Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_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: 2686660
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 14
Found at i:515919 original size:80 final size:80
Alignment explanation
Indices: 515664--516113 Score: 573
Period size: 80 Copynumber: 5.6 Consensus size: 80
515654 TTCTATGTGT
* *
515664 TGCAAATGATGTGCC-TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGCCCTTAT
1 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCT
* * *
515728 TGTCGTAAGCTATGT
66 TGCCTTAAGCTATGC
* *
515743 TGCAAATGATGTGCC-TTGAACTGAGTGTAATCGAACTCGAAGGTCTTTGTTG-ATAGATAACCC
1 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GCA-A-ATAGCCC
* * * *
515806 TTCTAGCCTTGAGTTATGT
62 TTCTTGCCTTAAGCTATGC
* * ** *
515825 TGTAAATGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTGGCAAATAATCATTCT
1 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCT
* * *
515890 AGCCTTAAGTTATAC
66 TGCCTTAAGCTATGC
* *
515905 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGCAGATAGCCCTTCT
1 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCT
515970 TGCCTTAAGCTATGC
66 TGCCTTAAGCTATGC
**
515985 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGGTAGCCCTTCT
1 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCT
** * **
516050 TGCCTTGTGCAATTA
66 TGCCTTAAGCTATGC
* *
516065 TGCAAATGATGTGCCTCTGAGCTGAATGTAATCGAACTCGAAGGTCTTT
1 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
516114 TTTTGAAGGT
Statistics
Matches: 329, Mismatches: 36, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
79 48 0.15
80 212 0.64
81 3 0.01
82 34 0.10
83 32 0.10
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (80 bp):
TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCT
TGCCTTAAGCTATGC
Found at i:517083 original size:95 final size:96
Alignment explanation
Indices: 516889--517149 Score: 314
Period size: 95 Copynumber: 2.7 Consensus size: 96
516879 GGCTAGCTGA
* * * * *
516889 ATCCATAAAGCCGAGGCGTTCAACCAATTGCTCTAGAGGGACAACT-TAA-TATCATTGTATA-A
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAACT-TTATTGTATATT
*
516951 ATATTATACCTTTATCAGGCTAGCTAAATATT
65 ATAATATACCTTTATCAGGCTAGCTAAATATT
* * *
516983 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTATAGGGATAACTCAAACTTTATTGTATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAACTTTATTGTATATTA
* * * *
517048 TAAT-TACCTTTATCATGTTAGCTGAATCTT
66 TAATATACCTTTATCAGGCTAGCTAAATATT
* * * * *
517078 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCAAGCTTTATTGCATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAACTTTATTGTATAT-T
517143 ATAATAT
65 ATAATAT
517150 TATAATCTGG
Statistics
Matches: 141, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
94 41 0.29
95 88 0.62
96 11 0.08
97 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (96 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAACTTTATTGTATATTA
TAATATACCTTTATCAGGCTAGCTAAATATT
Found at i:521677 original size:12 final size:12
Alignment explanation
Indices: 521614--521689 Score: 57
Period size: 12 Copynumber: 6.4 Consensus size: 12
521604 ATGAAAGGGA
521614 AAAAATAATAA-
1 AAAAATAATAAT
* *
521625 AATAAAAAATAAC
1 AA-AAATAATAAT
*
521638 AAAAATATTAA-
1 AAAAATAATAAT
* * *
521649 ATAAATCATAAG
1 AAAAATAATAAT
* *
521661 GAAAATAATACT
1 AAAAATAATAAT
521673 AAAAATAATAAT
1 AAAAATAATAAT
521685 AAAAA
1 AAAAA
521690 ATGAAAAAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
11 10 0.20
12 37 0.76
13 2 0.04
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:528408 original size:89 final size:89
Alignment explanation
Indices: 528257--528432 Score: 282
Period size: 89 Copynumber: 2.0 Consensus size: 89
528247 CCTAACACAC
* * *
528257 CCTTTTATAGCCAATTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAATCTATA
* *
528322 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
528346 CCTTTTATATCCAAGTTACCCTAATCATA-TATGGGATTTTATTATTTCAAATTAATTAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTA-GGGATTTTATTATTTCAAATTAATTAATCTAT
528410 ATTTAATTAATTGAAATTAAATA
65 ATTTAATTAATTGAAATTAAATA
528433 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 2 0.03
89 78 0.98
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:533073 original size:143 final size:145
Alignment explanation
Indices: 532787--533078 Score: 536
Period size: 143 Copynumber: 2.0 Consensus size: 145
532777 GCCTGTTCTT
532787 TAAAGTATCCAAACCTTCTGAAATCATATCCAAACCCTAGTCCTGTATGGATGACCAAAGAAACA
1 TAAAGTATCCAAACCTTCTGAAATCATATCCAAACCCTAGTCCTGTATGGATGACCAAAGAAACA
* *
532852 AGAAGTAAAACATAGCTAAACAAATGTTGTTTATGCAGTTAATAGTCAACCAAGCTTCGTTCCAG
66 AGAAGTAAAACATAGCTAAACAAATGTGGTGTATGCAGTTAATAGTCAACCAAGCTTCGTTCCAG
532917 TAAGAAAGATGCTCA
131 TAAGAAAGATGCTCA
532932 TAAAGTATCCAAACCTTCTGAAATCATATCCAAACCCTAGTCCTGTATGGATGACCAAAG-AACA
1 TAAAGTATCCAAACCTTCTGAAATCATATCCAAACCCTAGTCCTGTATGGATGACCAAAGAAACA
532996 AGAAGT-AAACATAGCTAAACAAATGTGGTGTATGCAGTTAATAGTCAACCAAGCTTCGTTCC-G
66 AGAAGTAAAACATAGCTAAACAAATGTGGTGTATGCAGTTAATAGTCAACCAAGCTTCGTTCCAG
533059 TAAGAAAAGATGCTCA
131 TAAG-AAAGATGCTCA
533075 TAAA
1 TAAA
533079 ATAGGAACCA
Statistics
Matches: 144, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
142 5 0.03
143 69 0.48
144 10 0.07
145 60 0.42
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (145 bp):
TAAAGTATCCAAACCTTCTGAAATCATATCCAAACCCTAGTCCTGTATGGATGACCAAAGAAACA
AGAAGTAAAACATAGCTAAACAAATGTGGTGTATGCAGTTAATAGTCAACCAAGCTTCGTTCCAG
TAAGAAAGATGCTCA
Found at i:534226 original size:53 final size:54
Alignment explanation
Indices: 534121--534226 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 54
534111 AACCAAAAAC
* *
534121 AAATACATTATTAAAAATGCCAATTCTGTTTGCTTGGACAGCACTACAAATCTG
1 AAATACATTATTAAAAATGCCAATTCTGTTTGCTTGAACAACACTACAAATCTG
* * * *
534175 AAATACATTA-TAAAAATGTCAGTTCTGTTTGCTTGAACAACATTACCAATCT
1 AAATACATTATTAAAAATGCCAATTCTGTTTGCTTGAACAACACTACAAATCT
534227 ATCAACAGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 36 0.78
54 10 0.22
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (54 bp):
AAATACATTATTAAAAATGCCAATTCTGTTTGCTTGAACAACACTACAAATCTG
Found at i:535781 original size:17 final size:17
Alignment explanation
Indices: 535759--535792 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
535749 CTTTTCATGT
*
535759 TGATATTATATGTTATA
1 TGATATGATATGTTATA
535776 TGATATGATATGTTATA
1 TGATATGATATGTTATA
535793 CAACTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (17 bp):
TGATATGATATGTTATA
Found at i:536699 original size:15 final size:15
Alignment explanation
Indices: 536681--536738 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
536671 AAGGTATAAC
536681 TGAAAGTGGTAGTTG
1 TGAAAGTGGTAGTTG
536696 TGAAAGTGGT-GTTG
1 TGAAAGTGGTAGTTG
*
536710 TAGAAA-TGGATA-ATG
1 T-GAAAGTGG-TAGTTG
536725 CTGAAAGTGGTAGT
1 -TGAAAGTGGTAGT
536739 GTAGAATGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
14 8 0.23
15 23 0.66
16 4 0.11
ACGTcount: A:0.31, C:0.02, G:0.36, T:0.31
Consensus pattern (15 bp):
TGAAAGTGGTAGTTG
Found at i:536758 original size:29 final size:30
Alignment explanation
Indices: 536696--536759 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
536686 GTGGTAGTTG
536696 TGAAAGTGGTGTTGTAGAAATGGATAATGC
1 TGAAAGTGGTGTTGTAGAAATGGATAATGC
* *
536726 TGAAAGTGGTAG-TGTAG-AATGGATATTGT
1 TGAAAGTGGT-GTTGTAGAAATGGATAATGC
536755 TGAAA
1 TGAAA
536760 TAGATATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 15 0.48
30 15 0.48
31 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.33, T:0.31
Consensus pattern (30 bp):
TGAAAGTGGTGTTGTAGAAATGGATAATGC
Found at i:537902 original size:111 final size:111
Alignment explanation
Indices: 537609--538370 Score: 1050
Period size: 111 Copynumber: 7.0 Consensus size: 111
537599 GAATCGAGGC
** * *
537609 AGACTTGTTCCATTGTCACTCATGGAATATC-AATCTTGAAAGAGA--GATCTGTTCCGCTTCTT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
* *
537671 CTGAGGGAATATCAGATCTAGGAAAGTTGATCCATTGAATCAGGGT
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
* **
537717 AGACTTGTTCCGC---CACTCAGGGAAATATCAAATCTTGAAAGAGAGGGATATGTTTTGCTTCC
1 AGACTTGTTCCGCTGTCACTCAGGG-AATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCC
* *
537779 TCTGAGGGAATATCATATCTGGGAAAGTTGATTTATTGAATCAGGGT
65 TCTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
* *
537826 AGACTTTTTCCGCTGTCTCTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
*
537891 CGGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
* * * *
537937 AGACTTGTTCCGCTGTCACTCAGGGAAT-TCAAATC-TGAAAGAGAGAGATTTGTTCTGCTT-TT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
* * *
537999 TTGAGGGAATGTCAGATCTGGGAAAGTTGATCCA-TGAATCAGGGT
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
** *
538044 --ACTTGTTCCATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
* * *
538107 CTGGGGGAATATCATATTTGGGAAAGTTGATTCATTGAATCAGGGT
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
* **
538153 -GACTTGTTCCGCTGTCACT-A-GGAATATCAAATCTTGAAAGAGAGGGTATCTATTCCATTTCC
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGG-ATCTGTTCCGCTTCC
* * *
538215 TCTGAGGGAATATCAGATCTAGGAATGTTGATTTATTGAATCAGGGT
65 TCTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
* * * *
538262 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGATCTATTCTGCTTCTT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
* *
538327 CTGAGGGAATATAAGATCTGGGAAAGTTGATCCATTGAATCAGG
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGG
538371 ATCAAACATG
Statistics
Matches: 576, Mismatches: 62, Indels: 29
0.86 0.09 0.04
Matches are distributed among these distances:
105 32 0.06
106 13 0.02
107 46 0.08
108 97 0.17
109 155 0.27
110 42 0.07
111 158 0.27
112 33 0.06
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (111 bp):
AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
CTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGT
Found at i:538337 original size:220 final size:222
Alignment explanation
Indices: 537609--538370 Score: 1047
Period size: 220 Copynumber: 3.5 Consensus size: 222
537599 GAATCGAGGC
* * *
537609 AGACTTGTTCCATTGTCACTCATGGAATATC-AATCTTGAAAGAGA--GATCTGTTCCGCTTCTT
1 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
*
537671 CTGAGGGAATATCAGATCTAGGAAAGTTGATCCATTGAATCAGGGTAGACTTGTTCCGC---CAC
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTGTTCCGCTGTCAC
* * * *
537733 TCAGGGAAATATCAAATCTTGAAAGAGAGGGATATGTTTTGC-TTCCTCTGAGGGAATATCATAT
131 TCAGGG-AATATCAAATCTTGAAAGAGAGGG-TATCTATTCCTTTCCTCTGAGGGAATATCAGAT
537797 CTGGGAAAGTTGATTTATTGAATCAGGGT
194 CTGGGAAAGTTGATTTATTGAATCAGGGT
* * *
537826 AGACTTTTTCCGCTGTCTCTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
1 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
* *
537891 CGGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATCAGGGTAGACTTGTTCCGCTGTCAC
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTGTTCCGCTGTCAC
* * * * *
537956 TCAGGGAAT-TCAAATC-TGAAAGAGAGAG-ATTTGTTCTGCTTT--TTTGAGGGAATGTCAGAT
131 TCAGGGAATATCAAATCTTGAAAGAGAGGGTATCTATTC--CTTTCCTCTGAGGGAATATCAGAT
**
538016 CTGGGAAAGTTGATCCA-TGAATCAGGGT
194 CTGGGAAAGTTGATTTATTGAATCAGGGT
* *
538044 --ACTTGTTCCATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCT
1 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
* * * *
538107 CTGGGGGAATATCATATTTGGGAAAGTTGATTCATTGAATCAGGGT-GACTTGTTCCGCTGTCAC
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTGTTCCGCTGTCAC
538171 T-A-GGAATATCAAATCTTGAAAGAGAGGGTATCTATTCCATTTCCTCTGAGGGAATATCAGATC
131 TCAGGGAATATCAAATCTTGAAAGAGAGGGTATCTATTCC-TTTCCTCTGAGGGAATATCAGATC
* *
