAATAATAATAATAATA
970596 TTAAAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 37 0.88
24 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAATAATAATAATAATAATAA
Found at i:970609 original size:23 final size:23
Alignment explanation
Indices: 970528--970608 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
970518 GCCTGTTTGT
*
970528 AATAATAATAATAATAATAATAA
1 AATAATAAAAATAATAATAATAA
*
970551 AATAATAATAATAATAATAATAA
1 AATAATAAAAATAATAATAATAA
*
970574 TATAAATAAAAA-AATAATAATATTA
1 AAT-AATAAAAATAATAATAATA--A
970599 AA-AATAAAAA
1 AATAATAAAAA
970609 ACAAATGGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 43 0.83
24 7 0.13
25 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AATAATAAAAATAATAATAATAA
Found at i:971264 original size:123 final size:122
Alignment explanation
Indices: 970973--971306 Score: 467
Period size: 123 Copynumber: 2.7 Consensus size: 122
970963 GAATTAAGGC
* * * *
970973 AAGGTTGAACAGGTTCTTCTCATTATGAACTTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTC-CTCTTCAGATAAGTTCTTCTCATTA
* * * *
971037 TGAACACTT-T-TGGAAATGTTGATGCTGATCTATCTCCTTTTGTGATAGAGTCATGCA
65 TGAAC-TTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAGTCATGCA
*** * *
971094 AAGGTTGAACAAGTTCTTCTCATTATGATTTTTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATA
1 AAGGTTGAACAAGTTCTTCTCATTAT-A-AACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATT
*
971159 ATGAACTTTCTCTGGAAAAGTTTATACTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
64 ATGAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAGTCATGC-A
*
971219 AAGGTTGAACAAGCTCTTCTCATTATAAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
971284 GAACTTTCTCTGGAAAAGTTGAT
66 GAACTTTCTCTGGAAAAGTTGAT
971307 CCATCGAGTG
Statistics
Matches: 186, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
121 25 0.13
122 2 0.01
123 88 0.47
124 45 0.24
125 26 0.14
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
GAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTGTGATAGAGTCATGCA
Found at i:971361 original size:105 final size:106
Alignment explanation
Indices: 971226--971425 Score: 323
Period size: 106 Copynumber: 1.9 Consensus size: 106
971216 CAAAAGGTTG
971226 AACAAGCTCTTCTCATTATAAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACT-
1 AACAAGCTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTC
* *
971289 TTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAA
66 TAC-CTGGAAAAGTTGATCCATCGAATGATGAATTCGAGCAA
* *
971331 AACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
1 AACAAGCTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTC
* *
971396 TACCTGGAAATGTTGATCCATTGAATGATG
66 TACCTGGAAAAGTTGATCCATCGAATGATG
971426 GATTTGAATC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
105 32 0.37
106 53 0.61
107 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (106 bp):
AACAAGCTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTC
TACCTGGAAAAGTTGATCCATCGAATGATGAATTCGAGCAA
Found at i:971818 original size:22 final size:22
Alignment explanation
Indices: 971793--971869 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
971783 AAATCTTTCT
* *
971793 TCTTTGAAAAGATAATGTATCA
1 TCTTTGAAAAGAGAATATATCA
* *
971815 TCTTTTAAGAGAGAATATATCA
1 TCTTTGAAAAGAGAATATATCA
*
971837 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATATATCA
971859 TCTTT-AAAAGA
1 TCTTTGAAAAGA
971870 ATGTAGATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 6 0.12
