Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 51
Found at i:3938613 original size:47 final size:47
Alignment explanation
Indices: 3938558--3938654 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
3938548 TAATTTAAAG
*
3938558 AAGTATTATTTTCTCGTAAGATGATAAATTCAAATAATTATATTTAT
1 AAGTATTATTTTCTCGTAAGATCATAAATTCAAATAATTATATTTAT
*
3938605 AAGTATTATTTTCTCTTAAGATCATAAATTCAAATAATTATATTTAT
1 AAGTATTATTTTCTCGTAAGATCATAAATTCAAATAATTATATTTAT
3938652 AAG
1 AAG
3938655 ATGTGTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (47 bp):
AAGTATTATTTTCTCGTAAGATCATAAATTCAAATAATTATATTTAT
Found at i:3940741 original size:23 final size:23
Alignment explanation
Indices: 3940715--3940769 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
3940705 ACCCTTATTG
*
3940715 GGGACAAAAGTGTTACGTCTTAA
1 GGGACAAAAGTGTTACATCTTAA
3940738 GGGACAAAAGTGTTACATCTTAA
1 GGGACAAAAGTGTTACATCTTAA
*
3940761 GAGACAAAA
1 GGGACAAAA
3940770 AACATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.22
Consensus pattern (23 bp):
GGGACAAAAGTGTTACATCTTAA
Found at i:3942563 original size:18 final size:18
Alignment explanation
Indices: 3942540--3942577 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
3942530 AATCAAATAA
3942540 AATAAAGAGAAAAAA-AAC
1 AATAAAGA-AAAAAAGAAC
3942558 AATAAAGAAAAAAAGAAC
1 AATAAAGAAAAAAAGAAC
3942576 AA
1 AA
3942578 AATAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (18 bp):
AATAAAGAAAAAAAGAAC
Found at i:3942596 original size:15 final size:15
Alignment explanation
Indices: 3942566--3942606 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
3942556 ACAATAAAGA
* *
3942566 AAAAAAGAACAAAAT
1 AAAAATGAAAAAAAT
*
3942581 AATAATGAAAAAAAT
1 AAAAATGAAAAAAAT
3942596 AAAAATGAAAA
1 AAAAATGAAAA
3942607 TATATAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (15 bp):
AAAAATGAAAAAAAT
Found at i:3942895 original size:22 final size:20
Alignment explanation
Indices: 3942870--3942919 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
3942860 ATATATATAA
* *
3942870 ATAAAAATATTAGGTAAAAAT
1 ATAAAAATAATA-ATAAAAAT
3942891 CATAAAAAATAATAATAAAAAT
1 -AT-AAAAATAATAATAAAAAT
3942913 ATAAAAA
1 ATAAAAA
3942920 GAAAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 2 0.08
22 9 0.36
23 9 0.36
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
ATAAAAATAATAATAAAAAT
Found at i:3942931 original size:21 final size:22
Alignment explanation
Indices: 3942885--3942931 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
3942875 AATATTAGGT
* *
3942885 AAAAATCATAAAAAATAATAAT
1 AAAAATCATAAAAAATAAAAAG
3942907 AAAAAT-ATAAAAAGA-AAAAAG
1 AAAAATCATAAAAA-ATAAAAAG
3942928 AAAA
1 AAAA
3942932 CAAAAACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAAATCATAAAAAATAAAAAG
Found at i:3942988 original size:14 final size:13
Alignment explanation
Indices: 3942969--3943015 Score: 50
Period size: 9 Copynumber: 3.9 Consensus size: 13
3942959 GATATAGTAT
3942969 TAAATAAGTAAAAA
1 TAAATAA-TAAAAA
3942983 TAAATAAT-AAAA
1 TAAATAATAAAAA
3942995 T--AT-AT-AAAA
1 TAAATAATAAAAA
3943004 TAAATAATAAAA
1 TAAATAATAAAA
3943016 TATATACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
9 7 0.24
10 2 0.07
11 2 0.07
12 7 0.24
13 4 0.14
14 7 0.24
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:3942993 original size:21 final size:21
Alignment explanation
Indices: 3942979--3943021 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3942969 TAAATAAGTA
3942979 AAAATAAATAATAAAATATAT
1 AAAATAAATAATAAAATATAT
3943000 AAAATAAATAATAAAATATAT
1 AAAATAAATAATAAAATATAT
3943021 A
1 A
3943022 CATATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATAAATAATAAAATATAT
Found at i:3943110 original size:6 final size:6
Alignment explanation
Indices: 3943101--3943176 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
3943091 AAAAAGAAAT
* * * *
3943101 AAATAA AAATAA AAA-AA AAATAA TAATAA TAATAA TAGTAAA AAACTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAA-TAA
* *
3943150 AAATAAA AAATAG TAA-AA AAATAA AAA
1 AAAT-AA AAATAA AAATAA AAATAA AAA
3943177 AAATATATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
5 8 0.14
6 34 0.60
7 14 0.25
8 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:3943131 original size:26 final size:26
Alignment explanation
Indices: 3943097--3943181 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
3943087 AAAGAAAAAG
3943097 AAATAAATAAAAATAAAAAAAAAATAA
1 AAAT-AATAAAAATAAAAAAAAAATAA
* * ** *
3943124 TAATAATAATAATAGTAAAAAACTAA
1 AAATAATAAAAATAAAAAAAAAATAA
**
3943150 AAAT-A-AAAAATAGTAAAAAAATAA
1 AAATAATAAAAATAAAAAAAAAATAA
*
3943174 AAAAAATA
1 AAATAATA
3943182 TATATGTATA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 20 0.43