538234 TAGGAATGTTGATTTATTGAATCAGGGT
195 TGGGAAAGTTGATTTATTGAATCAGGGT
* * * * *
538262 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGATCTATTCTGCTTCTT
1 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
*
538327 CTGAGGGAATATAAGATCTGGGAAAGTTGATCCATTGAATCAGG
66 CTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGG
538371 ATCAAACATG
Statistics
Matches: 479, Mismatches: 48, Indels: 33
0.86 0.09 0.06
Matches are distributed among these distances:
213 5 0.01
214 9 0.02
215 33 0.07
216 106 0.22
217 55 0.11
218 41 0.09
219 30 0.06
220 179 0.37
221 9 0.02
222 3 0.01
223 9 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (222 bp):
AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCT
CTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAGGGTAGACTTGTTCCGCTGTCAC
TCAGGGAATATCAAATCTTGAAAGAGAGGGTATCTATTCCTTTCCTCTGAGGGAATATCAGATCT
GGGAAAGTTGATTTATTGAATCAGGGT
Found at i:538820 original size:127 final size:125
Alignment explanation
Indices: 538597--538852 Score: 478
Period size: 127 Copynumber: 2.0 Consensus size: 125
538587 TATGTCACGA
538597 TCATATTTATGCCTAAATGTGCAATGAGCAGTTATTTTAAGAGTATTTTCTTTTCAAACGAGAAT
1 TCATATTTATGCCTAAATGTGCAATGAGCAGTTATTTTAAGAGTATTTTCTTTTCAAACGAGAAT
538662 TTTCTTTTGTTAATGGCCTTGTACTTCAGACTGATTTGGG-ACGAAAAATCAACATCAGT
66 TTTCTTTTGTTAATGGCCTTGTACTTCAGACTGATTTGGGCACGAAAAATCAACATCAGT
538721 TCATATTTATGCCTAAATGTGTGCAATGATGCAGTTATTTTAAGAGTATTTTCTTTTCAAACGAG
1 TCATATTTATGCCTAAA--TGTGCAATGA-GCAGTTATTTTAAGAGTATTTTCTTTTCAAACGAG
538786 AATTTTCTTTTGTTAATGGCCTTGTACTTCAGACTGATTTGGGCACGAAAAATCAACATCAGT
63 AATTTTCTTTTGTTAATGGCCTTGTACTTCAGACTGATTTGGGCACGAAAAATCAACATCAGT
538849 TCAT
1 TCAT
538853 CTCAATCGAC
Statistics
Matches: 128, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
124 17 0.13
126 10 0.08
127 78 0.61
128 23 0.18
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (125 bp):
TCATATTTATGCCTAAATGTGCAATGAGCAGTTATTTTAAGAGTATTTTCTTTTCAAACGAGAAT
TTTCTTTTGTTAATGGCCTTGTACTTCAGACTGATTTGGGCACGAAAAATCAACATCAGT
Found at i:542273 original size:16 final size:16
Alignment explanation
Indices: 542254--542286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
542244 TAAAAACAGT
542254 AAAT-AAAAGATAAATA
1 AAATGAAAAGA-AAATA
542270 AAATGAAAAGAAAATA
1 AAATGAAAAGAAAATA
542286 A
1 A
542287 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATGAAAAGAAAATA
Found at i:542927 original size:24 final size:24
Alignment explanation
Indices: 542882--542931 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
542872 ATAAAGAACC
*
542882 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
542906 AAAATAAAGCTTAGACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
542930 AA
1 AA
542932 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:552555 original size:37 final size:37
Alignment explanation
Indices: 552502--552606 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
552492 CCTTTTCGTC
552502 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
552539 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
552576 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
552607 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:553048 original size:25 final size:26
Alignment explanation
Indices: 553014--553064 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
553004 TCATATATAA
553014 TATACGTATGTTTTTTTAAA-GATTT
1 TATACGTATGTTTTTTTAAATGATTT
553039 TATACGTATGTTTTTTTAAATGATTT
1 TATACGTATGTTTTTTTAAATGATTT
553065 CAATGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.57
Consensus pattern (26 bp):
TATACGTATGTTTTTTTAAATGATTT
Found at i:553341 original size:12 final size:12
Alignment explanation
Indices: 553284--553451 Score: 67
Period size: 12 Copynumber: 13.4 Consensus size: 12
553274 ATATGTATAC
553284 TTTTATATTTGAT
1 TTTTATATTT-AT
* *
553297 TTATATTTATTTGT
1 TT-T-TATATTTAT
*
553311 TTTT-TATTTGT
1 TTTTATATTTAT
553322 TATATTATATTTAT
1 T-T-TTATATTTAT
*
553336 TTTTATACTCTAT
1 TTTTATA-TTTAT
*
553349 TGTTATGA-TTAT
1 TTTTAT-ATTTAT
*
553361 TTTTCTATTTACT
1 TTTTATATTTA-T
* *
553374 CATTTATATATAT
1 -TTTTATATTTAT
* *
553387 ATTAATATTTCAT
1 TTTTATATTT-AT
553400 TTATT-TATTTAT
1 TT-TTATATTTAT
553412 TTATTAT-TTTAT
1 TT-TTATATTTAT
* * **
553424 TATTATTTTTCC
1 TTTTATATTTAT
553436 TTTTAT-TTTAT
1 TTTTATATTTAT
553447 TTTTA
1 TTTTA
553452 CTTATTTTAT
Statistics
Matches: 120, Mismatches: 21, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
11 21 0.17
12 46 0.38
13 26 0.22
14 21 0.17
15 6 0.05
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTATATTTAT
Found at i:553432 original size:11 final size:12
Alignment explanation
Indices: 553392--553485 Score: 52
Period size: 12 Copynumber: 7.5 Consensus size: 12
553382 TATATATTAA
*
553392 TATTTCATTTAT
1 TATTTTATTTAT
553404 T-TATTTATTTAT
1 TAT-TTTATTTAT
553416 TATTTTA-TTAT
1 TATTTTATTTAT
553427 TATTTT-TCCTT-T
1 TATTTTAT--TTAT
553439 TATTTTATTTTTACT
1 TATTTTA--TTTA-T
*
553454 TATTTTATTCAT
1 TATTTTATTTAT
* *
553466 TTTTTTCGTTTAT
1 TATTTT-ATTTAT
553479 TCATTTT
1 T-ATTTT
553486 CCCTCTAACA
Statistics
Matches: 64, Mismatches: 6, Indels: 22
0.70 0.07 0.24
Matches are distributed among these distances:
11 11 0.17
12 27 0.42
13 13 0.20
14 4 0.06
15 9 0.14
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:558587 original size:22 final size:22
Alignment explanation
Indices: 558522--558599 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
558512 ATCAAAACCG
*
558522 TGAGCATCAAATGCCAAACCTA
1 TGAGCATCAAATGCCAAACCTT
* *
558544 TGAGCATCACATACCAAACCTT
1 TGAGCATCAAATGCCAAACCTT
*
558566 TGAGCATCAAATGTCAAACCTT
1 TGAGCATCAAATGCCAAACCTT
*
558588 TGACCATACAAA
1 TGAGCAT-CAAA
558600 ATAACCTAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 44 0.92
23 4 0.08
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.22
Consensus pattern (22 bp):
TGAGCATCAAATGCCAAACCTT
Found at i:559620 original size:106 final size:106
Alignment explanation
Indices: 559426--560881 Score: 1981
Period size: 106 Copynumber: 13.9 Consensus size: 106
559416 CAAGAAAACA
* * ** * * * * *
559426 CAAGTTCAACTTCACAACGAATGGAAGGCTGGTTGTCAA-CAACAATTTTCCAATTTCGGAGCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
559490 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
559531 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTTAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* *
559596 ATTGT-AACTTCACAGA-GAAAGATATTGGACTCAAGACAACG
66 ATT-TCAACTTCACA-ACGAAGGATATTGGACTCCAGACAACG
*
559637 CAAGTTCAACTTAACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* *
559702 ATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
559743 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
*
559808 ATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
559849 CAAGTTCAACTTCATGACGAAGGGACCCGCTGGTTGTCAATAAAACAA-TTTCCAATTTCAGAGC
1 CAAGTTCAACTTCACGACGAAGGGA-CCGCTGGTTGTCAAT-AAACAACTTCCCAATTTCAGAGC
* * * *
559913 CAATTTCAACTTCACAGCGTA-GAT-TTGGACTCAAGACAACC
64 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
559954 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG-CA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* *
560018 ATTTCAACTTCACAGCGAAGGATATTGGACTCCATACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
560059 C-AGTTC-ACTTCACGACGAAGGGACCGCTGGTTGTC-A-ACACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* *
560120 ATTTAAACTTCACAACGAAGGGTATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * *
560161 CAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* *
560226 ATTTCAACTTCACAACGAAAGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
560267 CAAGTTCAACTTCACGACGAA-GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
560331 ATTTCAACTTCACAACGAAGG--ATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * *
560370 CAAGTTCAACTT--C-ACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
*
560432 ATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
560473 CAAGTTCAACTTCACGACGATGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
** * *
560538 ATTTCAACTTCACGGCGTAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
560579 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* * * * * *
560644 ATTTCAACTTCTCATCGAATGATCTTGGAC-CCAAGATAACA
66 ATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACG
* * * * * *
560685 CAAGCTCAACTTCACGACGAAGGGGA-GGCTGATTATCAAT-AA-AA-TT-TC-A-TTCAGAGTC
1 CAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCC
* * * * *
560743 AATTTTAACTTCACAACGAATGATATTGGACTCGAGATAACA
65 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * * ** *
560785 CAAGTTTAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* *
560850 ATTTCAACTTCACGACGGAGGATATTGGACTC
66 ATTTCAACTTCACAACGAAGGATATTGGACTC
560882 GGAACAATGC
Statistics
Matches: 1203, Mismatches: 117, Indels: 61
0.87 0.08 0.04
Matches are distributed among these distances:
99 4 0.00
100 77 0.06
101 84 0.07
102 44 0.04
103 123 0.10
104 68 0.06
105 152 0.13
106 593 0.49
107 52 0.04
108 6 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
Found at i:560175 original size:312 final size:317
Alignment explanation
Indices: 559426--560881 Score: 2139
Period size: 312 Copynumber: 4.6 Consensus size: 317
559416 CAAGAAAACA
* * ** * * *
559426 CAAGTTCAACTTCACAACGAATGGAAGGCTGGTTGTCAACAACAA-TTTTCCAATTTCGGAGCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCT-CAATTTCAGAGCCA
*
559490 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
559555 ACCGCTGGTTGTTAATAAACAATTTCCCAATTTCAGAGCCAATTGT-AACTTCACAGAGAAAGAT
130 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATT-TCAACTTCACAGCGAAAGAT
*
559619 ATTGGACTCAAGACAACGCAAGTTCAACTTAACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
194 ATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
*
559684 TTCCCAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
259 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
559743 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
559808 ATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
559873 ACCCGCTGGTTGTCAATAAAACAATTT-CCAATTTCAGAGCCAATTTCAACTTCACAGCG-TAGA
130 A-CCGCTGGTTGTCAAT-AAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGA
*
559936 T-TTGGACTCAAGACAACCCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
193 TATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
*
560000 CTTCCCAATTTCAGAG-CAATTTCAACTTCACAGCGAAGGATATTGGACTCCATACAACG
258 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
560059 C-AGTTC-ACTTCACGACGAAGGGACCGCTGGTTGTCAAC-ACAACTTCTCAATTTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCAA
* * *
560121 TTTAAACTTCACAACGAAGGGTATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGA
66 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* * * *
560186 CCGCTGGTTGTCAACAAATAATTTCCCAATTTTAGAGCCAATTTCAACTTCACAACGAAAGATAT
131 CCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATAT
560251 TGGACTCAAGACAACGCAAGTTCAACTTCACGACGAA-GGACCGCTGGTTGTCAATAAACAACTT
196 TGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
*
560315 CCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG--ATTGGACTCCAGACAACG
261 CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
560370 CAAGTTCAACTT--C-ACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
* *
560432 ATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGATGGG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
560497 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACGGCGTAGGATA
130 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATA
560562 TTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
