Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 29
Found at i:2161185 original size:29 final size:30
Alignment explanation
Indices: 2161125--2161187 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
2161115 ATATTATATG
**
2161125 TATATATTAAAAAACTATATATATTTTTAA
1 TATATATTAAAAAACTATATATATTTAGAA
* *
2161155 TATATA-TAGAAAACTATATATCTTTAGAA
1 TATATATTAAAAAACTATATATATTTAGAA
2161184 TATA
1 TATA
2161188 ATGTATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (30 bp):
TATATATTAAAAAACTATATATATTTAGAA
Found at i:2161245 original size:50 final size:48
Alignment explanation
Indices: 2161037--2161318 Score: 165
Period size: 46 Copynumber: 6.1 Consensus size: 48
2161027 TGGTTATAAA
* * *
2161037 TATATA-ATATATTACACTATA-ATATAACATA-ATA-ATATTA-ATA
1 TATATATATATATTATAATATATATATAATATATATATATATTATATA
* *
2161080 -ATATATA-ATA-TA-AATAT-TATATACTATACTATACTATATTATATG
1 TATATATATATATTATAATATATATATAATATA-TATA-TATATTATATA
* * * ** *
2161125 TATATAT-TA-A--AAAACTATATATAT-TTTTAATATATATAGAAAACTA
1 TATATATATATATTATAA-TATATATATAATAT-ATATATATATTATA-TA
* * * * *
2161171 TATATCTTTAGAATATAATGTATATTATAATATATATATATA-TATATA
1 TATATATATATATTATAATATATA-TATAATATATATATATATTATATA
*
2161219 TATATATGTATA-TATATATATATATATAATATATATATATA-TATAT-
1 TATATATATATATTATA-ATATATATATAATATATATATATATTATATA
* *
2161265 TATAAATATATA-TAT-ATATATATATATATATACTATATATATAATATA
1 TATATATATATATTATAATATATATATA-ATATA-TATATATATTATATA
2161313 TATATA
1 TATATA
2161319 GAATACTATA
Statistics
Matches: 189, Mismatches: 25, Indels: 45
0.73 0.10 0.17
Matches are distributed among these distances:
40 12 0.06
41 2 0.01
42 11 0.06
43 1 0.01
44 18 0.10
45 16 0.08
46 44 0.23
47 38 0.20
48 23 0.12
49 7 0.04
50 15 0.08
51 2 0.01
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (48 bp):
TATATATATATATTATAATATATATATAATATATATATATATTATATA
Found at i:2161330 original size:2 final size:2
Alignment explanation
Indices: 2161080--2161318 Score: 200
Period size: 2 Copynumber: 123.5 Consensus size: 2
2161070 AATATTAATA
*
2161080 AT AT AT A- AT AT AA AT AT -T AT AT ACT AT ACT AT ACT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT A-T AT AT AT
* * * * *
2161120 AT AT GT AT AT AT -T A- AA AA ACT AT AT AT AT TT TT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * * * * *
2161160 AT AG A- AA ACT AT AT AT CT TT AG A- AT AT A- AT GT AT AT -T AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
2161199 A- AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
*
2161240 AT AT AT A- AT AT AT AT AT AT AT AT AT -T AT AA 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
2161280 AT AT AT AT AT AT AT AT ACT AT AT AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A
2161319 GAATACTATA
Statistics
Matches: 198, Mismatches: 19, Indels: 40
0.77 0.07 0.16
Matches are distributed among these distances:
1 14 0.07
2 174 0.88
3 10 0.05
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2168514 original size:19 final size:19
Alignment explanation
Indices: 2168471--2168514 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2168461 AATTTTGGCT
2168471 TTTTTGGCTTTTTTTTTG-
1 TTTTTGGCTTTTTTTTTGC
*
2168489 TTCTTTTGCTTTTTTTTTGCC
1 TT-TTTGGCTTTTTTTTTG-C
2168510 TTTTT
1 TTTTT
2168515 TTTTGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.09
19 15 0.68
20 3 0.14
21 2 0.09
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.77
Consensus pattern (19 bp):
TTTTTGGCTTTTTTTTTGC
Found at i:2171577 original size:17 final size:18
Alignment explanation
Indices: 2171537--2171578 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2171527 GATTTCTTGG
*
2171537 TTATCTTTTTATTTTCAA
1 TTATCTTTATATTTTCAA
*
2171555 TT-TCTTTATATTTTC-T
1 TTATCTTTATATTTTCAA
2171571 TTATCTTT
1 TTATCTTT
2171579 TTTTAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATCTTTATATTTTCAA
Found at i:2173216 original size:3 final size:3
Alignment explanation
Indices: 2173140--2173203 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
2173130 TTCATTTAAA
2173140 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2173185 TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
2173204 ATAAATATTA
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 3 0.05
3 54 0.93
4 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2174609 original size:21 final size:21
Alignment explanation
Indices: 2174565--2174608 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2174555 TAAATAATAA
*
2174565 TTTATTTTTTATATATATTAT
1 TTTAATTTTTATATATATTAT
*
2174586 TTTAATTTTTATTTAT-TTAT
1 TTTAATTTTTATATATATTAT
2174606 TTT
1 TTT
2174609 TCAATATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTAATTTTTATATATATTAT
Found at i:2181944 original size:112 final size:113
Alignment explanation
Indices: 2181747--2182107 Score: 636
Period size: 112 Copynumber: 3.2 Consensus size: 113
2181737 TAGCAAAGAT
*
2181747 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
2181812 AGAA-GAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
2181859 TCAAATCCATCACTTGATGGATCAGCTTTTCCA-TTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
2181923 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
2181971 TCAAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
* * * * *
2182036 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGT
66 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
2182084 TCAAATTCATCACTTGATGGATCA
1 TCAAATCCATCACTTGATGGATCA
2182108 ATATTTCCAG
Statistics
Matches: 239, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
111 35 0.15
112 107 0.45
113 97 0.41
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:2182088 original size:113 final size:113
Alignment explanation
Indices: 2181747--2182149 Score: 634
Period size: 112 Copynumber: 3.6 Consensus size: 113
2181737 TAGCAAAGAT
* *
2181747 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
2181812 AGAA-GAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
2181859 TCAAATCCATCACTTGATGGATCAGCTTTTCCA-TTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
2181923 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
2181971 TCAAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
* * * * *
2182036 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGT
66 AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* **** * *
2182084 TCAAATTCATCACTTGATGGATCAA-TATTTCCAGAGAAAGTTCATAATAAG-AGAACTTATCTG
1 TCAAATCCATCACTTGATGGATCAACT-TTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
2182147 AAG
65 AAG
2182150 GAAGAAGTTC
Statistics
Matches: 274, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
111 35 0.13
112 122 0.45
113 117 0.43
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:2182284 original size:104 final size:103
Alignment explanation
Indices: 2182164--2182369 Score: 256
Period size: 104 Copynumber: 2.0 Consensus size: 103
2182154 AAGTTCACAT
* * * *
2182164 GAGAAGAGCTTGTTCAACCTTTT-ACAT-AATTCTATCACAGAAGCAAATAGATTAGCATCAACC
1 GAGAAAAGCTTATTCAACCTTTTGA-ATGAATT-TATCACAGAAGCAAATAGATCAACATCAACC
*
2182227 TTCTAG-AGAAAGTTCATAATGAGAAGAACTCATCTAAAGAG
64 --CCAGTAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAG
* * * *
2182268 GAGAAAAGCTTATTCAACCTTTTGAATGACTTTATCACAGAAGGAAATAGGTCAACATCATCCCC
1 GAGAAAAGCTTATTCAACCTTTTGAATGAATTTATCACAGAAGCAAATAGATCAACATCAACCCC
* *
2182333 AGTGGAAAGTTTATAATGAGAAGAACTCATCTAAAGA
66 AGTAGAAAGTTCATAATGAGAAGAACTCATCTAAAGA
2182370 AAGAGAAGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
102 3 0.03
103 32 0.36
104 49 0.56
105 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (103 bp):
GAGAAAAGCTTATTCAACCTTTTGAATGAATTTATCACAGAAGCAAATAGATCAACATCAACCCC
AGTAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAG
Found at i:2182592 original size:3 final size:3
Alignment explanation
Indices: 2182516--2182579 Score: 96
Period size: 3 Copynumber: 21.7 Consensus size: 3
2182506 TTCATTTAAA
*
2182516 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2182561 TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
2182580 ATAAATATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 3 0.05
3 52 0.93
4 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2184064 original size:16 final size:17
Alignment explanation
Indices: 2184043--2184076 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2184033 CTGGTATTTT
2184043 AAAA-TTAAATATTATA
1 AAAATTTAAATATTATA
*
2184059 AAAATTTAATTATTATA
1 AAAATTTAAATATTATA
2184076 A
1 A
2184077 TATATCGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTTAAATATTATA
Found at i:2184160 original size:21 final size:20
Alignment explanation
Indices: 2184125--2184177 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
2184115 TCATTTTCTG
2184125 ATATATTTTTAAATAAATAA
1 ATATATTTTTAAATAAATAA
* *
2184145 ATATTTTTTATAAATATATAA
1 ATATATTTT-TAAATAAATAA
2184166 ATTAATATTTTT
1 A-T-ATATTTTT
2184178 TTATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 2 0.07
23 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTTTTAAATAAATAA
Found at i:2184165 original size:25 final size:26
Alignment explanation
Indices: 2184137--2184188 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
2184127 ATATTTTTAA
2184137 ATAAATAAATA-TTTTTTATAAATAT
1 ATAAATAAATATTTTTTTATAAATAT
* *
2184162 ATAAATTAATATTTTTTTATAATTAT
1 ATAAATAAATATTTTTTTATAAATAT
2184188 A
1 A
2184189 ATTTTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAATAAATATTTTTTTATAAATAT
Found at i:2196922 original size:24 final size:24
Alignment explanation
Indices: 2196890--2196939 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
2196880 GTTGGATACA
* *
2196890 GAAGCTTGTGCTTTTTCAGCATAT
1 GAAGCTTGTGCTTTTGCAGCAGAT
2196914 GAAGCTTGTGCTTTTGCAGCAGAT
1 GAAGCTTGTGCTTTTGCAGCAGAT
2196938 GA
1 GA
2196940 GTCCCCTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (24 bp):
GAAGCTTGTGCTTTTGCAGCAGAT
Found at i:2197478 original size:81 final size:78
Alignment explanation
Indices: 2197353--2197505 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 78
2197343 AAATAAAATA
* * *
2197353 TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTGAATTATAATC-TTTAATGT
1 TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGA
2197417 TTATTTAAAAAAC
66 TTATTTAAAAAAC
* * * *
2197430 TTATTTAATT-ATTCCGAATTATATATACCAATTAAAAGAGTTGTAATCTAAATTACATTCTTTT
1 TTATTTAATTAATT-C-AATTAAATATA-C-ATT-AAAGACTTATAATCTAAATTACAATCTTTT
2197494 AATGATTATTTA
61 AATGATTATTTA
2197506 CTATATTCGG
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
76 3 0.05
77 11 0.17
78 10 0.16
79 1 0.02
80 3 0.05
81 21 0.33
82 14 0.22
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (78 bp):
TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGA
TTATTTAAAAAAC
Found at i:2201257 original size:15 final size:16
Alignment explanation
Indices: 2201224--2201257 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2201214 TAAAAACTTC
2201224 AAATTAAAAATAGATT
1 AAATTAAAAATAGATT
*
2201240 AAATTGAAAATA-ATT
1 AAATTAAAAATAGATT
2201255 AAA
1 AAA
2201258 AATCAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AAATTAAAAATAGATT
Found at i:2202674 original size:21 final size:21
Alignment explanation
Indices: 2202650--2202702 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
2202640 TTGTATACCA
2202650 TATATTATATTTTTCAAAAAC
1 TATATTATATTTTTCAAAAAC
* *
2202671 TATATGATATGTTTTCAAAAAT
1 TATATTATAT-TTTTCAAAAAC
2202693 TATATT-TATT
1 TATATTATATT
2202703 ATTTATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 12 0.43
22 15 0.54
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (21 bp):
TATATTATATTTTTCAAAAAC
Found at i:2202769 original size:23 final size:21
Alignment explanation
Indices: 2202738--2202795 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
2202728 AAAAGCCATA
* *
2202738 TATATTATATGTTTTCAAAAC
1 TATATAATATATTTTCAAAAC
2202759 TATATAATATATTTTCAAAA-
1 TATATAATATATTTTCAAAAC
2202779 -AT-T-ATATATTTTCAAAA
1 TATATAATATATTTTCAAAA
2202796 ACCATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 14 0.40
18 1 0.03
19 2 0.06
21 18 0.51
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (21 bp):
TATATAATATATTTTCAAAAC
Found at i:2202787 original size:17 final size:17
Alignment explanation
Indices: 2202741--2202796 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
2202731 AGCCATATAT
*
2202741 ATTATATGTTTTCAAAA
1 ATTATATATTTTCAAAA
2202758 CTATATAATATATTTTCAAAA
1 --AT-T-ATATATTTTCAAAA
2202779 ATTATATATTTTCAAAA
1 ATTATATATTTTCAAAA
2202796 A
1 A
2202797 CCATATATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 15 0.44
18 1 0.03
19 4 0.12
20 1 0.03
21 13 0.38
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTATATATTTTCAAAA
Found at i:2202802 original size:17 final size:17
Alignment explanation
Indices: 2202765--2202805 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
2202755 AAACTATATA
**
2202765 ATATATTTTCAAAAATT
1 ATATATTTTCAAAAACC
2202782 ATATATTTTCAAAAACC
1 ATATATTTTCAAAAACC
2202799 ATATATT
1 ATATATT
2202806 GTATACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATTTTCAAAAACC
Found at i:2207631 original size:2 final size:2
Alignment explanation
Indices: 2207624--2207658 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2207614 TAATCAGCTA
2207624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2207659 AAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2209612 original size:42 final size:42
Alignment explanation
Indices: 2209549--2209641 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
2209539 TCTGAACGAG
* *
2209549 GTGAGATATTATTCGGATGACTCCCCTTTACGAGCAAGCCAT
1 GTGAGATATTATTCGGATGACTCCCCTTTACGAGAAAGCCAA
* * * *
2209591 GTGAGATATTCTTC-GAGTGACTCCTCTTTGCGAGAAAGTCAA
1 GTGAGATATTATTCGGA-TGACTCCCCTTTACGAGAAAGCCAA
2209633 GTGAGATAT
1 GTGAGATAT
2209642 ATTTTCAGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGAGATATTATTCGGATGACTCCCCTTTACGAGAAAGCCAA
Found at i:2218043 original size:20 final size:20
Alignment explanation
Indices: 2218018--2218075 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2218008 CAGAACCCCA
2218018 GGGGGTATCGATTCCCCTAT
1 GGGGGTATCGATTCCCCTAT
2218038 GGGGGTATCGATTCCCCTAT
1 GGGGGTATCGATTCCCCTAT
* *
2218058 GGGGGAATCAATTCCCCT
1 GGGGGTATCGATTCCCCT
2218076 TCAAAGGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (20 bp):
GGGGGTATCGATTCCCCTAT
Found at i:2218115 original size:20 final size:21
Alignment explanation
Indices: 2218018--2218119 Score: 95
Period size: 20 Copynumber: 4.9 Consensus size: 21
2218008 CAGAACCCCA
2218018 GGGGGTATCGATTCCC-CTAT
1 GGGGGTATCGATTCCCTCTAT
2218038 GGGGGTATCGATTCCC-CTAT
1 GGGGGTATCGATTCCCTCTAT
* * * *
2218058 GGGGGAATCAATTCCCCTTCAAA
1 GGGGGTATCGATT-CCC-TCTAT
* *
2218081 GGGGGAAT-AAGTTCCCTC-AT
1 GGGGGTATCGA-TTCCCTCTAT
2218101 GGGGGTATCGATTCCCTCT
1 GGGGGTATCGATTCCCTCT
2218120 GTACCAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
20 46 0.67
21 6 0.09
22 5 0.07
23 12 0.17
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (21 bp):
GGGGGTATCGATTCCCTCTAT
Found at i:2225148 original size:32 final size:31
Alignment explanation
Indices: 2225112--2225188 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
2225102 CGGGGCCGTG
*
2225112 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
2225144 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
2225175 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
2225189 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:2225171 original size:63 final size:63
Alignment explanation
Indices: 2225067--2225188 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 63
2225057 CTAAGGGAAT
* * ** *
2225067 ATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAACAC
1 ATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAACAC
* *
2225130 ATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
2225189 GTCACATTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 2 0.04
63 48 0.96
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.17
Consensus pattern (63 bp):
ATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAACAC
Found at i:2226120 original size:29 final size:29
Alignment explanation
Indices: 2226062--2226251 Score: 274
Period size: 29 Copynumber: 6.6 Consensus size: 29
2226052 CACATTCGAA
2226062 AATTCCCAAAATGTCA-CTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* *
2226090 AATTCCCAGAATGTCACCTTTTTCGAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
*
2226119 AATTCCAAAAATGTCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* *
2226148 AATTCCCAGAATGTCACCTTTTACAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* *
2226177 AATTCCCAAAATATCACATTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
** *
2226206 AATTCTTAAAATGTCACCTTTTTTAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
*
2226235 AATTTCCAAAATGTCAC
1 AATTCCCAAAATGTCAC
2226252 TAGGTTGGGT
Statistics
Matches: 141, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 15 0.11
29 126 0.89
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (29 bp):
AATTCCCAAAATGTCACCTTTTTCAAAAT
Found at i:2233333 original size:21 final size:21
Alignment explanation
Indices: 2233307--2233346 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2233297 CCCCCTTTGA
*
2233307 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2233328 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2233347 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2235638 original size:39 final size:39
Alignment explanation
Indices: 2235584--2235661 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
2235574 AGTGTGTGTT
2235584 TTTAAAAATGATAAATGGGAGAAGTGTTAAAGTAAGGGG
1 TTTAAAAATGATAAATGGGAGAAGTGTTAAAGTAAGGGG
2235623 TTTAAAAATGATAAATGGGAGAAGTGTTAAAGTAAGGGG
1 TTTAAAAATGATAAATGGGAGAAGTGTTAAAGTAAGGGG
2235662 GAGTAATTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.26
Consensus pattern (39 bp):
TTTAAAAATGATAAATGGGAGAAGTGTTAAAGTAAGGGG
Found at i:2238188 original size:20 final size:19
Alignment explanation
Indices: 2238119--2238192 Score: 55
Period size: 20 Copynumber: 3.7 Consensus size: 19
2238109 GATACTCTCA
2238119 TAGGGTATCGATACTAAAG
1 TAGGGTATCGATACTAAAG
* *
2238138 TAGTAGTATCAATAC--AAG
1 TAG-GGTATCGATACTAAAG
2238156 -AGGGTCGACATCGATACTAAAG
1 TAGGGT----ATCGATACTAAAG
2238178 TAGGAGTATCGATAC
1 TAGG-GTATCGATAC
2238193 GAGAAGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 17
0.67 0.06 0.27
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 3 0.07
19 3 0.07
20 24 0.57
22 3 0.07
23 3 0.07
24 2 0.05
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (19 bp):
TAGGGTATCGATACTAAAG
Found at i:2238209 original size:40 final size:40
Alignment explanation
Indices: 2238122--2238212 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
2238112 ACTCTCATAG
* *
2238122 GGTATCGATACTAAAGTAGTAGTATCAATACAAGAGGGTC
1 GGTATCGATACTAAAGTAGGAGTATCAATACAAGAAGGTC
** * * *
2238162 GACATCGATACTAAAGTAGGAGTATCGATACGAGAAGGTT
1 GGTATCGATACTAAAGTAGGAGTATCAATACAAGAAGGTC
2238202 GGTATCGATAC
1 GGTATCGATAC
2238213 CAATGATCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (40 bp):
GGTATCGATACTAAAGTAGGAGTATCAATACAAGAAGGTC
Found at i:2239523 original size:36 final size:36
Alignment explanation
Indices: 2239483--2239646 Score: 190
Period size: 36 Copynumber: 4.6 Consensus size: 36
2239473 TCAAGCGTAG
* * *
2239483 GTATATCATGCATATGACCATTATTAGCAGGAAAAT
1 GTATATCATGCATATAATCATTATTAGCAGGAATAT
2239519 GTATATCATGCATATAATCATTATTAGC---AATAT
1 GTATATCATGCATATAATCATTATTAGCAGGAATAT
* * *
2239552 GTATATCATTCATATAATCATTATTAGCAGGCACAT
1 GTATATCATGCATATAATCATTATTAGCAGGAATAT
* * * * * *
2239588 GTGTAGCATGTATATAATCATTATTAGCAAGCATGT
1 GTATATCATGCATATAATCATTATTAGCAGGAATAT
*
2239624 GTATATCATGCATATATTCATTA
1 GTATATCATGCATATAATCATTA
2239647 ACAATAAGCG
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
33 31 0.29
36 77 0.71
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (36 bp):
GTATATCATGCATATAATCATTATTAGCAGGAATAT
Found at i:2239577 original size:69 final size:71
Alignment explanation
Indices: 2239483--2239646 Score: 215
Period size: 69 Copynumber: 2.3 Consensus size: 71
2239473 TCAAGCGTAG
* * *
2239483 GTATATCATGCATATGACCATTATTAGCAGGAAAATGTATATCATGCATATAATCATTATTAGC-
1 GTATATCATGCATATAATCATTATTAGCAGGAAAATGTATAGCATGCATATAATCATTATTAGCA
2239547 A-ATAT
66 ACATAT
* * * * *
2239552 GTATATCATTCATATAATCATTATTAGCAGGCACATGTGTAGCATGTATATAATCATTATTAGCA
1 GTATATCATGCATATAATCATTATTAGCAGGAAAATGTATAGCATGCATATAATCATTATTAGCA
*
2239617 AGCATGT
66 A-CATAT
*
2239624 GTATATCATGCATATATTCATTA
1 GTATATCATGCATATAATCATTA
2239647 ACAATAAGCG
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 56 0.69
70 1 0.01
72 24 0.30
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (71 bp):
GTATATCATGCATATAATCATTATTAGCAGGAAAATGTATAGCATGCATATAATCATTATTAGCA
ACATAT
Found at i:2239661 original size:72 final size:69
Alignment explanation
Indices: 2239413--2239661 Score: 158
Period size: 72 Copynumber: 3.5 Consensus size: 69
2239403 AAGCACATGA
** ** * * * *
2239413 ATATCATTTATATAATCATTAGGAACAAGCACATGTATACCATGCATGTAATCATCAGTGTCAAG
1 ATATCATGCATATAATCATTAACAACAAGCACATGTGTAGCATGCATATAATCATTA-T-T--AG
* *
2239478 C-GTAGGT
62 CAATATGT
* * ** * * * * * *
2239485 ATATCATGCATATGACCATTATTAGCAGGAAAATGTATATCATGCATATAATCATTATTAGCAAT
1 ATATCATGCATATAATCATTAACAACAAGCACATGTGTAGCATGCATATAATCATTATTAGCAAT
2239550 ATGT
66 ATGT
* ** * * *