22 42 0.88
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATATATCA
Found at i:972549 original size:22 final size:21
Alignment explanation
Indices: 972489--972541 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
972479 ATGTTTATAT
*
972489 AAAAGAATAAATTGAATTTTG
1 AAAAGAATAAATTGAATTTAG
972510 AAAATGAATAAATTGAATTTAG
1 AAAA-GAATAAATTGAATTTAG
972532 AAAAG-ATAAA
1 AAAAGAATAAA
972542 CTTGGAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 5 0.17
21 5 0.17
22 20 0.67
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.28
Consensus pattern (21 bp):
AAAAGAATAAATTGAATTTAG
Found at i:980169 original size:15 final size:15
Alignment explanation
Indices: 980146--980177 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
980136 TGCAATGAAT
980146 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
980161 AATGCATGTATGCAA
1 AATGAATGTATGCAA
980176 AA
1 AA
980178 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:983152 original size:25 final size:25
Alignment explanation
Indices: 983089--983152 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 25
983079 AGTAATAAAG
*
983089 AAGAATATATAAAATATTATGAAAAT
1 AAGAAT-TATAAAATATTATGAAAAA
* * *
983115 AATAAGTATTAAAA-ATTTTGAAAGAA
1 AAGAATTA-TAAAATATTATGAAA-AA
983141 AAGAATTATAAA
1 AAGAATTATAAA
983153 TTAAATAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (25 bp):
AAGAATTATAAAATATTATGAAAAA
Found at i:984087 original size:25 final size:22
Alignment explanation
Indices: 984040--984092 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
984030 ACATAATAAT
984040 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
984062 AACATATAA-AATATAAATATAAATA
1 AACA-ATAATAAT-TAAATAT--ATA
984087 AACAAT
1 AACAAT
984093 GACAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
24 2 0.07
25 7 0.26
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:985477 original size:3 final size:3
Alignment explanation
Indices: 985469--985543 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
985459 GGCCTGTTTG
* *
985469 TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
985516 T-A TAAA TAAA TAA TAA TAT TAA AAA TAA
1 TAA T-AA T-AA TAA TAA TAA TAA TAA TAA
985544 AAAATAAATG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 3 0.05
3 52 0.85
4 6 0.10
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:985529 original size:16 final size:15
Alignment explanation
Indices: 985491--985543 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
985481 TAATAATAAT
985491 AATAATAATATAATAA
1 AATAATAATATAA-AA
*
985507 TAATAATAGTATAAATA
1 -AATAATAATATAAA-A
*
985524 AATAATAATATTAAA
1 AATAATAATATAAAA
985539 AATAA
1 AATAA
985544 AAAATAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 6 0.19
16 13 0.41
17 13 0.41
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AATAATAATATAAAA
Found at i:986375 original size:51 final size:50
Alignment explanation
Indices: 986320--986440 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
986310 TAAAGCGCAA
* * **
986320 CCCCTGCATCGCGCTATACGATGATTTGGCACCACGTGGGGTATAGCGCGC
1 CCCCTGCACCGCGCTATACGATAAGCTGGCACCACGT-GGGTATAGCGCGC
* * * *
986371 CCCCTGCACCGCGCTATATGGTAAGCTGGCGCCACGTGGGTATAGCGCGG
1 CCCCTGCACCGCGCTATACGATAAGCTGGCACCACGTGGGTATAGCGCGC
*
986421 CCCCTGCAGCGCGCTATACG
1 CCCCTGCACCGCGCTATACG
986441 CCACGTAGGG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 30 0.50
51 30 0.50
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.19