195 TTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
* * * * * *
560627 TCCCAATTTCAGAGCCAATTTCAACTTCTCATCGAATGATCTTGGAC-CCAAGATAACA
260 TCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACG
* * * * * *
560685 CAAGCTCAACTTCACGACGAAGGGGA-GGCTGATTATCAATAA-AA-TT-TC-A-TTCAGAGTCA
1 CAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * * * * *
560744 ATTTTAACTTCACAACGAATGATATTGGACTCGAGATAACACAAGTTTAACTTCACAACGAAGGG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * ** * * *
560809 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGAT
130 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAAGAT
560873 ATTGGACTC
194 ATTGGACTC
560882 GGAACAATGC
Statistics
Matches: 1048, Mismatches: 69, Indels: 49
0.90 0.06 0.04
Matches are distributed among these distances:
310 32 0.03
311 64 0.06
312 444 0.42
313 125 0.12
314 35 0.03
315 30 0.03
316 44 0.04
317 115 0.11
318 100 0.10
319 50 0.05
320 9 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (317 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCAA
TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
CCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATAT
TGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTT
CCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:560225 original size:418 final size:424
Alignment explanation
Indices: 559426--560881 Score: 2010
Period size: 418 Copynumber: 3.5 Consensus size: 424
559416 CAAGAAAACA
* * ** * * * *
559426 CAAGTTCAACTTCACAACGAATGGAAGGCTGGTTGTCAA-CAACAATTTTCCAATTTCGGAGCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCA
*
559490 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * *
559555 ACCGCTGGTTGTTAATAAACAATTTCCCAATTTCAGAGCCAATTGT-AACTTCACAGAGAAAGAT
131 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATT-TCAACTTCACAGCGAAGGAT
* *
559619 ATTGGACTCAAGACAACGCAAGTTCAACTTAACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
195 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
*
559684 TTCCCAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
260 TTCCCAATTTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
559749 CAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCA
325 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCA
*
559814 ACTTTACAACGAAGGATATTGGACTCCAGACAACG
390 ACTTTACAACGAAAGATATTGGACTCCAGACAACG
*
559849 CAAGTTCAACTTCATGACGAAGGGACCCGCTGGTTGTCAATAAAACAA-TTTCCAATTTCAGAGC
1 CAAGTTCAACTTCACGACGAAGGGA-CCGCTGGTTGTCAAT-AAACAACTTTCCAATTTCAGAGC
* * * *
559913 CAATTTCAACTTCACAGCGTA-GAT-TTGGACTCAAGACAACCCAAGTTCAACTTCACGACGAAG
64 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
559976 GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG-CAATTTCAACTTCACAGCGAAGGA
129 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
* *
560040 TATTGGACTCCATACAACGC-AGTTC-ACTTCACGACGAAGGGACCGCTGGTTGTC-A-ACACAA
194 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
* * *
560101 CTTCTCAATTTCAGAGCCAATTTAAACTTCACAACGAAGGGTATTGGACTCCAGACAACGCAAGT
259 CTTCCCAATTTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGT
* * * *
560166 TCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTTAGAGCCAATTTC
324 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTC
* *
560231 AACTTCACAACGAAAGATATTGGACTCAAGACAACG
389 AACTTTACAACGAAAGATATTGGACTCCAGACAACG
*
560267 CAAGTTCAACTTCACGACGAA-GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCA
560331 ATTTCAACTTCACAACGAAGG--ATTGGACTCCAGACAACGCAAGTTCAACTT--C-ACGAAGGG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * *
560391 ACCGCTGGTTGTCAACAAATAACTTCTCAATTTTAGAGCCAATTTTAACTTCACAACGAAGGATA
131 ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* *
560456 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGATGGGACCGCTGGTTGTCAATAAACAATT
196 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
* * * *
560521 TCCCAATTTCAGAGCCAATTTCAACTTCACGGCGTAGGATATTGGACTCAAGACAACGCAAGTTC
261 TCCCAATTTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTC
*
560586 AACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAA
326 AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAA
* * * * *
560651 CTTCT-CATCGAATGATCTTGGAC-CCAAGATAACA
391 CTT-TACAACGAAAGATATTGGACTCC-AGACAACG
* * * * *
560685 CAAGCTCAACTTCACGACGAAGGGGA-GGCTGATTATCAAT-AA-AA-TTT-C-A-TTCAGAGTC
1 CAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCC
* * * * * * *
560743 AATTTTAACTTCACAACGAATGATATTGGACTCGAGATAACACAAGTTTAACTTCACAACGAAGG
65 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * ** * *
560808 GACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGA
130 GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGA
560872 TATTGGACTC
194 TATTGGACTC
560882 GGAACAATGC
Statistics
Matches: 919, Mismatches: 92, Indels: 49
0.87 0.09 0.05
Matches are distributed among these distances:
413 70 0.08
414 43 0.05
415 38 0.04
416 106 0.12
417 9 0.01
418 417 0.45
419 12 0.01
420 31 0.03
421 6 0.01
422 38 0.04
423 96 0.10
424 15 0.02
425 33 0.04
426 5 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (424 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCCAATTTCAGAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
TCCCAATTTCAGAGCCAATTTAAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTC
AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAA
CTTTACAACGAAAGATATTGGACTCCAGACAACG
Found at i:561669 original size:37 final size:37
Alignment explanation
Indices: 561612--561708 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
561602 CCTTTTGGTC
*
561612 CTACTAAGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * *
561649 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* *
561686 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
561709 GATAGGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:562252 original size:2 final size:2
Alignment explanation
Indices: 562247--562307 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
562237 CGTATATACC
562247 AT AT AT AT AT AT AT A- 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
562288 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
562308 TGTAATCTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:562539 original size:4 final size:4
Alignment explanation
Indices: 562532--562557 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
562522 TAATATTTCA
562532 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
562558 TCCTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:562603 original size:17 final size:17
Alignment explanation
Indices: 562583--562617 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
562573 TTTTTACATA
*
562583 TTTTT-ATTCTTCATTT
1 TTTTTCATTATTCATTT
562599 TTTTTCATTATTCATTT
1 TTTTTCATTATTCATTT
562616 TT
1 TT
562618 CCCTCTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCATTATTCATTT
Found at i:562804 original size:13 final size:13
Alignment explanation
Indices: 562777--562834 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
562767 GCTATATATA
*
562777 TATTATATTTCATT
1 TATT-TATTTTATT
562791 TATTTATTTTATT
1 TATTTATTTTATT
*
562804 TATTTATTTT-TCC
1 TATTTATTTTAT-T
562817 T-TTTATTTTATT
1 TATTTATTTTATT
*
562829 TTTTTA
1 TATTTA
562835 CATATTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.26
13 24 0.63
14 4 0.11
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTATTTTATT
Found at i:562883 original size:255 final size:261
Alignment explanation
Indices: 562511--563029 Score: 905
Period size: 258 Copynumber: 2.0 Consensus size: 261
562501 TACTCATTTA
562511 TATATATATATTAATATTTCATTATTTATTTATTTATTTATTTATTTTCCTTTTATTTTATTTTT
1 TATATATATATTAATATTTCATTATTTATTTATTTATTTA-TTATTTTCCTTTTATTTTATTTTT
562576 TTACATATTTTTATTCTTCATTTTTTTTCATTATTCATTTTTCCCTCTAACACATC-T-TGACTT
65 TTACATATTTTTATTCTTCATTTTTTTTCATTATTCATTTTTCCCTCTAACACATCTTATGACTT
*
562639 TT-AGGGTATTTTCGTCAATTAATCAGAGGTAAGTAATTCATGATCAAATTTTCCTTTTAATTTA
130 TTAAGGGTATTTTCGTCAATTAATCAGAGGTAAGTAATTCATGATCAAATTTACCTTTTAATTTA
*
562703 AAATTACAATTTTTTTAATTAAGACAACTGGAAATTACGTAGTACCG-AAGGGCGGTTCAAGGGT
195 AAATTACAATTTTCTTAATTAAGACAACTGGAAATTACGTAGTACCGAAAGGGCGGTTCAAGGGT
562767 GC
260 GC
562769 TATATATATATT-ATATTTCATTTATTTATTTTATTTATTTA-T-TTTTCCTTTTATTTTATTTT
1 TATATATATATTAATATTTCA-TTATTTA-TTTATTTATTTATTATTTTCCTTTTATTTTATTTT
562831 TTTACATA-TTTTATTC-TCA-TTTTTTTCATTTATTCATTTTTTCCCTCTAACACATCTTATGA
64 TTTACATATTTTTATTCTTCATTTTTTTTCA-TTATTCA-TTTTTCCCTCTAACACATCTTATGA
562893 CTTTTAAGGGTATTTTCGTCAATTAATCAGAGGTAAGTAATTCATGATCAAATTTACCTTTTAAT
127 CTTTTAAGGGTATTTTCGTCAATTAATCAGAGGTAAGTAATTCATGATCAAATTTACCTTTTAAT
562958 TTAAAATTACAATTTTCTTAATTAAGACAACTGGAAATTACGTAGTACCGAAAGGGCGGTTCAAG
192 TTAAAATTACAATTTTCTTAATTAAGACAACTGGAAATTACGTAGTACCGAAAGGGCGGTTCAAG
563023 GGTGC
257 GGTGC
563028 TA
1 TA
563030 ATCCTTCATT
Statistics
Matches: 251, Mismatches: 2, Indels: 15
0.94 0.01 0.06
Matches are distributed among these distances:
253 9 0.04
254 10 0.04
255 27 0.11
256 29 0.12
257 17 0.07
258 126 0.50
259 33 0.13
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.49
Consensus pattern (261 bp):
TATATATATATTAATATTTCATTATTTATTTATTTATTTATTATTTTCCTTTTATTTTATTTTTT
TACATATTTTTATTCTTCATTTTTTTTCATTATTCATTTTTCCCTCTAACACATCTTATGACTTT
TAAGGGTATTTTCGTCAATTAATCAGAGGTAAGTAATTCATGATCAAATTTACCTTTTAATTTAA
AATTACAATTTTCTTAATTAAGACAACTGGAAATTACGTAGTACCGAAAGGGCGGTTCAAGGGTG
C
Found at i:563364 original size:16 final size:16
Alignment explanation
Indices: 563345--563377 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
563335 TAGAAGCAGT
563345 AAAT-AAAAGATAAATA
1 AAATGAAAAGA-AAATA
563361 AAATGAAAAGAAAATA
1 AAATGAAAAGAAAATA
563377 A
1 A
563378 TCCTCACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATGAAAAGAAAATA
Found at i:563862 original size:24 final size:24
Alignment explanation
Indices: 563817--563866 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
563807 ATAAAGAACC
*
563817 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
563841 AAAATAAAGCTTAAACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
563865 AA
1 AA
563867 TCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:569148 original size:21 final size:21
Alignment explanation
Indices: 569122--569182 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
569112 CTTCAGAGGT
569122 AATACCAATAGTTGGAGCTGA
1 AATACCAATAGTTGGAGCTGA
569143 AATACCAATAGTTGGAGCTGA
1 AATACCAATAGTTGGAGCTGA
*
569164 AATACCAATAGTTGAAGCT
1 AATACCAATAGTTGGAGCT
569183 TTTCCACGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (21 bp):
AATACCAATAGTTGGAGCTGA
Found at i:573433 original size:2 final size:2
Alignment explanation
Indices: 573426--573462 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
573416 CTAAAAACAT
573426 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
573463 TAACCATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:573639 original size:2 final size:2
Alignment explanation
Indices: 573632--573761 Score: 117
Period size: 2 Copynumber: 66.5 Consensus size: 2
573622 TAAATACCTT
* *
573632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * ** *
573674 T- TGG TG TT TA -A TA AA AA TA -A TA -A TA TA CG TA AA T- TA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
573712 TA TA TA TA TA TA 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 TA TA TA TA TA TA
573754 TA TCA TA T
1 TA T-A TA T
573762 TTAATAAAAG
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
1 5 0.05
2 100 0.93
3 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:576768 original size:10 final size:10
Alignment explanation
