Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 39
Found at i:4683157 original size:10 final size:11
Alignment explanation
Indices: 4683128--4683193 Score: 68
Period size: 10 Copynumber: 6.1 Consensus size: 11
4683118 AGAATTAATA
4683128 ATAATA-AAAT
1 ATAATATAAAT
4683138 AATAATAATAAAT
1 -ATAAT-ATAAAT
4683151 ATAA-ATAAAT
1 ATAATATAAAT
*
4683161 A-AATATTAAT
1 ATAATATAAAT
4683171 ATAATAT-AAT
1 ATAATATAAAT
4683181 ATAATATATAAT
1 ATAATATA-AAT
4683193 A
1 A
4683194 AAAACTAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
9 2 0.04
10 23 0.48
11 10 0.21
12 9 0.19
13 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:4683194 original size:10 final size:10
Alignment explanation
Indices: 4683123--4683207 Score: 51
Period size: 10 Copynumber: 8.9 Consensus size: 10
4683113 TAAAAAGAAT
4683123 TAATAATAATA
1 TAATAAT-ATA
*
4683134 AAATAATA-A
1 TAATAATATA
4683143 TAATAA-ATA
1 TAATAATATA
4683152 TAAATAA-ATA
1 T-AATAATATA
*
4683162 -AATATTA-A
1 TAATAATATA
4683170 T-ATAATATA
1 TAATAATATA
4683179 -ATATAATATA
1 TA-ATAATATA
*
4683189 TAATAA-AAA
1 TAATAATATA
4683198 CTAATAATAT
1 -TAATAATAT
4683208 GTTTTCAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
8 11 0.19
9 12 0.21
10 27 0.47
11 8 0.14
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (10 bp):
TAATAATATA
Found at i:4683206 original size:35 final size:35
Alignment explanation
Indices: 4683127--4683207 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
4683117 AAGAATTAAT
*
4683127 AATAATAAAATAATAATAATAAATATAAATAAATA
1 AATAATAATATAATAATAATAAATATAAATAAATA
*
4683162 AATATTAATATAAT-ATAATATAATATATAATAAA-A
1 AATAATAATATAATAATAATA-AATATA-AATAAATA
*
4683197 ACTAATAATAT
1 AATAATAATAT
4683208 GTTTTCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 6 0.15
35 28 0.70
36 6 0.15
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (35 bp):
AATAATAATATAATAATAATAAATATAAATAAATA
Found at i:4683283 original size:40 final size:39
Alignment explanation
Indices: 4683206--4683517 Score: 176
Period size: 36 Copynumber: 8.3 Consensus size: 39
4683196 AACTAATAAT
* *
4683206 ATGTTTTCAAAAATTATATATTATATATGTTTCCAAAAAAA
1 ATGTTTTC-AAAACTATATATTATATATCTTT-CAAAAAAA
4683247 ATAGTTTT-AAAACTATATATTATATATACTTTC-AAAAAA
1 AT-GTTTTCAAAACTATATATTATATAT-CTTTCAAAAAAA
* * *
4683286 ATGTTTTCGAAACTATATAATATATATGTTTTC--AAAAA
1 ATGTTTTCAAAACTATATATTATATAT-CTTTCAAAAAAA
* * *
4683324 TTGTTTTTCAAAAC--TATATCATATAT-TTT---AAAAT
1 ATG-TTTTCAAAACTATATATTATATATCTTTCAAAAAAA
* ** ** *
4683358 TTGTTTTTTAAACTATATATTATACGT-TTT-AAAAAAT
1 ATGTTTTCAAAACTATATATTATATATCTTTCAAAAAAA
* *
4683395 GTGTTTT-AAAACTATATAATATATATGCTTTC--AAAAA
1 ATGTTTTCAAAACTATATATTATATAT-CTTTCAAAAAAA
* * * * *
4683432 TTGTTTTCAAAACTAGAAAATATATGT-TTTC--AAAAA
1 ATGTTTTCAAAACTATATATTATATATCTTTCAAAAAAA
* * ** * *
4683468 TTGTTTTTAAAACTATATATTATACGT-TTTTAAAAAAT
1 ATGTTTTCAAAACTATATATTATATATCTTTCAAAAAAA
*
4683506 GTGTTTTCAAAA
1 ATGTTTTCAAAA
4683518 AATATTTTCA
Statistics
Matches: 222, Mismatches: 35, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
33 8 0.04
34 7 0.03
35 15 0.07
36 49 0.22
37 31 0.14
38 45 0.20
39 38 0.17
40 19 0.09
41 5 0.02
42 5 0.02
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.44
Consensus pattern (39 bp):
ATGTTTTCAAAACTATATATTATATATCTTTCAAAAAAA
Found at i:4683456 original size:36 final size:36
Alignment explanation
Indices: 4683243--4683517 Score: 218
Period size: 36 Copynumber: 7.5 Consensus size: 36
4683233 TGTTTCCAAA
* * **
4683243 AAAAATAGTTTT-AAAACTATATATTATATATACTTTC
1 AAAAATTGTTTTCAAAACTATA-A-AATATATGTTTTC
* *
4683280 AAAAAAATGTTTTCGAAACTATATAATATATATGTTTTC
1 -AAAAATTGTTTTCAAAACTATA-AA-ATATATGTTTTC
**
4683319 AAAAATTGTTTTTCAAAACTATATCATATA--TTTT-
1 AAAAATTG-TTTTCAAAACTATAAAATATATGTTTTC
* ** * * * *
4683353 AAAATTTGTTTTTTAAACTATATATTATACGTTTTA
1 AAAAATTGTTTTCAAAACTATAAAATATATGTTTTC
*
4683389 AAAAATGTGTTTT-AAAACTATATAATATATATGCTTTC
1 AAAAAT-TGTTTTCAAAACTATA-AA-ATATATGTTTTC
*
4683427 AAAAATTGTTTTCAAAACTAGAAAATATATGTTTTC
1 AAAAATTGTTTTCAAAACTATAAAATATATGTTTTC
* * * * *
4683463 AAAAATTGTTTTTAAAACTATATATTATACGTTTTTA
1 AAAAATTGTTTTCAAAACTATAAAATATATG-TTTTC
4683500 AAAAATGTGTTTTCAAAA
1 AAAAAT-TGTTTTCAAAA
4683518 AATATTTTCA
Statistics
Matches: 194, Mismatches: 31, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
33 17 0.09
34 7 0.04
35 8 0.04
36 50 0.26
37 30 0.15
38 49 0.25
39 33 0.17
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (36 bp):
AAAAATTGTTTTCAAAACTATAAAATATATGTTTTC
Found at i:4683461 original size:74 final size:73
Alignment explanation
Indices: 4683242--4683517 Score: 269
Period size: 74 Copynumber: 3.8 Consensus size: 73
4683232 ATGTTTCCAA
* * * *
4683242 AAAAAATAG-TTTTAAAACTATATATTATATATACTTTCAAAAAAATGTTTTCGAAACTATATAA
1 AAAAAATTGTTTTTAAAACTATATA-TATATATGCTTTC-AAAAATTGTTTTCAAAACTATA-AA
4683306 TATATATGTTTT
63 -ATATATGTTTT
* * * ** * *
4683318 CAAAAATTGTTTTTCAAAACTATAT-CATATAT--TTT-AAAATTTGTTTTTTAAACTATATATT
1 AAAAAATTGTTTTT-AAAACTATATATATATATGCTTTCAAAAATTGTTTTCAAAACTATAAAAT
*
4683379 ATACGTTTT
65 ATATGTTTT
*
4683388 AAAAAA-TGTGTTTTAAAACTATATAATATATATGCTTTCAAAAATTGTTTTCAAAACTAGAAAA
1 AAAAAATTGT-TTTTAAAACTATAT-ATATATATGCTTTCAAAAATTGTTTTCAAAACTATAAAA
4683452 TATATGTTTT
64 TATATGTTTT
* * * *
4683462 CAAAAATTGTTTTTAAAACTATATAT-TATACGTTTTTAAAAAATGTGTTTTCAAAA
1 AAAAAATTGTTTTTAAAACTATATATATATATG-CTTTCAAAAAT-TGTTTTCAAAA
4683518 AATATTTTCA
Statistics
Matches: 166, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
69 13 0.08
70 18 0.11
71 7 0.04
72 23 0.14
73 14 0.08
74 61 0.37
75 3 0.02
76 13 0.08
77 4 0.02
78 10 0.06
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (73 bp):
AAAAAATTGTTTTTAAAACTATATATATATATGCTTTCAAAAATTGTTTTCAAAACTATAAAATA
TATGTTTT
Found at i:4683712 original size:31 final size:30
Alignment explanation
Indices: 4683654--4683712 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
4683644 GGATTTTAAT
*
4683654 TTAAAATTTTAAAAAATTTAGAGGTTCAAA
1 TTAAAATTTTAAAAAATTAAGAGGTTCAAA
4683684 TTAAAATTTTAAAAAAATTGAAGA-GTTCA
1 TTAAAATTTT-AAAAAATT-AAGAGGTTCA
4683713 GTTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 13 0.50
32 3 0.12
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (30 bp):
TTAAAATTTTAAAAAATTAAGAGGTTCAAA
Found at i:4684139 original size:5 final size:5
Alignment explanation
Indices: 4684129--4684185 Score: 98
Period size: 5 Copynumber: 11.4 Consensus size: 5
4684119 TGAGTTATCC
4684129 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
4684178 ATATAT AT
1 AT-TAT AT
4684186 AAACTAACCG
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.08
5 41 0.82
6 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:4684186 original size:10 final size:10
Alignment explanation
Indices: 4684131--4684186 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 10
4684121 AGTTATCCAT
4684131 TATAT-TATA
1 TATATATATA
4684140 T-TATAT-TA
1 TATATATATA
4684148 TAT-TATAT-
1 TATATATATA
4684156 TATAT-TATA
1 TATATATATA
4684165 T-TATAT-TA
1 TATATATATA
4684173 TATATATATA
1 TATATATATA
4684183 TATA
1 TATA
4684187 AACTAACCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
8 21 0.54
9 12 0.31
10 6 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATATATA
Found at i:4687692 original size:23 final size:23
Alignment explanation
Indices: 4687658--4687711 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
4687648 GGCATAATAT
4687658 AAACATGCAACAATGAACTCATG
1 AAACATGCAACAATGAACTCATG
*
4687681 AAACATGTAACAATGAACTCATG
1 AAACATGCAACAATGAACTCATG
4687704 AAACATGC
1 AAACATGC
4687712 GATCCTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.19
Consensus pattern (23 bp):
AAACATGCAACAATGAACTCATG
Found at i:4689178 original size:2 final size:2
Alignment explanation
Indices: 4689171--4689195 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4689161 TTTTTAAAAC
4689171 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 A
4689196 CCCCCATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4689380 original size:24 final size:24
Alignment explanation
Indices: 4689353--4689400 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4689343 AAACGGAGAT
4689353 ATCAAAAATCAAAACAGAATTCAG
1 ATCAAAAATCAAAACAGAATTCAG
* * *
4689377 ATCAGATATCAGAACAGAATTCAG
1 ATCAAAAATCAAAACAGAATTCAG
4689401 GTAATGTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (24 bp):
ATCAAAAATCAAAACAGAATTCAG
Found at i:4689410 original size:24 final size:24
Alignment explanation
Indices: 4689360--4689423 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
4689350 GATATCAAAA
*
4689360 ATCAAAACAGAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATAAGAT
* *
4689384 ATCAGAACAGAATTCAGGTAATG-T
1 ATCAAAACAGAATTCAGATAA-GAT
*
4689408 ATCATAACAGAATTCA
1 ATCAAAACAGAATTCA
4689424 TGTTGGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 34 0.97
25 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATAAGAT
Found at i:4692869 original size:19 final size:23
Alignment explanation
Indices: 4692820--4692875 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
4692810 GTACCCAAGG
*
4692820 TATGGTATCGATACTTCCTTCAC
1 TATGGTATCGATACTTCATTCAC
4692843 TATGGTATCGATA-TT-ATTC-C
1 TATGGTATCGATACTTCATTCAC
*
4692863 T-TGGTATAGATAC
1 TATGGTATCGATAC
4692876 CATTTCCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 10 0.33
20 2 0.07
21 3 0.10
22 2 0.07
23 13 0.43
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
TATGGTATCGATACTTCATTCAC
Found at i:4697568 original size:64 final size:63
Alignment explanation
Indices: 4697438--4697657 Score: 239
Period size: 64 Copynumber: 3.5 Consensus size: 63
4697428 TTGAAGGTGT
** **
4697438 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAACATCGAATACAATTCATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCGTTAATAAT-AAACATCGAATACAATTCATGC
* * **
4697501 ATCGATGTATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAAT-AAACATCGAATACAATTCATGC
* * ** *
4697565 ATCGATGCATAAGGAGTGCATCGATGCATCCCAG-CAATAATAATACATCGAATACCTTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCC-GTTAATAATAA-ACATCGAATACAATTCATGC
* *
4697629 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
4697658 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
63 32 0.24
64 100 0.75
65 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATAAACATCGAATACAATTCATGC
Found at i:4697983 original size:12 final size:12
Alignment explanation
Indices: 4697965--4698012 Score: 87
Period size: 12 Copynumber: 4.0 Consensus size: 12
4697955 TATATATGTT
4697965 CATGTGATATGA
1 CATGTGATATGA
*
4697977 TATGTGATATGA
1 CATGTGATATGA
4697989 CATGTGATATGA
1 CATGTGATATGA