25 2 0.04
26 22 0.47
27 3 0.06
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (26 bp):
AAATAATAAAAATAAAAAAAAAATAA
Found at i:3943179 original size:9 final size:9
Alignment explanation
Indices: 3943086--3943181 Score: 54
Period size: 9 Copynumber: 10.7 Consensus size: 9
3943076 AATATTAGGG
*
3943086 AAAAGAAAA
1 AAAATAAAA
3943095 AGAAATAAATA
1 A-AAATAAA-A
3943106 AAAATAAAA
1 AAAATAAAA
*
3943115 AAAA-AATA
1 AAAATAAAA
* *
3943123 ATAATAATA
1 AAAATAAAA
* **
3943132 ATAATAGTA
1 AAAATAAAA
**
3943141 AAAA-ACTA
1 AAAATAAAA
3943149 AAAATAAAA
1 AAAATAAAA
*
3943158 AATAGT-AAA
1 AA-AATAAAA
3943167 AAAATAAAA
1 AAAATAAAA
3943176 AAAATA
1 AAAATA
3943182 TATATGTATA
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
8 15 0.21
9 39 0.55
10 15 0.21
11 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (9 bp):
AAAATAAAA
Found at i:3947883 original size:23 final size:24
Alignment explanation
Indices: 3947856--3947906 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
3947846 AAAAAGTTTC
3947856 AAAAGA-AGAAGAAAA-TGTGTTAT
1 AAAAGATAG-AGAAAAGTGTGTTAT
3947879 AAAAGATAGAGAAAAGTGTGTTAT
1 AAAAGATAGAGAAAAGTGTGTTAT
3947903 AAAA
1 AAAA
3947907 ACAATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (24 bp):
AAAAGATAGAGAAAAGTGTGTTAT
Found at i:3948325 original size:13 final size:14
Alignment explanation
Indices: 3948297--3948326 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3948287 TGGTTAATGA
3948297 TTTTAAAGTAATTT
1 TTTTAAAGTAATTT
*
3948311 TTTTAAATTAATTT
1 TTTTAAAGTAATTT
3948325 TT
1 TT
3948327 AATAATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTAAAGTAATTT
Found at i:3949190 original size:24 final size:24
Alignment explanation
Indices: 3949156--3949262 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
3949146 AAACGGAGAT
* *
3949156 ATCAGAAATCAAAATATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
3949180 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
3949204 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
3949228 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
3949252 ATCAGAAATCA
1 ATCAGAAATCA
3949263 GATAAAATAT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:3949262 original size:48 final size:48
Alignment explanation
Indices: 3949156--3949264 Score: 110
Period size: 48 Copynumber: 2.3 Consensus size: 48
3949146 AAACGGAGAT
* * * * *
3949156 ATCAGAAATCAAAATATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
3949204 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
3949252 ATCAGAAATCAGA
1 ATCAGAAATCAGA
3949265 TAAAATATTC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:3950413 original size:18 final size:18
Alignment explanation
Indices: 3950392--3950427 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3950382 CTTCCATCCG
*
3950392 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
3950410 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
3950428 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:3951773 original size:18 final size:18
Alignment explanation
Indices: 3951750--3951819 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
3951740 ACGGGTCAAC
3951750 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
3951768 GGTCAA-----CGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
3951781 GGTAAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTCG
3951799 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
3951817 GGT
1 GGT
3951820 TGTGACTGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 12 0.28
18 31 0.72
ACGTcount: A:0.13, C:0.19, G:0.50, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:3951777 original size:13 final size:13
Alignment explanation
Indices: 3951761--3951796 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3951751 GTCAACGGGT
*
3951761 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
3951774 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
3951787 CGGGTCGGGT
1 CGGGTCGGGT
3951797 TGGGTCAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.50, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:3954051 original size:48 final size:48
Alignment explanation
Indices: 3953946--3954053 Score: 110
Period size: 48 Copynumber: 2.3 Consensus size: 48
3953936 AAACGGAGAT
* * * *
3953946 ATCAGAAATCA-AATATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
3953993 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
3954041 ATCAGAAATCAGA
1 ATCAGAAATCAGA
3954054 TAAAATATTC
Statistics
Matches: 46, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
47 8 0.17
48 38 0.83
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:3955201 original size:18 final size:18