Indices: 576753--576833 Score: 83
Period size: 10 Copynumber: 7.6 Consensus size: 10
576743 AATATTTTTT
576753 TGTTGAAATA
1 TGTTGAAATA
576763 TGTTGAAATA
1 TGTTGAAATA
*
576773 TGCTATGAAAGA
1 TG-T-TGAAATA
576785 TGTT-AAGATA
1 TGTTGAA-ATA
576795 TGTTGTTGAAATA
1 ---TGTTGAAATA
*
576808 TGTTGAGATA
1 TGTTGAAATA
576818 TGTTGAAATA
1 TGTTGAAATA
576828 TGTTGA
1 TGTTGA
576834 GACCATTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
9 2 0.03
10 39 0.65
11 2 0.03
12 8 0.13
13 7 0.12
14 2 0.03
ACGTcount: A:0.36, C:0.01, G:0.23, T:0.40
Consensus pattern (10 bp):
TGTTGAAATA
Found at i:576810 original size:23 final size:23
Alignment explanation
Indices: 576752--576822 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
576742 TAATATTTTT
576752 TTGTTGAAATATGTTGAA-ATATG
1 TTGTTGAAATATGTT-AAGATATG
* * *
576775 CT-ATGAAAGATGTTAAGATATG
1 TTGTTGAAATATGTTAAGATATG
*
576797 TTGTTGAAATATGTTGAGATATG
1 TTGTTGAAATATGTTAAGATATG
576820 TTG
1 TTG
576823 AAATATGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.05
22 16 0.41
23 21 0.54
ACGTcount: A:0.34, C:0.01, G:0.24, T:0.41
Consensus pattern (23 bp):
TTGTTGAAATATGTTAAGATATG
Found at i:576843 original size:20 final size:20
Alignment explanation
Indices: 576798--576849 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
576788 TAAGATATGT
*
576798 TGTTGAAATATGTTGAGATA
1 TGTTGAAATATGTTGAGACA
576818 TGTTGAAATATGTTGAGACCA
1 TGTTGAAATATGTTGAGA-CA
*
576839 T-TTGAGATATG
1 TGTTGAAATATG
576850 CAGACCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (20 bp):
TGTTGAAATATGTTGAGACA
Found at i:576893 original size:13 final size:13
Alignment explanation
Indices: 576863--576887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
576853 ACCATTATGA
576863 ATGTTGAAATATT
1 ATGTTGAAATATT
576876 ATGTTGAAATAT
1 ATGTTGAAATAT
576888 GTTGTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATGTTGAAATATT
Found at i:581199 original size:30 final size:31
Alignment explanation
Indices: 581124--581205 Score: 130
Period size: 31 Copynumber: 2.7 Consensus size: 31
581114 TAATGGCTAT
*
581124 TAACGGTGAGTGACCAATTTGTAACAAATGA
1 TAACAGTGAGTGACCAATTTGTAACAAATGA
581155 TAACAGTGAGTGACCAATTTGTAACAAATGA
1 TAACAGTGAGTGACCAATTTGTAACAAATGA
* *
581186 TAA-TGTTAGTGACCAATTTG
1 TAACAGTGAGTGACCAATTTG
581206 AGACTTTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 15 0.31
31 33 0.69
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (31 bp):
TAACAGTGAGTGACCAATTTGTAACAAATGA
Found at i:599541 original size:33 final size:33
Alignment explanation
Indices: 599504--599588 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
599494 CCCGAACCTG
*
599504 AAAATATTTTATATATAATTAATATAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAATAT
* *
599537 AAAATATTATATCTATAATTAATATAAAAAAAT
1 AAAATATTATATATATAATTAATATAAAAATAT
*
599570 ATATATATATATATATATA
1 A-AAATAT-TATATATATA
599589 TATATATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
33 31 0.69
34 5 0.11
35 9 0.20
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
AAAATATTATATATATAATTAATATAAAAATAT
Found at i:599573 original size:2 final size:2
Alignment explanation
Indices: 599568--599600 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
599558 ATATAAAAAA
599568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
599601 ATAGGGGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:599982 original size:20 final size:20
Alignment explanation
Indices: 599957--599995 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
599947 ATCATTAGAA
*
599957 TTTAAACAATTATATAATAT
1 TTTAAACAATTATAAAATAT
*
599977 TTTAAATAATTATAAAATA
1 TTTAAACAATTATAAAATA
599996 ATCATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAACAATTATAAAATAT
Found at i:602461 original size:33 final size:33
Alignment explanation
Indices: 602419--602505 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 33
602409 CCTAAGAATA
*
602419 CCTAAGAACCCCAGGGGCATCTCCGTAAAAATT
1 CCTAAGAACCCCAGGGGCATCTCCGTAAAAATC
* ** *
602452 CCTAAGAACCCCAGGGTCATCTTTGTAAGAATC
1 CCTAAGAACCCCAGGGGCATCTCCGTAAAAATC
**
602485 CCTAAGAAATCCA-GGGCATCT
1 CCTAAGAACCCCAGGGGCATCT
602506 TCATGGCTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
32 7 0.15
33 39 0.85
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (33 bp):
CCTAAGAACCCCAGGGGCATCTCCGTAAAAATC
Found at i:608475 original size:31 final size:31
Alignment explanation
Indices: 608440--608506 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
608430 AGTTGGATAG
* * * * *
608440 TGTTCGATTTGTTCTTGTTAGAAAAATTTGT
1 TGTTCGACTTGTGCTTGTTACAAAAACTTCT
608471 TGTTCGACTTGTGCTTGTTACAAAAACTTCT
1 TGTTCGACTTGTGCTTGTTACAAAAACTTCT
608502 TGTTC
1 TGTTC
608507 AACTAGACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (31 bp):
TGTTCGACTTGTGCTTGTTACAAAAACTTCT
Found at i:608545 original size:28 final size:28
Alignment explanation
Indices: 608512--608568 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
608502 TGTTCAACTA
* *
608512 GACTTGTTTCTCGTTAAGCTCATTGCTC
1 GACTTGTTGCTCATTAAGCTCATTGCTC
*
608540 GACTTGTTGCTCATTAAGCTCGTTGCTC
1 GACTTGTTGCTCATTAAGCTCATTGCTC
608568 G
1 G
608569 TTAAACTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (28 bp):
GACTTGTTGCTCATTAAGCTCATTGCTC
Found at i:609614 original size:16 final size:17
Alignment explanation
Indices: 609564--609615 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
609554 AAAATAAAAA
609564 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
609581 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
609596 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
609612 AATT
1 AATT
609616 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:610575 original size:31 final size:30
Alignment explanation
Indices: 610453--610582 Score: 208
Period size: 30 Copynumber: 4.3 Consensus size: 30
610443 GAAGGACCTA
* * *
610453 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
610482 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
610512 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
610542 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
*
610573 TCCATAGGTC
1 TCCAGAGGTC
610583 CCGAAGAACC
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.17
30 65 0.68
31 14 0.15
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:610599 original size:31 final size:31
Alignment explanation
Indices: 610507--610632 Score: 103
Period size: 31 Copynumber: 4.1 Consensus size: 31
610497 GATCCTCGGT
* ** * *
610507 AACTGTCCAGAGGTCATAAAGATCCTCGGT-
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
* ** * *
610537 AACTGTCCAGAGGTCATAAAGATCCTCGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
*
610568 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
* * *
610599 AACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCACGAAGA-ACCTAGGTA
610630 AAC
1 AAC
610633 CCTCGACTCT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
30 31 0.36
31 54 0.64
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCACGAAGAACCTAGGTA
Found at i:611727 original size:21 final size:21
Alignment explanation
Indices: 611697--611741 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
611687 ATTGTGTCGT
* *
611697 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
611718 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
611739 TTG
1 TTG
611742 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:615149 original size:31 final size:30
Alignment explanation
Indices: 615027--615181 Score: 213
Period size: 30 Copynumber: 5.1 Consensus size: 30
615017 GAAGGACCTA
* * *
615027 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
615056 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
615086 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
615116 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
* ** * *
615147 TCCATAGGTCCCAAAGAACCTAGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
615178 TCCA
1 TCCA
615182 TATGTCTCGA
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.14
30 65 0.56
31 35 0.30
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:615202 original size:31 final size:31
Alignment explanation
Indices: 615111--615206 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
615101 GATCCTCGGT
* ** * * *
615111 AACTGTCCAGAGGTCATAAAGATCCTCGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
*
615142 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
* *
615173 AACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATAGGTC-CCAAAGAACATAGGTA
615204 AAC
1 AAC
615207 CCTCGACTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 51 0.91
32 5 0.09
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCAAAGAACATAGGTA
Found at i:615709 original size:2 final size:2
Alignment explanation
Indices: 615702--615764 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
615692 ATACAATTCC
615702 TA TA TA TA TA TA 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 TA TA TA TA TA TA
615744 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
615765 CTAACTCATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:616351 original size:21 final size:21
Alignment explanation
Indices: 616321--616365 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
616311 ATTGTGTCGT
* *
616321 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
616342 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
616363 TTG
1 TTG
616366 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:617809 original size:30 final size:29
Alignment explanation
Indices: 617772--617855 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
617762 GGTAATAGAG
*
617772 TTTGAGG-TTCAATTTAAAATTTTAAAAGT
1 TTTGAGGATTCAA-TTAAAATTTTAAAAAT
* * *
617801 TTTAGAGGTTTAAAATAAAAATTTTAAAAAT
1 TTT-GAGGATT-CAATTAAAATTTTAAAAAT
*
617832 TTTGAAGGATTCAATTAACATTTT
1 TTTG-AGGATTCAATTAAAATTTT
617856 TTTTTCAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.07
30 15 0.34
31 24 0.55
32 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.43
Consensus pattern (29 bp):
TTTGAGGATTCAATTAAAATTTTAAAAAT
Found at i:619185 original size:2 final size:2
Alignment explanation
Indices: 619178--619218 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
619168 ACTCATTAGT
619178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
619219 TTCTAGTTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:629129 original size:23 final size:23
Alignment explanation
Indices: 629085--629148 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
629075 ACAGCTGTAT
* * * *
629085 AAATACACCGAACTGCCACGTAG
1 AAATGCACCGAAGTGTCGCGTAG
* *
629108 AATTGCACCGAAGTGTCGCGTAT
1 AAATGCACCGAAGTGTCGCGTAG
*
629131 AAATGCACCGTAGTGTCG
1 AAATGCACCGAAGTGTCG
629149 TATATAATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
AAATGCACCGAAGTGTCGCGTAG
Found at i:629154 original size:23 final size:23
Alignment explanation
Indices: 629111--629155 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
629101 CACGTAGAAT
*
629111 TGCACCGAAGTGTCGCGTATAAA
1 TGCACCGAAGTGTCGCATATAAA
* *
629134 TGCACCGTAGTGTCGTATATAA
1 TGCACCGAAGTGTCGCATATAA
629156 TGTCCATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (23 bp):
TGCACCGAAGTGTCGCATATAAA
Found at i:635949 original size:23 final size:23
Alignment explanation
Indices: 635884--635950 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
635874 CACCACAGCT
* *
635884 CGTATAAATGCACCGAACTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
635907 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
* *
635930 CGTTGAAATGCACCGTAGTGC
1 CGTAGAAATGCACCGAAGTGC