4698001 CATGTGATATGA
1 CATGTGATATGA
4698013 GAACATGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.35
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:4698175 original size:15 final size:15
Alignment explanation
Indices: 4698157--4698189 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4698147 GAGGGTATAA
4698157 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
4698172 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
4698187 TAG
1 TAG
4698190 GGGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:4703756 original size:63 final size:64
Alignment explanation
Indices: 4703677--4703896 Score: 214
Period size: 64 Copynumber: 3.5 Consensus size: 64
4703667 TTGAAGGTGT
** ** **
4703677 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAACATTTAATGAAATTCATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCGTTAATAATAAAACATCGAATGAAATTCATGC
* * **
4703740 ATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGAAATTCATGC
* * * * ** *
4703804 ATCGATGCATAAGGAGTGCATCGATGTATCCCAG-CAATAATAATACATCGAAT-ACCTTTTATG
1 ATCGATGCATAAGTAGTGCATCGATGCATCCC-GTTAATAATAAAACATCGAATGA-AATTCATG
4703867 C
64 C
* *
4703868 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
4703897 ACCTTCATTA
Statistics
Matches: 129, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
63 31 0.24
64 97 0.75
65 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATAAAACATCGAATGAAATTCATGC
Found at i:4704227 original size:12 final size:12
Alignment explanation
Indices: 4704209--4704244 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4704199 TATATATGTT
4704209 CATGTGATATGA
1 CATGTGATATGA
*
4704221 TATGTGATATGA
1 CATGTGATATGA
4704233 CATGTGATATGA
1 CATGTGATATGA
4704245 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:4704266 original size:23 final size:26
Alignment explanation
Indices: 4704209--4704277 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
4704199 TATATATGTT
**
4704209 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
4704233 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
4704258 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
4704278 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:4704407 original size:15 final size:15
Alignment explanation
Indices: 4704389--4704421 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4704379 GAGGGTATAA
4704389 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
4704404 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
4704419 TAG
1 TAG
4704422 GGGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:4707134 original size:21 final size:24
Alignment explanation
Indices: 4707090--4707134 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
4707080 ACAAATAGTG
*
4707090 AAATAATTTACATAAGTACGATCA
1 AAATAATTTACATAAATACGATCA
4707114 AAATAA-TTACA-AAAT-CGATCA
1 AAATAATTTACATAAATACGATCA
4707135 GAGAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 5 0.25
24 6 0.30
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATAATTTACATAAATACGATCA
Found at i:4707626 original size:21 final size:21
Alignment explanation
Indices: 4707602--4707641 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4707592 ACAGTATTTA
4707602 TCCCAAATGACCACATATATG
1 TCCCAAATGACCACATATATG
*
4707623 TCCCGAATGACCACATATA
1 TCCCAAATGACCACATATA
4707642 ATTCTCCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (21 bp):
TCCCAAATGACCACATATATG
Found at i:4710139 original size:2 final size:2
Alignment explanation
Indices: 4710132--4710204 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
4710122 ACCCAGTTTA
4710132 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
4710174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4710205 ATCGTTTTGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4713776 original size:19 final size:19
Alignment explanation
Indices: 4713733--4713786 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 19
4713723 ATGATTATTG
* *
4713733 TAGAAATCAGACTATAGAA
1 TAGAAAACAGACTGTAGAA
*
4713752 -AGAAAACAGACTGTATAA
1 TAGAAAACAGACTGTAGAA
4713770 TAGAAAACAGACTGTAG
1 TAGAAAACAGACTGTAG
4713787 GAAACAGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (19 bp):
TAGAAAACAGACTGTAGAA
Found at i:4713883 original size:15 final size:15
Alignment explanation
Indices: 4713863--4713898 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4713853 CAAATTATGC
4713863 CTCTAAACTAGGAAA
1 CTCTAAACTAGGAAA
**
4713878 CTCTAAGTTAGGAAA
1 CTCTAAACTAGGAAA
4713893 CTCTAA
1 CTCTAA
4713899 GTTAGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (15 bp):
CTCTAAACTAGGAAA
Found at i:4713899 original size:15 final size:15
Alignment explanation
Indices: 4713871--4713907 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
4713861 GCCTCTAAAC
4713871 TAGGAAACTCTAAGT
1 TAGGAAACTCTAAGT
4713886 TAGGAAACTCTAAGT
1 TAGGAAACTCTAAGT
4713901 TAGGAAA
1 TAGGAAA
4713908 GATACTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (15 bp):
TAGGAAACTCTAAGT
Found at i:4717845 original size:18 final size:18
Alignment explanation
Indices: 4717818--4717869 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
4717808 GATACCATGT
*
4717818 AGAAATCAGA-GTATAGAA
1 AGAAAACAGATGTATAG-A
*
4717836 AGAAAACAGATTGTATAGT
1 AGAAAACAGA-TGTATAGA
4717855 AGAAAACAGACTGTA
1 AGAAAACAGA-TGTA
4717870 GGAAACAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.31
19 14 0.48
20 6 0.21
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.19
Consensus pattern (18 bp):
AGAAAACAGATGTATAGA
Found at i:4717853 original size:20 final size:19
Alignment explanation
Indices: 4717828--4717869 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4717818 AGAAATCAGA
*
4717828 GTATAGAAAGAAAACAGATT
1 GTATAG-AAGAAAACAGACT
*
4717848 GTATAGTAGAAAACAGACT
1 GTATAGAAGAAAACAGACT
4717867 GTA
1 GTA
4717870 GGAAACAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (19 bp):
GTATAGAAGAAAACAGACT
Found at i:4720252 original size:2 final size:2
Alignment explanation
Indices: 4720247--4720322 Score: 138
Period size: 2 Copynumber: 39.0 Consensus size: 2
4720237 ACACACACAG
4720247 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
4720289 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4720323 TATTTATCAT
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 70 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4721319 original size:31 final size:30
Alignment explanation
Indices: 4721277--4721354 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
4721267 ATTGAAAGAT
*
4721277 TAAATTTATATTTTATTTAAAATTTA-AGA
1 TAAATTAATATTTTATTTAAAATTTATAGA
* *
4721306 GTGAAATTAATATTATATTTAAATTTTATAGA
1 -T-AAATTAATATTTTATTTAAAATTTATAGA
*
4721338 TAAATTAATTTTTTATT
1 TAAATTAATATTTTATT
4721355 AATATGACAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 15 0.37
31 23 0.56
32 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
TAAATTAATATTTTATTTAAAATTTATAGA
Found at i:4726123 original size:42 final size:41
Alignment explanation
Indices: 4726026--4726131 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 41
4726016 CCCGAAGGTT
* * * * * *
4726026 TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 TTATAGATGGCCCGAAGGACTTAACACCGTGCTCGAAAGAC
* *
4726067 TTATAGATGACCCGAAGGATTTAAACACCGTGCTCGAAAGAC
1 TTATAGATGGCCCGAAGGACTT-AACACCGTGCTCGAAAGAC
4726109 TTACT-GATGGCCCGAAGGACTTA
1 TTA-TAGATGGCCCGAAGGACTTA
4726132 TAAATCGTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 20 0.38
42 32 0.60
43 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
TTATAGATGGCCCGAAGGACTTAACACCGTGCTCGAAAGAC
Found at i:4726240 original size:205 final size:206
Alignment explanation
Indices: 4725900--4727329 Score: 1447
Period size: 205 Copynumber: 6.6 Consensus size: 206
4725890 TGTGAAGGCA
* * * *
4725900 ATGGCCCGAAGGACTTATGAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCA
1 ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTC-AAAA----A
*
4725965 TCTTCTCAAAACATCGTTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTAT
61 --TTCTC--AACATCTTTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTAT
* * * *
4726030 GGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTATAGATGACCCGAAGGATTTAAACAC
122 GGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGAAGGATTTAAGCAT
*
4726095 CGTGCTCGAAAGACTTACTG
187 CATGCTCGAAAGACTTACTG
4726115 ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAATTC-C
1 ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAATTCTC
* * *
4726179 AACATCTTTTTTTCATTCTCCAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
66 AACATCTTTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
* * * *
4726244 GAATGACTTATCATCTTGCTCTAAAGGCTTATAAATAACCCGAAGGATTTAAGCACCATGCTCGA
131 GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCTCGA
4726309 AAGACTTACTG
196 AAGACTTACTG
*
4726320 ATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAATTC-C
1 ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAATTCTC
* * *
4726384 AACATC-TTTTTTCATTCTCCAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
66 AACATCTTTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
* *
4726448 GAAGGATTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGA
131 GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCTCGA
4726513 AAGACTTACTG
196 AAGACTTACTG
*
4726524 ATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAATTC-C
1 ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAATTCTC
*
4726588 AACATCTTTTTTTCCATTTTCAAATTAATGTGAAAACATCCTACTCGAAGGTTTTATGGATGGCC
66 AACATCTTTTTTT-CATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCC
*
4726653 CGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCTCG
130 CGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCTCG
* *
4726718 AAAGGCTTA-TAA
195 AAAGACTTACT-G
** * * *** * ** *
4726730 ATAACCCGAAGGA-TT-TAAGCACCATGCTCGAAAGACTTACTGATGGTCCGAAGGACTTATAAA
1 ATGGCCCGAAGGACTTATAA--ATC--G-T-G-AA-A-TT-TTGAAACT-CGCA-TTCTT-T--G
** * ** * * * * * *
4726793 TCGTGAAATTTTGAAACTC-GCATTCTTTGTTTTCAAAAATTCCAACATCTTTTTTTCATTCTCC
51 TTTTCAAAAATT----CTCAACA-TCTTT-TTTTC---ATTTTCAA-A-------TT-AATGT-G
** * * * ** *
4726857 AATTCAT-GTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGATTTATCATCTTGCT
97 AAAACATCCT----AC--CCGA--AGGT---TTTATGGATGGCCCGAAGGACTTATCATCTTGCT
* *
4726921 CTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGCCTTACTG
151 CTAAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTG
* * * * *
4726977 ATGGTCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTTAAAATTTTCA
1 ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAA-----A
* * *