Alignment explanation
Indices: 3955180--3955215 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3955170 CTTCCATCCG
*
3955180 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
3955198 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
3955216 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:3956560 original size:18 final size:18
Alignment explanation
Indices: 3956537--3956606 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
3956527 ACGGGTCAAC
3956537 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
3956555 GGTCAA-----CGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
3956568 GGTAAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTCG
3956586 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
3956604 GGT
1 GGT
3956607 TGTGACTGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 12 0.28
18 31 0.72
ACGTcount: A:0.13, C:0.19, G:0.50, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:3956564 original size:13 final size:13
Alignment explanation
Indices: 3956548--3956583 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3956538 GTCAACGGGT
*
3956548 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
3956561 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
3956574 CGGGTCGGGT
1 CGGGTCGGGT
3956584 TGGGTCAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.50, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:3964829 original size:3 final size:3
Alignment explanation
Indices: 3964823--3964931 Score: 155
Period size: 3 Copynumber: 35.7 Consensus size: 3
3964813 TCATTTAAAT
** *
3964823 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
3964871 TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
3964917 TATA TTA TTA TTA TT
1 T-TA TTA TTA TTA TT
3964932 TAATAAATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
3 88 0.94
4 6 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3966268 original size:18 final size:18
Alignment explanation
Indices: 3966232--3966271 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
3966222 AGTAGTATTT
**
3966232 ATATTTTTATATTGTTAA
1 ATATTTTTATATTCATAA
3966250 ATATTTTTATATTCATAA
1 ATATTTTTATATTCATAA
3966268 ATAT
1 ATAT
3966272 ATAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATTTTTATATTCATAA
Found at i:3971637 original size:18 final size:19
Alignment explanation
Indices: 3971611--3971652 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
3971601 ACTCATCCAG
*
3971611 CAAAGAAAAAAAT-AGAAA
1 CAAAAAAAAAAATAAGAAA
*
3971629 C-AAAAAAAAAATAATAAA
1 CAAAAAAAAAAATAAGAAA
3971647 CAAAAA
1 CAAAAA
3971653 GGAAAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 6 0.30
19 4 0.20
ACGTcount: A:0.81, C:0.07, G:0.05, T:0.07
Consensus pattern (19 bp):
CAAAAAAAAAAATAAGAAA
Found at i:3971638 original size:17 final size:18
Alignment explanation
Indices: 3971611--3971652 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
3971601 ACTCATCCAG
3971611 CAAAGAAAAAAAT-AGAAA
1 CAAA-AAAAAAATAAGAAA
*
3971629 CAAAAAAAAAATAATAAA
1 CAAAAAAAAAATAAGAAA
3971647 CAAAAA
1 CAAAAA
3971653 GGAAAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.81, C:0.07, G:0.05, T:0.07
Consensus pattern (18 bp):
CAAAAAAAAAATAAGAAA
Found at i:3975123 original size:74 final size:74
Alignment explanation
Indices: 3975025--3975193 Score: 193
Period size: 74 Copynumber: 2.3 Consensus size: 74
3975015 CATCTGTATT
* * * *
3975025 AGCAAATATT-GGGTATGCTG-AAACCCTTTTCAAACAGAATCAGAAATGTTGAAATATTCTGAA
1 AGCAAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATT-TGAA
*
3975088 TA-TT-TATC
65 CACTTATATC
* * **
3975096 AGCAAAATGTTGGGGCATGCTGAAAACCCATTTCAATCAGAATCAGAACTGTTGATGCATTTGAA
1 AGC-AAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTTGAA
*
3975161 CACTTATATT
65 CACTTATATC
*
3975171 AGCCAATGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
3975194 GGCCCACAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
71 3 0.04
72 6 0.07
73 14 0.17
74 53 0.65
75 6 0.07
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (74 bp):
AGCAAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTTGAAC
ACTTATATC
Found at i:3976044 original size:52 final size:53
Alignment explanation
Indices: 3975977--3976084 Score: 148
Period size: 53 Copynumber: 2.1 Consensus size: 53
3975967 AATGTTTGAT
* **
3975977 AACATCTGAGTAGAAGCCA-A-AAAAAAATGAATGTGTTGTCAAATGTTTTACG
1 AACATCTGAGCAGAAGCCACAGAAAAAAATGAATG-CCTGTCAAATGTTTTACG
* *
3976029 AACATCTGAGCAGAAGCCACAGGAAAAGATGAATGCCTGTCAAATGTTTTACG
1 AACATCTGAGCAGAAGCCACAGAAAAAAATGAATGCCTGTCAAATGTTTTACG
3976082 AAC
1 AAC