635951 TATATATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:637576 original size:29 final size:29
Alignment explanation
Indices: 637544--637638 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
637534 CATTTAAATT
*
637544 TCACATTTATATAATCACGTAGTTCAATA
1 TCACATTTATATAATCACATAGTTCAATA
**
637573 TCACATAGACATATAATCACATAGCTT--ATA
1 TCACAT--TTATATAATCACATAG-TTCAATA
* *
637603 TCA-ATTTTCATATAATCACTTAGGTCAATA
1 TCACA-TTT-ATATAATCACATAGTTCAATA
*
637633 ACACAT
1 TCACAT
637639 AGCTTAATCA
Statistics
Matches: 50, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
28 1 0.02
29 20 0.40
30 13 0.26
31 14 0.28
32 2 0.04
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (29 bp):
TCACATTTATATAATCACATAGTTCAATA
Found at i:637639 original size:44 final size:45
Alignment explanation
Indices: 637572--637729 Score: 144
Period size: 44 Copynumber: 3.5 Consensus size: 45
637562 GTAGTTCAAT
* *
637572 ATCACATA-GACATATAATCACATAGCTTATATCA-ATTTTCATATA
1 ATCACATAGGTCA-ATAA-CACATAGCTTATATCATATTCTCATATA
* *
637617 ATCACTTAGGTCAATAACACATAGCTTA-ATCATATTCTCATGTA
1 ATCACATAGGTCAATAACACATAGCTTATATCATATTCTCATATA
* * * * * *
637661 ATCACATATGTCAATATCACATATCTTATATCTTGTTCACATAT-
1 ATCACATAGGTCAATAACACATAGCTTATATCATATTCTCATATA
* *
637705 ATCCACATAGATCATGTAACACATA
1 AT-CACATAGGTCA-ATAACACATA
637730 AGATAACATA
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
43 4 0.04
44 46 0.50
45 31 0.34
46 11 0.12
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (45 bp):
ATCACATAGGTCAATAACACATAGCTTATATCATATTCTCATATA
Found at i:638765 original size:36 final size:36
Alignment explanation
Indices: 638718--638792 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
638708 TTTTATTCAA
638718 TCTCAGGTAACTTGCAAATCTTTTAGTTTCTACTTC
1 TCTCAGGTAACTTGCAAATCTTTTAGTTTCTACTTC
638754 TCTCAGGTAACTTGCAAATCTTTTAGTTTCTACTTC
1 TCTCAGGTAACTTGCAAATCTTTTAGTTTCTACTTC
638790 TCT
1 TCT
638793 TTAAGCTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (36 bp):
TCTCAGGTAACTTGCAAATCTTTTAGTTTCTACTTC
Found at i:642872 original size:5 final size:5
Alignment explanation
Indices: 642864--642946 Score: 70
Period size: 5 Copynumber: 17.6 Consensus size: 5
642854 AAATGAATAG
* * *
642864 AAAAT AAAAT AAAAT AGAAT AAGAT AAAA- AAGAT -AAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
642911 AAGA- AAAAT -AAAG AAAAT AAAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAA
642947 CAAAACGAGG
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
4 20 0.32
5 37 0.60
6 5 0.08
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:642894 original size:22 final size:23
Alignment explanation
Indices: 642869--642946 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 23
642859 AATAGAAAAT
*
642869 AAAATAAAATAGAATAAGATAA-A
1 AAAATAAAATA-AATAAAATAAGA
642892 AAAGAT-AAATAAATAAAATAAGA
1 AAA-ATAAAATAAATAAAATAAGA
642915 AAAATAAAGA-AAATAAAAATAA-A
1 AAAATAAA-ATAAAT-AAAATAAGA
642938 ATAAATAAA
1 A-AAATAAA
642947 CAAAACGAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
22 11 0.23
23 20 0.42
24 17 0.35
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (23 bp):
AAAATAAAATAAATAAAATAAGA
Found at i:642905 original size:27 final size:27
Alignment explanation
Indices: 642881--642941 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
642871 AATAAAATAG
*
642881 AATAAGATAAA-AAAGATAAATAAATAA
1 AATAAGAAAAATAAAGA-AAATAAATAA
642908 AATAAGAAAAATAAAGAAAATAAAAATAA
1 AATAAGAAAAATAAAGAAAAT--AAATAA
642937 AATAA
1 AATAA
642942 ATAAACAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 14 0.47
28 5 0.17
29 11 0.37
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (27 bp):
AATAAGAAAAATAAAGAAAATAAATAA
Found at i:642933 original size:24 final size:23
Alignment explanation
Indices: 642864--642951 Score: 67
Period size: 24 Copynumber: 3.7 Consensus size: 23
642854 AAATGAATAG
*
642864 AAAATAAAATAAA-ATAGAATAAGAT
1 AAAAT-AAATAAACA-A-AATAAAAT
*
642889 AAAA-AAGATAAA-TAAATAAAAT
1 AAAATAA-ATAAACAAAATAAAAT
*
642911 AAGAA-AAATAAAGAAAATAAAAAT
1 AA-AATAAATAAACAAAAT-AAAAT
642935 AAAATAAATAAACAAAA
1 AAAATAAATAAACAAAA
642952 CGAGGAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
22 14 0.26
23 13 0.24
24 23 0.43
25 4 0.07
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (23 bp):
AAAATAAATAAACAAAATAAAAT
Found at i:642943 original size:9 final size:9
Alignment explanation
Indices: 642865--642946 Score: 71
Period size: 9 Copynumber: 8.8 Consensus size: 9
642855 AATGAATAGA
642865 AAATAAAAT
1 AAATAAAAT
*
642874 AAAATAGAAT
1 -AAATAAAAT
642884 AAGATAAAA-
1 AA-ATAAAAT
642893 AAGAT-AAAT
1 AA-ATAAAAT
642902 AAATAAAAT
1 AAATAAAAT
642911 AAGA-AAAAT
1 AA-ATAAAAT
*
642920 AAAGAAAAT
1 AAATAAAAT
642929 AAAAATAAAAT
1 --AAATAAAAT
642940 AAATAAA
1 AAATAAA
642947 CAAAACGAGG
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
8 6 0.10
9 34 0.55
10 14 0.23
11 8 0.13
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (9 bp):
AAATAAAAT
Found at i:643051 original size:13 final size:14
Alignment explanation
Indices: 643035--643076 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
643025 AAGTATATAT
643035 ATATATAAT-ATAA
1 ATATATAATAATAA
643048 ATATATAAATAATAA
1 ATATAT-AATAATAA
643063 ATA-ATAATAATAA
1 ATATATAATAATAA
643076 A
1 A
643077 ATGTATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 15 0.56
14 5 0.19
15 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATAATAATAA
Found at i:643062 original size:7 final size:7
Alignment explanation
Indices: 643044--643076 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
643034 TATATATAAT
643044 ATAAATA
1 ATAAATA
643051 TATAAATA
1 -ATAAATA
643059 ATAAATA
1 ATAAATA
643066 AT-AATA
1 ATAAATA
643072 ATAAA
1 ATAAA
643077 ATGTATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAAATA
Found at i:644299 original size:2 final size:2
Alignment explanation
Indices: 644294--644344 Score: 52
Period size: 2 Copynumber: 25.5 Consensus size: 2
644284 AAAAGAATAA
* *
644294 AT AT AT AA AT AT AT -T AT AT AT AT AT AT GAA AT AT -T AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A-T
644336 AT AT AT AT A
1 AT AT AT AT A
644345 ATGATAACGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 2 0.05
2 36 0.88
3 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:644344 original size:25 final size:21
Alignment explanation
Indices: 644294--644342 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
644284 AAAAGAATAA
644294 ATATATAAATATATTATATAT
1 ATATATAAATATATTATATAT
*
644315 ATATATGAA-ATATTATATAGT
1 ATATATAAATATATTATATA-T
644336 ATATATA
1 ATATATA
644343 TAATGATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATATAAATATATTATATAT
Found at i:646484 original size:20 final size:21
Alignment explanation
Indices: 646451--646490 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
646441 CACCTTATTT
646451 TTCTTCTCT-TTTTTCTTTTG
1 TTCTTCTCTCTTTTTCTTTTG
*
646471 TTCTTTTCTCTTTTTCTTTT
1 TTCTTCTCTCTTTTTCTTTT
646491 TTTTCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (21 bp):
TTCTTCTCTCTTTTTCTTTTG
Found at i:656482 original size:70 final size:70
Alignment explanation
Indices: 656399--656540 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
656389 TTAGCACCCT
* *
656399 TGAACTGCCCTTTCGGTACTATGTAATTTCCAATTGTCTTTAATTAAGAAAGTGGTAAATTTAAA
1 TGAACTGCCCTTTCGATACTATATAATTTCCAATTGTCTTTAATTAAGAAAGTGGTAAATTTAAA
656464 TTAAA
66 TTAAA
656469 TGAACTGCCCTTTCGATACTATATAATTTCCAATTGTCTTTAATTAAGAAAGTGGTAAATTTAAA
1 TGAACTGCCCTTTCGATACTATATAATTTCCAATTGTCTTTAATTAAGAAAGTGGTAAATTTAAA
656534 TTAAA
66 TTAAA
656539 TG
1 TG
656541 GTAAAATGAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (70 bp):
TGAACTGCCCTTTCGATACTATATAATTTCCAATTGTCTTTAATTAAGAAAGTGGTAAATTTAAA
TTAAA
Found at i:656787 original size:4 final size:4
Alignment explanation
Indices: 656778--656843 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
656768 CTAAAAAGAT
* * * * *
656778 AATA AATAA AATA AGAAA AATA AATA AATC AATA AATA AAGA AAGA AAGA
1 AATA AAT-A AATA A-ATA AATA AATA AATA AATA AATA AATA AATA AATA
656828 AAT- AA-A AATA AATA AA
1 AATA AATA AATA AATA AA
656844 CAAGACGAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
3 4 0.08
4 41 0.79
5 7 0.13
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (4 bp):
AATA
Found at i:656842 original size:30 final size:28
Alignment explanation
Indices: 656769--656843 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 28
656759 TAGAATAAGC
*
656769 TAAAAAGATAATAAATAAAATAAGAAAAA
1 TAAAAATA-AATAAATAAAATAAGAAAAA
*
656798 TAAATAAATCAATAAATAAAGA-AAGAAAGAAA
1 T-AA-AAATAAATAAATAAA-ATAAG-AA-AAA
656830 TAAAAATAAATAAA
1 TAAAAATAAATAAA
656844 CAAGACGAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 1 0.03
30 25 0.66
31 8 0.21
32 4 0.11
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (28 bp):
TAAAAATAAATAAATAAAATAAGAAAAA
Found at i:656998 original size:66 final size:66
Alignment explanation
Indices: 656854--657003 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
656844 CAAGACGAGG
* * *
656854 AAAAAAT-AAAAA-AAA-TAATATATATATATATATATATATTAGCTTGTAAACTAAAAATAATA
1 AAAAAATAAAAAATAAAGTAATATATATATATATACATATATTAGCATATAAACTAAAAATAATA
656916 A
66 A
*
656917 AAAAAATAAGAAATAAAGTAATATATATATATATACATATAATATAGCATATAAA-TAAAATAAA
1 AAAAAATAAAAAATAAAGTAATATATATATATATACATAT-AT-TAGCATATAAACT--AA-AAA
656981 TGAATAA
61 T-AATAA
656988 TAAAATAATAAAAAAT
1 -AAAA-AATAAAAAAT
657004 GTATATACAT
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
63 7 0.10
64 4 0.06
65 3 0.04
66 21 0.30
67 3 0.04
68 9 0.13
69 2 0.03
70 4 0.06
71 5 0.07
72 4 0.06
73 9 0.13
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (66 bp):
AAAAAATAAAAAATAAAGTAATATATATATATATACATATATTAGCATATAAACTAAAAATAATA
A
Found at i:657029 original size:26 final size:21
Alignment explanation
Indices: 656969--657037 Score: 59
Period size: 26 Copynumber: 3.0 Consensus size: 21
656959 TATAGCATAT
656969 AAATAAAATAAATGAATAATA
1 AAATAAAATAAATGAATAATA
*
656990 AAATAATAAAAAATGTATATACATTA
1 AAATAA-AATAAATG-A-ATA-A-TA
*
657016 AAATAAAATGAAAT-AGTAATA
1 AAATAAAAT-AAATGAATAATA
657037 A
1 A
657038 TAGTAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
21 9 0.23
22 8 0.21
23 3 0.08
24 4 0.10
25 3 0.08
26 12 0.31
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.26
Consensus pattern (21 bp):
AAATAAAATAAATGAATAATA
Found at i:658298 original size:19 final size:19
Alignment explanation
Indices: 658262--658304 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
658252 ATATGTAAAT
658262 ATATATATATATCAATATA
1 ATATATATATATCAATATA
* *
658281 CTATATAGTATAT-TATATA
1 ATATATA-TATATCAATATA
658300 ATATA
1 ATATA
658305 ATAACGTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
ATATATATATATCAATATA
Found at i:660586 original size:163 final size:164
Alignment explanation
Indices: 660271--660596 Score: 563
Period size: 167 Copynumber: 2.0 Consensus size: 164
660261 GAGGGGGTTG
660271 TTTTGTCCATTCAGTTCAGTCACACAGCATTCATGATTGGATGGTGATTGATTGATGAAAAGCTA
1 TTTTGTCCATTCAGTTCAGTCACACAGCATTCATGATTGGATGGTGATTGATTGATGAAAAGCTA
660336 ATTATAATACAAGTTGAATTTTTACTGTAAATTTTTTATGAGGAAAGTGCAGAAAGAGAAGCTGC
66 ATTATAATACAAGTT--ATTTTTACTGTAAATTTTTTATGAGGAAAGTGCAGAAAGAGAAGCTGC
660401 AAGGTAAAACACTGTAGATCTGTAA-TTTGTACTGT
129 AAGGTAAAACACTGTAGATCTGTAATTTTGTACTGT
660436 TTTTGTCCATTCAGTTCAGTCACACAAAGCATTCATGATTGGATGGTGATTGATTGATGAAAAGC
1 TTTTGTCCATTCAGTTCAGTCACAC--AGCATTCATGATTGGATGGTGATTGATTGATGAAAAGC
660501 TAATTATAATAC-AGTT-TTTTTACTGTAAATTTTTTTATGAGGAAAGTGCAG-AA-AGAAGCTG
64 TAATTATAATACAAGTTATTTTTACTGTAAA-TTTTTTATGAGGAAAGTGCAGAAAGAGAAGCTG