4727042 TCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCTACTCGAAGGTTTTA
61 T--TC-T-CAACATC-TTTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTA
* *
4727107 TGGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATAACCCGAAGGACTTAAGCA
121 TGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGAAGGATTTAAGCA
4727172 TCATGCTCGAAAGACTTACTG
186 TCATGCTCGAAAGACTTACTG
* * *
4727193 ATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAACTTGCATTCTTCGTTTTCAAAAATTACA
1 ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAA-T---
*
4727258 TCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTA
62 TC-TC----AACATC-TTTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTA
4727323 TGGATGG
121 TGGATGG
4727330 ATTTGCTTCA
Statistics
Matches: 1032, Mismatches: 113, Indels: 139
0.80 0.09 0.11
Matches are distributed among these distances:
204 201 0.19
205 210 0.20
206 129 0.12
207 1 0.00
208 4 0.00
209 1 0.00
210 2 0.00
211 3 0.00
212 2 0.00
213 7 0.01
214 8 0.01
215 54 0.05
216 205 0.20
217 1 0.00
219 8 0.01
221 2 0.00
223 5 0.00
224 7 0.01
225 4 0.00
226 5 0.00
227 10 0.01
228 3 0.00
234 5 0.00
235 3 0.00
236 10 0.01
237 9 0.01
238 4 0.00
239 11 0.01
240 9 0.01
241 2 0.00
242 4 0.00
243 1 0.00
244 2 0.00
245 1 0.00
247 94 0.09
248 3 0.00
249 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (206 bp):
ATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTGTTTTCAAAAATTCTC
AACATCTTTTTTTCATTTTCAAATTAATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCC
GAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCTCGA
AAGACTTACTG
Found at i:4726533 original size:42 final size:41
Alignment explanation
Indices: 4726440--4726536 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
4726430 AGGTTTTATG
* * * *
4726440 GATGGCCCGAAGGATTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
* *
4726481 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGATTT-AGCATCATGCTCGAAAGACTTACA
*
4726523 GATGGTCCGAAGGA
1 GATGGCCCGAAGGA
4726537 CTTATAAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.34
42 31 0.66
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
Found at i:4726716 original size:42 final size:42
Alignment explanation
Indices: 4726651--4726769 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 42
4726641 TTATGGATGG
* * * *
4726651 CCCGAAGGACTT-ATCATCTTGCTCTG-AAGGCTTACAGATAA
1 CCCGAAGGATTTAAGCATCATGCTC-GAAAGGCTTACAAATAA
*
4726692 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTATAAATAA
1 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAAATAA
* *
4726734 CCCGAAGGATTTAAGCACCATGCTCGAAAGACTTAC
1 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTAC
4726770 TGATGGTCCG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 12 0.18
42 56 0.82
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (42 bp):
CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAAATAA
Found at i:4726930 original size:247 final size:248
Alignment explanation
Indices: 4726445--4726974 Score: 911
Period size: 248 Copynumber: 2.1 Consensus size: 248
4726435 TTATGGATGG
* * * * * *
4726445 CCCGAAGGATTT-ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGC
1 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAAATAACCCGAAGGATTTAAGCACCATGC
4726509 TCGAAAGACTTACTGATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTG
66 TCGAAAGACTTACTGATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTG
* *
4726574 TTTTCAAAAATTCCAACATCTTTTTTTCCATTTTCAAATTAATGTGAAAACATCCTACTCGAAGG
131 TTTTCAAAAATTCCAACATCTTTTTTTCCATTCTCAAATTAATGTGAAAACATCCTACCCGAAGG
*
4726639 TTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATAA
196 TTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAA
*
4726692 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTATAAATAACCCGAAGGATTTAAGCACCATGC
1 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAAATAACCCGAAGGATTTAAGCACCATGC
4726757 TCGAAAGACTTACTGATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTG
66 TCGAAAGACTTACTGATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTG
* *
4726822 TTTTCAAAAATTCCAACATCTTTTTTT-CATTCTCCAATTCATGTGAAAACATCCTACCCGAAGG
131 TTTTCAAAAATTCCAACATCTTTTTTTCCATTCTCAAATTAATGTGAAAACATCCTACCCGAAGG
* *
4726886 TTTTATGGATGGCCCGAAGGATTTATCATCTTGCTCTAAAGGCTTACAGATGA
196 TTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAA
*
4726939 CCCGAAGGATTTAAGCATCATGCTCGAAAGCCTTAC
1 CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTAC
4726975 TGATGGTCCG
Statistics
Matches: 266, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
247 129 0.48
248 137 0.52
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (248 bp):
CCCGAAGGATTTAAGCATCATGCTCGAAAGGCTTACAAATAACCCGAAGGATTTAAGCACCATGC
TCGAAAGACTTACTGATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTTG
TTTTCAAAAATTCCAACATCTTTTTTTCCATTCTCAAATTAATGTGAAAACATCCTACCCGAAGG
TTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAA
Found at i:4726986 original size:42 final size:41
Alignment explanation
Indices: 4726893--4726989 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
4726883 AGGTTTTATG
* * * *
4726893 GATGGCCCGAAGGATTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGATTTAGCATCATGCTCGAAAGCCTTACA
* *
4726934 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGCCTTACT
1 GATGGCCCGAAGGATTT-AGCATCATGCTCGAAAGCCTTACA
*
4726976 GATGGTCCGAAGGA
1 GATGGCCCGAAGGA
4726990 CTTATACATT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.34
42 31 0.66
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGATTTAGCATCATGCTCGAAAGCCTTACA
Found at i:4727201 original size:42 final size:42
Alignment explanation
Indices: 4727109--4727209 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
4727099 AGGTTTTATG
* * *
4727109 GATGGCCCGAAGGACTT-ATCATCTTGCTCTGAAGGCTTACA
1 GATGGCCCGAAGGACTTAAGCATCATGCTCTGAAGACTTACA
** *
4727150 GATAACCCGAAGGACTTAAGCATCATGCTC-GAAAGACTTACT
1 GATGGCCCGAAGGACTTAAGCATCATGCTCTG-AAGACTTACA
4727192 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
4727210 TAAATTGTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTAAGCATCATGCTCTGAAGACTTACA
Found at i:4727239 original size:216 final size:214
Alignment explanation
Indices: 4726692--4727329 Score: 954
Period size: 216 Copynumber: 3.0 Consensus size: 214
4726682 TTACAGATAA
* * * * *
4726692 CCCGAAGGATTTAAGCATCATGCTC-GAAAGGCTTATAAATAACCCGAAGGATTTAAGCACCATG
1 CCCGAAGGATTT-ATCATCTTGCTCTG-AAGGCTTACAGATAACCCGAAGGATTTAAGCATCATG
* *
4726756 CTCGAAAGACTTACTGATGGTCCGAAGGACTTATAAATCGTGAAATTTTGAAACTCGCATTCTTT
64 CTCGAAAGACTTACTGATGGTCCGAAGGACTTATAAATTGTGAAATTTTGAAACTCGCATTCTTC
* * * * *
4726821 GTTTTCAAAA---AT--TC---CAACATC-TTTTTTTCATTCTCCAATTCATGTGAAAACATCCT
129 GTTTTCAAAATTCATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCT
4726877 ACCCGAAGGTTTTATGGATGG
194 ACCCGAAGGTTTTATGGATGG
* *
4726898 CCCGAAGGATTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
1 CCCGAAGGATTTATCATCTTGCTCTGAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCT
* *
4726963 CGAAAGCCTTACTGATGGTCCGAAGGACTTATACATTGTGAAATTTTGAAACTCGCATTCTTCGT
66 CGAAAGACTTACTGATGGTCCGAAGGACTTATAAATTGTGAAATTTTGAAACTCGCATTCTTCGT
*
4727028 TTTTAAAATTTTCATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCT
131 TTTCAAAA--TTCATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCT
*
4727093 ACTCGAAGGTTTTATGGATGG
194 ACCCGAAGGTTTTATGGATGG
* *
4727114 CCCGAAGGACTTATCATCTTGCTCTGAAGGCTTACAGATAACCCGAAGGACTTAAGCATCATGCT
1 CCCGAAGGATTTATCATCTTGCTCTGAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCT
* *
4727179 CGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAACTTGCATTCTTCGT
66 CGAAAGACTTACTGATGGTCCGAAGGACTTATAAATTGTGAAATTTTGAAACTCGCATTCTTCGT
4727244 TTTCAAAAATTACATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCT
131 TTTC-AAAATT-CATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCT
4727309 ACCCGAAGGTTTTATGGATGG
194 ACCCGAAGGTTTTATGGATGG
4727330 ATTTGCTTCA
Statistics
Matches: 390, Mismatches: 28, Indels: 18
0.89 0.06 0.04
Matches are distributed among these distances:
205 113 0.29
206 12 0.03
210 2 0.01
212 2 0.01
215 8 0.02
216 249 0.64
217 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (214 bp):
CCCGAAGGATTTATCATCTTGCTCTGAAGGCTTACAGATAACCCGAAGGATTTAAGCATCATGCT
CGAAAGACTTACTGATGGTCCGAAGGACTTATAAATTGTGAAATTTTGAAACTCGCATTCTTCGT
TTTCAAAATTCATCATCTTAAAACATCATTTTTTCCATTTTCAAATTAATGTGAAAACATCCTAC
CCGAAGGTTTTATGGATGG
Found at i:4727446 original size:36 final size:35
Alignment explanation
Indices: 4727332--4727472 Score: 101
Period size: 36 Copynumber: 4.0 Consensus size: 35
4727322 ATGGATGGAT
* *
4727332 TTGCTTCACTACC-CTTCGGTGAAGGCTTAATA-TG
1 TTGCTTCACT-CCTCTTCAGTGAAGGCTTAAGATTG
* * * * * * *
4727366 ATGCTCCACTACTCTTTAGTGAAGGTTTAAAATGG
1 TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
*
4727401 ATTGTTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
1 -TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
* *
4727437 TCTGCTTCACTATCCTC--CGGTGAAGGTTTAAGATTG
1 T-TGCTTCAC--TCCTCTTCAGTGAAGGCTTAAGATTG
4727473 ACTTTGCTCC
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
33 1 0.01
34 23 0.28
35 2 0.02
36 51 0.62
38 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (35 bp):
TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
Found at i:4733768 original size:21 final size:20
Alignment explanation
Indices: 4733725--4733837 Score: 120
Period size: 21 Copynumber: 5.5 Consensus size: 20
4733715 GCGATGTGGA
*
4733725 CTTCTCGTCTTTACGAAGGT
1 CTTCTCGTCTTTATGAAGGT
4733745 CTTCTCGTCTTTATGAAGGGT
1 CTTCTCGTCTTTATGAA-GGT
*
4733766 CTTCTCGTCTTGATGAATGG-
1 CTTCTCGTCTTTATGAA-GGT
* * *
4733786 CATTCTCGTCTTGATGAATGA
1 C-TTCTCGTCTTTATGAAGGT
*
4733807 CATTCTCGTCTTTATGAATGCT
1 C-TTCTCGTCTTTATGAA-GGT
4733829 CTTCTCGTC
1 CTTCTCGTC
4733838 CTTGGTACGA
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
20 18 0.22
21 62 0.77
22 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (20 bp):
CTTCTCGTCTTTATGAAGGT
Found at i:4733803 original size:42 final size:41
Alignment explanation
Indices: 4733722--4733837 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 41
4733712 CATGCGATGT
* *
4733722 GGACTTCTCGTCTTTACGAA-GGTCTTCTCGTCTTTATGAA
1 GGACTTCTCGTCTTTATGAATGGTCTTCTCGTCTTGATGAA
* *
4733762 GGGTCTTCTCGTCTTGATGAATGG-CATTCTCGTCTTGATGAA
1 -GGACTTCTCGTCTTTATGAATGGTC-TTCTCGTCTTGATGAA
* *
4733804 TGACATTCTCGTCTTTATGAATGCTCTTCTCGTC
1 GGAC-TTCTCGTCTTTATGAATGGTCTTCTCGTC
4733838 CTTGGTACGA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 20 0.32
42 42 0.67
43 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (41 bp):
GGACTTCTCGTCTTTATGAATGGTCTTCTCGTCTTGATGAA