3976085 CTGCTATTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 18 0.37
53 20 0.41
54 11 0.22
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (53 bp):
AACATCTGAGCAGAAGCCACAGAAAAAAATGAATGCCTGTCAAATGTTTTACG
Found at i:3976471 original size:22 final size:22
Alignment explanation
Indices: 3976440--3976494 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
3976430 ATCTACACTC
*
3976440 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
3976462 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
3976484 TTCAAAGATGA
1 TTCAAAGATGA
3976495 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:3977695 original size:76 final size:76
Alignment explanation
Indices: 3977150--3978167 Score: 1623
Period size: 75 Copynumber: 13.4 Consensus size: 76
3977140 CTATTTCCCA
3977150 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977214 AGCCTTCGGGT
66 AGCCTTCGGGT
3977225 CATCTGTAAGTCCTTCA-TGC---ATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977285 AGCCTTCGGGT
66 AGCCTTCGGGT
3977296 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977360 AGCCTTCGGGT
66 AGCCTTCGGGT
*
3977371 CATCTGTAAGTCC-TCAGTGCATGATGTTTCCAAAAAGCCTTCCGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977434 AGCCTTCGGGT
66 AGCCTTCGGGT
3977445 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977510 AGCCTTC-GGT
66 AGCCTTCGGGT
*
3977520 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCCGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977584 AGCCTTCGGGT
66 AGCCTTCGGGT
3977595 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977660 AGCCTTCGGGT
66 AGCCTTCGGGT
3977671 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977735 AGCCTTCGGGT
66 AGCCTTCGGGT
3977746 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3977810 ATCCTTCGGGT
66 AGCCTTCGGGT
3977821 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977886 AGCCTTCGGGT
66 AGCCTTCGGGT
*
3977897 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3977962 AGCCTTCGGGT
66 AGCCTTCGGGT
********* *
3977973 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAAAAAAAAAAAAAAACCTTCGGGAGCTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-----AAAAAGCCTTCGGGAGCTT-------TT
* *
3978038 TTTGATCTTTTCAAAGCCTTCGGGT
54 TG--ATGTTTTCAAAGCCTTCGGGT
* * * *
3978063 CATCTATAAGTCCTTCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGC-TTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3978127 AACCTTCGGGT
66 AGCCTTCGGGT
3978138 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
3978168 TCAACATTCC
Statistics
Matches: 881, Mismatches: 36, Indels: 52
0.91 0.04 0.05
Matches are distributed among these distances:
71 68 0.08
72 3 0.00
73 8 0.01
74 89 0.10
75 404 0.46
76 235 0.27
77 3 0.00
81 9 0.01
84 1 0.00
85 8 0.01
88 3 0.00
90 50 0.06
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:3977757 original size:226 final size:227
Alignment explanation
Indices: 3977150--3978167 Score: 1716
Period size: 226 Copynumber: 4.5 Consensus size: 227
3977140 CTATTTCCCA
3977150 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
3977215 GCCTTCGGGTCATCTGTAAGTCCTTCA-TGC---ATGTTTCCAAAAAGCCTTCGGGAGC-TTTTG
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
3977275 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
131 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
3977340 GGAGCTTTTTGATG-TTTCAAAGCCTTCGGGT
196 GGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
3977371 CATCTGTAAGTCC-TCAGTGCATGATGTTTCCAAAAAGCCTTCCGGAGCTTTTGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
3977435 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
*
3977500 ATGTTTTCAAAGCCTTC-GGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCC
131 ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
3977564 GGAGC-TTTTGATGTTTTCAAAGCCTTCGGGT
196 GGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
3977595 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
3977660 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTT
65 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
3977724 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
130 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
*
3977789 GGGAGC-TTTTGATGTTTTCAAATCCTTCGGGT
195 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
3977821 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
*
3977886 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
65 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
3977951 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAAAAAA
130 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-----------
* *
3978016 AAAAAAAAACCTTCGGGAGCTTTTTGATCTTTTCAAAGCCTTCGGGT