Consensus pattern (50 bp):
CCCCTGCACCGCGCTATACGATAAGCTGGCACCACGTGGGTATAGCGCGC
Found at i:989302 original size:21 final size:21
Alignment explanation
Indices: 989278--989318 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
989268 GCTGTCATCA
989278 TCATCACCATCGTCGTCGTCG
1 TCATCACCATCGTCGTCGTCG
***
989299 TCATCATTGTCGTCGTCGTC
1 TCATCACCATCGTCGTCGTC
989319 TTGCGCAGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.34, G:0.20, T:0.34
Consensus pattern (21 bp):
TCATCACCATCGTCGTCGTCG
Found at i:991400 original size:110 final size:111
Alignment explanation
Indices: 991180--991391 Score: 381
Period size: 110 Copynumber: 1.9 Consensus size: 111
991170 ATTACAAAAA
* * *
991180 TTAATTATTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
991245 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGACGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGACGAGATAT
*
991291 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
991355 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTG
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTG
991392 TATAGATATA
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 63 0.65
111 34 0.35
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.35
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGACGAGATAT
Found at i:991549 original size:10 final size:11
Alignment explanation
Indices: 991524--991563 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
991514 ACCTTAAAAA
991524 AGAATATTTGAG
1 AGAA-ATTTGAG
991536 AGAAATTT-AG
1 AGAAATTTGAG
991546 AG-AATTTGAG
1 AGAAATTTGAG
991556 AG-AATTTG
1 AGAAATTTG
991564 GTGTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.19
10 14 0.52
11 4 0.15
12 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:991727 original size:50 final size:51
Alignment explanation
Indices: 991673--991799 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 51
991663 AGATATACAG
* * * **
991673 GTATAGCGCGCTGCAGGTGCCGCGCTATA-CCCACGTGGCGCCAGCTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACC
* *
991723 GTATAGTGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACC
991774 GTATAGCGCGGTGCAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
991800 TTACTGGTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 25 0.37
51 43 0.63
ACGTcount: A:0.17, C:0.31, G:0.35, T:0.17
Consensus pattern (51 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACC
Found at i:993070 original size:14 final size:14
Alignment explanation
Indices: 993048--993086 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
993038 TTATTTATCT
993048 AAATAAATAAAATA
1 AAATAAATAAAATA
*
993062 AAATTAATAAAATA
1 AAATAAATAAAATA
*
993076 AAATATATAAA
1 AAATAAATAAA
993087 CTACCGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:994832 original size:100 final size:100
Alignment explanation
Indices: 994659--994863 Score: 410
Period size: 100 Copynumber: 2.0 Consensus size: 100
994649 TGGTGGAAAG
994659 AAAATTAAGAGTGGTTAAGGGGCACAAAGGATTCGAATCAACAACCATTAAGGGAGAAGGGAGAA
1 AAAATTAAGAGTGGTTAAGGGGCACAAAGGATTCGAATCAACAACCATTAAGGGAGAAGGGAGAA
994724 GCCTAACCACTTGGCCAAGTTCATTTTTTTGGTTT
66 GCCTAACCACTTGGCCAAGTTCATTTTTTTGGTTT
994759 AAAATTAAGAGTGGTTAAGGGGCACAAAGGATTCGAATCAACAACCATTAAGGGAGAAGGGAGAA
1 AAAATTAAGAGTGGTTAAGGGGCACAAAGGATTCGAATCAACAACCATTAAGGGAGAAGGGAGAA
994824 GCCTAACCACTTGGCCAAGTTCATTTTTTTGGTTT
66 GCCTAACCACTTGGCCAAGTTCATTTTTTTGGTTT
994859 AAAAT
1 AAAAT