Found at i:4741270 original size:6 final size:6
Alignment explanation
Indices: 4741259--4741297 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
4741249 AGACACGTAT
4741259 GACCAC GACCAC GACCAC GACCAC GACCAC GA-CAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
4741298 CGAGACGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.33, C:0.49, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:4741820 original size:11 final size:11
Alignment explanation
Indices: 4741796--4741835 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
4741786 TCGTCTCGTC
4741796 TCGGGTCG-GG
1 TCGGGTCGTGG
4741806 TCGGGTCGTGG
1 TCGGGTCGTGG
4741817 TCGGGTCGTGG
1 TCGGGTCGTGG
4741828 TCGTGGTC
1 TCG-GGTC
4741836 TCATACGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 8 0.29
11 16 0.57
12 4 0.14
ACGTcount: A:0.00, C:0.20, G:0.53, T:0.28
Consensus pattern (11 bp):
TCGGGTCGTGG
Found at i:4741829 original size:6 final size:5
Alignment explanation
Indices: 4741796--4741835 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
4741786 TCGTCTCGTC
4741796 TCGGG TCGGG TCGGG TCGTGG TCGGG TCGTGG TCGTGG TC
1 TCGGG TCGGG TCGGG TCG-GG TCGGG TCG-GG TCG-GG TC
4741836 TCATACGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 18 0.55
6 15 0.45
ACGTcount: A:0.00, C:0.20, G:0.53, T:0.28
Consensus pattern (5 bp):
TCGGG
Found at i:4741872 original size:21 final size:21
Alignment explanation
Indices: 4741846--4742008 Score: 113
Period size: 21 Copynumber: 7.9 Consensus size: 21
4741836 TCATACGTGT
*
4741846 ATAGTCCAAGTTCGTATTGCG
1 ATAGTCCAAGTTCGCATTGCG
* * *
4741867 ATAGT-CGACTATCGCATTACG
1 ATAGTCCAAGT-TCGCATTGCG
* *
4741888 AT-TTACATA-TTCGCATTGCG
1 ATAGTCCA-AGTTCGCATTGCG
*
4741908 ATAGTCCACGTTCGCATTGCG
1 ATAGTCCAAGTTCGCATTGCG
* * * *
4741929 A-ACTTCGACTATCGCATTGCG
1 ATAGTCCAAGT-TCGCATTGCG
* *
4741950 AT-TTACATA-TTCGCATTGCG
1 ATAGTCCA-AGTTCGCATTGCG
4741970 ATAGTCCAAGTTCGCATTGCG
1 ATAGTCCAAGTTCGCATTGCG
**
4741991 ATAGTCCAAAATCGCATT
1 ATAGTCCAAGTTCGCATT
4742009 TCGAATATGG
Statistics
Matches: 110, Mismatches: 22, Indels: 20
0.72 0.14 0.13
Matches are distributed among these distances:
20 32 0.29
21 76 0.69
22 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (21 bp):
ATAGTCCAAGTTCGCATTGCG
Found at i:4742008 original size:62 final size:62
Alignment explanation
Indices: 4741846--4741996 Score: 250
Period size: 62 Copynumber: 2.4 Consensus size: 62
4741836 TCATACGTGT
*
4741846 ATAGTCCAAGTTCGTATTGCGATAGTCGACTATCGCATTACGATTTACATATTCGCATTGCG
1 ATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTACGATTTACATATTCGCATTGCG
* * *
4741908 ATAGTCCACGTTCGCATTGCGA-ACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCG
1 ATAGTCCAAGTTCGCATTGCGATA-GTCGACTATCGCATTACGATTTACATATTCGCATTGCG
4741970 ATAGTCCAAGTTCGCATTGCGATAGTC
1 ATAGTCCAAGTTCGCATTGCGATAGTC
4741997 CAAAATCGCA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
61 1 0.01
62 79 0.98
63 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (62 bp):
ATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTACGATTTACATATTCGCATTGCG
Found at i:4749449 original size:14 final size:14
Alignment explanation
Indices: 4749430--4749461 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4749420 GGTTTTAGGG
4749430 TTTAGAGTGGTCAA
1 TTTAGAGTGGTCAA
*
4749444 TTTAGAGTGGTTAA
1 TTTAGAGTGGTCAA
4749458 TTTA
1 TTTA
4749462 CCCCTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (14 bp):
TTTAGAGTGGTCAA
Found at i:4750249 original size:34 final size:34
Alignment explanation
Indices: 4750210--4750276 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 34
4750200 TATATCTTAT
4750210 ATTAATAATATATATAT-ATATATTGATATTTAAC
1 ATTAATAATATATATATCATATATT-ATATTTAAC
4750244 ATTAATAATATATATATCGATATATTATATTTA
1 ATTAATAATATATATATC-ATATATTATATTTA
4750277 TTGTAAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
34 17 0.55
35 7 0.23
36 7 0.23
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (34 bp):
ATTAATAATATATATATCATATATTATATTTAAC
Found at i:4768925 original size:5 final size:5
Alignment explanation
Indices: 4768917--4768950 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4768907 TCCGTCTTGT
* *
4768917 CTCGG CTCGG CTCGG CACGA CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
4768951 TGGTCGTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.06, C:0.41, G:0.35, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:4770615 original size:31 final size:31
Alignment explanation
Indices: 4770577--4770638 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
4770567 AAACATGCTT
4770577 TCCTCATAGCCTTTATACAAACACCAACTCC
1 TCCTCATAGCCTTTATACAAACACCAACTCC
*
4770608 TCCTCATAGCCTTTATACAAACAGCAACTCC
1 TCCTCATAGCCTTTATACAAACACCAACTCC
4770639 ACCATAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (31 bp):
TCCTCATAGCCTTTATACAAACACCAACTCC
Found at i:4772853 original size:21 final size:22
Alignment explanation
Indices: 4772806--4772865 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
4772796 TATATTTTAT
*
4772806 ATTAAAAATTTATTT-TCACAC
1 ATTAAAAATATATTTCTCACAC
4772827 ATTAAAAATATATTTCTCTA-AC
1 ATTAAAAATATATTTCTC-ACAC
* *
4772849 A-TAAAATTATATGTCTC
1 ATTAAAAATATATTTCTC
4772866 GCAATCATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 28 0.82
22 5 0.15
23 1 0.03
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAAAAATATATTTCTCACAC
Found at i:4774101 original size:20 final size:20
Alignment explanation
Indices: 4774072--4774126 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
4774062 TGTAATGAAT
*
4774072 TTGACTAAACCGATTAAAAA
1 TTGACAAAACCGATTAAAAA
* *
4774092 TTGACAAAACC-AGTTGAAAT
1 TTGACAAAACCGA-TTAAAAA
*
4774112 TTGACAAAACTGATT
1 TTGACAAAACCGATT
4774127 TCAATTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
TTGACAAAACCGATTAAAAA
Found at i:4777189 original size:24 final size:23
Alignment explanation
Indices: 4777162--4777208 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4777152 TATTTTGGTC
* * *
4777162 ATACTTATGTAAACTATTAATTTT
1 ATACTAATGAAAACT-TAAATTTT
4777186 ATACTAATGAAAACTTAAATTTT
1 ATACTAATGAAAACTTAAATTTT
4777209 CATGATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (23 bp):
ATACTAATGAAAACTTAAATTTT
Found at i:4782101 original size:23 final size:23
Alignment explanation
Indices: 4782074--4782182 Score: 139
Period size: 23 Copynumber: 4.7 Consensus size: 23
4782064 CAGCTCATAT
4782074 AAATGCACCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCGCGTAG
* *
4782097 AAATGCA-CTATAGTGCCACGTAG
1 AAATGCACCGA-AGTGCCGCGTAG
* *
4782120 AATTGCACTGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCGCGTAG
* *
4782143 AAATGCACCGTAGTGTCGCGTAG
1 AAATGCACCGAAGTGCCGCGTAG
*
4782166 AAATGCACCGTAGTGCC
1 AAATGCACCGAAGTGCC
4782183 ATATAATGTC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
22 2 0.03
23 70 0.96
24 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCGCGTAG
Found at i:4782133 original size:46 final size:46
Alignment explanation
Indices: 4782074--4782182 Score: 155
Period size: 46 Copynumber: 2.4 Consensus size: 46
4782064 CAGCTCATAT
*
4782074 AAATGCACCGAAGTGCCGCGTAGAAATGCACTATAGTGCCACGTAG
1 AAATGCACCGAAGTGCCGCGTAGAAATGCACCATAGTGCCACGTAG
* * * * *
4782120 AATTGCACTGAAGTGCCGCGTAGAAATGCACCGTAGTGTCGCGTAG
1 AAATGCACCGAAGTGCCGCGTAGAAATGCACCATAGTGCCACGTAG
*
4782166 AAATGCACCGTAGTGCC
1 AAATGCACCGAAGTGCC
4782183 ATATAATGTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (46 bp):
AAATGCACCGAAGTGCCGCGTAGAAATGCACCATAGTGCCACGTAG
Found at i:4787295 original size:23 final size:23
Alignment explanation
Indices: 4787258--4787344 Score: 111
Period size: 23 Copynumber: 3.8 Consensus size: 23
4787248 CAGCTCATAT
* *
4787258 AAATGCATCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
4787281 AAATGCACCGTAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * *
4787304 AATTGCACCGAAGTGCCTCATAG
1 AAATGCACCGAAGTGCCACGTAG
*
4787327 AAATGCACCGTAGTGCCA
1 AAATGCACCGAAGTGCCA
4787345 TATAATGTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:4789602 original size:2 final size:2
Alignment explanation
Indices: 4789597--4789660 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
4789587 ATCCTTATCC
4789597 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
4789639 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
4789661 TTATTTTATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4792130 original size:21 final size:21
Alignment explanation
Indices: 4792106--4792145 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4792096 TGAGAGTTAC
4792106 ATAGGTCCTTCGAGACATATG
1 ATAGGTCCTTCGAGACATATG
*
4792127 ATAGGTCCTTCGGGACATA
1 ATAGGTCCTTCGAGACATA
4792146 GATGACATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (21 bp):
ATAGGTCCTTCGAGACATATG
Found at i:4792826 original size:2 final size:2
Alignment explanation
Indices: 4792819--4792899 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
4792809 ACTTTACATG
*
4792819 TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4792861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4792900 TTATTATTAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4793046 original size:18 final size:18
Alignment explanation
Indices: 4793023--4793057 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4793013 GCGTAAAATT
* *
4793023 TGTCCCGTAGGACCACTA
1 TGTCCCGAAAGACCACTA
4793041 TGTCCCGAAAGACCACT
1 TGTCCCGAAAGACCACT
4793058 GTATATGTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:4793067 original size:22 final size:22
Alignment explanation
Indices: 4793039--4793080 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4793029 GTAGGACCAC
4793039 TATGTCCCGAAAGACCACTGTA
1 TATGTCCCGAAAGACCACTGTA
*
4793061 TATGTCCCGAAGGACCACTG
1 TATGTCCCGAAAGACCACTG
4793081 ATAATCCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (22 bp):
TATGTCCCGAAAGACCACTGTA
Found at i:4796798 original size:14 final size:13
Alignment explanation
Indices: 4796779--4796808 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
4796769 TATCTGGAAG
4796779 CTTTCTTTCTTCTT
1 CTTTCTTTC-TCTT
4796793 CTTTCTTTCTCTT
1 CTTTCTTTCTCTT
4796806 CTT
1 CTT
4796809 CACGTTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTCTTTCTCTT
Found at i:4799812 original size:18 final size:18
Alignment explanation
Indices: 4799789--4799881 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 18
4799779 ACGCGGAATT
*
4799789 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
4799807 TGTCCCGAAAGACCACTGTATA
1 TGTCCCGAAGGACCAC----TA
*
4799829 TATCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
4799847 TGTCCCAAAGGCCCACTA
1 TGTCCCGAAGGACCACTA