2239554 ATATCATTCATATAATCATTATTAGCAGGCACATGTGTAGCATGTATATAATCATTATTAGCAAG
1 ATATCATGCATATAATCATTAACAACAAGCACATGTGTAGCATGCATATAATCATTATTAGC-A-
*
2239619 CATGTGT
64 -ATATGT
* * *
2239626 ATATCATGCATATATTCATTAACAATAAGCGCATGT
1 ATATCATGCATATAATCATTAACAACAAGCACATGT
2239662 ATCATCATGA
Statistics
Matches: 141, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
68 3 0.02
69 58 0.41
70 2 0.01
71 1 0.01
72 77 0.55
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (69 bp):
ATATCATGCATATAATCATTAACAACAAGCACATGTGTAGCATGCATATAATCATTATTAGCAAT
ATGT
Found at i:2239790 original size:38 final size:37
Alignment explanation
Indices: 2239739--2239884 Score: 134
Period size: 38 Copynumber: 3.9 Consensus size: 37
2239729 GCCAAACTTT
*
2239739 AATCTAGTTTCCAACCTAAAATATGATTTTCAACCTGA
1 AATCTAGTTTCCAACCTAAAATCTG-TTTTCAACCTGA
* * **
2239777 AATCTAGTTTCCAACCTAATATCTGGTTTTGAACCAAA
1 AATCTAGTTTCCAACCTAAAATCT-GTTTTCAACCTGA
* * *
2239815 AAT-TTGTTTTCCAACATGAAATCTGTTTTCTAACCTGA
1 AATCTAG-TTTCCAACCTAAAATCTGTTTTC-AACCTGA
* * *
2239853 AATCTATTTTCCAACTTGAAAT-TAGTTTTCAA
1 AATCTAGTTTCCAACCTAAAATCT-GTTTTCAA
2239885 TCAGAAATAT
Statistics
Matches: 88, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
37 10 0.11
38 76 0.86
39 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (37 bp):
AATCTAGTTTCCAACCTAAAATCTGTTTTCAACCTGA
Found at i:2239791 original size:19 final size:19
Alignment explanation
Indices: 2239739--2239880 Score: 96
Period size: 19 Copynumber: 7.5 Consensus size: 19
2239729 GCCAAACTTT
*
2239739 AATCTAGTTTCCAACCTAA
1 AATCTAGTTTCCAACCTGA
* *
2239758 AATAT-GATTTTCAACCTGA
1 AATCTAG-TTTCCAACCTGA
2239777 AATCTAGTTTCCAACCT-A
1 AATCTAGTTTCCAACCTGA
* ** **
2239795 ATATCTGGTTTTGAACCAAA
1 A-ATCTAGTTTCCAACCTGA
* *
2239815 AAT-TTGTTTTCCAACATGA
1 AATCTAG-TTTCCAACCTGA
*
2239834 AATCT-GTTTTCTAACCTGA
1 AATCTAG-TTTCCAACCTGA
* *
2239853 AATCTATTTTCCAACTTGA
1 AATCTAGTTTCCAACCTGA
2239872 AAT-TAGTTT
1 AATCTAGTTT
2239881 TCAATCAGAA
Statistics
Matches: 95, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
18 10 0.11
19 81 0.85
20 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (19 bp):
AATCTAGTTTCCAACCTGA
Found at i:2240781 original size:46 final size:46
Alignment explanation
Indices: 2240762--2241105 Score: 498
Period size: 46 Copynumber: 7.5 Consensus size: 46
2240752 TAATACATAT
*
2240762 GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCC
1 GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
* * *
2240808 GTTCATGCATTTTTAGTTATAGCATCATTTCATGCCATAATGCATCC
1 GTTCATGCA-TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
* *
2240855 GTTCATGCATTTTCGTTATGGCATCCTTTCATGCCTTAATGCACCC
1 GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
* *
2240901 GTTCATGCATTTTAGTTATAGCATCCTTTCATGCCTTAATGCATTC
1 GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
* *
2240947 GTTCATGCATTTTAGTTATGGCATCCTTTCATGTCTTAATG--T-T
1 GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
* * *
2240990 GTGT-ATGCATTTTAGTTATGGAATCCTTTCATGCCTTAATGTATCA
1 GT-TCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
* * *
2241036 GTTCATGCATTTTAGTTATGACATCCTTTTATGCCTTATTGCATCC
1 GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
2241082 GTTCATGCATTTTAGTTATGGCAT
1 GTTCATGCATTTTAGTTATGGCAT
2241106 AGTCAATACT
Statistics
Matches: 266, Mismatches: 26, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
43 37 0.14
44 2 0.01
45 2 0.01
46 183 0.69
47 42 0.16
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (46 bp):
GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCC
Found at i:2240807 original size:20 final size:21
Alignment explanation
Indices: 2240777--2240815 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2240767 TGCATTTTAG
*
2240777 TTATGGCATCCTTTCATGCCT
1 TTATGGCATCCGTTCATGCCT
2240798 TTAT-GCATCCGTTCATGC
1 TTATGGCATCCGTTCATGC
2240816 ATTTTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.41
Consensus pattern (21 bp):
TTATGGCATCCGTTCATGCCT
Found at i:2241061 original size:135 final size:137
Alignment explanation
Indices: 2240762--2241105 Score: 489
Period size: 135 Copynumber: 2.5 Consensus size: 137
2240752 TAATACATAT
* *
2240762 GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGCATTTTTAGTTA
1 GTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGCA-TTTTAGTTA
* * *
2240827 TAGCATCATTTCATGCCATAATGCATCCGTTCATGCATTTTCGTTATGGCATCCTTTCATGCCTT
65 TGGCATCATTTCATGCCATAATG-ATCCGTTCATGCATTTTAGTTATGGAATCCTTTCATGCCTT
*
2240892 AATGCACCC
129 AATGCACCA
*
2240901 GTTCATGCATTTTAGTTAT-AGCATCCTTTCATGCCTTAATGCATTCGTTCATGCATTTTAGTTA
1 GTTCATGCATTTTAGTTATGA-CATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
* * * *
2240965 TGGCATCCTTTCATGTCTTAATG-T-TGTGT-ATGCATTTTAGTTATGGAATCCTTTCATGCCTT
65 TGGCATCATTTCATGCCATAATGATCCGT-TCATGCATTTTAGTTATGGAATCCTTTCATGCCTT
* *
2241027 AATGTATCA
129 AATGCACCA
* *
2241036 GTTCATGCATTTTAGTTATGACATCCTTTTATGCCTTATTGCATCCGTTCATGCATTTTAGTTAT
1 GTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTAT
2241101 GGCAT
66 GGCAT
2241106 AGTCAATACT
Statistics
Matches: 186, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
135 104 0.56
136 3 0.02
138 28 0.15
139 51 0.27
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (137 bp):
GTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTAT
GGCATCATTTCATGCCATAATGATCCGTTCATGCATTTTAGTTATGGAATCCTTTCATGCCTTAA
TGCACCA
Found at i:2241064 original size:181 final size:184
Alignment explanation
Indices: 2240749--2241105 Score: 508
Period size: 181 Copynumber: 2.0 Consensus size: 184
2240739 TCTTTTTAGA
*
2240749 CCTTAATACATATGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCAT
1 CCTTAATACATATGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG-ATCCGTTCAT
* * * *
2240814 GCATTTTTAGTTATAGCATCATTTCATGCCATAATGCATCCGTTCATGCATTTTCGTTATGGCAT
65 GCATTTTTAGTTATAGAATCATTTCATGCCATAATGCATCAGTTCATGCATTTTAGTTATGACAT
2240879 CCTTTCATGCCTTAATGCACCCGTTCATGCATTTTAGTTATAGCATCCTTTCATG
130 CCTTTCATGCCTTAATGCACCCGTTCATGCATTTTAGTTATAGCATCCTTTCATG
* * *
2240934 CCTTAATGCAT-TCGTTCATGCATTTTAGTTATGGCATCCTTTCATGTCTTAATG-T-TGTGT-A
1 CCTTAATACATAT-GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGATCCGT-TCA
* * * *
2240995 TGCA-TTTTAGTTATGGAATCCTTTCATGCCTTAATGTATCAGTTCATGCATTTTAGTTATGACA
64 TGCATTTTTAGTTATAGAATCATTTCATGCCATAATGCATCAGTTCATGCATTTTAGTTATGACA
* * * *
2241059 TCCTTTTATGCCTTATTGCATCCGTTCATGCATTTTAGTTATGGCAT
129 TCCTTTCATGCCTTAATGCACCCGTTCATGCATTTTAGTTATAGCAT
2241106 AGTCAATACT
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
181 95 0.62
182 7 0.05
183 2 0.01
184 1 0.01
185 49 0.32
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (184 bp):
CCTTAATACATATGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGATCCGTTCATG
CATTTTTAGTTATAGAATCATTTCATGCCATAATGCATCAGTTCATGCATTTTAGTTATGACATC
CTTTCATGCCTTAATGCACCCGTTCATGCATTTTAGTTATAGCATCCTTTCATG
Found at i:2244159 original size:72 final size:72
Alignment explanation
Indices: 2244073--2244404 Score: 283
Period size: 72 Copynumber: 4.6 Consensus size: 72
2244063 TGGGTAAAAG
* * * * **
2244073 ATCATGCTTATAATCATTATTCA-CAAGCACGTGAATATCATGCATATAATCATTAGCAACAAGC
1 ATCATGCATATAATCATTATT-AGCAAGCACATGTATATCATGCATATAACCATTATTAACAAGC
2244137 ACATGTAT
65 ACATGTAT
* * ** * * * * * *
2244145 ATCATGCATTTAATCATCAACATCAAGCACAGGTATATCATGCATATGACCATTATTACCAGGCG
1 ATCATGCATATAATCATTATTAGCAAGCACATGTATATCATGCATATAACCATTATTAACAAGCA
*
2244210 GATGTAT
66 CATGTAT
* * *
2244217 ATCATGCATATATTCATTATTAGAAAG-AGCATGTATATCATGCATATAACCATTATTAGA-AGG
1 ATCATGCATATAATCATTATTAGCAAGCA-CATGTATATCATGCATATAACCATTATTA-ACAAG
** *
2244280 TGCATATAT
64 CACATGTAT
* * * * * * *
2244289 ATCATGTATATAATCATTATTAGCAACCGCATGTATATCAAGCATATAATCATTAATAATAAGCA
1 ATCATGCATATAATCATTATTAGCAAGCACATGTATATCATGCATATAACCATTATTAACAAGCA
*
2244354 CATCTAT
66 CATGTAT
* ** *
2244361 CATCATGCATATAATCATTAATAATAAGAACATGTATCATCATG
1 -ATCATGCATATAATCATTATTAGCAAGCACATGTAT-ATCATG
2244405 AAATATTATC
Statistics
Matches: 204, Mismatches: 49, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
71 3 0.01
72 167 0.82
73 29 0.14
74 5 0.02
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (72 bp):
ATCATGCATATAATCATTATTAGCAAGCACATGTATATCATGCATATAACCATTATTAACAAGCA
CATGTAT
Found at i:2244188 original size:36 final size:36
Alignment explanation
Indices: 2244073--2244191 Score: 125
Period size: 36 Copynumber: 3.3 Consensus size: 36
2244063 TGGGTAAAAG
* * * *
2244073 ATCATGCTTATAATCATTATTC-ACAAGCAC-GTGAAT
1 ATCATGCATATAATCATCA-ACAACAAGCACAG-GTAT
* * *
2244109 ATCATGCATATAATCATTAGCAACAAGCACATGTAT
1 ATCATGCATATAATCATCAACAACAAGCACAGGTAT
* *
2244145 ATCATGCATTTAATCATCAACATCAAGCACAGGTAT
1 ATCATGCATATAATCATCAACAACAAGCACAGGTAT
2244181 ATCATGCATAT
1 ATCATGCATAT
2244192 GACCATTATT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
35 1 0.01
36 70 0.99
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (36 bp):
ATCATGCATATAATCATCAACAACAAGCACAGGTAT
Found at i:2244217 original size:36 final size:36
Alignment explanation
Indices: 2244107--2244380 Score: 201
Period size: 36 Copynumber: 7.6 Consensus size: 36
2244097 AAGCACGTGA
* ** *
2244107 ATATCATGCATATAATCATTAGCA-ACAAGCACATGT
1 ATATCATGCATATAACCATTATTAGA-AAGCGCATGT
* * * ** ** * *
2244143 ATATCATGCATTTAATCATCAACATCAAGCACAGGT
1 ATATCATGCATATAACCATTATTAGAAAGCGCATGT
* ** * *
2244179 ATATCATGCATATGACCATTATTACCAGGCGGATGT
1 ATATCATGCATATAACCATTATTAGAAAGCGCATGT
** *
2244215 ATATCATGCATATATTCATTATTAGAAAGAGCATGT
1 ATATCATGCATATAACCATTATTAGAAAGCGCATGT
* * *
2244251 ATATCATGCATATAACCATTATTAGAAGGTGCATAT
1 ATATCATGCATATAACCATTATTAGAAAGCGCATGT
* * * *
2244287 ATATCATGTATATAATCATTATTAGCAACCGCATGT
1 ATATCATGCATATAACCATTATTAGAAAGCGCATGT
* * * * *
2244323 ATATCAAGCATATAATCATTAATA-ATAAGCACATCT
1 ATATCATGCATATAACCATTATTAGA-AAGCGCATGT
*
2244359 ATCATCATGCATATAATCATTA
1 AT-ATCATGCATATAACCATTA
2244381 ATAATAAGAA
Statistics
Matches: 191, Mismatches: 44, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
36 173 0.91
37 18 0.09
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (36 bp):
ATATCATGCATATAACCATTATTAGAAAGCGCATGT
Found at i:2244290 original size:108 final size:109
Alignment explanation
Indices: 2244178--2244380 Score: 259
Period size: 108 Copynumber: 1.9 Consensus size: 109
2244168 CAAGCACAGG
* ** * * * *
2244178 TATATCATGCATATGACCATTATTACCAGGCGGATGTATATCATGCATATATTCATTATTAGA-A
1 TATATCATGCATATAACCATTATTACCAACCGCATGTATATCAAGCATATAATCATTAATA-ATA
*
2244242 AG-AGCATGTAT-ATCATGCATATAACCATTATTAGAAGGTGCATA
65 AGCA-CATCTATCATCATGCATATAACCATTATTAGAAGGTGCATA
* * *
2244286 TATATCATGTATATAATCATTATTAGCAACCGCATGTATATCAAGCATATAATCATTAATAATAA
1 TATATCATGCATATAACCATTATTACCAACCGCATGTATATCAAGCATATAATCATTAATAATAA
*