660562 ACAAGGTAAAACACTGTAGATCTGTAATTTTGTAC
128 -CAAGGTAAAACACTGTAGATCTGTAATTTTGTAC
660597 AGTAAATTGT
Statistics
Matches: 156, Mismatches: 0, Indels: 11
0.93 0.00 0.07
Matches are distributed among these distances:
162 8 0.05
163 41 0.26
164 28 0.18
165 25 0.16
166 4 0.03
167 50 0.32
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (164 bp):
TTTTGTCCATTCAGTTCAGTCACACAGCATTCATGATTGGATGGTGATTGATTGATGAAAAGCTA
ATTATAATACAAGTTATTTTTACTGTAAATTTTTTATGAGGAAAGTGCAGAAAGAGAAGCTGCAA
GGTAAAACACTGTAGATCTGTAATTTTGTACTGT
Found at i:661158 original size:3 final size:3
Alignment explanation
Indices: 661150--661198 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
661140 CCGGGTCTTT
**
661150 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
661196 TTA
1 TTA
661199 ATTAATTACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:662724 original size:2 final size:2
Alignment explanation
Indices: 662717--662749 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
662707 TTTTATATTT
662717 TA TA TA TA TA TA TA TA T- TA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
662750 TCCCTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:662759 original size:18 final size:16
Alignment explanation
Indices: 662710--662750 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
662700 ATATTTATTT
*
662710 TATATTTTATATATATA
1 TATATATTAT-TATATA
*
662727 TATATATTATAATATA
1 TATATATTATTATATA
662743 TATATATT
1 TATATATT
662751 CCCTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATATTATTATATA
Found at i:663955 original size:40 final size:41
Alignment explanation
Indices: 663911--663991 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 41
663901 TTTCAATTTA
663911 ATTTTAATTAATCCATAATCTCTAA-TTTTTTAAATTAAAG
1 ATTTTAATTAATCCATAATCTCTAATTTTTTTAAATTAAAG
663951 ATTTTAATTAATCCATAATCTCTAATTTTTTTAAATTAAAG
1 ATTTTAATTAATCCATAATCTCTAATTTTTTTAAATTAAAG
663992 TATAATCGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 25 0.62
41 15 0.38
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (41 bp):
ATTTTAATTAATCCATAATCTCTAATTTTTTTAAATTAAAG
Found at i:670246 original size:92 final size:92
Alignment explanation
Indices: 670089--670274 Score: 356
Period size: 92 Copynumber: 2.0 Consensus size: 92
670079 AGGAGTCATC
670089 GTCTCAGGGGTGTTAATTGACAACGGATCGGCCTTGAATGTTATGCCATTCGCCACTCTAAATAG
1 GTCTCAGGGGTGTTAATTGACAACGGATCGGCCTTGAATGTTATGCCATTCGCCACTCTAAATAG
670154 ACTTCCTGTGGATG-ATCACAAATGAGG
66 AC-TCCTGTGGATGTATCACAAATGAGG
670181 GTCTCAGGGGTGTTAATTGACAACGGATCGGCCTTGAATGTTATGCCATTCGCCACTCTAAATAG
1 GTCTCAGGGGTGTTAATTGACAACGGATCGGCCTTGAATGTTATGCCATTCGCCACTCTAAATAG
670246 ACTCCTGTGGATGTATCACAAATGAGG
66 ACTCCTGTGGATGTATCACAAATGAGG
670273 GT
1 GT
670275 TGTGGCAATG
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
91 11 0.12
92 82 0.88
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (92 bp):
GTCTCAGGGGTGTTAATTGACAACGGATCGGCCTTGAATGTTATGCCATTCGCCACTCTAAATAG
ACTCCTGTGGATGTATCACAAATGAGG
Found at i:676166 original size:3 final size:3
Alignment explanation
Indices: 676158--676208 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
676148 TCCGGGTCTT
**
676158 TTA TTA TTA TTA TTTA TTA TTA -TA TTA TCG TTA TTTA TTA TTA TTAA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT-A
676205 TTA T
1 TTA T
676209 ATTTTTGCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 29 0.73
4 9 0.22
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:676176 original size:10 final size:10
Alignment explanation
Indices: 676161--676212 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
676151 GGGTCTTTTA
676161 TTATTATTAT
1 TTATTATTAT
676171 TTATTATTAT
1 TTATTATTAT
**
676181 ATTATCGTTAT
1 -TTATTATTAT
676192 TTATTATTAT
1 TTATTATTAT
*
676202 TAATTA-TAT
1 TTATTATTAT
676211 TT
1 TT
676213 TTGCAGCCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
9 4 0.11
10 23 0.66
11 8 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATTATTAT
Found at i:676183 original size:21 final size:21
Alignment explanation
Indices: 676159--676201 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
676149 CCGGGTCTTT
*
676159 TATTATTATTATTTATTATTA
1 TATTATCATTATTTATTATTA
*
676180 TATTATCGTTATTTATTATTA
1 TATTATCATTATTTATTATTA
676201 T
1 T
676202 TAATTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTATCATTATTTATTATTA
Found at i:683522 original size:25 final size:25
Alignment explanation
Indices: 683477--683541 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
683467 AAAATTAAAA
*
683477 TATATTTAAT-TTGTTT-TTATTTTAT
1 TATATTTAATATT-TTTAGTATTTT-T
* *
683502 TTTATTT-TTATTTTTAGTATTTTT
1 TATATTTAATATTTTTAGTATTTTT
683526 TATATTTAATATTTTT
1 TATATTTAATATTTTT
683542 CTATATTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (25 bp):
TATATTTAATATTTTTAGTATTTTT
Found at i:683546 original size:17 final size:16
Alignment explanation
Indices: 683477--683549 Score: 67
Period size: 16 Copynumber: 4.4 Consensus size: 16
683467 AAAATTAAAA
*
683477 TATATTTAATTTGTTTT
1 TATATTTAATAT-TTTT
* *
683494 TAT-TTTATTTTATTTT
1 TATATTTAATAT-TTTT
* *
683510 TATTTTTAGTATTTTT
1 TATATTTAATATTTTT
683526 TATATTTAATATTTTT
1 TATATTTAATATTTTT
683542 CTATATTT
1 -TATATTT
683550 GTATAGTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
16 32 0.67
17 16 0.33
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (16 bp):
TATATTTAATATTTTT
Found at i:689808 original size:52 final size:52
Alignment explanation
Indices: 689730--689832 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
689720 TTATAATATT
689730 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
*
689782 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTTTCCTATTTCTATG
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATG
689833 TATCCAATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (52 bp):
CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
Found at i:694393 original size:52 final size:52
Alignment explanation
Indices: 694313--694415 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
694303 TTATAATATT
* *
694313 CTTGTAATTAGTTGTAATCCCCTTACTCTAGGTTAGTCTCCTATTTCTATGC
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
*
694365 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTTTCCTATTTCTATG
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATG
694416 TATCCAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (52 bp):
CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
Found at i:707305 original size:45 final size:45
Alignment explanation
Indices: 707066--707343 Score: 247
Period size: 45 Copynumber: 6.2 Consensus size: 45
707056 AATACATCAT
* **
707066 TATGCATTTTAAACTCTAGCAT-CTTTTCTGTTGATAATGCACTTA
1 TATGCA-TTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * * * * *
707111 TATGTATTTCATCTATGGTATACTTTTATGTTGATAATGTACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * * * * * *
707156 TATACATCTCAAC-CATTGTATATTTTTATGTTGATAATGTACACA
1 TATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGCACCCA
** * *
707201 TATAAATTTTAATTCTAGCATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* *
707246 TATGCATTTTAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * ***
707291 TATGCATTTCAACTCTGGCAT-CCTTTCATGCCCATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTC-TGTTGATAATGCACCCA
707336 TATGCATT
1 TATGCATT
707344 ATTCTTTTAC
Statistics
Matches: 190, Mismatches: 39, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
44 15 0.08
45 174 0.92
46 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (45 bp):
TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:707328 original size:135 final size:135
Alignment explanation
Indices: 707071--707338 Score: 306
Period size: 135 Copynumber: 2.0 Consensus size: 135
707061 ATCATTATGC
** * * *
707071 ATTTTAAACTCTAGCATCTTTTCTGTTGATAATGCACTTATATGTATTTCATCTATGGTATACTT
1 ATTTTAAACTCTAGCATCTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTT
* * * * * *** *
707136 TTATGTTGATAATGTACCCATATACATCTCAACCATTGTATATTTTTATGTTGATAATGTACACA
66 TTATGTTGATAATGCACCCATATACATCTCAACCATGGCATACTTTCATGCCCATAATGCACACA
707201 TATAA
131 TATAA
* * *
707206 ATTTT-AATTCTAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTTAACTCTAGTATACT
1 ATTTTAAACTCTAGCAT-CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
* * * * *
707270 TTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TGGCATCCTTTCATGCCCATAATGCACC
65 TTTATGTTGATAATGCACCCATATACATCTCAAC-CATGGCATACTTTCATGCCCATAATGCACA
707334 CATAT
129 CATAT
707339 GCATTATTCT
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
134 10 0.09
135 98 0.90
136 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.42
Consensus pattern (135 bp):
ATTTTAAACTCTAGCATCTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTT
TTATGTTGATAATGCACCCATATACATCTCAACCATGGCATACTTTCATGCCCATAATGCACACA
TATAA
Found at i:707800 original size:22 final size:20
Alignment explanation
Indices: 707758--707813 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 20
707748 TGGCCCTTCA
707758 GTATCGATACCCCCACTATG
1 GTATCGATACCCCCACTATG
*
707778 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCCACTATG
707800 GTATCGATACCCCC
1 GTATCGATACCCCC
707814 TACCAGTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.41
22 19 0.59
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (20 bp):
GTATCGATACCCCCACTATG
Found at i:707822 original size:19 final size:20
Alignment explanation
Indices: 707758--707829 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 20
707748 TGGCCCTTCA
*
707758 GTATCGATACCCCC-ACTATG
1 GTATCGATACCCCCTACCA-G
* *
707778 GTATCGATACTACCCTACTATG
1 GTATCGATAC-CCCCTACCA-G
707800 GTATCGATACCCCCTACCA-
1 GTATCGATACCCCCTACCAG
*
707819 GTATCAATACC
1 GTATCGATACC
707830 AAAATTAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 10 0.22
20 10 0.22
21 10 0.22
22 16 0.35
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
GTATCGATACCCCCTACCAG
Found at i:707904 original size:22 final size:19
Alignment explanation
Indices: 707876--707927 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 19
707866 TATACCATAA
707876 GTATCGATACCACTACACTATG
1 GTATCGATACCACT---CTATG
707898 GTATCGATACC-CTCTATG
1 GTATCGATACCACTCTATG
707916 GTATCGATACCA
1 GTATCGATACCA
707928 AAATTAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 16 0.55
21 2 0.07
22 11 0.38
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (19 bp):
GTATCGATACCACTCTATG
Found at i:714189 original size:45 final size:45
Alignment explanation
Indices: 714140--714315 Score: 255
Period size: 45 Copynumber: 3.9 Consensus size: 45
714130 AATGCACCCA
* * *
714140 TATACATTTATGTTGATAATGTACCCATATACATCTCAAC-CATAG
1 TATACTTTTATGTTGATAATGCACCCATATACATTTCAACTC-TAG
*
714185 TATACTTTTATGTTGATAATGTACCCATATACATTTCAACTCTAG
1 TATACTTTTATGTTGATAATGCACCCATATACATTTCAACTCTAG
* * *
714230 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAG
1 TATACTTTTATGTTGATAATGCACCCATATACATTTCAACTCTAG
* *
714275 TATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACT
1 TATACTTTTATGTTGATAATGCACCCATATACATTTCAACT
714316 ATGGCATCCT
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 122 0.99
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TATACTTTTATGTTGATAATGCACCCATATACATTTCAACTCTAG
Found at i:714339 original size:90 final size:90
Alignment explanation
Indices: 714155--714354 Score: 251
Period size: 90 Copynumber: 2.2 Consensus size: 90
714145 ATTTATGTTG
* * * *
714155 ATAATGTACCCATATACATCTCAACCATAGTATACTTTTATGTTGATAATGTACCCATATACATT
1 ATAATGCACCCATATGCATTTCAACCATAGTATACTTTTATGTTGATAATGCACCCATATACATT