* *
4799865 TGTCCTGAATGACCACT
1 TGTCCCGAAGGACCACT
4799882 GATAATCCCT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
18 44 0.73
22 16 0.27
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4806648 original size:200 final size:200
Alignment explanation
Indices: 4806137--4806775 Score: 683
Period size: 200 Copynumber: 3.2 Consensus size: 200
4806127 ACAGTACACA
* * * * *
4806137 TCTCAAACAATTTACACACAAAAAAGTATCGATACACATATATATAAAGTATCGATACTTTGACT
1 TCTCAAACAATTTGCAC-TAAAAAAGTATCGATACAC--ATATATAAAGTATCAATACTTAGAAT
* * * **
4806202 TTCGAAACCGATTACTTTAAAGTAATTA-ATAAATTTATAATGTAAACGGTAAAAATCTACCAAT
63 TTCGAAACCTATTACTTTAAAGTAA-TAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGT
* * * * * ***
4806266 TTAATGATAATAAGCGTAAACATCAAGTATCGATATTTTTTTGTATTTATATCGATACTTTTATT
127 TTAATGATAATAGGCGTAAACATCAAGTATCAATA-CTTATTATATAGGTATCGATACTTTTATT
4806331 CCAGTATGCT
191 CCAGTATGCT
* * * * * *
4806341 TCTCAAACATTTTGTAC-ACAAAAAGTATCGATACACATGTACAAAAGTATCGATACTTATAATT
1 TCTCAAACAATTTGCACTA-AAAAAGTATCGATACACATATA-TAAAGTATCAATACTTAGAATT
* * *
4806405 TCGAAACCTATTACTATAAAATAATACGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTT
64 TCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTT
* * * * * *
4806470 AATTATAGTAGGCTTAAACATAAAGTATCAATACTTATTATATATGTATCGATA-TTGTTATTCT
129 AATGATAATAGGCGTAAACATCAAGTATCAATACTTATTATATAGGTATCGATACTT-TTATTCC
* *
4806534 AGCATGCA
193 AGTATGCT
* * *
4806542 TCTCAAACAATTTGCACTAAAAAAATATCGATACACATATATAAAGTATCAATACTTGGACTTTC
1 TCTCAAACAATTTGCACTAAAAAAGTATCGATACACATATATAAAGTATCAATACTTAGAATTTC
* * * *
4806607 GAAACCTATTACTTTAAAGTAATAGGTAAATTTATAATGTAAATGGTAAAAATATACTGGTTTAA
66 GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAA
* * * * * *
4806672 TGATAATTGGTGTAAATATCAAGTATCAATACTTTTTGTATAGGTAACGATACTTTTATTCCAGT
131 TGATAATAGGCGTAAACATCAAGTATCAATACTTATTATATAGGTATCGATACTTTTATTCCAGT
* *
4806737 TTACT
196 ATGCT
* * * *
4806742 TCTGAAACATTTTGCA-TGCACAAAGTATCGATAC
1 TCTCAAACAATTTGCACT-AAAAAAGTATCGATAC
4806776 TTGGAATTTT
Statistics
Matches: 362, Mismatches: 66, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
199 1 0.00
200 157 0.43
201 71 0.20
202 102 0.28
203 17 0.05
204 14 0.04
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (200 bp):
TCTCAAACAATTTGCACTAAAAAAGTATCGATACACATATATAAAGTATCAATACTTAGAATTTC
GAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAA
TGATAATAGGCGTAAACATCAAGTATCAATACTTATTATATAGGTATCGATACTTTTATTCCAGT
ATGCT
Found at i:4806895 original size:179 final size:179
Alignment explanation
Indices: 4806584--4806907 Score: 468
Period size: 179 Copynumber: 1.8 Consensus size: 179
4806574 ACACATATAT
* * * *
4806584 AAAGTATCAATACTTGGACTTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTATAATGTAA
1 AAAGTATCAATACTTGGAATTTCGAAACCTATTACTATAAAGTAATACGTAAATTTACAATGTAA
** * * * * * * *
4806649 ATGGTAAAAATATACTGGTTTAATGATAATTGGTGTAAATATCAAGTATCAATACTTTTTGTATA
66 ATGACAAAAATATACTGGTTTAATGATAATAGGCGTAAACATAAAGTATCAATACATTATATATA
*
4806714 GGTAACGATACTTTTATTCCAGTTTACTTCTGAAACATTTTGCATGCAC
131 GGTAACAATACTTTTATTCCAGTTTACTTCTGAAACATTTTGCATGCAC
* *
4806763 AAAGTATCGATACTTGGAATTTTGAAACCTATTACTATAAAGTAATACGTAAATTTACAATGTAA
1 AAAGTATCAATACTTGGAATTTCGAAACCTATTACTATAAAGTAATACGTAAATTTACAATGTAA
* * *
4806828 ATGACAAAAGTTTACTGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACATTATATATA
66 ATGACAAAAATATACTGGTTTAATGATAATAGGCGTAAACATAAAGTATCAATACATTATATATA
*
4806893 GGTATCAATACTTTT
131 GGTAACAATACTTTT
4806908 TGTCTAGTAT
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
179 125 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (179 bp):
AAAGTATCAATACTTGGAATTTCGAAACCTATTACTATAAAGTAATACGTAAATTTACAATGTAA
ATGACAAAAATATACTGGTTTAATGATAATAGGCGTAAACATAAAGTATCAATACATTATATATA
GGTAACAATACTTTTATTCCAGTTTACTTCTGAAACATTTTGCATGCAC
Found at i:4807091 original size:198 final size:200
Alignment explanation
Indices: 4806763--4807274 Score: 638
Period size: 199 Copynumber: 2.6 Consensus size: 200
4806753 TTGCATGCAC
* * *
4806763 AAAGTATCGATACTTGGAATTTTGAAACCTATTACTATAAAGTAATACGTAAATTTACAATGTAA
1 AAAGTATCGATACTTAGAATTTCGAAACCTATTACTATAAAGTAATAGGTAAATTTACAATGTAA
* ** * * * * *
4806828 ATGACAAAAGTTTACTGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACATTATATATA
66 ACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATCAAGTATCAATACATTATATATA
* *
4806893 GGTATCAATACTTTT-TGTCTAGTATGCTTCT-TAACAACTTGCACGCAAAATGTATCAATACAC
131 GGTATCAATACTTTTAT-TCCAGTATGCTTCTCAAACAACTTGCACGCAAAATGTATCAATACAC
*
4806956 ATGTAT
195 ATATAT
* * * **
4806962 AAAGTATCGATA-TATAGAATTTCGAAATCGATTACTTTAAAGTTGTAGGTAAATTTACAATGTA
1 AAAGTATCGATACT-TAGAATTTCGAAACCTATTACTATAAAGTAATAGGTAAATTTACAATGTA
* * * * *
4807026 AACGGTAAAAGTCTACCGGTAT-ATGATAATTGGCGTAAATACCAAGTATCAATA-TTGTCTATA
65 AACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATCAAGTATCAATACAT-TATATA
* * * *
4807089 TAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGCAAAATGTATCGATACA
129 TAGGTATCAATACTTTTATTCCAGTATGCTTCTCAAACAACTTGCACGCAAAATGTATCAATACA
4807154 CATATAT
194 CATATAT
* * * * * * *
4807161 AAAGTATCAATACTTATAATTTCAAAACCTATTACTGTAAAATAATAGGTTAATTTACAATGGAA
1 AAAGTATCGATACTTAGAATTTCGAAACCTATTACTATAAAGTAATAGGTAAATTTACAATGTAA
*
4807226 ACGGTAAAGGTCTACCGGTATAATGATAATAGGCGTAAACATCAAGTAT
66 ACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATCAAGTAT
4807275 TGATATACAT
Statistics
Matches: 264, Mismatches: 43, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
197 1 0.00
198 62 0.23
199 176 0.67
200 25 0.09
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (200 bp):
AAAGTATCGATACTTAGAATTTCGAAACCTATTACTATAAAGTAATAGGTAAATTTACAATGTAA
ACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAAACATCAAGTATCAATACATTATATATA
GGTATCAATACTTTTATTCCAGTATGCTTCTCAAACAACTTGCACGCAAAATGTATCAATACACA
TATAT
Found at i:4807424 original size:130 final size:128
Alignment explanation
Indices: 4807178--4807490 Score: 346
Period size: 130 Copynumber: 2.4 Consensus size: 128
4807168 CAATACTTAT
* * * * * *
4807178 AATTTCAAAACCTATTACTGTAAAATAATAGGTTAATTTACAATGGAAACGGTAAAGGTCTACCG
1 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAGGTCTACCG
* * * * *
4807243 GTATAATGATAATAGGCGTAAACATCAAGTATTGATATACATGTACAAAGTATCGATAT-GTGG
66 GTACAATGAAAATAGACGTAAACATCAAGTATTCATATACATGTACAAAGTATCGAT-TCGTAG
* * * *
4807306 AATTTCGAAACCTATTGCTTTAAAGTAATAGGTAAATTAATAATGTACACGGTAAACGTTTCTAC
1 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAA-G-GTCTAC
** * *
4807371 CGGTACAATGAAAATAGACGTAAATGTACAAGTA-TCA-ATA-ATGTCATATAAGTATCGATTCT
64 CGGTACAATGAAAATAGACGTAAACAT-CAAGTATTCATATACATGT-ACA-AAGTATCGATTCG
*
4807433 TAT
126 TAG
* *
4807436 AATTTCGAAACCTAGTACTTTAAAGTAATAGGTAAATTAACAATGTATACGGTAA
1 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAA
4807491 TATATTGATA
Statistics
Matches: 155, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
128 51 0.33
129 7 0.05
130 91 0.59
131 6 0.04
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (128 bp):
AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAGGTCTACCG
GTACAATGAAAATAGACGTAAACATCAAGTATTCATATACATGTACAAAGTATCGATTCGTAG
Found at i:4807685 original size:118 final size:116
Alignment explanation
Indices: 4807518--4807915 Score: 325
Period size: 118 Copynumber: 3.5 Consensus size: 116
4807508 TAACAAATCA
* * * **
4807518 AGTAATTAACATATTTTATTATCATCGGATTTCTAAGACATC-ATCAGCTTTAAACAGGTGCTAC
1 AGTAATTAACATATTTTGTTATCGTCGGATTTCTAAGAC-TCAATAAGC-TTAAACATATGCTAC
4807582 CAATTACATTAAATAAGCGCTACTTGTTATGTTATTATGGTTGATAATGTTTAT
64 C-ATTACATTAAATAAGCGCTACTTGTTATGTTATTATGGTTGATAATGTTTAT
* *
4807636 AGTAATTAACATATTTTGTTATCGTCGGATTTCTAAGTCTCAATAAGCTTAAAC-TTTG-T----
1 AGTAATTAACATATTTTGTTATCGTCGGATTTCTAAGACTCAATAAGCTTAAACATATGCTACCA
* * * * * ** * * ***
4807695 TAACATT--TTAGGCGCTTCCTAATATGTTGATAAT-ATTGATAACAAATTA-
66 TTACATTAAATAAGCGCTACTTGTTATGTT-ATTATGGTTGATAA-TGTTTAT
* * * * * * *
4807744 AGTAATTAACCTATTTTGTTATCGTCAGATTTTTAAGGCCCCATTAA-CTTTAAACATACGCTAC
1 AGTAATTAACATATTTTGTTATCGTCGGATTTCTAA-GACTCAATAAGC-TTAAACATATGCTAC
* *
4807808 CTATTACATTAAATAAACGCTACTTGTTATGTTATTATGGTTGATAATGTTTTT
64 C-ATTACATTAAATAAGCGCTACTTGTTATGTTATTATGGTTGATAATGTTTAT
* * * * * * *
4807862 AATAATTAACCTATTTTGTTGTCGTCGAATTTCTAAGGCTCCATCAGCTTAAAC
1 AGTAATTAACATATTTTGTTATCGTCGGATTTCTAAGACTCAATAAGCTTAAAC
4807916 TTTCATAACA
Statistics
Matches: 213, Mismatches: 50, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
108 56 0.26
109 20 0.09
110 8 0.04
111 1 0.00
115 1 0.00
116 8 0.04
117 25 0.12
118 94 0.44
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (116 bp):
AGTAATTAACATATTTTGTTATCGTCGGATTTCTAAGACTCAATAAGCTTAAACATATGCTACCA
TTACATTAAATAAGCGCTACTTGTTATGTTATTATGGTTGATAATGTTTAT
Found at i:4807896 original size:226 final size:226
Alignment explanation
Indices: 4807488--4808097 Score: 851
Period size: 226 Copynumber: 2.7 Consensus size: 226
4807478 ATGTATACGG
* * * * *
4807488 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACATATTTTATTATCATCGGATTTCTA
1 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTTTA
* ** * *
4807553 AGACATCATCAGCTTTAAACAGGTGCTACCAATTACATTAAATAAGCGCTACTTGTTATGTTATT
66 AGGCCCCATCAGCTTTAAACAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* *
4807618 ATGGTTGATAATGTTTATAGTAATTAACATATTTTGTTATCGTCGGATTTCTAAGTCTCAATAAG
131 ATGGTTGATAATGTTTATAGTAATTAACATATTTTGTTATCGTCGAATTTCTAAGGCTCAATAAG
** *
4807683 CTTAAACTTTGTTAACATTTTAGGCGCTTCC
196 CTTAAACTTTCATAACATTTTAGGCGCTACC
* *
4807714 TAATATGTTGATAATATTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTTTA
1 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTTTA
* * ** *
4807779 AGGCCCCATTAACTTTAAACATACGCTACCTATTACATTAAATAAACGCTACTTGTTATGTTATT
66 AGGCCCCATCAGCTTTAAACAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* * * * * *
4807844 ATGGTTGATAATGTTTTTAATAATTAACCTATTTTGTTGTCGTCGAATTTCTAAGGCTCCATCAG
131 ATGGTTGATAATGTTTATAGTAATTAACATATTTTGTTATCGTCGAATTTCTAAGGCTCAATAAG
*
4807909 CTTAAACTTTCATAACATTTTATGCGCTACC
196 CTTAAACTTTCATAACATTTTAGGCGCTACC
* * * *
4807940 TAATATATTAATAATATTGATAACAAATCAAGTAATTAACCTATTTAGTTATTGTTAGATTTTTA
1 TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTTTA
* * * ** *
4808005 AGGCCCTATCGGCTTTAAAAAGGCGCTACCTATTATGTTACATAAGCGCTACTTGTTATGTTATT
66 AGGCCCCATCAGCTTTAAACAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* *
4808070 ATAGTTGATAATGTTTCTAGTAATTAAC
131 ATGGTTGATAATGTTTATAGTAATTAAC
4808098 TGGTTATGTT
Statistics
Matches: 335, Mismatches: 49, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
226 335 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (226 bp):
TAATATATTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTTTA
AGGCCCCATCAGCTTTAAACAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
ATGGTTGATAATGTTTATAGTAATTAACATATTTTGTTATCGTCGAATTTCTAAGGCTCAATAAG
CTTAAACTTTCATAACATTTTAGGCGCTACC
Found at i:4809713 original size:21 final size:20
Alignment explanation
Indices: 4809683--4809740 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
4809673 AAAGTTTAGG
*
4809683 TTTTTATAAATAAATTAAGTT
1 TTTTTTTAAATAAATTAA-TT
4809704 TTTTTTTAAAT-AATT-ATT
1 TTTTTTTAAATAAATTAATT
*
4809722 TTTATTATTAAAAAAATTA
1 TTT-TT-TTAAATAAATTA
4809741 TAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 5 0.16
19 3 0.10
20 9 0.29
21 14 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTTTTTAAATAAATTAATT
Found at i:4810457 original size:3 final size:3
Alignment explanation
Indices: 4810451--4810491 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
4810441 CAACCAATAA
* *
4810451 TAT TAT TAC TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4810492 CAAACCCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4819171 original size:131 final size:131
Alignment explanation
Indices: 4818933--4819213 Score: 377
Period size: 131 Copynumber: 2.1 Consensus size: 131
4818923 ATAACATTCA
* * *
4818933 AATTAATATTGAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGAC
1 AATTAATATTGAATTTTAGGATGAAATAATAATATCTCTTCATTTCAATTGGAGTAACAAATGAC
* * * * * *
4818998 TGCTTTAAGGTATGATAGGTCATTTATTCTCAATTGAAAATAATTGA-ATATTATCGTTTTCTCT
66 TACTTTAAGGCATGAGAGATCATCTATTCTCAATTGAAAATAATT-ATATATTATCATTTTCTCT
4819062 CG
130 CG
* *
4819064 GATTAATAATT-AATTTTAGGATGAAATAATAATATCTCTTCGTTTCAATTGGAGTAACAAATGA
1 AATTAAT-ATTGAATTTTAGGATGAAATAATAATATCTCTTCATTTCAATTGGAGTAACAAATGA
* **
4819128 CTACTTTAAGGCATGAGAGATCATCTATTCTCGATTGTGAATAATTATATATTATCATTTTCTCT
65 CTACTTTAAGGCATGAGAGATCATCTATTCTCAATTGAAAATAATTATATATTATCATTTTCTCT
4819193 CG
130 CG
* **
4819195 AATTACTATCAAATTTTAG
1 AATTAATATTGAATTTTAG
4819214 AAGAAAATAG
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
130 3 0.02
131 124 0.95
132 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (131 bp):
AATTAATATTGAATTTTAGGATGAAATAATAATATCTCTTCATTTCAATTGGAGTAACAAATGAC
TACTTTAAGGCATGAGAGATCATCTATTCTCAATTGAAAATAATTATATATTATCATTTTCTCTC
G
Found at i:4819222 original size:131 final size:131
Alignment explanation
Indices: 4818933--4819279 Score: 367
Period size: 131 Copynumber: 2.6 Consensus size: 131
4818923 ATAACATTCA
* * * * *
4818933 AATTAATATTGAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGAC
1 AATTAATAATAAATTTTAGGAAGAAATAGTAATATCTCTTCATTTCAATTGGAGTAACAAATGAC
* * * * * *
4818998 TGCTTTAAGGTATGATAGGTCATTTATTCTCAATTGAAAATAATTGAATATTATCGTTTTCTCTC
66 TACTTTAAGGCATGAGAGATCATCTATTCTCAATTGAAAATAATTGAATATTATCATTTTCTCTC
4819063 G
131 G
* * * * *
4819064 GATTAATAATTAATTTTAGGATGAAATAATAATATCTCTTCGTTTCAATTGGAGTAACAAATGAC
1 AATTAATAATAAATTTTAGGAAGAAATAGTAATATCTCTTCATTTCAATTGGAGTAACAAATGAC
* **
4819129 TACTTTAAGGCATGAGAGATCATCTATTCTCGATTGTGAATAATT-ATATATTATCATTTTCTCT
66 TACTTTAAGGCATGAGAGATCATCTATTCTCAATTGAAAATAATTGA-ATATTATCATTTTCTCT
4819193 CG
130 CG
* * * * ** *
4819195 AATTACT-ATCAAATTTTA-GAAGAAAATAGTAATATTTTTTTTTATTTTGATTGGAGTAAGAAA
1 AATTAATAAT-AAATTTTAGGAAG-AAATAGTAATA--TCTCTTCATTTCAATTGGAGTAACAAA
* * *
4819258 TGAGTGCTTTAAGGCTTGAGAG
62 TGACTACTTTAAGGCATGAGAG
4819280 GTTGTTTCTT
Statistics
Matches: 180, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
130 6 0.03
131 135 0.75
133 39 0.22
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (131 bp):
AATTAATAATAAATTTTAGGAAGAAATAGTAATATCTCTTCATTTCAATTGGAGTAACAAATGAC
TACTTTAAGGCATGAGAGATCATCTATTCTCAATTGAAAATAATTGAATATTATCATTTTCTCTC
G
Found at i:4830296 original size:12 final size:13
Alignment explanation
Indices: 4830272--4830303 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4830262 AAAAATGAAA
4830272 AAGAAAGAAAATG
1 AAGAAAGAAAATG
4830285 AAGAAA-AAAATG
1 AAGAAAGAAAATG
4830297 AA-AAAGA
1 AAGAAAGA
4830304 GACAAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 9 0.50
13 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (13 bp):
AAGAAAGAAAATG
Found at i:4830326 original size:8 final size:8
Alignment explanation
Indices: 4830260--4830340 Score: 56
Period size: 9 Copynumber: 9.6 Consensus size: 8
4830250 TACTTCGTAT
*
4830260 GAAAAAAT
1 GAAAAAAA
4830268 GAAAAAGAAA
1 G-AAAA-AAA
*
4830278 GAAAATGAA
1 GAAAA-AAA
4830287 GAAAAAAA
1 GAAAAAAA
*
4830295 TGAAAAAGA
1 -GAAAAAAA
* *
4830304 GACAAAGA
1 GAAAAAAA
4830312 GAGAAAAAA
1 GA-AAAAAA
4830321 G-AAAAAA
1 GAAAAAAA
*
4830328 GAGAAAAA
1 GAAAAAAA
4830336 GAAAA
1 GAAAA
4830341 TAAAATAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
7 7 0.12
8 21 0.36
9 27 0.47
10 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.20, T:0.04
Consensus pattern (8 bp):
GAAAAAAA
Found at i:4830345 original size:26 final size:25
Alignment explanation
Indices: 4830261--4830346 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 25
4830251 ACTTCGTATG
4830261 AAAAAATGAAAAAGAAAGAAAATGAAGA
1 AAAAAATGAAAAAGAAA-AAAA-GAA-A
* * *
4830289 AAAAAATGAAAAAGAGACAAAGAGAG
1 AAAAAATGAAAAAGAAAAAAAGA-AA
*
4830315 AAAAAA-GAAAAAAGAGAAAAAGAAA
1 AAAAAATG-AAAAAGAAAAAAAGAAA
*
4830340 ATAAAAT
1 AAAAAAT
4830347 AAATAAAAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
25 7 0.14
26 22 0.45
27 4 0.08
28 16 0.33
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (25 bp):
AAAAAATGAAAAAGAAAAAAAGAAA
Found at i:4831000 original size:23 final size:23
Alignment explanation
Indices: 4830970--4831030 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
4830960 ACATGTGTTC
*
4830970 TGAAGCTGACGAGGGTTTTAGCA
1 TGAAGCTGACAAGGGTTTTAGCA
*
4830993 TGAAGCTGACAAGGGTTTTAGTA
1 TGAAGCTGACAAGGGTTTTAGCA
4831016 TGAAGCTGACAAGGG
1 TGAAGCTGACAAGGG
4831031 CTATAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.34, T:0.25
Consensus pattern (23 bp):
TGAAGCTGACAAGGGTTTTAGCA
Found at i:4832063 original size:135 final size:135
Alignment explanation
Indices: 4831660--4832203 Score: 460
Period size: 135 Copynumber: 4.1 Consensus size: 135
4831650 AGCAAGTTTA
* * * * * * *
4831660 CCTCGATTCAATCTTCCCTGAAGAATAGAGGAATTAATCAATA-CTTCCAGATATGATCTACCCT
1 CCTCGATTCAATCTTCCCCGAAGAACAGTGGAATGAATCAACATC-TCCAAATATGAT-TTCCCT
* * * ** * * *
4831724 AAAGAAACAGCGGAGTAAAT-CCTT-TTTTTTCCAGATTTGATCTTCCCTGAGTAGCAGTGGAAC
64 GAAGAAACAACGAAACAAATCCCTTCCTTTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAAC
*
4831787 AAGTTTG
129 AAGTCTG
* ** * * * * * * * *
4831794 CATCGATTCAATCTTCCTTGAAGAACAATAGAGTGAGT-TA-ATGCTTCCAGATCTGATCTACCC
1 CCTCGATTCAATCTTCCCCGAAGAACAGTGGAATGAATCAACAT-C-TCCAAATATGAT-TTCCC
* * ** * ** * * **
4831857 T-AAAAAATAGTGGAGTAGAT-CC--CCTTTTTCCAGATTTGATCTTCCCTGAGTATTAGTGGAA
63 TGAAGAAACAACGAAACAAATCCCTTCCTTTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAA
*
4831918 CAAGTTTG
128 CAAGTCTG
* * *
4831926 CCTTGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCTCTAAATATGATTTTCCCTG
1 CCTCGATTCAATCTTCCCCGAAGAACAGTGGAATGAATCAACATCTCCAAATATGA-TTTCCCTG
*** * * * *
4831991 AAGAAACAACGAAATTGATCCCTT-GTTTTTCAAGATTTGAACTTCCCTAAGGAACAGTGGAACA
65 AAGAAACAACGAAACAAATCCCTTCCTTTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACA
4832055 AGTCTG
130 AGTCTG
* *
4832061 CCTCGATTCAATCTTCCCCGAAGAATAGTGGAATGAATCAACGTCTCCAAATATGATTTCCCTGA
1 CCTCGATTCAATCTTCCCCGAAGAACAGTGGAATGAATCAACATCTCCAAATATGATTTCCCTGA
* * * *
4832126 AGAAACAGCGGAACAAATCTCTTCCTTTTTCCAGATTTGATCTTCCTTGAGGAACAGTGGAACAA
66 AGAAACAACGAAACAAATCCCTTCCTTTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAA
4832191 GTCTG
131 GTCTG
*
4832196 TCTCGATT
1 CCTCGATT
4832204 TAATATCTGC
Statistics
Matches: 337, Mismatches: 62, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
132 88 0.26
133 33 0.10
134 79 0.23
135 137 0.41
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (135 bp):
CCTCGATTCAATCTTCCCCGAAGAACAGTGGAATGAATCAACATCTCCAAATATGATTTCCCTGA
AGAAACAACGAAACAAATCCCTTCCTTTTTCCAGATTTGATCTTCCCTGAGGAACAGTGGAACAA
GTCTG
Found at i:4832530 original size:3 final size:3
Alignment explanation
Indices: 4832498--4832544 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
4832488 TTTTTTGATT
* * *
4832498 TTA TTA ATA TTAA TTA CTA TTA TT- TAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4832543 TT
1 TT
4832545 TCTATTTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 32 0.89
4 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4832533 original size:20 final size:20
Alignment explanation
Indices: 4832501--4832541 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4832491 TTTGATTTTA
4832501 TTAATATTAATTACTATTAT
1 TTAATATTAATTACTATTAT
*
4832521 TTAATTATT-ATTATTATTAT
1 TTAA-TATTAATTACTATTAT
4832541 T
1 T
4832542 ATTTCTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAATATTAATTACTATTAT
Found at i:4832536 original size:23 final size:24
Alignment explanation
Indices: 4832495--4832545 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
4832485 GATTTTTTTG
*
4832495 ATTTTATTAATATTAATTACTATT
1 ATTTAATTAATATTAATTACTATT
* *
4832519 ATTTAATTATTATT-ATTATTATT
1 ATTTAATTAATATTAATTACTATT
4832542 ATTT
1 ATTT
4832546 CTATTTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTAATTAATATTAATTACTATT
Found at i:4833662 original size:107 final size:104
Alignment explanation
Indices: 4833519--4833735 Score: 276
Period size: 107 Copynumber: 2.1 Consensus size: 104
4833509 TTATGCATGG
4833519 GTCCCCCTAGTTAGCGTTTTTGCATGTTGATCACCTACGAGGACCAAAGTTATTATTTACC-AGT
1 GTCCCCCTAGTTAGCGTTTTTGCATGTTGATCACCTACGAGGACCAAAGTTATTATTTACCTA-T
* * **
4833583 TTTTATGCATATTATAT-TTTTTGGGATATTTTTTGTTTA
65 TTTCATGCATATTATATATTTTTGGAATATTTGATGTTTA
* * * * *
4833622 GTCCCCCATAGTTTAGCGTGTTTTTGCATGTTGGTTACCTATGTGGACCAAAGTTGTTATTTACC
1 GTCCCCC-TAG-TTAGC--GTTTTTGCATGTTGATCACCTACGAGGACCAAAGTTATTATTTACC
* *
4833687 TATTTTCATGCATGTTATGTATTTTTGGAATATTTGATGTTTA
62 TATTTTCATGCATATTATATATTTTTGGAATATTTGATGTTTA
4833730 GTCCCC
1 GTCCCC
4833736 TTATTTAGGC
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
103 7 0.07
104 3 0.03
105 5 0.05
107 56 0.58
108 26 0.27
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (104 bp):
GTCCCCCTAGTTAGCGTTTTTGCATGTTGATCACCTACGAGGACCAAAGTTATTATTTACCTATT
TTCATGCATATTATATATTTTTGGAATATTTGATGTTTA
Found at i:4833752 original size:107 final size:107
Alignment explanation
Indices: 4833519--4833765 Score: 274
Period size: 107 Copynumber: 2.3 Consensus size: 107
4833509 TTATGCATGG
*
4833519 GTCCCCC-TAG-TTAGC--GTTTTTGCATGTTGATCACCTACGAGGACCAAAGTTATTATTTACC
1 GTCCCCCATAGTTTAGCAAGTTTTTGCATGTTGGTCACCTACGAGGACCAAAGTTATTATTTACC
* * **