994864 AAACTACATA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 105 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (100 bp):
AAAATTAAGAGTGGTTAAGGGGCACAAAGGATTCGAATCAACAACCATTAAGGGAGAAGGGAGAA
GCCTAACCACTTGGCCAAGTTCATTTTTTTGGTTT
Found at i:995150 original size:110 final size:114
Alignment explanation
Indices: 995018--995297 Score: 397
Period size: 112 Copynumber: 2.4 Consensus size: 114
995008 ATATATATTT
995018 AAATATTTTAAAATATTTAAATTCTTAACTATAAAAATATATTTTATTATTTTTTCTTAATTTAT
1 AAATATTTTAAAATATTTAAATTCTTAACTATAAAAATATATTTTATTATTTTTTCTTAATTTAT
* *
995083 CTAATATA-TATTTTGGTTTAAAGTAGGCCAAATTTATTATTT-T-TA-
66 CGAATATATTATTTTGGTTTAAAGTAGGCCAAATTTATTATTTATCAAG
* *
995128 AAATATTTTAAAATATTCAAATTCTTAAATATAAAAATATATATTTTATTATTTTTTCTTAATTT
1 AAATATTTTAAAATATTTAAATTCTTAACTAT-AAAA-ATATATTTTATTATTTTTTCTTAATTT
*
995193 ATCGAATATATTTTTTTGGTTTAAAGTAGGCCAAATTTATTATTTAAGTCAAG
64 ATCGAATATATTATTTTGGTTTAAAGTAGGCCAAATTTATTATTT-A-TCAAG
*
995246 AATATATTTTTAAGTATATTTTTAAATTCTTAACTATAAAAATATATTTTAT
1 AA-ATA-TTTTAA--A-ATATTTAAATTCTTAACTATAAAAATATATTTTAT
995298 AATGAACTTG
Statistics
Matches: 149, Mismatches: 8, Indels: 15
0.87 0.05 0.09
Matches are distributed among these distances:
110 30 0.20
111 4 0.03
112 36 0.24
113 33 0.22
116 1 0.01
117 1 0.01
118 2 0.01
119 3 0.02
120 6 0.04
121 11 0.07
122 5 0.03
123 17 0.11
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (114 bp):
AAATATTTTAAAATATTTAAATTCTTAACTATAAAAATATATTTTATTATTTTTTCTTAATTTAT
CGAATATATTATTTTGGTTTAAAGTAGGCCAAATTTATTATTTATCAAG
Found at i:999198 original size:49 final size:45
Alignment explanation
Indices: 999139--999232 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 45
999129 AAGGACAACA
*
999139 GGTAAAGTGAGTTTAGCTTGAGTGCGGCTTGCTTGCTTGAATGTTCCGT
1 GGTAAAGTGAGTTTAGCTT-A--ACGGC-TGCTTGCTTGAATGTTCCGT
* *
999188 GGTAAGGTGAGTTTAGCTTAACTGCTGCTTGCTTGAATGTTCCGT
1 GGTAAAGTGAGTTTAGCTTAACGGCTGCTTGCTTGAATGTTCCGT
999233 AGTTGCATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 20 0.48
46 3 0.07
48 1 0.02
49 18 0.43
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.37
Consensus pattern (45 bp):
GGTAAAGTGAGTTTAGCTTAACGGCTGCTTGCTTGAATGTTCCGT
Found at i:1001304 original size:2 final size:2
Alignment explanation
Indices: 1001285--1001330 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
1001275 TCATCATAAC
* * *
1001285 AT AT AC AT AT AT AA AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1001327 AT AT
1 AT AT
1001331 GCCAATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1005399 original size:17 final size:18
Alignment explanation
Indices: 1005367--1005403 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1005357 AATAAAAAAT
1005367 ATATATAAAAAATTTAAA
1 ATATATAAAAAATTTAAA
*
1005385 ATATAT-AATAATTTAAA
1 ATATATAAAAAATTTAAA
1005402 AT
1 AT
1005404 TTTTAGGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATAAAAAATTTAAA
Found at i:1006020 original size:59 final size:57
Alignment explanation
Indices: 1005956--1006065 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
1005946 AAATTATGAT
1005956 TCTTATTTTAAATT-ATTCCTTAAACTTTTGAAAT-TTT-AAATTTATCCCTAAACTGTGAC
1 TCTTATTTTAAATTGA-TCC--AAACTTTTG-AATGTTTCAAATTTATCCC-AAACTGTGAC
* *
1006015 TCTTATTTTATATTGATCCAAACTTTTGAATGTTTCAATTTTATCCCAAAC
1 TCTTATTTTAAATTGATCCAAACTTTTGAATGTTTCAAATTTATCCCAAAC
1006066 CGACGGTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
56 3 0.07
57 16 0.35
58 10 0.22
59 16 0.35