* * ***
714220 TCAACTCTAGCATACTTTTCTGTTG
66 TCAACTATAGCATACCTTTCTGCAC
* *
714245 ATAATGCACCCATATGCATTTCAACTC-TAGTATACTTTTCTGTTGATAATGCACCCATATGCAT
1 ATAATGCACCCATATGCATTTCAAC-CATAGTATACTTTTATGTTGATAATGCACCCATATACAT
*
714309 TTCAACTATGGCAT-CCTTTCATGCAC
65 TTCAACTATAGCATACCTTTC-TGCAC
*
714335 ATAATGCACTCATATGCATT
1 ATAATGCACCCATATGCATT
714355 ATTCTTTTAT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
89 5 0.05
90 89 0.94
91 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (90 bp):
ATAATGCACCCATATGCATTTCAACCATAGTATACTTTTATGTTGATAATGCACCCATATACATT
TCAACTATAGCATACCTTTCTGCAC
Found at i:714349 original size:45 final size:45
Alignment explanation
Indices: 714155--714354 Score: 159
Period size: 45 Copynumber: 4.4 Consensus size: 45
714145 ATTTATGTTG
* * * * * * * ***
714155 ATAATGTACCCATATACATCTCAACCATAGTATACTTTTATGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACCTTTCTGCAC
* * * * ***
714200 ATAATGTACCCATATACATTTCAACTCTAGCATACTTTTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACCTTTCTGCAC
* * * ***
714245 ATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTATAGCATACCTTTCTGCAC
*
714290 ATAATGCACCCATATGCATTTCAACTATGGCAT-CCTTTCATGCAC
1 ATAATGCACCCATATGCATTTCAACTATAGCATACCTTTC-TGCAC
*
714335 ATAATGCACTCATATGCATT
1 ATAATGCACCCATATGCATT
714355 ATTCTTTTAT
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
44 5 0.04
45 133 0.96
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAACTATAGCATACCTTTCTGCAC
Found at i:714389 original size:79 final size:79
Alignment explanation
Indices: 714292--714442 Score: 232
Period size: 79 Copynumber: 1.9 Consensus size: 79
714282 TTCTGTTGAT
* *
714292 AATGCACCCATATGCATTTCAACTATGGCATCCTTTCATG-CACATAATGCACTCATATGCATTA
1 AATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCA-ATAATGCACCCATATGCATTA
714356 TTCTTTTATGCTGAC
65 TTCTTTTATGCTGAC
* * * *
714371 AATGTACCCATATACATTTTAGCTATGGCATCCTTTCATGCCAATAGTGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
714436 TCTTTTA
66 TCTTTTA
714443 CATTCGTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 63 0.97
80 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
TCTTTTATGCTGAC
Found at i:714873 original size:21 final size:20
Alignment explanation
Indices: 714847--714902 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 20
714837 AGCCCTTCAA
714847 TATCGATACCCCCACTATCCG
1 TATCGATACCCCCACTAT-CG
* *
714868 TATCGATACTACCCTACTATGG
1 TATCGATAC--CCCCACTATCG
714890 TATCGATACCCCC
1 TATCGATACCCCC
714903 TACCAGTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 9 0.30
22 10 0.33
23 8 0.27
ACGTcount: A:0.25, C:0.38, G:0.11, T:0.27
Consensus pattern (20 bp):
TATCGATACCCCCACTATCG
Found at i:714905 original size:21 final size:22
Alignment explanation
Indices: 714847--714905 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
714837 AGCCCTTCAA
714847 TATCGATACCCCC-ACTATCCG
1 TATCGATACCCCCTACTATCCG
* *
714868 TATCGATACTACCCTACTAT-GG
1 TATCGATAC-CCCCTACTATCCG
714890 TATCGATACCCCCTAC
1 TATCGATACCCCCTAC
714906 CAGTATCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 15 0.45
22 13 0.39
23 5 0.15
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.27
Consensus pattern (22 bp):
TATCGATACCCCCTACTATCCG
Found at i:723595 original size:22 final size:22
Alignment explanation
Indices: 723567--723626 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
723557 ATAGAGGATT
723567 TGATTTCGAAATGGATAAATTA
1 TGATTTCGAAATGGATAAATTA
*
723589 TGATTTCGAAATGAATAAATTA
1 TGATTTCGAAATGGATAAATTA
723611 TGATTTCGAAATGGAT
1 TGATTTCGAAATGGAT
723627 TGAGGGCCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (22 bp):
TGATTTCGAAATGGATAAATTA
Found at i:725973 original size:14 final size:16
Alignment explanation
Indices: 725943--725975 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
725933 GCATAAGTAA
725943 AATGCATTCACCTAGT
1 AATGCATTCACCTAGT
725959 AATGC-TTCA-CTAGT
1 AATGCATTCACCTAGT
725973 AAT
1 AAT
725976 CTTACTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 4 0.24
16 5 0.29
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (16 bp):
AATGCATTCACCTAGT
Found at i:729006 original size:7 final size:7
Alignment explanation
Indices: 728994--729048 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
728984 GCCTTTGTAA
728994 TAAACCT
1 TAAACCT
*
729001 TAAACCC
1 TAAACCT
729008 TAAACCT
1 TAAACCT
* *
729015 TAAATCA
1 TAAACCT
729022 TAAA-CT
1 TAAACCT
*
729028 CTAAACCC
1 -TAAACCT
729036 TAAACCT
1 TAAACCT
729043 TAAACC
1 TAAACC
729049 CATTTAGCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 1 0.03
7 37 0.95
8 1 0.03
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:729013 original size:14 final size:14
Alignment explanation
Indices: 728994--729049 Score: 78
Period size: 14 Copynumber: 4.0 Consensus size: 14
728984 GCCTTTGTAA
728994 TAAACCTTAAACCC
1 TAAACCTTAAACCC
* *
729008 TAAACCTTAAATCA
1 TAAACCTTAAACCC
729022 TAAA-CTCTAAACCC
1 TAAACCT-TAAACCC
729036 TAAACCTTAAACCC
1 TAAACCTTAAACCC
729050 ATTTAGCGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.06
14 32 0.89
15 2 0.06
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:729024 original size:28 final size:28
Alignment explanation
Indices: 728993--729046 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
728983 TGCCTTTGTA
728993 ATAAAC-CTTAAACCCTAAACCTTAAATC
1 ATAAACTC-TAAACCCTAAACCTTAAATC
729021 ATAAACTCTAAACCCTAAACCTTAAA
1 ATAAACTCTAAACCCTAAACCTTAAA
729047 CCCATTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (28 bp):
ATAAACTCTAAACCCTAAACCTTAAATC
Found at i:733166 original size:5 final size:5
Alignment explanation
Indices: 733156--733188 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
733146 CCATATCTAT
733156 TATTG TATTG TATTG TATTG TATTG -A-TG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG
733189 ATGGCCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.08
4 2 0.08
5 22 0.85
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (5 bp):
TATTG
Found at i:734216 original size:16 final size:18
Alignment explanation
Indices: 734183--734221 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
734173 GCGAGCATAC
734183 TTTTTTTTCTTCTAATTT
1 TTTTTTTTCTTCTAATTT
*
734201 TTTTTTTTGTT-T-ATTT
1 TTTTTTTTCTTCTAATTT
734217 TTTTT
1 TTTTT
734222 GTCATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTTTTCTTCTAATTT
Found at i:736404 original size:48 final size:48
Alignment explanation
Indices: 736280--736408 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 48
736270 GAGTACCAAC
* * *
736280 GCACCACTATCACACAGACGTCAGACTCGTTCTCGTTATCATATAATG
1 GCACCACTGTCACACAGACGTCAGACTCGTGCTCGTTATCATATAATA
* * *
736328 GCACCACTGTCACATAGACATCAAACTCGTGC-CAAG-TATCATATAATA
1 GCACCACTGTCACACAGACGTCAGACTCGTGCTC--GTTATCATATAATA
* *
736376 GCACCACCGTCACACAGACGTTAGACTCGTGCT
1 GCACCACTGTCACACAGACGTCAGACTCGTGCT
736409 ATAATCATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
47 1 0.01
48 65 0.97
49 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (48 bp):
GCACCACTGTCACACAGACGTCAGACTCGTGCTCGTTATCATATAATA
Found at i:741560 original size:17 final size:18
Alignment explanation
Indices: 741528--741564 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
741518 TTGGGAATGG
741528 TTGCAAGAGCAGTCTTCA
1 TTGCAAGAGCAGTCTTCA
*
741546 TTGCTAGAG-AGTCTTCA
1 TTGCAAGAGCAGTCTTCA
741563 TT
1 TT
741565 CTTTTCCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (18 bp):
TTGCAAGAGCAGTCTTCA
Found at i:742325 original size:56 final size:55
Alignment explanation
Indices: 742265--742429 Score: 190
Period size: 54 Copynumber: 3.0 Consensus size: 55
742255 ATCAAACTTG
* *
742265 ACTTCTTCAAAATTCATTTAGAGTTATCATCAAGAAGCCCCTAAAAATTAGGCTTT
1 ACTTCTTAAAAATTCATTTA-AGTTATCATCAAGAAACCCCTAAAAATTAGGCTTT
* * * * * *
742321 ACTTCTTTAAAAATTAATTGAAGTAATCATCAAGAAACCCCTGAAAATCATGC--T
1 ACTTC-TTAAAAATTCATTTAAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTT
* * *
742375 ACTTCTTTAAAATCCATTTATAGTTATCATCAAGAAACCTCTAAAAATTAGGCTT
1 ACTTCTTAAAAATTCATTTA-AGTTATCATCAAGAAACCCCTAAAAATTAGGCTT
742430 AGACAGAACA
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
53 11 0.12
54 33 0.38
56 32 0.36
57 12 0.14
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (55 bp):
ACTTCTTAAAAATTCATTTAAGTTATCATCAAGAAACCCCTAAAAATTAGGCTTT
Found at i:742404 original size:54 final size:54
Alignment explanation
Indices: 742250--742430 Score: 193
Period size: 56 Copynumber: 3.3 Consensus size: 54
742240 GAGAAACATT
** * *
742250 TAAAAATCAAACTTGACTTCTTCAAAATTCATTTAGAGTTATCATCAAGAAGCCCC
1 TAAAAATCAGGCTT-ACTTCTTTAAAATTCATTTA-AGTTATCATCAAGAAACCCC
* * * *
742306 TAAAAATTAGGCTTTACTTCTTTAAAAATTAATTGAAGTAATCATCAAGAAACCCC
1 TAAAAATCAGGC-TTACTTCTTT-AAAATTCATTTAAGTTATCATCAAGAAACCCC
* * * *
742362 TGAAAATCATGC-TACTTCTTTAAAATCCATTTATAGTTATCATCAAGAAACCTC
1 TAAAAATCAGGCTTACTTCTTTAAAATTCATTTA-AGTTATCATCAAGAAACCCC
*
742416 TAAAAATTAGGCTTA
1 TAAAAATCAGGCTTA
742431 GACAGAACAT
Statistics
Matches: 102, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 9 0.09
54 36 0.35
55 2 0.02
56 43 0.42
57 12 0.12
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (54 bp):
TAAAAATCAGGCTTACTTCTTTAAAATTCATTTAAGTTATCATCAAGAAACCCC
Found at i:742726 original size:57 final size:55
Alignment explanation
Indices: 742638--743950 Score: 672
Period size: 54 Copynumber: 24.3 Consensus size: 55
742628 AATCAACTTG
* * * *
742638 ACTTCTTCAAAAATTCATTTAGAGTTATCATCAAGAAGCCCCCTAAAAATTAGGCTTT
1 ACTTCTTTAAAAA-TCATTTA-AGTAATCATCAAGAA-ACCCCTAAAAATTAGGCTTA
* * * * *
742696 GCTTCTTTAAAAATTATTTGAAGTAATCATCAAGAAACCCCTGAAAATCATGCTTA
1 ACTTCTTTAAAAATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* *
742752 ACTTCTTTAAAAATCCATTTATAGTTATCATCAAGAAACCTCTAAAAATTAGGCTTA
1 ACTTCTTTAAAAAT-CATTTA-AGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * *
742809 GCTTCTTTAAAAAATC-TTTGAAGTAATCATAAAGAAACCCCTGAAAATCAGGCTTA
1 ACTTCTTT-AAAAATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
*
742865 ACTTCTTTAAAAAATCCATTT-AGTTATCATCAAGAAACCCCTAAAAATTAGGCTTA
1 ACTTCTTT-AAAAAT-CATTTAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * *
742921 TCTTCTTTAAAAAATCATTT--G--------AAG-TACCCCTGAAAATCAGGCTTA
1 ACTTCTTT-AAAAATCATTTAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * *
742966 GCTCT-TTTAAAAATTCATTTGAA--AA-CATCAAGAAACCCCTGAAAATCAAGCTTA
1 ACT-TCTTTAAAAA-TCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * *
743020 GCTTCTTTAAAAAAATCCATTTATAGTTATCATTAAGAAACCCCTAAAAATTAGGCTTA
1 ACTTCTTT--AAAAAT-CATTTA-AGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * * * *
743079 GCTTTTTTTTAAAATTCATTT--GTAAACATCAAGAAACCCCTAAAAATCAAGCTTA
1 AC--TTCTTTAAAAATCATTTAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * *
743134 GC-TCTTTTAAACATTCATTTGAA--AA-CATCAAGAAACCCTTAAAAATTAGGCTT-
1 ACTTC-TTTAAA-AATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * * ** *
743187 AGTTCTTTAAAAATTCATTT--GTAAACATCAAGAAACCCTTGAAAACCATGCTTA
1 ACTTCTTTAAAAA-TCATTTAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* *
743241 GCTTCTTTGAAAAATCATTT--GTAAAT-ATCAAGAAACCCCTGAAAATTAGGCTTA
1 ACTTCTTT-AAAAATCATTTAAGT-AATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * * * **
743295 GC-TCTTTTAAAATTCATTTGAA--AA-CATCAAGAAACCCTTGAAAATCAAACTTA
1 ACTTC-TTTAAAAATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * * ** *
743348 GCTCCTTTAAACATTCATTTGAA--AA-CAT-AAAAAAAACCAAAAAATTAGGCTTA
1 ACTTCTTTAAA-AATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * *
743401 GCTTCTTTCAAAATTCATTTGAA--AA-CATCATGAAA-CCCTAAAAATTAGGCTTA