184 ---AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* * * *
3978063 CATCTATAAGTCCTTCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTAATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
*
3978128 ACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
3978168 TCAACATTCC
Statistics
Matches: 757, Mismatches: 15, Indels: 30
0.94 0.02 0.04
Matches are distributed among these distances:
220 77 0.10
221 16 0.02
223 8 0.01
224 106 0.14
225 84 0.11
226 263 0.35
227 64 0.08
241 69 0.09
242 70 0.09
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (227 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
GGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:3978082 original size:90 final size:90
Alignment explanation
Indices: 3977929--3978099 Score: 306
Period size: 90 Copynumber: 1.9 Consensus size: 90
3977919 TGATGTTTCC
* * *
3977929 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGC
1 AAAAAACCTTCGGGAGCTTTTTGATCTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGC
*
3977994 ATGATGTTTCCAAAAAAAAAAAAAA
66 ATGATATTTCCAAAAAAAAAAAAAA
3978019 AAAAAACCTTCGGGAGCTTTTTGATCTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGC
1 AAAAAACCTTCGGGAGCTTTTTGATCTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGC
3978084 ATGATATTTCCAAAAA
66 ATGATATTTCCAAAAA
3978100 GCCTTCAGGA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (90 bp):
AAAAAACCTTCGGGAGCTTTTTGATCTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGC
ATGATATTTCCAAAAAAAAAAAAAA
Found at i:3978301 original size:3 final size:3
Alignment explanation
Indices: 3978295--3978399 Score: 151
Period size: 3 Copynumber: 35.7 Consensus size: 3
3978285 TCATTTAAAT
** *
3978295 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA GTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
3978342 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA ATA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3978389 TTA TTA TTA TT
1 TTA TTA TTA TT
3978400 TAATAAATAA
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
2 4 0.04
3 86 0.96
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3978520 original size:3 final size:3
Alignment explanation
Indices: 3978512--3978614 Score: 156
Period size: 3 Copynumber: 35.0 Consensus size: 3
3978502 TCATTTAAAT
** *
3978512 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
3978560 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA ATA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3978606 TTA TTA TTA
1 TTA TTA TTA
3978615 ATAAATAATT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 4 0.04
3 86 0.96
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3979917 original size:16 final size:17
Alignment explanation
Indices: 3979885--3979918 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3979875 GTATTTATAT
*
3979885 TTTTATATTGTTAAATA
1 TTTTATATTGCTAAATA
3979902 TTTTATATT-CTAAATA
1 TTTTATATTGCTAAATA
3979918 T
1 T
3979919 ATAATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATATTGCTAAATA
Found at i:3983640 original size:31 final size:31
Alignment explanation
Indices: 3983594--3983652 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3983584 GACTAATTTT
3983594 TAATTTGACCATTGAACTATAGATAAAACAC
1 TAATTTGACCATTGAACTATAGATAAAACAC
* * * *
3983625 TAATTTGGCCTTTGAACTTTGGATAAAA
1 TAATTTGACCATTGAACTATAGATAAAA
3983653 TGTCAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (31 bp):
TAATTTGACCATTGAACTATAGATAAAACAC
Found at i:3991329 original size:13 final size:13
Alignment explanation
Indices: 3991311--3991355 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
3991301 ATGATAAATA
*
3991311 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
3991324 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
3991337 AAACAACTACAAT
1 AAAAAACTACAAT
3991350 AAAAAA
1 AAAAAA
3991356 GTACTAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:3991488 original size:3 final size:3
Alignment explanation
Indices: 3991480--3991523 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
3991470 CTCCTCGCTG
* * *
3991480 TCA TCA TCA TCA CCA TCA TCA TCA TCA TCA TCG TCG TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
3991524 GTCGTCCTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.27, C:0.36, G:0.05, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:3992896 original size:6 final size:6
Alignment explanation
Indices: 3992885--3992911 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3992875 AACAACATGC
3992885 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
3992912 GTAAGACTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:3993635 original size:15 final size:16