2244351 GCACATCTATCATCATGCATATAATCATTA
66 GCACATCTATCATCATGCATATAACCATTA
2244381 ATAATAAGAA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
107 1 0.01
108 60 0.75
109 19 0.24
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (109 bp):
TATATCATGCATATAACCATTATTACCAACCGCATGTATATCAAGCATATAATCATTAATAATAA
GCACATCTATCATCATGCATATAACCATTATTAGAAGGTGCATA
Found at i:2245361 original size:57 final size:57
Alignment explanation
Indices: 2245178--2245382 Score: 218
Period size: 57 Copynumber: 3.6 Consensus size: 57
2245168 TCTAGTTCTT
* * *
2245178 AACCTGAAATCTGGTTTGCAACCTGAAATATGATTTCCAACTTGAAATCTGATTTCC
1 AACCTGAAATCTGGTTTCCAACCTAAAATATGATTTCCAACCTGAAATCTGATTTCC
** * * *
2245235 AACCTGAAATCTGGTTTTGAACCTAAAATCT-ATTTTCCACCCTGAAATTTGATTTCC
1 AACCTGAAATCTGGTTTCCAACCTAAAATATGA-TTTCCAACCTGAAATCTGATTTCC
* * * * *
2245292 AACATGAAATCTAGG-TTCCAACCTAAAATTTGATTTCTAACCTGATATCTAATTTCC
1 AACCTGAAATCT-GGTTTCCAACCTAAAATATGATTTCCAACCTGAAATCTGATTTCC
* * * *
2245349 AACCTGAAATCT-ATTTTCAATCGAAAATATGATT
1 AACCTGAAATCTGGTTTCCAACCTAAAATATGATT
2245383 CCTAACTCAT
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
56 17 0.14
57 102 0.84
58 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (57 bp):
AACCTGAAATCTGGTTTCCAACCTAAAATATGATTTCCAACCTGAAATCTGATTTCC
Found at i:2245366 original size:19 final size:19
Alignment explanation
Indices: 2245178--2245364 Score: 182
Period size: 19 Copynumber: 9.9 Consensus size: 19
2245168 TCTAGTTCTT
* *
2245178 AACCTGAAATCTGGTTTGC
1 AACCTGAAATCTGATTTCC
*
2245197 AACCTGAAATATGATTTCC
1 AACCTGAAATCTGATTTCC
*
2245216 AACTTGAAATCTGATTTCC
1 AACCTGAAATCTGATTTCC
* **
2245235 AACCTGAAATCTGGTTTTG
1 AACCTGAAATCTGATTTCC
*
2245254 AACCTAAAATCT-ATTTTCC
1 AACCTGAAATCTGA-TTTCC
* *
2245273 ACCCTGAAATTTGATTTCC
1 AACCTGAAATCTGATTTCC
* *
2245292 AACATGAAATCT-AGGTTCC
1 AACCTGAAATCTGA-TTTCC
* * *
2245311 AACCTAAAATTTGATTTCT
1 AACCTGAAATCTGATTTCC
* *
2245330 AACCTGATATCTAATTTCC
1 AACCTGAAATCTGATTTCC
2245349 AACCTGAAATCT-ATTT
1 AACCTGAAATCTGATTT
2245365 TCAATCGAAA
Statistics
Matches: 133, Mismatches: 31, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
18 5 0.04
19 126 0.95
20 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (19 bp):
AACCTGAAATCTGATTTCC
Found at i:2251320 original size:15 final size:16
Alignment explanation
Indices: 2251288--2251329 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2251278 ATGTTTTCAC
*
2251288 TTTTCTTTTGGTGCTTT
1 TTTTCTTTT-GTGATTT
2251305 TTTTCTTTTGT-ATTT
1 TTTTCTTTTGTGATTT
*
2251320 TCTTCTTTTG
1 TTTTCTTTTG
2251330 ATAAATTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 12 0.52
16 2 0.09
17 9 0.39
ACGTcount: A:0.02, C:0.12, G:0.12, T:0.74
Consensus pattern (16 bp):
TTTTCTTTTGTGATTT
Found at i:2252620 original size:17 final size:17
Alignment explanation
Indices: 2252600--2252633 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2252590 GAATTGTACC
2252600 TTATAC-AGATCACATAT
1 TTATACAAG-TCACATAT
2252617 TTATACAAGTCACATAT
1 TTATACAAGTCACATAT
2252634 GCACAAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
TTATACAAGTCACATAT
Found at i:2253897 original size:16 final size:17
Alignment explanation
Indices: 2253859--2253904 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 17
2253849 TGTTTATGAG
2253859 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
2253877 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
2253893 GGAATTGGAATC
1 GGAATTGGAATC
2253905 CAATTTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 13 0.46
18 15 0.54
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:2256774 original size:20 final size:21
Alignment explanation
Indices: 2256728--2256768 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2256718 TATTTTAAAA
2256728 TATTTATG-TTTTAGTTGTTTT
1 TATTT-TGATTTTAGTTGTTTT
2256749 TATTTTGATTTT-GTTGTTTT
1 TATTTTGATTTTAGTTGTTTT
2256769 AGTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (21 bp):
TATTTTGATTTTAGTTGTTTT
Found at i:2257074 original size:13 final size:13
Alignment explanation
Indices: 2257056--2257085 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2257046 TTTGATTGCG
2257056 AAAATTAAAAATT
1 AAAATTAAAAATT
*
2257069 AAAATTAAAATTT
1 AAAATTAAAAATT
2257082 AAAA
1 AAAA
2257086 CATCGATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:2257233 original size:7 final size:7
Alignment explanation
Indices: 2257153--2257213 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
2257143 GTTAGATGGT
2257153 AAATAAA
1 AAATAAA
*
2257160 AAATATATC
1 AAATA-A-A
*
2257169 AACTAAA
1 AAATAAA
2257176 AAATAAA
1 AAATAAA
*
2257183 TAAAT-GA
1 -AAATAAA
*
2257190 TAATAAA
1 AAATAAA
2257197 AAATAAA
1 AAATAAA
2257204 AAATAAA
1 AAATAAA
2257211 AAA
1 AAA
2257214 GGATGTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
6 3 0.07
7 29 0.69
8 6 0.14
9 4 0.10
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (7 bp):
AAATAAA
Found at i:2258827 original size:85 final size:86
Alignment explanation
Indices: 2258669--2258838 Score: 236
Period size: 85 Copynumber: 2.0 Consensus size: 86
2258659 GTCAGTTTTT
* * * * * *
2258669 GTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTCGATTTGCCTCTGAGTTGAATGT
1 GTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTCGATGTGCCTCTGAGATGAATGT
2258734 AATCGAACTCGAAGGTCTTTG
66 AATCGAACTCGAAGGTCTTTG
* * *
2258755 GTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA-T-GATGGTGCCTTTGAGATGAGTG
1 GTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTCGAT-GTGCCTCTGAGATGAATG
2258818 TAATCGAACTCGAAGGTCTTT
65 TAATCGAACTCGAAGGTCTTT
2258839 TGGTGAGTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
84 3 0.04
85 36 0.49
86 35 0.47
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (86 bp):
GTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTCGATGTGCCTCTGAGATGAATGT
AATCGAACTCGAAGGTCTTTG
Found at i:2258841 original size:86 final size:87
Alignment explanation
Indices: 2258664--2258842 Score: 238
Period size: 86 Copynumber: 2.1 Consensus size: 87
2258654 AACTCGTCAG
* * * * * * *
2258664 TTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTGTAAATTCGATTTGCCTCTGAGTTG
1 TTTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTCGATGTGCCTCTGAGATG
2258729 AATGTAATCGAACTCGAAGGTC
66 AATGTAATCGAACTCGAAGGTC
* *
2258751 -TTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA-T-GATGGTGCCTTTGAGAT
1 TTTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTCGAT-GTGCCTCTGAGAT
*
2258813 GAGTGTAATCGAACTCGAAGGTC
65 GAATGTAATCGAACTCGAAGGTC
2258836 TTTTGGT
1 TTTTGGT
2258843 GAGTGGCCTC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
84 3 0.04
85 33 0.41
86 44 0.55
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (87 bp):
TTTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATTCGATGTGCCTCTGAGATG
AATGTAATCGAACTCGAAGGTC
Found at i:2259786 original size:106 final size:106
Alignment explanation
Indices: 2259308--2260830 Score: 2503
Period size: 106 Copynumber: 14.4 Consensus size: 106
2259298 TATTGTTCCA
* * * *
2259308 AGTCCAATATCCTCCACCGTGAAGTTGAAATTGGCTCT-AGAACTGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAATTGTTTGTTGACAA
* * * * *
2259372 CCAGCCGTCCCTTCGTTGTGAAGTTCAACTTGTGTTGTCTCG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2259414 AGTCCAATATACTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* * * * **
2259479 CAGCCGTCCCTTCATTTGTGAAGTTGAACTTGAGTTGTCTCA
66 CAGCGGTCCCTTC-GTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2259521 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2259586 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGT-TGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2259626 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* *
2259691 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTGTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
2259732 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* *
2259797 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2259838 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTTGTTGACAA
* *
2259903 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2259945 AGTCCAACATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG-TGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
2260009 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
2260050 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
2260115 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2260156 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTCTGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2260221 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2260262 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTTGTTGACAA
*
2260327 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * ** *
2260369 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTAAAATTAAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
2260434 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2260475 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
2260540 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2260581 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGTGAAGTTGTTTTTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
2260646 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
2260687 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTATTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
2260752 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2260793 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
2260831 CGAGCAAAAT
Statistics
Matches: 1333, Mismatches: 78, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
105 197 0.15
106 837 0.63
107 299 0.22
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:2264411 original size:13 final size:13
Alignment explanation
Indices: 2264393--2264422 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2264383 TTTGATTGCG
2264393 AAAATTAAAAATT
1 AAAATTAAAAATT
*
2264406 AAAATTAAAATTT
1 AAAATTAAAAATT
2264419 AAAA
1 AAAA
2264423 CATCGATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:2264574 original size:20 final size:20
Alignment explanation
Indices: 2264535--2264575 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2264525 AAAATAATAA
* *
2264535 TAAAAATTAAAAAACGATGT
1 TAAAAAATAAAAAAAGATGT
*
2264555 TAAAAAATAAAAAAATATGT
1 TAAAAAATAAAAAAAGATGT
2264575 T
1 T
2264576 GAAAGTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (20 bp):
TAAAAAATAAAAAAAGATGT
Found at i:2266172 original size:85 final size:86
Alignment explanation
Indices: 2266006--2266175 Score: 218
Period size: 85 Copynumber: 2.0 Consensus size: 86
2265996 GTCAGTTTTT
* * * * * * *