4833580 AGTTTTTATGCATATTATATTTTTTGGGATATTTTTTGTTTA
66 AGTTTTCATGCATATTATATTTTTTGGAATATTTGATGTTTA
** * * * *
4833622 GTCCCCCATAGTTTAGCGTGTTTTTGCATGTTGGTTACCTATGTGGACCAAAGTTGTTATTTACC
1 GTCCCCCATAGTTTAGCAAGTTTTTGCATGTTGGTCACCTACGAGGACCAAAGTTATTATTTACC
* *
4833687 TA-TTTTCATGCATGTTATGTATTTTTGGAATATTTGATGTTTA
66 -AGTTTTCATGCATATTATAT-TTTTTGGAATATTTGATGTTTA
* * *
4833730 GT-CCCCTTA-TTTAGGCAAGTTTTTACATTTTGGTCA
1 GTCCCCCATAGTTTA-GCAAGTTTTTGCATGTTGGTCA
4833766 TATGTAGTGA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
103 7 0.06
104 3 0.03
105 5 0.04
106 4 0.03
107 79 0.66
108 22 0.18
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (107 bp):
GTCCCCCATAGTTTAGCAAGTTTTTGCATGTTGGTCACCTACGAGGACCAAAGTTATTATTTACC
AGTTTTCATGCATATTATATTTTTTGGAATATTTGATGTTTA
Found at i:4834871 original size:124 final size:125
Alignment explanation
Indices: 4834606--4834925 Score: 376
Period size: 124 Copynumber: 2.5 Consensus size: 125
4834596 ATAATAAAAT
* ** ** *
4834606 TCGAATTAATA-TTGAATTTTAGGATGAAATAGTAATATCTCTCCATTTCAATTGGAGTAATAAA
1 TCGAATTAATATTTG-ATTTTAGGACGAAATAGTAATATCTCTTTATTTTGATTGGAGTAACAAA
* *
4834670 TGATTGCTTTAAGGTATGAGAGGTCAATTATTCTCGATTGGAAATAATTGGATATTATCGTTTTC
65 TGA------TAAGGCATGAGAGGTCAATTATTCTCGATTGGAAATAATTAGATATTATCGTTTTC
4834735 GC
124 GC
*
4834737 TCGGAA-TAATATTTGATTTTAGGACGAAATAGTAATATCTCTTTGTTTTGATTGGAGTAACAAA
1 TC-GAATTAATATTTGATTTTAGGACGAAATAGTAATATCTCTTTATTTTGATTGGAGTAACAAA
* * *
4834801 TGA-AAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATTGTTTTCTC
65 TGATAAGGCATGAGAGGTCAATTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCGC
*** * * * *
4834861 TCGAATTAATATCAAATTTTAGAAGGAAATAGTAATATTTCTTTATTTTGATTGGAGTAAGAAAT
1 TCGAATTAATATTTGATTTTAGGACGAAATAGTAATATCTCTTTATTTTGATTGGAGTAACAAAT
4834926 TAGTGCTTTA
Statistics
Matches: 166, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
123 3 0.02
124 105 0.63
131 52 0.31
132 6 0.04
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (125 bp):
TCGAATTAATATTTGATTTTAGGACGAAATAGTAATATCTCTTTATTTTGATTGGAGTAACAAAT
GATAAGGCATGAGAGGTCAATTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCGC
Found at i:4835406 original size:18 final size:19
Alignment explanation
Indices: 4835366--4835412 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
4835356 ACTGCAAATT
*
4835366 TATTGTTTTAATTAAAATTAA
1 TATT-TTTTAAATAAAA-TAA
4835387 TATTTTTTAAATAAAA-AA
1 TATTTTTTAAATAAAATAA
4835405 TATGTTTT
1 TAT-TTTT
4835413 GGATGCCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
20 11 0.46
21 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TATTTTTTAAATAAAATAA
Found at i:4850044 original size:17 final size:17
Alignment explanation
Indices: 4850022--4850055 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4850012 CAATGGAATG
*
4850022 GTTCATAATGAGAAGAA
1 GTTCATAACGAGAAGAA
4850039 GTTCATAACGAGAAGAA
1 GTTCATAACGAGAAGAA
4850056 CTTTTTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.21
Consensus pattern (17 bp):
GTTCATAACGAGAAGAA
Found at i:4850395 original size:16 final size:17
Alignment explanation
Indices: 4850374--4850405 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4850364 ACATAAGGAG
4850374 TTGGATCAAC-ATCACC
1 TTGGATCAACTATCACC
4850390 TTGGATCAACTATCAC
1 TTGGATCAACTATCAC
4850406 AAAAGAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (17 bp):
TTGGATCAACTATCACC
Found at i:4850686 original size:9 final size:9
Alignment explanation
Indices: 4850674--4850717 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
4850664 TTACTACTAT
4850674 TATTATTAA
1 TATTATTAA
*
4850683 TATTATTAT
1 TATTATTAA
*
4850692 TATTATTAT
1 TATTATTAA
*
4850701 TATTATAAAA
1 TATTAT-TAA
4850711 TATTATT
1 TATTATT
4850718 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 23 0.77
10 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATTAA
Found at i:4850717 original size:3 final size:3
Alignment explanation
Indices: 4850671--4850706 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4850661 ATATTACTAC
*
4850671 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4850707 AAAATATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4850781 original size:24 final size:24
Alignment explanation
Indices: 4850753--4850812 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
4850743 CCCAATATCC
*
4850753 AAACCCAAACTCGGGCCCAAACCA
1 AAACCCAAACTCGGGCCCAAACAA
4850777 AAACCCAAACAT-GGGCCCAAACAA
1 AAACCCAAAC-TCGGGCCCAAACAA
* *
4850801 AAAACCTAACTC
1 AAACCCAAACTC
4850813 AAATCGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 29 0.94
25 1 0.03
ACGTcount: A:0.47, C:0.37, G:0.10, T:0.07
Consensus pattern (24 bp):
AAACCCAAACTCGGGCCCAAACAA
Found at i:4853403 original size:63 final size:65
Alignment explanation
Indices: 4853298--4853422 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 65
4853288 AGTTTGACAG
* * ** *
4853298 TGCTCGATTCGTGCTTCGTTAAAAAATTTTGTTGTTCGACTTG-ATTCGTCGCTCGTTAAAATTT
1 TGCTCGACTCGTGCTTCATTAAAAAAACTTGTTGTTCGACTTGTACTCGTCGCTCGTTAAAATTT
*
4853362 TGCTCGACTCGTGC-TCATTAAAAAAACTTGTTGCTT-GACTTGTTACTCGTTGCTCGTTAAA
1 TGCTCGACTCGTGCTTCATTAAAAAAACTTGTTG-TTCGACTTG-TACTCGTCGCTCGTTAAA
4853423 CTCATTGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
63 22 0.42
64 15 0.29
65 15 0.29
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (65 bp):
TGCTCGACTCGTGCTTCATTAAAAAAACTTGTTGTTCGACTTGTACTCGTCGCTCGTTAAAATTT
Found at i:4856016 original size:31 final size:31
Alignment explanation
Indices: 4855980--4856039 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4855970 TCATAGGAGA
*
4855980 TAGGGGTGTATATTTTTGGATATCTGATAGG
1 TAGGGGTGTATATTTTTGGATATCGGATAGG
*
4856011 TAGGGGTGTATATTTTTGGCTATCGGATA
1 TAGGGGTGTATATTTTTGGATATCGGATA
4856040 TTATTCAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.42
Consensus pattern (31 bp):
TAGGGGTGTATATTTTTGGATATCGGATAGG
Found at i:4857312 original size:3 final size:3
Alignment explanation
Indices: 4857306--4857330 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4857296 GATGATGATG
4857306 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4857331 ATATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4857930 original size:16 final size:14
Alignment explanation
Indices: 4857896--4857934 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
4857886 TTTTTAAAAA
4857896 TTTATTTATTATTAT
1 TTTATTT-TTATTAT
4857911 TTTATTTTTAATTCAT
1 TTTATTTTT-ATT-AT
4857927 TTTATTTT
1 TTTATTTT
4857935 AATAATTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 10 0.45
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTTATTAT
Found at i:4860022 original size:24 final size:25
Alignment explanation
Indices: 4859994--4860042 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4859984 TTTAAAATAG
4859994 ATTAAA-TATAAAAATACTAAAAAA
1 ATTAAATTATAAAAATACTAAAAAA
* * *
4860018 ATTAAATTATTAAATTATTAAAAAA
1 ATTAAATTATAAAAATACTAAAAAA
4860043 CCAGTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
ATTAAATTATAAAAATACTAAAAAA
Found at i:4860039 original size:25 final size:24
Alignment explanation
Indices: 4859985--4860042 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4859975 CTAATTATAT
*
4859985 TTAAAATAGATTAAATATAAAAATA
1 TTAAAA-AAATTAAATATAAAAATA
* * *
4860010 CTAAAAAAATTAAATTATTAAATTA
1 TTAAAAAAATTAAA-TATAAAAATA
4860035 TTAAAAAA
1 TTAAAAAA
4860043 CCAGTTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
TTAAAAAAATTAAATATAAAAATA
Found at i:4861753 original size:55 final size:55
Alignment explanation
Indices: 4861692--4861851 Score: 248
Period size: 55 Copynumber: 2.9 Consensus size: 55
4861682 CTATACGGAA
* *
4861692 ATTCATCAACTCATGATGAATTTCGTGAATATGCACACGAAGTGTCTGTACGGTG
1 ATTCATCAACTTATGATGAATTTCGTGATTATGCACACGAAGTGTCTGTACGGTG
* * * * *
4861747 ATTCATCAACTTATGATGAATTCCATTATTATGCACATGAAGTGTATGTACGGTG
1 ATTCATCAACTTATGATGAATTTCGTGATTATGCACACGAAGTGTCTGTACGGTG
*
4861802 ATTCATCAACTTATGATGAATTTCGTGATTATGCACACGAAGTGCCTGTA
1 ATTCATCAACTTATGATGAATTTCGTGATTATGCACACGAAGTGTCTGTA
4861852 ACACCCTCAA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (55 bp):
ATTCATCAACTTATGATGAATTTCGTGATTATGCACACGAAGTGTCTGTACGGTG
Found at i:4862467 original size:23 final size:23
Alignment explanation
Indices: 4862435--4862493 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 23
4862425 CTCGTATAAA
* *
4862435 TGCACTGAAGTGCCACTTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
4862458 TGCACCGAAGTG-C-CGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
4862479 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
4862494 TATAAGATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 18 0.58
22 2 0.06
23 11 0.35
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:4862750 original size:30 final size:31
Alignment explanation
Indices: 4862716--4862774 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
4862706 TATTGTATAG
4862716 ACATATAAT-TTCCAT-ACCTTTATCACATGA
1 ACATATAATGTTCCATCA-CTTTATCACATGA
*
4862746 ACATATCATGTTCCATCACTTTATCACAT
1 ACATATAATGTTCCATCACTTTATCACAT
4862775 AGCTTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 17 0.65
32 1 0.04
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.37
Consensus pattern (31 bp):
ACATATAATGTTCCATCACTTTATCACATGA
Found at i:4863787 original size:3 final size:3
Alignment explanation
Indices: 4863779--4863815 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
4863769 GTCTCACGGG
*
4863779 GAA GAA GAA GATA GAA GAA GAA GAA GAA GAA AAA GAA
1 GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA
4863816 AAATTTGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:4864121 original size:55 final size:55
Alignment explanation
Indices: 4864055--4864284 Score: 316
Period size: 55 Copynumber: 4.2 Consensus size: 55
4864045 AGGATGCTAC
*
4864055 AGTGCCTGTACGGTGATTCATTAACTTATGATGAATTCCGTGATTATGCACACGA
1 AGTGCCTGTACGGTGATTCATCAACTTATGATGAATTCCGTGATTATGCACACGA
* * * **
4864110 AGTGCCTGTACGGTGATTCATCAACCTATGATGAGTTCCTTGATTATGCACTTGA
1 AGTGCCTGTACGGTGATTCATCAACTTATGATGAATTCCGTGATTATGCACACGA
* * * **
4864165 AGTGCATATACGATGATTCATCAACTTATGATGAATTCTATGATTATGCACACGA
1 AGTGCCTGTACGGTGATTCATCAACTTATGATGAATTCCGTGATTATGCACACGA
* * * *
4864220 AGTGCCTGAACGGTGATTCATTAACTTATGATGAATTCTGTGATTATGCACTCGA
1 AGTGCCTGTACGGTGATTCATCAACTTATGATGAATTCCGTGATTATGCACACGA
*
4864275 AGTACCTGTA
1 AGTGCCTGTA
4864285 GTACACATAG
Statistics
Matches: 151, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 151 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
AGTGCCTGTACGGTGATTCATCAACTTATGATGAATTCCGTGATTATGCACACGA
Found at i:4864664 original size:19 final size:19
Alignment explanation