60 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.47
Consensus pattern (57 bp):
TCTTATTTTAAATTGATCCAAACTTTTGAATGTTTCAAATTTATCCCAAACTGTGAC
Found at i:1007039 original size:15 final size:15
Alignment explanation
Indices: 1007016--1007045 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1007006 TTTCTCATCT
1007016 CTGAATGATTCAGTA
1 CTGAATGATTCAGTA
*
1007031 CTGACTGATTCAGTA
1 CTGAATGATTCAGTA
1007046 AAATAGTGTT
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:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (15 bp):
CTGAATGATTCAGTA
Found at i:1011805 original size:29 final size:29
Alignment explanation
Indices: 1011748--1011807 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1011738 GTGTTGTCGT
* *
1011748 AGGTCGTCATGCCATCCGGGCGACTTTGG
1 AGGTCGCCATGCCATCCGGACGACTTTGG
*
1011777 AGGTCGCCATGGCATCCGGACGAGC-TTGG
1 AGGTCGCCATGCCATCCGGACGA-CTTTGG
1011806 AG
1 AG
1011808 TCTCTGCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.20
Consensus pattern (29 bp):
AGGTCGCCATGCCATCCGGACGACTTTGG
Found at i:1011875 original size:60 final size:60
Alignment explanation
Indices: 1011797--1011915 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
1011787 GGCATCCGGA
1011797 CGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCTGGG
1 CGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCTGGG
*
1011857 CGAGCTTGGAGTCTCTGCATGGCTGTGCCTGGCGGCATGGCAACGTGGCATGGGTCTGG
1 CGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCTGG
1011916 TGGCAGCATG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.24
Consensus pattern (60 bp):
CGAGCTTGGAGTCTCTGCATGGCTGTGCATGGCGGCATGGCAACGTGGCATGGGTCTGGG
Found at i:1012026 original size:29 final size:29
Alignment explanation
Indices: 1011964--1012026 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
1011954 GAATGGTAGT
*
1011964 CATCCCAGCGACATTGTAGGTCGTCAGGG
1 CATCCCAGCGACATTGTAGGTCGCCAGGG
1011993 CATCCCAGCGACATTGTAGGTCGCCAAGGG
1 CATCCCAGCGACATTGTAGGTCGCC-AGGG
1012023 -ATCC
1 CATCC
1012027 AAACGACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (29 bp):
CATCCCAGCGACATTGTAGGTCGCCAGGG
Found at i:1012033 original size:29 final size:29
Alignment explanation
Indices: 1011972--1012033 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
1011962 GTCATCCCAG
* * *
1011972 CGACATTGTAGGTCGTCAGGGCATCCCAG
1 CGACATTGTAGGTCGCCAGGGCATCCAAA
1012001 CGACATTGTAGGTCGCCAAGGG-ATCCAAA
1 CGACATTGTAGGTCGCC-AGGGCATCCAAA
1012030 CGAC
1 CGAC
1012034 CTATGCCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (29 bp):
CGACATTGTAGGTCGCCAGGGCATCCAAA
Found at i:1012128 original size:12 final size:11
Alignment explanation
Indices: 1012108--1012141 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1012098 GAAATCAGTT
1012108 GCATTATTGCA
1 GCATTATTGCA
*
1012119 GCACTTATTGCT
1 GCA-TTATTGCA
1012131 GCATTATTGCA
1 GCATTATTGCA
1012142 ACCCGTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:1012504 original size:27 final size:28
Alignment explanation
Indices: 1012452--1012509 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
1012442 ATTAAAAAAA
1012452 TAATTAATTCTTGTGTTAGTCTAATA-T
1 TAATTAATTCTTGTGTTAGTCTAATAGT
*
1012479 TAATTAGTT-TTGTAGTTAGT-TAAATAGT
1 TAATTAATTCTTGT-GTTAGTCT-AATAGT
1012507 TAA
1 TAA
1012510 GTTATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
27 18 0.67
28 4 0.15
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (28 bp):
TAATTAATTCTTGTGTTAGTCTAATAGT
Done.