2266006 GTTGACAGATAGCCCTTCTCGCCATGAGTTATGCTGTAAATTCGATTTGCCTCTGAGTTGAATGT
1 GTTGACAGATAGCCCTTCTCGACATAAGCTATGCTGCAAATTCGATGTGCCTCTGAGCTGAATAT
2266071 AATCGAACTCGAAGGTCTTTG
66 AATCGAACTCGAAGGTCTTTG
* * * *
2266092 GTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA-T-GATGGTGCCTTTGAGCTGAGTA
1 GTTGACAGATAGCCCTTCTCGACATAAGCTATGCTGCAAATTCGAT-GTGCCTCTGAGCTGAATA
2266155 TAATCGAACTCGAAGGTCTTT
65 TAATCGAACTCGAAGGTCTTT
2266176 TGGTGAGTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
84 3 0.04
85 35 0.49
86 34 0.47
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (86 bp):
GTTGACAGATAGCCCTTCTCGACATAAGCTATGCTGCAAATTCGATGTGCCTCTGAGCTGAATAT
AATCGAACTCGAAGGTCTTTG
Found at i:2266178 original size:86 final size:87
Alignment explanation
Indices: 2266001--2266179 Score: 220
Period size: 86 Copynumber: 2.1 Consensus size: 87
2265991 AACTCGTCAG
* * * * * * *
2266001 TTTTTGTTGACAGATAGCCCTTCTCGCCATGAGTTATGCTGTAAATTCGATTTGCCTCTGAGTTG
1 TTTTGGTTGACAGATAGCCCTTCTCGACATAAGCTATGCTGCAAATTCGATGTGCCTCTGAGCTG
*
2266066 AATGTAATCGAACTCGAAGGTC
66 AATATAATCGAACTCGAAGGTC
* * *
2266088 -TTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA-T-GATGGTGCCTTTGAGCT
1 TTTTGGTTGACAGATAGCCCTTCTCGACATAAGCTATGCTGCAAATTCGAT-GTGCCTCTGAGCT
*
2266150 GAGTATAATCGAACTCGAAGGTC
65 GAATATAATCGAACTCGAAGGTC
2266173 TTTTGGT
1 TTTTGGT
2266180 GAGTGGCCTC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
84 3 0.04
85 32 0.41
86 43 0.55
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (87 bp):
TTTTGGTTGACAGATAGCCCTTCTCGACATAAGCTATGCTGCAAATTCGATGTGCCTCTGAGCTG
AATATAATCGAACTCGAAGGTC
Found at i:2266833 original size:106 final size:106
Alignment explanation
Indices: 2266644--2267942 Score: 1931
Period size: 106 Copynumber: 12.4 Consensus size: 106
2266634 TATTGTTCCA
* * * * *
2266644 AGTCCAATATCCTCCACCGTGAAGTTGAAATTGGCTCTGGAATTGGGAAA-TTATTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTGTTGACAA
* * *
2266708 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2266750 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTT-TTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTGTTGACAAC
* * * * * *
2266814 CAGCGGTCCCTTTGTTTGTGAACTTGAACTTGTGCTGTCTCG
66 CAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2266856 AGTCTAATATCCTTCGTTGTGAAGTTGAAA-----T-TG-----GGAAA-TTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTGTTGACAAC
2266909 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** *
2266950 AGTACAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAGTTGTTTTTTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTG-TTTGTTGACAA
*
2267015 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2267057 AGTCCAACATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATT-GAGAAGTTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGA-AAGTTGTTTGTTGACAA
*
2267121 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2267163 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTAACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTGTTGACAA
*
2267227 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2267269 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAA-TTATTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTGTTGACAA
2267333 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG-GTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2267374 AGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTG-TTTGTTGACAA
*
2267439 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
2267481 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAGTTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGA-AAGTTGTTTGTTGACAA
*
2267545 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2267587 AGTCCAATATCCTTCGCAGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTATTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTGTTGACAA
2267651 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2267693 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTGTTGACAAC
* *
2267758 CAGCGGTGCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2267799 AGTCCAATATCCTTCGCTGTGAAGTTTAAATTGGCTCTGAAATTGGGAAA-TTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTGTTGACAA
*
2267863 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2267905 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
2267943 CGAGCAAAAT
Statistics
Matches: 1096, Mismatches: 69, Indels: 56
0.90 0.06 0.05
Matches are distributed among these distances:
94 55 0.05
95 26 0.02
99 1 0.00
100 4 0.00
101 1 0.00
104 5 0.00
105 84 0.08
106 754 0.69
107 162 0.15
108 4 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:2269875 original size:21 final size:22
Alignment explanation
Indices: 2269830--2269884 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
2269820 CATACATGCA
*
2269830 TTTACATTTTGTATCTGTGCAT
1 TTTACATTTTGTATCTGTACAT
*
2269852 TTT-CATTTTGTATTCT-TACTT
1 TTTACATTTTGTA-TCTGTACAT
2269873 TTTACATCTTTG
1 TTTACAT-TTTG
2269885 CATTACACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 15 0.54
22 9 0.32
23 4 0.14
ACGTcount: A:0.16, C:0.15, G:0.09, T:0.60
Consensus pattern (22 bp):
TTTACATTTTGTATCTGTACAT
Found at i:2272644 original size:165 final size:165
Alignment explanation
Indices: 2272372--2272668 Score: 443
Period size: 165 Copynumber: 1.8 Consensus size: 165
2272362 AGGCTGAAGG
2272372 GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAGATAAGATTGAAAGCTATTTGCCATG
1 GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAGATAAGATTGAAAGCTATTTGCCATG
* **
2272437 GGCAGATATATCAAAAACGGATGATGAAAGATCATGACAAGAAAGTACATCCAAGAGAGTTCCAA
66 GGCAAATATATCAAAAACGGATGATGAAAGATCACAACAAGAAAGTACATCCAAGAGAGTTCCAA
2272502 GATGTTGATCTAGTGCTAAAAAAGGAGACTGAATA
131 GATGTTGATCTAGTGCTAAAAAAGGAGACTGAATA
* * * * *
2272537 GATCCAATCTTGATTTGATCAATTAAGCTTTATTGATGAGA-ATGTATTGAAAGCTATTTGCCAT
1 GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAGATAAG-ATTGAAAGCTATTTGCCAT
* * ** * **
2272601 GGGCAAATGTATCAGAAGTGGATGATGAAGGATCACAACAAGAAAGTACATCTGAGAGAGTTCCA
65 GGGCAAATATATCAAAAACGGATGATGAAAGATCACAACAAGAAAGTACATCCAAGAGAGTTCCA
2272666 AGA
130 AGA
2272669 GAGCAATCTA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
164 2 0.02
165 114 0.98
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (165 bp):
GATCCAAGCTCGATTTGATCAATTAAACCTTATTGATGAGATAAGATTGAAAGCTATTTGCCATG
GGCAAATATATCAAAAACGGATGATGAAAGATCACAACAAGAAAGTACATCCAAGAGAGTTCCAA
GATGTTGATCTAGTGCTAAAAAAGGAGACTGAATA
Found at i:2272887 original size:17 final size:17
Alignment explanation
Indices: 2272862--2272904 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
2272852 TATTATGTTT
*
2272862 GAAAAAAAAAGGAAAAAAG
1 GAAAAAAAAA--AAAAAAC
2272881 GAAAAAAAAAAAAAAAC
1 GAAAAAAAAAAAAAAAC
2272898 GAAAAAA
1 GAAAAAA
2272905 TTTGAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.57
19 10 0.43
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAAAAAAAAC
Found at i:2277574 original size:22 final size:22
Alignment explanation
Indices: 2277548--2277595 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
2277538 CTCTTCAAAA
*
2277548 ATGATAGGTTCTCTTTTTAAAG
1 ATGATAGATTCTCTTTTTAAAG
2277570 ATGATAGATTCTCTTTTTAAAG
1 ATGATAGATTCTCTTTTTAAAG
2277592 ATGA
1 ATGA
2277596 AATCTTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (22 bp):
ATGATAGATTCTCTTTTTAAAG
Found at i:2278416 original size:166 final size:165
Alignment explanation
Indices: 2278109--2278433 Score: 510
Period size: 166 Copynumber: 2.0 Consensus size: 165
2278099 AAAATGAGCA
2278109 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAAAAAACGAGAAAAAG
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-AAAAAAAAAAACGAGAAAAAG
**
2278174 ATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATTTC
65 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATTTC
*
2278239 CTTAGTTTTTTACTTAGTAAATTATTTCCACCAGCC
130 CTTAGTTTTTTACTTAGTAAACTATTTCCACCAGCC
** * *
2278275 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAAATAATGAGAAAACA-
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAAAAAACGAGAAAA-AG
*
2278338 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTATTGAAAAGTAAGAAAACGATTT
* *
2278403 CCTTAATTTTTTTACTTATTAAACTATTTCC
129 CCTT-AGTTTTTTACTTAGTAAACTATTTCC
2278434 TACATCTGTA
Statistics
Matches: 146, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
164 42 0.29
165 38 0.26
166 66 0.45
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (165 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAAAAAACGAGAAAAAGA
TTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTACTTAGTAAACTATTTCCACCAGCC
Found at i:2278535 original size:76 final size:76
Alignment explanation
Indices: 2278436--2279071 Score: 1069
Period size: 76 Copynumber: 8.4 Consensus size: 76
2278426 CTATTTCCTA
* *
2278436 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2278501 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
2278512 CATCTGTAAGCCCTGCAGTGCATGATGTTTCCAAAAAACCTTCGGGAGCTTTTTGATGGTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2278577 AACCTTAGGGT
66 AGCCTTAGGGT
*
2278588 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2278652 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2278663 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2278728 AACCTTAGGGT
66 AGCCTTAGGGT
* *
2278739 CATCTGTAAGTACTACAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2278803 AGCCTTAGGGT
66 AGCCTTAGGGT
2278814 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2278879 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
2278890 CATTTATAAGTCCTGCAGTGCATGATGATTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2278955 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2278966 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2279031 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
2279042 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
2279072 TCAACATTTT
Statistics
Matches: 528, Mismatches: 30, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
75 142 0.27
76 386 0.73
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2278684 original size:151 final size:152
Alignment explanation
Indices: 2278436--2279071 Score: 1053
Period size: 151 Copynumber: 4.2 Consensus size: 152
2278426 CTATTTCCTA
* * *
2278436 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
2278501 AGCCTTAGGGTCATCTGTAAGCCCTGCAGTGCATGATGTTTCCAAAAAACCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
2278566 GATGGTTTCAAAACCTTAGGGT
131 GATGTTTTCAAAACCTTAGGGT
2278588 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2278652 AGCCTTAGGGTCATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
2278717 GATGTTTTCAAAACCTTAGGGT