Indices: 4864627--4864673 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4864617 TTCTATACTA
* **
4864627 TGGTATCGAGACCCCTTTT
1 TGGTATCGATACCAATTTT
4864646 TGGTATCGATACCAATTTT
1 TGGTATCGATACCAATTTT
*
4864665 AGGT-TCGAT
1 TGGTATCGAT
4864674 CTTGCTTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (19 bp):
TGGTATCGATACCAATTTT
Found at i:4866857 original size:2 final size:2
Alignment explanation
Indices: 4866850--4866876 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4866840 CCATAAAAGC
4866850 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4866877 CTTTATGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4868778 original size:27 final size:27
Alignment explanation
Indices: 4868691--4868778 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 27
4868681 TGCCTGTACG
4868691 GTGATTCATCAACTTATGATGAATTCT
1 GTGATTCATCAACTTATGATGAATTCT
* *
4868718 GTGATT-ATGC-AC--ATGAAGTGCATGTACG
1 GTGATTCAT-CAACTTATG-A-TGAAT-T-CT
4868746 GTGATTCATCAACTTATGATGAATTCT
1 GTGATTCATCAACTTATGATGAATTCT
4868773 GTGATT
1 GTGATT
4868779 ATGCACACGA
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
24 3 0.06
25 1 0.02
26 8 0.17
27 15 0.31
28 9 0.19
29 8 0.17
30 1 0.02
31 3 0.06
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (27 bp):
GTGATTCATCAACTTATGATGAATTCT
Found at i:4869018 original size:55 final size:55
Alignment explanation
Indices: 4868584--4869015 Score: 630
Period size: 55 Copynumber: 7.9 Consensus size: 55
4868574 CTATAGGGAA
* * * ** * * *
4868584 ATTCATCAACTCACGGTGAATTCTATGAATATGTACACGAAGTGCATGTACGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
* * *
4868639 ATTCATCAACTTATCATGAATTTCGTTATTATGCACACGAAGTGCCTGTACGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
* * *
4868694 ATTCATCAACTTATGATGAATTCTGTGATTATGCACATGAAGTGCATGTACGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
* *
4868749 ATTCATCAACTTATGATGAATTCTGTGATTATGCACACGAAGTGCCTGTATGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
* * **
4868804 ATTCATCAACTTATGATGAATTCCGTAATTATGCACACGAAGTGCATGTACAATG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
* *
4868859 ATTCATCAACTTATGATGAATTCTGTGATTATGCACACGAAGTGTCTGTACGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
* *
4868914 ATTCATCAACTTATGATGAATTCCATGATTATGCACACGAAGTGCCTATACGGTG
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
* *
4868969 ACTCATCAACTTATGATGAATTCCGTGATTATGTACACGAAGTGCCT
1 ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCT
4869016 ATAGTACAAA
Statistics
Matches: 338, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 338 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
ATTCATCAACTTATGATGAATTCCGTGATTATGCACACGAAGTGCCTGTACGGTG
Found at i:4870056 original size:18 final size:18
Alignment explanation
Indices: 4870033--4870078 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
4870023 TTTGGGAGCT
4870033 ATGGAGGAAGCTTATGAC
1 ATGGAGGAAGCTTATGAC
4870051 ATGGAGGAAGCTTATGAC
1 ATGGAGGAAGCTTATGAC
* *
4870069 GTGAAGGAAG
1 ATGGAGGAAG
4870079 AAGAAGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.37, T:0.20
Consensus pattern (18 bp):
ATGGAGGAAGCTTATGAC
Found at i:4870692 original size:98 final size:97
Alignment explanation
Indices: 4870520--4870709 Score: 292
Period size: 98 Copynumber: 1.9 Consensus size: 97
4870510 CAGTAGTTAA
* * *
4870520 ATAAAAACATTTTTTCTATTTAAACTTTAAAATTCTAATAAAAAATCGTGTACTGTGTAAAAAAG
1 ATAAAAACAATTTTTCTATTAAAACTTTAAAATTCTAATAAAAAATCATGTACTGTGTAAAAAAG
* *
4870585 TTGTCTTGAAATTTAAAATTAAAGAAAAATTGG
66 TTCTATTGAAATTTAAAA-TAAAGAAAAATTGG
* *
4870618 ATAAAAATAATTTTTCTATTAAAACTTTAAAATTCTAATAAAAATTCATGT-CATGTGTAAAAAA
1 ATAAAAACAATTTTTCTATTAAAACTTTAAAATTCTAATAAAAAATCATGTAC-TGTGTAAAAAA
4870682 GTTCTATTGAAATTTAAAATAAAGAAAA
65 GTTCTATTGAAATTTAAAATAAAGAAAA
4870710 GTGGGATTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
97 10 0.12
98 74 0.88
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.36
Consensus pattern (97 bp):
ATAAAAACAATTTTTCTATTAAAACTTTAAAATTCTAATAAAAAATCATGTACTGTGTAAAAAAG
TTCTATTGAAATTTAAAATAAAGAAAAATTGG
Found at i:4872699 original size:31 final size:31
Alignment explanation
Indices: 4872656--4872719 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
4872646 TAATGACAAC
* * *
4872656 ATCTTAATTAAATAAAAATGAAAGTGATCAA
1 ATCTTAAATAAATAAAAAGGAAAGTGACCAA
4872687 ATCTTAAATAAATAAAAAGGAAAGTGACCAA
1 ATCTTAAATAAATAAAAAGGAAAGTGACCAA
4872718 AT
1 AT
4872720 ATTATGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (31 bp):
ATCTTAAATAAATAAAAAGGAAAGTGACCAA
Found at i:4872736 original size:14 final size:14
Alignment explanation
Indices: 4872717--4872744 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4872707 AAAGTGACCA
4872717 AATATTATGTTTTT
1 AATATTATGTTTTT
4872731 AATATTATGTTTTT
1 AATATTATGTTTTT
4872745 TTTTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
AATATTATGTTTTT
Found at i:4873000 original size:60 final size:60
Alignment explanation
Indices: 4872913--4873106 Score: 180
Period size: 60 Copynumber: 3.2 Consensus size: 60
4872903 TTGTATTATG
* * * * * * *
4872913 CATCTTCAAATTATGACTCTTATTCTAAGTTAGTC-CCTAAAGTTTTAAATATTTCAATTT
1 CATCCTCAAACTATGACTATCATTCTAAATTAGTCATC-AAACTTTTAAATATTTCAATTT
* * *
4872973 CATCCTTAAACTATGACTATCATTCTAAATTAGTCATCAAACTTTTGAATATTTCATTTT
1 CATCCTCAAACTATGACTATCATTCTAAATTAGTCATCAAACTTTTAAATATTTCAATTT
** * * * *
4873033 CATCCTCAAACTATGAC-ATTCATTCTAAATT-GATCCCCAAACTTTTTGAACACTTGAATTT
1 CATCCTCAAACTATGACTA-TCATTCTAAATTAG-TCATCAAAC-TTTTAAATATTTCAATTT
4873094 CATCC-CAAACTAT
1 CATCCTCAAACTAT
4873107 ACGTATATAT
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 2 0.02
60 91 0.81
61 20 0.18
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (60 bp):
CATCCTCAAACTATGACTATCATTCTAAATTAGTCATCAAACTTTTAAATATTTCAATTT
Found at i:4873821 original size:22 final size:23
Alignment explanation
Indices: 4873782--4873827 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4873772 TATTTATATA
*
4873782 ATTTTATAAACTTAATAATATTT
1 ATTTTATAAACTTAATAAAATTT
* *
4873805 ATTTTTTAAAC-TCATAAAATTT
1 ATTTTATAAACTTAATAAAATTT
4873827 A
1 A
4873828 AATGGTCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTTATAAACTTAATAAAATTT
Found at i:4875657 original size:19 final size:19
Alignment explanation
Indices: 4875633--4875678 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
4875623 AAATTTGGTT
*
4875633 TTTATATTAATTCCAATTC
1 TTTATATTAATTACAATTC
* *
4875652 TTTATATTATTTATAATTC
1 TTTATATTAATTACAATTC
4875671 -TTATATTA
1 TTTATATTA
4875679 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATTAATTACAATTC
Found at i:4875692 original size:13 final size:14
Alignment explanation
Indices: 4875658--4875694 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
4875648 ATTCTTTATA
4875658 TTATTTAT-AATTC
1 TTATTTATAAATTC
4875671 TTATATTATAAATT-
1 TTAT-TTATAAATTC
4875685 TTATTTATAA
1 TTATTTATAA
4875695 TCACTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:4876302 original size:23 final size:23
Alignment explanation
Indices: 4876272--4876322 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4876262 TAGCAACCGA
*
4876272 CAAGCATCAATGTACCAATTCAG
1 CAAGCATCAATGCACCAATTCAG
* * *
4876295 CAAGCATCATTGCATCAATTTAG
1 CAAGCATCAATGCACCAATTCAG
4876318 CAAGC
1 CAAGC
4876323 GTCCTGCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (23 bp):
CAAGCATCAATGCACCAATTCAG
Found at i:4876443 original size:20 final size:20
Alignment explanation
Indices: 4876418--4876455 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4876408 AACCCTTACA
*
4876418 AATATCAAGTAGAAGCAAGC
1 AATATCAAATAGAAGCAAGC
4876438 AATATCAAATAGAAGCAA
1 AATATCAAATAGAAGCAA
4876456 TATCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (20 bp):
AATATCAAATAGAAGCAAGC
Found at i:4876583 original size:180 final size:180
Alignment explanation
Indices: 4876277--4876635 Score: 673
Period size: 180 Copynumber: 2.0 Consensus size: 180
4876267 ACCGACAAGC
*
4876277 ATCAATGTACCAATTCAGCAAGCATCATTGCATCAATTTAGCAAGCGTCCTGCATTAAGAAAGTA
1 ATCAATGTACCAATTCAGCAAGCATCATTGCATCAATTTAGCAAGCGTCCTGCATTAAGAAAGCA
* *
4876342 TACAATCAGTGGTAAAGCCAAAGGGAATTCGATGGCCAACAGTGCCAAACATTTTCGACTTTACC
66 TACAATCAATGGTAAAGCCAAAGGGAATTCGATGGCCAACAGTGCCAAACATTTCCGACTTTACC
*
4876407 AAACCCTTACAAATATCAAGTAGAAGCAAGCAATATCAAATAGAAGCAAT
131 AAACCCTTACAAATATCAAGTAGAAGCAAGCAATATCAAACAGAAGCAAT
*
4876457 ATCAATGTACCAATTCAGCAAGCATCATTGCATCAATTTAGCAAGTGTCCTGCATTAAGAAAGCA
1 ATCAATGTACCAATTCAGCAAGCATCATTGCATCAATTTAGCAAGCGTCCTGCATTAAGAAAGCA
4876522 TACAATCAATGGTAAAGCCAAAGGGAATTCGATGGCCAACAGTGCCAAACATTTCCGACTTTACC
66 TACAATCAATGGTAAAGCCAAAGGGAATTCGATGGCCAACAGTGCCAAACATTTCCGACTTTACC
4876587 AAACCCTTACAAATATCAAGTAGAAGCAAGCAATATCAAACAGAAGCAA
131 AAACCCTTACAAATATCAAGTAGAAGCAAGCAATATCAAACAGAAGCAA
4876636 AAACAGAATC
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 174 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (180 bp):
ATCAATGTACCAATTCAGCAAGCATCATTGCATCAATTTAGCAAGCGTCCTGCATTAAGAAAGCA
TACAATCAATGGTAAAGCCAAAGGGAATTCGATGGCCAACAGTGCCAAACATTTCCGACTTTACC
AAACCCTTACAAATATCAAGTAGAAGCAAGCAATATCAAACAGAAGCAAT
Found at i:4876623 original size:20 final size:20
Alignment explanation
Indices: 4876598--4876635 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4876588 AACCCTTACA
**
4876598 AATATCAAGTAGAAGCAAGC
1 AATATCAAACAGAAGCAAGC
4876618 AATATCAAACAGAAGCAA
1 AATATCAAACAGAAGCAA
4876636 AAACAGAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAGC
Found at i:4876847 original size:21 final size:21
Alignment explanation
Indices: 4876822--4876870 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4876812 AAAACACCCT
*
4876822 AAATATTTAA-AAGATAAATTA
1 AAATATTTAATAA-ACAAATTA
* *
4876843 AAATAATTAATAAACAATTTA
1 AAATATTTAATAAACAAATTA
4876864 AAATATT
1 AAATATT
4876871 AATGACATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATATTTAATAAACAAATTA
Found at i:4881915 original size:19 final size:19
Alignment explanation
Indices: 4881879--4882007 Score: 170
Period size: 19 Copynumber: 6.6 Consensus size: 19
4881869 ACGCGTTTGC
4881879 CAAATTCGCAACACTGAATTT
1 CAAATTCGC-A-ACTGAATTT
4881900 CAAATTCGCAACTGAATTT
1 CAAATTCGCAACTGAATTT
4881919 CAAATTCGCAACTGAATTT
1 CAAATTCGCAACTGAATTT
*
4881938 CAAATTCGTAACTGAATTT
1 CAAATTCGCAACTGAATTT
*
4881957 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACT-GAATTT
* *
4881977 CGAATTCGCAACACGAATTT
1 CAAATTCGCAAC-TGAATTT
*
4881997 -AATTTCGCAAC
1 CAAATTCGCAAC
4882008 AGGTTTTAGT
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
19 67 0.68
20 22 0.22
21 9 0.09
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (19 bp):
CAAATTCGCAACTGAATTT
Done.