Alignment explanation
Indices: 3993613--3993656 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
3993603 ATTTAAATTT
3993613 TATTATTATTATTAAA
1 TATTATTATTATTAAA
*
3993629 T-TTATTATTACTAAA
1 TATTATTATTATTAAA
3993644 TATTATTA-TATTA
1 TATTATTATTATTA
3993657 TATTATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATTATTATTAAA
Found at i:3993655 original size:18 final size:17
Alignment explanation
Indices: 3993606--3993656 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 17
3993596 TTTTTTCATT
*
3993606 TAAATTTTATTATTATTAT
1 TAAA-TTTATTA-TATTAC
3993625 TAAATTTA-T-TATTAC
1 TAAATTTATTATATTAC
3993640 TAAATATTATTATATTA
1 TAAAT-TTATTATATTA
3993657 TATTATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 10 0.36
16 3 0.11
17 2 0.07
18 9 0.32
19 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAATTTATTATATTAC
Found at i:3993660 original size:10 final size:11
Alignment explanation
Indices: 3993643--3993696 Score: 76
Period size: 12 Copynumber: 4.9 Consensus size: 11
3993633 TTATTACTAA
3993643 ATAT-TATTAT
1 ATATATATTAT
3993653 AT-TATATTAT
1 ATATATATTAT
3993663 ATATATATATAT
1 ATATATAT-TAT
3993675 ATATATATATAT
1 ATATATAT-TAT
3993687 ATATATATTA
1 ATATATATTA
3993697 CAAGCCCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
9 1 0.02
10 10 0.24
11 7 0.17
12 23 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATTAT
Found at i:3993667 original size:2 final size:2
Alignment explanation
Indices: 3993650--3993694 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
3993640 TAAATATTAT
3993650 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3993690 TA TA T
1 TA TA T
3993695 TACAAGCCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4002020 original size:82 final size:81
Alignment explanation
Indices: 4001878--4002040 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 81
4001868 CAATTGCTCC
4001878 AACCGTCATCATTCAGTTCTTACACATCTGTTTTCAAAAGTATGCCAAGACAGTAAAGCAACTTC
1 AACCGTCATCATTCAGTTCTTACACATCTGTTTTCAAAAGTATGCCAAGACAGTAAAGCAACTTC
4001943 TGCATCATTGATCCCA
66 TGCATCATTGATCCCA
4001959 AACCGATCATCATTCAGTTCTTACACATCTGTTTTCAAAAGTATGCCAAGACAGTAAAGCAACTT
1 AACCG-TCATCATTCAGTTCTTACACATCTGTTTTCAAAAGTATGCCAAGACAGTAAAGCAACTT
4002024 CTGCATCATTGATCCCA
65 CTGCATCATTGATCCCA
4002041 GAGAAAAGAG
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 5 0.06
82 76 0.94
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (81 bp):
AACCGTCATCATTCAGTTCTTACACATCTGTTTTCAAAAGTATGCCAAGACAGTAAAGCAACTTC
TGCATCATTGATCCCA
Found at i:4002561 original size:72 final size:71
Alignment explanation
Indices: 4002444--4002586 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 71
4002434 GTGTAGTAAG
4002444 ATGAAAATGCTTCGAATCTACAAATTCTGGCTCTACATCGAATAAGTATGTGTGATATTCCAGTC
1 ATGAAAATGCTTCGAATCTACAAATTCTGGCTCTACATCGAATAAGTAT-TGTGATATTCCAGTC
4002509 CAAACAT
65 CAAACAT
4002516 ATGAAAATGCTTCGAATCTACAAATTCTGGCTCTACATCGAATAAGTATTGTGATATTCCAGTCC
1 ATGAAAATGCTTCGAATCTACAAATTCTGGCTCTACATCGAATAAGTATTGTGATATTCCAGTCC
4002581 AAACAT
66 AAACAT
4002587 TAACTGGAAC
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 22 0.31
72 49 0.69
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (71 bp):
ATGAAAATGCTTCGAATCTACAAATTCTGGCTCTACATCGAATAAGTATTGTGATATTCCAGTCC
AAACAT
Found at i:4002811 original size:115 final size:115
Alignment explanation
Indices: 4002609--4003149 Score: 877
Period size: 115 Copynumber: 4.8 Consensus size: 115
4002599 ATGCCATGTG
* *
4002609 CTCAATAACATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
4002674 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
66 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
*
4002724 CTCAATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
4002789 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
66 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
* * *
4002839 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAAACCATAGAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
4002904 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
66 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
4002954 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-AGTATGAAACCACATA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGA-TATGAAACCACATA
*
4003018 ACCAATCATTGGATTT-AAA-A-G-A--TG--AATAGTAGAAATAAGGAGA
65 ACCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
* * * *
4003061 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GGAACTACAGAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
* * *
4003125 CCAATCATTGAAATTGAAAAATGAA
66 CCAATCATTGGATTTGAAAGATGAA
4003150 CTGCATGATC
Statistics