131 GATGTTTTCAAAACCTTAGGGT
*
2278739 CATCTGTAAGTA-CTACAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGATTTTTGATGTTTTCA
1 CATCTGTAAG-ACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
2278802 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2278867 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAACCTTAGGGT
* * * * *
2278890 CATTTATAAGTCCTGCAGTGCATGATGATTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2278955 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
2279020 GATGTTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAACCTTAGGGT
* *
2279042 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGACCTACAGTGCATGATGTTT
2279072 TCAACATTTT
Statistics
Matches: 454, Mismatches: 26, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
150 10 0.02
151 261 0.57
152 183 0.40
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (152 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAACCTTAGGGT
Found at i:2278864 original size:227 final size:227
Alignment explanation
Indices: 2278436--2279071 Score: 1085
Period size: 227 Copynumber: 2.8 Consensus size: 227
2278426 CTATTTCCTA
*
2278436 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2278501 AGCCTTAGGGTCATCTGTAAGCCCTGCAGTGCATGATGTTTCCAAAAAACCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
2278566 GATGGTTTCAAAACCTTAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTC
2278631 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* * *
2278663 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * *
2278728 AACCTTAGGGTCATCTGTAAGTACTACAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGATTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
2278792 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTC
2278857 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 -GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* * *
2278890 CATTTATAAGTCCTGCAGTGCATGATGATTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2278955 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * *
2279020 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGACCTACAGTGCATGATGTTT
2279072 TCAACATTTT
Statistics
Matches: 381, Mismatches: 26, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
226 81 0.21
227 231 0.61
228 69 0.18
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (227 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTC
GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:2279209 original size:3 final size:3
Alignment explanation
Indices: 2279196--2279259 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
2279186 TTTTTCATTC
* *
2279196 TAT TTT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT T-T ATAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
2279240 TA- TAT ATAT TAT TAT TAT TA
1 TAT TAT -TAT TAT TAT TAT TA
2279260 AATAAAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
2 5 0.09
3 44 0.83
4 4 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2279247 original size:27 final size:26
Alignment explanation
Indices: 2279208--2279258 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
2279198 TTTTTATTAT
*
2279208 TATTATTATTATATTATTATTATTTA
1 TATTACTATTATATTATTATTATTTA
2279234 TATTACTATATATATTATTATTATT
1 TATTACTAT-TATATTATTATTATT
2279259 AAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTACTATTATATTATTATTATTTA
Found at i:2279270 original size:27 final size:27
Alignment explanation
Indices: 2279217--2279275 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
2279207 TTATTATTAT
* * *
2279217 TATATTATTATTATTTATATTACTATA
1 TATATTATTATTATTAATATAAATATA
2279244 TATATTATTATTATTAA-ATAAAATATA
1 TATATTATTATTATTAATAT-AAATATA
2279271 TATAT
1 TATAT
2279276 ATATATACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TATATTATTATTATTAATATAAATATA
Found at i:2280934 original size:151 final size:150
Alignment explanation
Indices: 2280655--2280923 Score: 341
Period size: 151 Copynumber: 1.8 Consensus size: 150
2280645 TTTATAATAG
* * * *
2280655 TATTTATTTATTTTTTAATATCAAAGAAAGGGACAATCTTAAAGTAACTAGATGTCCGTTTTCTG
1 TATTTATTTATTTTTTAATATCAAAGAAAGAGACAATCTTAAAGCAACTAGAAGTCCCTTTTCTG
* * * * * **
2280720 ATTTTTTTAATAAATAAATATTTTACTTTTATAAAATTGTATATATTAATCTATTTTTTATTATT
66 ATTTTCTAAATAAATAAATATATTAC-TTTATAAAATTATATAAATTAATAAATTTTTTATTATT
2280785 ATTTTTAGATAAGTGTTTTAA
130 ATTTTTAGATAAGTGTTTTAA
** *
2280806 TATTTATTTATTTTTTAATATCAAAGGAAAGAG-CTGTCTTAAAGCACCTAGAAG-CCCTTTTCT
1 TATTTATTTATTTTTTAATATCAAA-GAAAGAGACAATCTTAAAGCAACTAGAAGTCCCTTTTCT
*
2280869 GATATTTCTAAATAAATAAATATATTA-TTTAT-ATA-TATATAAATTAATAAATTTT
65 GAT-TTTCTAAATAAATAAATATATTACTTTATAAAATTATATAAATTAATAAATTTT
2280924 CTTAAAATTA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
147 16 0.16
148 2 0.02
149 5 0.05
150 11 0.11
151 61 0.60
152 6 0.06
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (150 bp):
TATTTATTTATTTTTTAATATCAAAGAAAGAGACAATCTTAAAGCAACTAGAAGTCCCTTTTCTG
ATTTTCTAAATAAATAAATATATTACTTTATAAAATTATATAAATTAATAAATTTTTTATTATTA
TTTTTAGATAAGTGTTTTAA
Found at i:2284680 original size:3 final size:3
Alignment explanation
Indices: 2284667--2284697 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
2284657 TTTCATCCGG
2284667 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
2284698 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2285090 original size:19 final size:21
Alignment explanation
Indices: 2285066--2285110 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2285056 TGTCAGAAAC
2285066 ACAAAT-CA-ACACACAAGCA
1 ACAAATCCATACACACAAGCA
* *
2285085 ACAAATCCATACTCACAAGCC
1 ACAAATCCATACACACAAGCA
2285106 ACAAA
1 ACAAA
2285111 AAACATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 2 0.09
21 14 0.64
ACGTcount: A:0.53, C:0.33, G:0.04, T:0.09
Consensus pattern (21 bp):
ACAAATCCATACACACAAGCA
Found at i:2285188 original size:25 final size:25
Alignment explanation
Indices: 2285151--2285208 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
2285141 AAAAAGAGAG
* *
2285151 AAAAGTCTGTAAAACTCA-GGCTTAT
1 AAAACTCTATAAAACT-AGGGCTTAT
2285176 AAAACTCTATAAAACTAGGGCTTAT
1 AAAACTCTATAAAACTAGGGCTTAT
2285201 AAAACTCT
1 AAAACTCT
2285209 GAATGAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (25 bp):
AAAACTCTATAAAACTAGGGCTTAT
Found at i:2287669 original size:29 final size:29
Alignment explanation
Indices: 2287627--2287683 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
2287617 GTTAGTCACA
*
2287627 AAAATAATTTACTAACAGTAATAAAATTT
1 AAAATAATTTACTAACAGTAACAAAATTT
*
2287656 AAAATAATTTACTAATAGTAACAAAATT
1 AAAATAATTTACTAACAGTAACAAAATT
2287684 CTTATCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATAATTTACTAACAGTAACAAAATTT
Found at i:2289926 original size:3 final size:3
Alignment explanation
Indices: 2289918--2289986 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
2289908 TTTACTTTAC
2289918 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2289966 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
2289987 ATATATATAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2290676 original size:16 final size:16
Alignment explanation
Indices: 2290650--2290699 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
2290640 CGAGGTTACT
2290650 ATTCACGTGAATAGTGA
1 ATTC-CGTGAATAGTGA
2290667 ATTCCGTGAATAGTGA
1 ATTCCGTGAATAGTGA
*
2290683 ATTTCGTGAATAGTGA
1 ATTCCGTGAATAGTGA
2290699 A
1 A
2290700 ATTTTGTCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 28 0.88
17 4 0.12
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (16 bp):
ATTCCGTGAATAGTGA
Found at i:2291470 original size:15 final size:16
Alignment explanation
Indices: 2291452--2291484 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2291442 GTGGCAGATC
2291452 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
2291467 AAAATCCAGAACGGGA
1 AAAATCCAGAACGGGA
2291483 AA
1 AA
2291485 GAAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:2299379 original size:183 final size:184
Alignment explanation
Indices: 2299065--2299628 Score: 643
Period size: 197 Copynumber: 3.0 Consensus size: 184
2299055 ATTGGTAACT
* * * * *
2299065 ATTTGTAACAAATTTATTTAATCATAATAATATAGTAAATTTAGCCAAAAGAATAAATTATGTCA
1 ATTTGTAACAAATTTATTTAGTCACAATAATATATTAAATTTAGTCAAAATAA-AAATTATGTCA
* * ** * * *
2299130 AGTTTATTTAGTCACAATATTTTATCAAAATAAATAA-TGATGA-AAACATTGTTTA-ATCAAAA
65 AATTTATTTA-TCACAATATTTTCTCAAAATAAA-AACTTTTGACAAA-TTTATTTAGA-CATAA
* *
2299192 TAACAATTAATAACAAATATTAATTTCTCAATATAAAAATTTATGAAAAATAATATT-C
126 TAACAATTTATAACAAATATTAATTTCTCAATATAAAAAATTATGAAAAATAATATTAC
*
2299250 -TTTGTAACAAATTTATTTAGTCACAACAATATATTAAATTTAGTCAAAATAAAAATTATGTCAA
1 ATTTGTAACAAATTTATTTAGTCACAATAATATATTAAATTTAGTCAAAATAAAAATTATGTCAA
2299314 ATTTATTTCATCACAATATTTTCTCAAAATAAAAACTTTTGACAAATTTATTTAGACATAATAAC
66 ATTTATTT-ATCACAATATTTTCTCAAAATAAAAACTTTTGACAAATTTATTTAGACATAATAAC
* * * *
2299379 AATTTATAACAAATAGTAATTTCTCAATATAAAAAATTAGGACAAATATATTCTTAC
130 AATTTATAACAAATATTAATTTCTCAATATAAAAAATTATGA-AAA-ATAATATTAC
* * * * *
2299436 ATAATAATAGATTTTAACAAATATATTTAGTCACAATAACATATTAAAATTAGTCACAGTAAAAA
1 AT--T--T-G----TAACAAATTTATTTAGTCACAATAATATATTAAATTTAGTCAAAAT-AAAA
* *
2299501 ATTATGTCAAAATTATTTAATCACAATATTTTCTCAAGATAAAAACTTTTGACAAATTTATTTAG
56 ATTATGTCAAATTTATTT-ATCACAATATTTTCTCAAAATAAAAACTTTTGACAAATTTATTTAG
* * * * *
2299566 TCATAATAAAAATTTATAACAAATGTTAATTTCTCAACATAAAAACTTATGAAAAATAATATT
120 ACATAATAACAATTTATAACAAATATTAATTTCTCAATATAAAAAATTATGAAAAATAATATT
2299629 TTTTTCACAA
Statistics
Matches: 324, Mismatches: 37, Indels: 26
0.84 0.10 0.07
Matches are distributed among these distances:
182 2 0.01
183 97 0.30
184 54 0.17
185 6 0.02
186 1 0.00
187 1 0.00
189 1 0.00
191 1 0.00
192 1 0.00
195 6 0.02
196 43 0.13
197 111 0.34
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (184 bp):
ATTTGTAACAAATTTATTTAGTCACAATAATATATTAAATTTAGTCAAAATAAAAATTATGTCAA
ATTTATTTATCACAATATTTTCTCAAAATAAAAACTTTTGACAAATTTATTTAGACATAATAACA
ATTTATAACAAATATTAATTTCTCAATATAAAAAATTATGAAAAATAATATTAC
Found at i:2299423 original size:65 final size:65
Alignment explanation
Indices: 2299333--2299458 Score: 157
Period size: 65 Copynumber: 1.9 Consensus size: 65
2299323 ATCACAATAT
* ** *
2299333 TTTCTCAAAATAAAAACTTTTGACAAATTTATT-TAGACATAATAACA-ATTTATAACAAATAGT
1 TTTCTCAAAATAAAAAATTAGGACAAATATATTCT-GACATAATAACAGATTT-TAACAAATAGT
2299396 AA
64 AA
* * *
2299398 TTTCTCAATATAAAAAATTAGGACAAATATATTCTTACATAATAATAGATTTTAACAAATA
1 TTTCTCAAAATAAAAAATTAGGACAAATATATTCTGACATAATAACAGATTTTAACAAATA
2299459 TATTTAGTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 47 0.90
66 5 0.10
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (65 bp):
TTTCTCAAAATAAAAAATTAGGACAAATATATTCTGACATAATAACAGATTTTAACAAATAGTAA