1 ACTTCTTT-AAAAATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * *
743454 GCTTCTTTCAAATTCATTTGAA--AA-CATCAAGAAACCCCTAAAAGTTAGGCTTA
1 ACTTCTTTAAAAATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * *
743507 GCTTCTTTCAAAATTCATTTAA--AGA-CATCAAGAAACCCCTAAAAATCAAGCTTA
1 ACTTCTTT-AAAAATCATTTAAGTA-ATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * * *
743561 GCTTCTTTTAAAATTCATTTGAA--AA-CATCAAGAAACCCCTGAAAATCAGACTT-
1 ACTTC-TTTAAAAATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * * * * * * **
743614 ATTTTTTTAAAAAAATTATTTAA--AA-AATCAAGAAACCCTTGAAAATCAACCTTA
1 ACTTCTTT--AAAAATCATTTAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* *
743668 TCTTCTTTAAAAATTCATTTAA--AA-CATCAAGAAACCCCT---AATT-TGCTTA
1 ACTTCTTTAAAAA-TCATTTAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
** * ** * * * *
743717 GTTTATTTCAAATTTCATTTGAA--AA-CATTAAGAAACCCCTGAAAATCAGGCTCA
1 ACTTCTTT-AAAAATCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * *
743771 ACTTCTTTAAAAATTCATTTGAAG--A-CATCAAGAAACCCCT--GAATCAAGC-TA
1 ACTTCTTTAAAAA-TCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
* * **
743822 AGCTTTTTTAAAAATTCATTTGAAG--A-CATCAAGAAACCCCTGAAAACCAGGCTTA
1 A-CTTCTTTAAAAA-TCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
** * * * *
743877 GTTTCTTTAAAAATTCGTTTGAAG--A-CATCAAGAAACCCCTGAAAATCATGCTTA
1 ACTTCTTTAAAAA-TCATTT-AAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
743931 ACTTCTTTAAAAATTCATTT
1 ACTTCTTTAAAAA-TCATTT
743951 GAAGACATCA
Statistics
Matches: 1040, Mismatches: 143, Indels: 148
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.00
45 29 0.03
46 4 0.00
49 15 0.01
50 24 0.02
51 2 0.00
52 81 0.08
53 241 0.23
54 325 0.31
55 55 0.05
56 132 0.13
57 63 0.06
58 27 0.03
59 32 0.03
61 5 0.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (55 bp):
ACTTCTTTAAAAATCATTTAAGTAATCATCAAGAAACCCCTAAAAATTAGGCTTA
Found at i:742957 original size:45 final size:45
Alignment explanation
Indices: 742901--742988 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
742891 TCATCAAGAA
* *
742901 ACCCCTAAAAATTAGGCTTATCT-TCTTTAAAAAATCATTTGAAGT
1 ACCCCTAAAAATCAGGCTTAGCTCT-TTTAAAAAATCATTTGAAGT
* *
742946 ACCCCTGAAAATCAGGCTTAGCTCTTTTAAAAATTCATTTGAA
1 ACCCCTAAAAATCAGGCTTAGCTCTTTTAAAAAATCATTTGAA
742989 AACATCAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (45 bp):
ACCCCTAAAAATCAGGCTTAGCTCTTTTAAAAAATCATTTGAAGT
Found at i:743219 original size:53 final size:54
Alignment explanation
Indices: 742946--743960 Score: 1100
Period size: 54 Copynumber: 18.9 Consensus size: 54
742936 CATTTGAAGT
742946 ACCCCTGAAAATCAGGCTTAGC-TCTTTTAAAAATTCATTTGAAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTC-TTTAAAAATTCATTTGAAAACATCAAGAA
* * * *
743000 ACCCCTGAAAATCAAGCTTAGCTTCTTTAAAAAAATCCATTT-ATAGTTATCATTAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTT--AAAAATTCATTTGA-A---AACATCAAGAA
* * * * *
743059 ACCCCTAAAAATTAGGCTTAGCTTTTTTTTAAAATTCATTTGTAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGC-TTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * *
743114 ACCCCTAAAAATCAAGCTTAGC-TCTTTTAAACATTCATTTGAAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTC-TTTAAAAATTCATTTGAAAACATCAAGAA
* * * *
743168 ACCCTTAAAAATTAGGCTTAG-TTCTTTAAAAATTCATTTGTAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * * * *
743221 ACCCTTGAAAACCATGCTTAGCTTCTTTGAAAAA-TCATTTGTAAATATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTT-AAAAATTCATTTGAAAACATCAAGAA
* *
743275 ACCCCTGAAAATTAGGCTTAGC-TCTTTTAAAATTCATTTGAAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* ** * * *
743328 ACCCTTGAAAATCAAACTTAGCTCCTTTAAACATTCATTTGAAAACAT-AAAAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
** ** * * *
743381 AAACCAAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAACATCATGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * *
743435 A-CCCTAAAAATTAGGCTTAGCTTCTTT-CAAATTCATTTGAAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* *
743487 ACCCCT-AAAAGTTAGGCTTAGCTTCTTTCAAAATTCATTT-AAAGACATCAAGAA
1 ACCCCTGAAAA-TCAGGCTTAGCTTCTTTAAAAATTCATTTGAAA-ACATCAAGAA
* * *
743541 ACCCCTAAAAATCAAGCTTAGCTTCTTTTAAAATTCATTTGAAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * * *
743595 ACCCCTGAAAATCAGACTTA-TTTTTTTAAAAAAATT-ATTT-AAAAAATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTT--AAAAATTCATTTGAAAACATCAAGAA
* ** *
743648 ACCCTTGAAAATCAACCTTATCTTCTTTAAAAATTCATTT-AAAACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
** * * * * *
743701 ACCCCT---AAT-TTGCTTAGTTTATTTCAAATTTCATTTGAAAACATTAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * *
743751 ACCCCTGAAAATCAGGCTCAACTTCTTTAAAAATTCATTTGAAGACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * * *
743805 ACCCCTG--AATCAAGCTAAGCTTTTTTAAAAATTCATTTGAAGACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * * *
743857 ACCCCTGAAAACCAGGCTTAGTTTCTTTAAAAATTCGTTTGAAGACATCAAGAA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
* * *
743911 ACCCCTGAAAATCATGCTTAACTTCTTTAAAAATTCATTTGAAGACATCA
1 ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCA
743961 TATTGTTTGG
Statistics
Matches: 815, Mismatches: 113, Indels: 66
0.82 0.11 0.07
Matches are distributed among these distances:
49 19 0.02
50 21 0.03
52 87 0.11
53 233 0.29
54 349 0.43
55 50 0.06
56 12 0.01
58 11 0.01
59 28 0.03
60 5 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
ACCCCTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAA
Found at i:743240 original size:107 final size:108
Alignment explanation
Indices: 742946--743960 Score: 1052
Period size: 107 Copynumber: 9.5 Consensus size: 108
742936 CATTTGAAGT
* *
742946 ACCCCTGAAAATCAGGCTTAGC-TCTTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAA
1 ACCCCTAAAAATTAGGCTTAGCTTC-TTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAA
* * * *
743010 ATCAAGCTTAGCTTCTTTAAAAAAATCCATTT-ATAGTTATCATTAAGAA
65 ATCAAGCTTAGC-TCTTT-TAAAAATTCATTTGA-A---AACATCAAGAA
* * * *
743059 ACCCCTAAAAATTAGGCTTAGCTTTTTTTTAAAATTCATTTGTAAACATCAAGAAACCCCTAAAA
1 ACCCCTAAAAATTAGGCTTAGC-TTCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAA
*
743124 ATCAAGCTTAGCTCTTTTAAACATTCATTTGAAAACATCAAGAA
65 ATCAAGCTTAGCTCTTTTAAAAATTCATTTGAAAACATCAAGAA
* * *
743168 ACCCTTAAAAATTAGGCTTAG-TTCTTTAAAAATTCATTTGTAAACATCAAGAAACCCTTGAAAA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAAA
* * * * *
743232 CCATGCTTAGCTTCTTTGAAAAA-TCATTTGTAAATATCAAGAA
66 TCAAGCTTAGC-TCTTTTAAAAATTCATTTGAAAACATCAAGAA
* * *
743275 ACCCCTGAAAATTAGGCTTAGC-TCTTTTAAAATTCATTTGAAAACATCAAGAAACCCTTGAAAA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAAA
* * * *
743339 TCAAACTTAGCTCCTTTAAACATTCATTTGAAAACAT-AAAAA
66 TCAAGCTTAGCTCTTTTAAAAATTCATTTGAAAACATCAAGAA
** * * * *
743381 AAACCAAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAACATCATGAAA-CCCTAAAAA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAAA
* * *
743445 TTAGGCTTAGCT-TCTTT-CAAATTCATTTGAAAACATCAAGAA
66 TCAAGCTTAGCTCT-TTTAAAAATTCATTTGAAAACATCAAGAA
* * *
743487 ACCCCTAAAAGTTAGGCTTAGCTTCTTTCAAAATTCATTT-AAAGACATCAAGAAACCCCTAAAA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAA-ACATCAAGAAACCCCTGAAA
743551 ATCAAGCTTAGCTTCTTTT-AAAATTCATTTGAAAACATCAAGAA
65 ATCAAGCTTAGC-TCTTTTAAAAATTCATTTGAAAACATCAAGAA
* * * * * * *
743595 ACCCCTGAAAATCAGACTTA-TTTTTTTAAAAAAATT-ATTT-AAAAAATCAAGAAACCCTTGAA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTT--AAAAATTCATTTGAAAACATCAAGAAACCCCTGAA
* *
743657 AATCAACCTTATCT-TCTTTAAAAATTCATTT-AAAACATCAAGAA
64 AATCAAGCTTAGCTCT-TTTAAAAATTCATTTGAAAACATCAAGAA
* * * * * *
743701 ACCCCT---AATT-TGCTTAGTTTATTTCAAATTTCATTTGAAAACATTAAGAAACCCCTGAAAA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAAA
* * * *
743762 TCAGGCTCAACT-TCTTTAAAAATTCATTTGAAGACATCAAGAA
66 TCAAGCTTAGCTCT-TTTAAAAATTCATTTGAAAACATCAAGAA
* * * * * *
743805 ACCCCT--GAATCAAGCTAAGCTTTTTTAAAAATTCATTTGAAGACATCAAGAAACCCCTGAAAA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAAA
* * * * *
743868 CCAGGCTTAG-TTTCTTTAAAAATTCGTTTGAAGACATCAAGAA
66 TCAAGCTTAGCTCT-TTTAAAAATTCATTTGAAAACATCAAGAA
* * * * *
743911 ACCCCTGAAAATCATGCTTAACTTCTTTAAAAATTCATTTGAAGACATCA
1 ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCA
743961 TATTGTTTGG
Statistics
Matches: 774, Mismatches: 102, Indels: 57
0.83 0.11 0.06
Matches are distributed among these distances:
101 5 0.01
102 8 0.01
103 55 0.07
104 18 0.02
105 25 0.03
106 208 0.27
107 236 0.30
108 97 0.13
109 36 0.05
112 11 0.01
113 26 0.03
114 48 0.06
115 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (108 bp):
ACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTGAAAA
TCAAGCTTAGCTCTTTTAAAAATTCATTTGAAAACATCAAGAA
Found at i:750624 original size:6 final size:6
Alignment explanation
Indices: 750613--750651 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
750603 ATGCTTGTCG
750613 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAA
750652 TATAGCAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:755318 original size:170 final size:170
Alignment explanation
Indices: 755036--755382 Score: 631
Period size: 170 Copynumber: 2.0 Consensus size: 170
755026 GATTGGTTTT
*
755036 GTCATGTATTTCCTACAACAAGAGAGTTTACGATTTCAATTAACTTGTCTAATTTATTTTCTAAG
1 GTCATGTATTTCCTACAACAAGAGAGTTTACGACTTCAATTAACTTGTCTAATTTATTTTCTAAG
*
755101 GAATATGAACTTATCTCATGAACCCTTTGAGAAAGTTCATTGTTTGTACGAAATTGTTGGGAATT
66 GAATATGAACTTATCTCATGAACCCTTCGAGAAAGTTCATTGTTTGTACGAAATTGTTGGGAATT
* *
755166 TGCGGCCATCGTCGATATTAAGTCTCTAGCCTCTGTGGGA
131 TACGGCCATCGTCGATATTAAGTCTCTAGCCTCAGTGGGA
*
755206 GTCATGTATTTCCTGCAACAAGAGAGTTTACGACTTCAATTAACTTGTCTAATTTATTTTCTAAG
1 GTCATGTATTTCCTACAACAAGAGAGTTTACGACTTCAATTAACTTGTCTAATTTATTTTCTAAG
**
755271 GAATATGAACTTATCTCATGAACCCTTCGAGAAAGTTCATTGTTTGTACTTAATTGTTGGGAATT
66 GAATATGAACTTATCTCATGAACCCTTCGAGAAAGTTCATTGTTTGTACGAAATTGTTGGGAATT
755336 TACGGCCATCGTCGATATTAAGTCTCTAGCCTCAGTGGGA
131 TACGGCCATCGTCGATATTAAGTCTCTAGCCTCAGTGGGA
755376 GTCATGT
1 GTCATGT
755383 TCACCAAGGC
Statistics
Matches: 170, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (170 bp):
GTCATGTATTTCCTACAACAAGAGAGTTTACGACTTCAATTAACTTGTCTAATTTATTTTCTAAG
GAATATGAACTTATCTCATGAACCCTTCGAGAAAGTTCATTGTTTGTACGAAATTGTTGGGAATT
TACGGCCATCGTCGATATTAAGTCTCTAGCCTCAGTGGGA
Found at i:756365 original size:18 final size:19
Alignment explanation
Indices: 756342--756379 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
756332 TTTTTAAGTG
756342 ATAAAAG-AAATTAAATAA
1 ATAAAAGCAAATTAAATAA
*
756360 ATAAAAGCAATTTAAATAA
1 ATAAAAGCAAATTAAATAA
756379 A
1 A
756380 AATAAGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (19 bp):
ATAAAAGCAAATTAAATAA
Found at i:765335 original size:12 final size:12
Alignment explanation
Indices: 765302--765356 Score: 85
Period size: 12 Copynumber: 4.7 Consensus size: 12
765292 ATATACAAAT
765302 ACCTAACTC-TC
1 ACCTAACTCTTC
765313 ACCTAACTCTTC
1 ACCTAACTCTTC
* *
765325 TCCTAATTCTTC
1 ACCTAACTCTTC
765337 ACCTAACTCTTC
1 ACCTAACTCTTC
765349 ACCTAACT
1 ACCTAACT
765357 ATATTAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
11 9 0.23
12 30 0.77
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.35
Consensus pattern (12 bp):
ACCTAACTCTTC
Found at i:772755 original size:21 final size:21
Alignment explanation
Indices: 772729--772771 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
772719 GTGGAAATTC
772729 ACTGGAATTCCATTACCATTG
1 ACTGGAATTCCATTACCATTG
772750 ACTGGAATTCCATTACCATTG
1 ACTGGAATTCCATTACCATTG
772771 A
1 A
772772 TGATACTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (21 bp):
ACTGGAATTCCATTACCATTG
Done.