Matches: 405, Mismatches: 15, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
106 22 0.05
107 71 0.18
108 1 0.00
109 3 0.01
110 1 0.00
111 1 0.00
112 1 0.00
113 1 0.00
114 4 0.01
115 300 0.74
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (115 bp):
CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
Found at i:4003088 original size:107 final size:106
Alignment explanation
Indices: 4002936--4003134 Score: 353
Period size: 107 Copynumber: 1.9 Consensus size: 106
4002926 GAATTTGCTC
4002936 ATAGTAGAAATAAGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 ATAGTAGAAATAAGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
*
4003001 TAGTATGAAACCACATAACCAATCATTGGATTTAAAAGATGA
66 TAGTA-GAAACCACAGAACCAATCATTGGATTTAAAAGATGA
4003043 ATAGTAGAAATAAGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 ATAGTAGAAATAAGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
* * *
4003108 TGGTAGGAACTACAGAACCAATCATTG
66 TAGTAGAAACCACAGAACCAATCATTG
4003135 AAATTGAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
106 19 0.22
107 69 0.78
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (106 bp):
ATAGTAGAAATAAGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
TAGTAGAAACCACAGAACCAATCATTGGATTTAAAAGATGA
Found at i:4005648 original size:22 final size:22
Alignment explanation
Indices: 4005619--4005673 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
4005609 ATCTACACTC
4005619 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
4005641 TTTAAAGATGATAGATTTTCTT
1 TTCAAAGATGATAGATTCTCTT
*
4005663 TTCAAAAATGA
1 TTCAAAGATGA
4005674 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:4006508 original size:165 final size:166
Alignment explanation
Indices: 4006188--4006510 Score: 461
Period size: 165 Copynumber: 2.0 Consensus size: 166
4006178 AAAATGAGCA
* *
4006188 TTATCTTTAGATTAGGTCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
1 TTATCTTGAGATTAGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
* ** * *
4006253 ATTTTCATAATTTCTCATTTTATCTTTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
66 ATTTCCATAATTTCTCATTCAATCTTTTTAAAAATGAAATTGTTGAAAAGTAAGAAAACAATTTT
* *
4006318 CTTAGTTTTTTACTTAGTAAACTATTTCTAACAGCC
131 CATAGTTTCTTACTTAGTAAACTATTTCTAACAGCC
* ** * *
4006354 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAATG
1 TTATCTTGAGATTAGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
* * * *
4006417 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGACAAGTACGAAAATAATTT
66 ATTTCCATAATTTCTCATTCAATCTTTT-TAAAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
4006482 TCATAGTTTCTTACTTAGTAAACTATTTC
130 TCATAGTTTCTTACTTAGTAAACTATTTC
4006511 CCACATCTGT
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
164 36 0.26
165 62 0.45
166 40 0.29
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (166 bp):
TTATCTTGAGATTAGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
ATTTCCATAATTTCTCATTCAATCTTTTTAAAAATGAAATTGTTGAAAAGTAAGAAAACAATTTT
CATAGTTTCTTACTTAGTAAACTATTTCTAACAGCC
Found at i:4006642 original size:76 final size:76
Alignment explanation
Indices: 4006514--4006852 Score: 601
Period size: 76 Copynumber: 4.5 Consensus size: 76
4006504 CTATTTCCCA
*
4006514 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4006579 AGCCTTC-GGGT
66 AGCC-TCAGGGT
4006590 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4006655 AGCCTCAGGGT
66 AGCCTCAGGGT
4006666 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4006731 AGCCTCAGGGT
66 AGCCTCAGGGT
* *
4006742 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4006807 AGCCTTC-GGGT
66 AGCC-TCAGGGT
* *
4006818 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
4006853 CATTTCCATC
Statistics
Matches: 256, Mismatches: 5, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
75 2 0.01
76 252 0.98
77 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTCAGGGT
Found at i:4006988 original size:3 final size:3
Alignment explanation
Indices: 4006980--4007029 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
4006970 TTAAATTTTA
* * *
4006980 TAT TAT TAT TA- AAT TAT TAT TACT AAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
4007025 TAT TA
1 TAT TA
4007030 ATATATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 36 0.92
4 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:4007037 original size:2 final size:2
Alignment explanation
Indices: 4007030--4007067 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4007020 ATTATTATTA
4007030 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
4007068 TACAAGCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4008524 original size:11 final size:11