Found at i:2299563 original size:32 final size:32
Alignment explanation
Indices: 2299527--2299622 Score: 88
Period size: 32 Copynumber: 2.9 Consensus size: 32
2299517 TTAATCACAA
2299527 TATTTTCTCAAGATAAAAACTTTTGACAAAT-T
1 TATTTTCTCAA-ATAAAAACTTTTGACAAATGT
** *
2299559 TATTTAGTCATAATAAAAA-TTTATAACAAATGT
1 TATTTTCTCA-AATAAAAACTTT-TGACAAATGT
* * *
2299592 TAATTTCTCAACATAAAAACTTATGAAAAAT
1 TATTTTCTCAA-ATAAAAACTTTTGACAAAT
2299623 AATATTTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
31 3 0.06
32 23 0.46
33 22 0.44
34 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (32 bp):
TATTTTCTCAAATAAAAACTTTTGACAAATGT
Found at i:2301175 original size:20 final size:20
Alignment explanation
Indices: 2301138--2301186 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2301128 CTCAAAATCA
***
2301138 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATCAAATTTTG
2301158 TTTTTCAAAATCAAATTTTG
1 TTTTTCAAAATCAAATTTTG
*
2301178 -CTTTCAAAA
1 TTTTTCAAAA
2301187 CTAAATCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTTCAAAATCAAATTTTG
Found at i:2303009 original size:68 final size:66
Alignment explanation
Indices: 2302870--2303010 Score: 155
Period size: 66 Copynumber: 2.1 Consensus size: 66
2302860 AAATATATAT
* * * * *
2302870 ATATATATAATATTTTTTAAAAAATGTGTATAGTTTTTAATATATATATATATATATAGTTTTGG
1 ATATATATAATATATCTTAAAAAATATCTATAGTTTTTAATATATATATATATATATAGTTTTGA
2302935 A
66 A
*
2302936 ATATATATATTATATCTTAAAAATATATCTATAGTTATTTTAATAT-T-TATAT-TATATA-TTT
1 ATATATATAATATATCTTAAAAA-ATATCTATAG-T-TTTTAATATATATATATATATATAGTTT
2302997 TGAAA
63 TG-AA
*
2303002 ACATATATA
1 ATATATATA
2303011 GTTTTGAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
65 5 0.08
66 35 0.55
67 13 0.20
68 2 0.03
69 9 0.14
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (66 bp):
ATATATATAATATATCTTAAAAAATATCTATAGTTTTTAATATATATATATATATATAGTTTTGA
A
Found at i:2303011 original size:42 final size:42
Alignment explanation
Indices: 2302921--2303057 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
2302911 ATATATATAT
* * * *
2302921 ATATATAGTTTTGGAATA--TATATATTATAT-CTTAAAAAT
1 ATATATAGTTTTGAAATATGTATATATTATATATTTTAAAAC
**
2302960 ATATCTATAGTTATTTTAATAT-T-TATATTATATATTTTGAAAAC
1 ATA--TATAGTT-TTGAAATATGTATATATTATATATTTT-AAAAC
*
2303004 ATATATAGTTTTGAAATATGTATATATTATATATTTTAAAAT
1 ATATATAGTTTTGAAATATGTATATATTATATATTTTAAAAC
2303046 ATATATAGTTTT
1 ATATATAGTTTT
2303058 ATTAAAAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
39 3 0.04
41 14 0.17
42 40 0.49
43 18 0.22
44 7 0.09
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (42 bp):
ATATATAGTTTTGAAATATGTATATATTATATATTTTAAAAC
Found at i:2303027 original size:19 final size:17
Alignment explanation
Indices: 2302984--2303031 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
2302974 TTTAATATTT
2302984 ATATTATATATTTTGAA
1 ATATTATATATTTTGAA
*
2303001 A-ACATATATAGTTTTGAA
1 ATA-TTATATA-TTTTGAA
2303019 ATATGTATATATT
1 ATAT-TATATATT
2303032 ATATATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
16 1 0.04
17 7 0.28
18 10 0.40
19 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (17 bp):
ATATTATATATTTTGAA
Found at i:2304554 original size:17 final size:16
Alignment explanation
Indices: 2304534--2304590 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
2304524 GTTTTGTATC
2304534 ATTTTTATTATTATTT
1 ATTTTTATTATTATTT
*
2304550 AATTTCTATTATTTACTTT
1 -ATTTTTATTA-TTA-TTT
2304569 ATTCTTT-TTATTATTT
1 ATT-TTTATTATTATTT
*
2304585 CTTTTT
1 ATTTTT
2304591 CTCTTTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 3 0.09
16 5 0.15
17 12 0.35
18 9 0.26
19 5 0.15
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTATTATTATTT
Found at i:2304581 original size:21 final size:21
Alignment explanation
Indices: 2304556--2304615 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
2304546 ATTTAATTTC
2304556 TATTATTTACTTTATTCTTTT
1 TATTATTTACTTTATTCTTTT
*
2304577 TATTATTT-CTTT-TTCTCTT
1 TATTATTTACTTTATTCTTTT
* *
2304596 TAAT-TTTA-TTTATTTTTTT
1 TATTATTTACTTTATTCTTTT
2304615 T
1 T
2304616 CAAAAGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.18
19 15 0.45
20 4 0.12
21 8 0.24
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (21 bp):
TATTATTTACTTTATTCTTTT
Found at i:2311846 original size:200 final size:201
Alignment explanation
Indices: 2311275--2312024 Score: 744
Period size: 200 Copynumber: 3.8 Consensus size: 201
2311265 TAATACAGGT
* ** * * *
2311275 AAACCAAGGTCTTTAAACTAAGTGGAAGA-CCTAGGTGGGCTATGATTTGGTAACAAAGAACCAC
1 AAACCAAGGTCTTTAAGCTAAGAAGAAGACCCTAGGTGGACTATGATTTGGCAACAAAGAACTAC
* *
2311339 TTCCCAACTAGATTTTGACATAGCTTAAATTAAGAAGAGCTATTTGTCAACCAAAGCTTTCAAGT
66 TTCCCAACCAGATTTCGACATAGCTTAAATTAAGAAGAGCTATTTGTCAACCAAAGCTTTCAAGT
* * * *
2311404 TCGATTTCACTTAACTCGAGAGCACGTTGACCACATGGTAGCAGCAAGGAACTAACTTCTGGTTA
131 TCGATTTCACTCAACTCGAGAGCACGTTGACCACATGGTAGCAACAAGGAACTACCTTCCGGTTA
2311469 AAATCC
196 AAATCC
** * * ** ** ** * * *
2311475 AAATTAAGGTCTTTAAG-TCGAGAAGAAGAGACCTAAATCAACTGCGATTTAGCAATAAGGAACT
1 AAACCAAGGTCTTTAAGCT-AAGAAGAAGA-CCCTAGGTGGACTATGATTTGGCAACAAAGAACT
* * * * *
2311539 ACTTCCCAGCCAGATTTCGACATAGCTTAAATCAAGAAGAGCTATTTATCAATCAAAACTTTCAA
64 ACTTCCCAACCAGATTTCGACATAGCTTAAATTAAGAAGAGCTATTTGTCAACCAAAGCTTTCAA
* * * * *
2311604 GTTCGATTTTACTCAACTCAAGAGCACATTGACCGCATGGTAGCAACGAGGAACTACCTTCCGGT
129 GTTCGATTTCACTCAACTCGAGAGCACGTTGACCACATGGTAGCAACAAGGAACTACCTTCCGGT
*
2311669 CAAAATCC
194 TAAAATCC
* * * *
2311677 AAACCGAGGTCTTTAAGCTAAGAAGAATACCCT-GGTGGACTATGATTTGGCAACAATGAACTGC
1 AAACCAAGGTCTTTAAGCTAAGAAGAAGACCCTAGGTGGACTATGATTTGGCAACAAAGAACTAC
* * ** *
2311741 TTCCCAACCATATTTCGACTTAGCTTAGGTTAAGAAGAGTTATTTGTCAACCAAAGCTTTCAAGT
66 TTCCCAACCAGATTTCGACATAGCTTAAATTAAGAAGAGCTATTTGTCAACCAAAGCTTTCAAGT
* * * * * * *
2311806 TTGATTTCACTCAACTCGAGAGCATGGTGACCATATGGTAGCATCAAGGAACTACTTTCCAGTTA
131 TCGATTTCACTCAACTCGAGAGCACGTTGACCACATGGTAGCAACAAGGAACTACCTTCCGGTTA
*
2311871 AAATTC
196 AAATCC
* * * * * * * *
2311877 AAACCAAGGTCATTAAGCTAAGAAGAATACCC-AAGT---TTACGATTTGGTAACAAATAA-TCG
1 AAACCAAGGTCTTTAAGCTAAGAAGAAGACCCTAGGTGGACTATGATTTGGCAACAAAGAACT-A
* * * * ***** *
2311937 CTTTCCATCCAGATTTCAACATATCTTAAGCCGGGAAGATCTATTTGTCAACCAAAGCTTTCAAG
65 CTTCCCAACCAGATTTCGACATAGCTTAAATTAAGAAGAGCTATTTGTCAACCAAAGCTTTCAAG
* *
2312002 ATT-GATTCCACTCAACTTGAGAG
130 -TTCGATTTCACTCAACTCGAGAG
2312025 AACATAGACT
Statistics
Matches: 445, Mismatches: 98, Indels: 17
0.79 0.17 0.03
Matches are distributed among these distances:
196 1 0.00
197 87 0.20
198 2 0.00
199 1 0.00
200 186 0.42
201 3 0.01
202 164 0.37
203 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (201 bp):
AAACCAAGGTCTTTAAGCTAAGAAGAAGACCCTAGGTGGACTATGATTTGGCAACAAAGAACTAC
TTCCCAACCAGATTTCGACATAGCTTAAATTAAGAAGAGCTATTTGTCAACCAAAGCTTTCAAGT
TCGATTTCACTCAACTCGAGAGCACGTTGACCACATGGTAGCAACAAGGAACTACCTTCCGGTTA
AAATCC
Found at i:2312520 original size:2 final size:2
Alignment explanation
Indices: 2312510--2312563 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
2312500 TAGGTTTGAA
* *
2312510 AT AT GT AT AT AT -T AT AT AT -T TT 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
2312550 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2312564 CCTTTTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:2312527 original size:26 final size:25
Alignment explanation
Indices: 2312493--2312553 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
2312483 GTTTTTAAAA
** *
2312493 ATATATATAGGTTTGAAATATGTAT
1 ATATATATATATTTGAAATATATAT
* *
2312518 ATAT-TATATATTTTATATATATAT
1 ATATATATATATTTGAAATATATAT
2312542 ATATATATATAT
1 ATATATATATAT
2312554 ATATATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (25 bp):
ATATATATATATTTGAAATATATAT
Found at i:2313043 original size:14 final size:14
Alignment explanation
Indices: 2313024--2313050 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2313014 ATTTTTATTA
2313024 TTATTATTTAATTT
1 TTATTATTTAATTT
2313038 TTATTATTTAATT
1 TTATTATTTAATT
2313051 CATTTCCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTATTTAATTT
Found at i:2314768 original size:25 final size:24
Alignment explanation
Indices: 2314715--2314789 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 24
2314705 CATATTTGTC
2314715 AGGTCTAATAATGAAACCCCAAAA
1 AGGTCTAATAATGAAACCCCAAAA
2314739 AGGTCTAATAATGAAACCCTCAAAA
1 AGGTCTAATAATGAAACCC-CAAAA
2314764 AGGTCTAATAATGAAAACCCCAAAA
1 AGGTCTAATAATG-AAACCCCAAAA
2314789 A
1 A
2314790 AGGGGGAAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
24 19 0.39
25 24 0.49
26 6 0.12
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.17
Consensus pattern (24 bp):
AGGTCTAATAATGAAACCCCAAAA
Found at i:2318822 original size:8 final size:8
Alignment explanation
Indices: 2318809--2318849 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2318799 CTCATTTTTA
2318809 GAGAATTT
1 GAGAATTT
2318817 GAGAATTT
1 GAGAATTT
*
2318825 -AGAGTTT
1 GAGAATTT
*
2318832 GGGAATTT
1 GAGAATTT
2318840 GAGAATTT
1 GAGAATTT
2318848 GA
1 GA
2318850 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:2319273 original size:128 final size:128
Alignment explanation
Indices: 2318930--2319535 Score: 1079
Period size: 128 Copynumber: 4.7 Consensus size: 128
2318920 ACTATTCACA
*
2318930 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
* *
2318995 TTATGTCACTCTTGTCCCTCGGGGAAACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
2319058 TGAAGGCGCGTTCCCGGGGG-GCGCCTTCTATAATTTTGTTAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
2319122 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
2319185 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGTCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
* *
2319250 TTATGTCACTCATCTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGAAT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* * *
2319313 TGAAGGCACGTTCCCGGGGGTGCGCCTTCCATTATTTTGTTATAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
2319378 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
2319441 TGAAGGCGCGTTCCTGGGGGCGCGCCTTCTATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
2319506 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
2319536 GATGGATTGT
Statistics
Matches: 454, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
127 122 0.27
128 332 0.73
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:2319970 original size:34 final size:34
Alignment explanation
Indices: 2319931--2320037 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
2319921 TAAGTTGAAA
* *
2319931 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* * *
2319965 TTTAATTTTAAATTTCAAATAATATTATTTTTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* * *
2319999 TTTTATTTTAAATTTCGAACAATATAATTTGTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
2320033 TTTAA
1 TTTAA
2320038 AAACATTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTATAT
Found at i:2320581 original size:21 final size:21
Alignment explanation
Indices: 2320557--2320608 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2320547 TATGGTATAA
*
2320557 AACCCTGCGGGCTAGGTATGT
1 AACCCTGCGGGCTAGGAATGT
2320578 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
2320599 AACCCTGCGG
1 AACCCTGCGG
2320609 AGATGGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.21, C:0.25, G:0.35, T:0.19
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:2320638 original size:21 final size:21
Alignment explanation
Indices: 2320612--2320659 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2320602 CCTGCGGAGA
*
2320612 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
2320633 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
2320654 GGGCAT
1 TGGCAT
2320660 GTACCCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:2322194 original size:26 final size:27
Alignment explanation
Indices: 2322165--2322229 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
2322155 GTATCCTAAA
*
2322165 TAATATACATT-ATAAAAAATTAAAAT
1 TAATATAAATTCATAAAAAATTAAAAT
* * *
2322191 TAATATAAATTCATAATAACTTTAAAT
1 TAATATAAATTCATAAAAAATTAAAAT
*
2322218 TAAAAATAAATT
1 T-AATATAAATT
2322230 TAAATATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.31
27 13 0.41
28 9 0.28
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (27 bp):
TAATATAAATTCATAAAAAATTAAAAT
Found at i:2322218 original size:17 final size:17
Alignment explanation
Indices: 2322181--2322234 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
2322171 ACATTATAAA
* *
2322181 AAATT-AAAATTAATAT
1 AAATTAAAAATAAATTT
* * *
2322197 AAATTCATAATAACTTT
1 AAATTAAAAATAAATTT
2322214 AAATTAAAAATAAATTT
1 AAATTAAAAATAAATTT
2322231 AAAT
1 AAAT
2322235 ATTAACATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:2322441 original size:31 final size:32
Alignment explanation
Indices: 2322379--2322454 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
2322369 TTAATAATTC
*
2322379 TAAAAAAATAAT-TATATAAATATCATTTTAA
1 TAAAAAAATAATATATATAAATATCATATTAA
*
2322410 TAAAAAAATAATATTTATATAAT-T-ATATTAA
1 TAAAAAAATAATATATATA-AATATCATATTAA
*
2322441 TATAAAATATAATA
1 TA-AAAAAATAATA
2322455 ACTATTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
31 20 0.51
32 16 0.41
33 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAAAAAATAATATATATAAATATCATATTAA
Found at i:2335953 original size:20 final size:20
Alignment explanation
Indices: 2335916--2335954 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2335906 TTTCAACCAC
*
2335916 ATGCAACTATAGGCTCCTAA
1 ATGCAACTATAGGATCCTAA
* *
2335936 ATGCATCTATATGATCCTA
1 ATGCAACTATAGGATCCTA
2335955 TATGAGCTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGCAACTATAGGATCCTAA
Found at i:2337418 original size:35 final size:35
Alignment explanation
Indices: 2337373--2337447 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
2337363 AAGTTCGAGA
2337373 AAAAATTGGTAAATCAGATCGAATTGAAATTTTGG
1 AAAAATTGGTAAATCAGATCGAATTGAAATTTTGG
2337408 AAAAATTGGTAAATCAGATCGAATTGAAATTTTGG
1 AAAAATTGGTAAATCAGATCGAATTGAAATTTTGG
2337443 AAAAA
1 AAAAA
2337448 AATGGAAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (35 bp):
AAAAATTGGTAAATCAGATCGAATTGAAATTTTGG
Found at i:2347652 original size:15 final size:15
Alignment explanation
Indices: 2347634--2347664 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2347624 TTTATGGTTT
*
2347634 TATTTTTTTTCTAAA
1 TATTTTTTTTCAAAA
2347649 TATTTTTTTTCAAAA
1 TATTTTTTTTCAAAA
2347664 T
1 T
2347665 CATATTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTTTTCAAAA
Found at i:2351427 original size:16 final size:15
Alignment explanation
Indices: 2351406--2351444 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
2351396 CTGAGGAAAA
2351406 TATTATATATAATATT
1 TATTATATA-AATATT
2351422 TATTATGATAAATATT
1 TATTAT-ATAAATATT
2351438 TATTATA
1 TATTATA
2351445 GTGTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.82
17 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TATTATATAAATATT
Found at i:2351862 original size:31 final size:31
Alignment explanation
Indices: 2351821--2351883 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
2351811 TATAGGTGTC
* *
2351821 ATATTAAATATTTTATCAAAATACATGTACA
1 ATATTAAATATTTTATCAAAATAAATATACA
* *
2351852 ATATTGAATATTTTGTCAAAATAAATATACA
1 ATATTAAATATTTTATCAAAATAAATATACA
2351883 A
1 A
2351884 AATGTAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (31 bp):
ATATTAAATATTTTATCAAAATAAATATACA
Found at i:2361146 original size:24 final size:23
Alignment explanation
Indices: 2361117--2361169 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
2361107 TCGTTTACAA
2361117 TTTTGTTTTGAAATTTTGGCTTTT
1 TTTTGTTTTG-AATTTTGGCTTTT
** *
2361141 TTTTGTTTTGTTTTTTGGTTTTT
1 TTTTGTTTTGAATTTTGGCTTTT
2361164 TTTTGT
1 TTTTGT
2361170 AAAAAAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.06, C:0.02, G:0.17, T:0.75
Consensus pattern (23 bp):
TTTTGTTTTGAATTTTGGCTTTT
Found at i:2369205 original size:20 final size:20
Alignment explanation
Indices: 2369168--2369206 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2369158 TTTCCACCAC
**
2369168 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATAATCCTAA
*
2369188 ATGCATCTATATAATCCTA
1 ATGCAACTATATAATCCTA
2369207 TATGAGGTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATAATCCTAA
Found at i:2372302 original size:10 final size:10
Alignment explanation
Indices: 2372287--2372321 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
2372277 TTATAAAATC
2372287 ATATTTTTCA
1 ATATTTTTCA
2372297 ATATTTTTCA
1 ATATTTTTCA
*
2372307 ATATTTTACA
1 ATATTTTTCA
2372317 ATATT
1 ATATT
2372322 ATGAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (10 bp):
ATATTTTTCA
Found at i:2372329 original size:20 final size:20
Alignment explanation
Indices: 2372287--2372333 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2372277 TTATAAAATC
* * **
2372287 ATATTTTTCAATATTTTTCA
1 ATATTTTACAATATTATGAA
2372307 ATATTTTACAATATTATGAA
1 ATATTTTACAATATTATGAA
2372327 ATATTTT
1 ATATTTT
2372334 CATAAAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (20 bp):
ATATTTTACAATATTATGAA
Found at i:2372836 original size:28 final size:31
Alignment explanation
Indices: 2372765--2372836 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
2372755 GATATTTTGG
*
2372765 AAAATACTGATTGATAGGTATGATGGGCATA
1 AAAATATTGATTGATAGGTATGATGGGCATA
*
2372796 AAAATATTGATTGATAGGTATGGTGGGCATA
1 AAAATATTGATTGATAGGTATGATGGGCATA
2372827 ATAAATATTG
1 A-AAATATTG
2372837 TTTCGCAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 30 0.79
32 8 0.21
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (31 bp):
AAAATATTGATTGATAGGTATGATGGGCATA
Found at i:2380630 original size:2 final size:2
Alignment explanation
Indices: 2380623--2380670 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
2380613 GAAAATCAGA
2380623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2380665 AT AT AT
1 AT AT AT
2380671 TTAAGTTGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2381392 original size:12 final size:12
Alignment explanation
Indices: 2381370--2381399 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
2381360 AAATATTTAT
2381370 TATAGTGTATATA
1 TATA-TGTATATA
2381383 TATATGTATATA
1 TATATGTATATA
2381395 TATAT
1 TATAT
2381400 ATATTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
TATATGTATATA
Found at i:2381765 original size:31 final size:30
Alignment explanation
Indices: 2381730--2381823 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 30
2381720 TATAGGTGTC
*
2381730 ATATTAAATATTCTATCAAAATACAGATACA
1 ATATTAAATATT-TGTCAAAATACAGATACA
2381761 ATATTAAATATTTTGTCAAAATACAGATACA
1 ATATTAAATA-TTTGTCAAAATACAGATACA
*
2381792 ATATTAAATAATTTGTCAAAATAAAGATACA
1 ATATTAAAT-ATTTGTCAAAATACAGATACA
2381823 A
1 A
2381824 AATGTAACAT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 56 0.95
32 3 0.05
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (30 bp):
ATATTAAATATTTGTCAAAATACAGATACA
Found at i:2399150 original size:29 final size:31
Alignment explanation
Indices: 2399114--2399185 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 31
2399104 AATTTTGGTT
*
2399114 AGTGACCAAAATATAAA-ATTTG-AAAGTTA
1 AGTGACCAAAATATAAACATTAGAAAAGTTA
* *
2399143 AGTGACCAAAGTATAAACATTAGAAAAGTTT
1 AGTGACCAAAATATAAACATTAGAAAAGTTA
*
2399174 AGTGACTAAAAT
1 AGTGACCAAAAT
2399186 GTAATTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 16 0.44
30 4 0.11
31 16 0.44
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.26
Consensus pattern (31 bp):
AGTGACCAAAATATAAACATTAGAAAAGTTA
Found at i:2401193 original size:21 final size:21
Alignment explanation
Indices: 2401167--2401209 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2401157 TTGTTTAATG
2401167 AGTACTTTGTGTACTTTTGGA
1 AGTACTTTGTGTACTTTTGGA
2401188 AGTACTTTGTGTACTTTTGGA
1 AGTACTTTGTGTACTTTTGGA
2401209 A
1 A
2401210 CTATGTGTGC
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:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (21 bp):
AGTACTTTGTGTACTTTTGGA
Found at i:2402566 original size:8 final size:8
Alignment explanation
Indices: 2402553--2402591 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
2402543 CTTGATTCAA
2402553 TTTTTTCC
1 TTTTTTCC
*
2402561 TTTTTTTCT
1 -TTTTTTCC
2402570 TTTTTTCC
1 TTTTTTCC
*
2402578 TCTTTTCC
1 TTTTTTCC
2402586 TTTTTT
1 TTTTTT
2402592 TTCAAGTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCC
Found at i:2402575 original size:17 final size:17
Alignment explanation
Indices: 2402553--2402592 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
2402543 CTTGATTCAA
* *
2402553 TTTTTTCCTTTTTTTCT
1 TTTTTTCCTCTTTTCCT
2402570 TTTTTTCCTCTTTTCCT
1 TTTTTTCCTCTTTTCCT
2402587 TTTTTT
1 TTTTTT
2402593 TCAAGTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTCCTCTTTTCCT
Found at i:2406880 original size:31 final size:28
Alignment explanation
Indices: 2406845--2406919 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 28
2406835 TAATATAAAT
2406845 AAAATAAAGAATAT-TAGTAAAAAATATTATG
1 AAAATAAAGAATATATA-T-AAAAAT-TT-TG
*
2406876 AAAATAATA-AGTATATATAAAAATTTTG
1 AAAATAA-AGAATATATATAAAAATTTTG
2406904 AAAATAAAGAAT-TATA
1 AAAATAAAGAATATATA
2406920 AATTGAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 5 0.13
28 11 0.28
29 2 0.05
30 6 0.15
31 12 0.31
32 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (28 bp):
AAAATAAAGAATATATATAAAAATTTTG
Done.