Alignment explanation
Indices: 4008449--4008524 Score: 57
Period size: 11 Copynumber: 6.5 Consensus size: 11
4008439 TTTTCATTTA
4008449 ATTATTATTATT
1 ATTATT-TTATT
4008461 -TTATTTTATT
1 ATTATTTTATT
*
4008471 ATTACTTTTAAT
1 ATTA-TTTTATT
4008483 A-TATGTTTAAATT
1 ATTAT-TTT--ATT
* *
4008496 ATTATCTTCATG
1 ATTAT-TTTATT
4008508 ATTATTTTATT
1 ATTATTTTATT
4008519 ATTATT
1 ATTATT
4008525 ATTAAGTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
10 6 0.12
11 23 0.45
12 14 0.27
13 3 0.06
14 5 0.10
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:4016188 original size:115 final size:115
Alignment explanation
Indices: 4015986--4016517 Score: 848
Period size: 115 Copynumber: 4.8 Consensus size: 115
4015976 ATGCCATGTG
* *
4015986 CTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACATAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAA
4016051 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
66 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
4016101 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAA
*
4016166 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATACGGAGA
66 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
*
4016216 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAAACCACAGAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAA
4016281 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
66 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
4016331 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TT--TATGAAACCACAGAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAA
*
4016393 -C---CATTGGATTTGAAAGATG-A-------ATAGTAGAAATAAGGATA
66 CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
* * *
4016431 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAG-TAT-TGATCTGGTTTGGTA-GGAACTACAGAA
1 CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAA
* *
4016493 CCAATCATTGAAATTGAAAGATGAA
66 CCAATCATTGGATTTGAAAGATGAA
4016518 CTGCATGATC
Statistics
Matches: 398, Mismatches: 11, Indels: 26
0.91 0.03 0.06
Matches are distributed among these distances:
98 8 0.02
99 5 0.01
100 59 0.15
101 3 0.01
104 16 0.04
105 1 0.00
107 1 0.00
108 18 0.05
111 1 0.00
112 15 0.04
114 2 0.01
115 269 0.68
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (115 bp):
CTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAA
CCAATCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGA
Found at i:4018984 original size:21 final size:22
Alignment explanation
Indices: 4018940--4018993 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
4018930 ATCTACACTC
4018940 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
4018962 TTTAAAGATGATAGATT-TCTT
1 TTCAAAGATGATAGATTCTCTT
*
4018983 TTCAAAAATGA
1 TTCAAAGATGA
4018994 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:4020224 original size:76 final size:76
Alignment explanation
Indices: 4019818--4020587 Score: 1208
Period size: 75 Copynumber: 10.4 Consensus size: 76
4019808 ACTATTCCCA
* *
4019818 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGTGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4019882 AGCC-TCGGGT
66 AGCCTTAGGGT
4019892 CATCTGTAAGTCCTTCAG-GCATGATG-TTCCAAAAAGCCTTCGGGAGCTTTTT--T-TTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4019952 AGCCTCAGGGT
66 AGCCTTAGGGT
4019963 CATCTGTAAGTCCTTCAGTGCATG-TGTTTCCAAAAAGCC--CGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4020024 AGCCTCAGGGT
66 AGCCTTAGGGT
* *
4020035 CATCTGTAAGTCCTTCAATGCATGATGTTTCC-AAAAGCC-TCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4020097 AGCCTTCGGGT
66 AGCCTTAGGGT
*
4020108 C-TCTGTAAGCCCTTCAG-GCATGATG-TTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
4020170 AAGCCTTAAGGT
65 AAGCCTTAGGGT
4020182 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4020247 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4020258 CATCAT-TAATTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-
1 CATC-TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
4020321 AAGCCTCAGGGT
65 AAGCCTTAGGGT
4020333 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4020398 AGCCTTAGGGT
66 AGCCTTAGGGT
4020409 CATCTGTAAGT-CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4020472 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4020483 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4020547 AGCCTT-CGGT
66 AGCCTTAGGGT
* * *
4020557 CATCTGTAAGCCCTTCAGTGTATGATTTTTC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTC
4020588 AAACATTTCC
Statistics
Matches: 650, Mismatches: 24, Indels: 44
0.91 0.03 0.06
Matches are distributed among these distances:
70 27 0.04
71 33 0.05
72 98 0.15
73 63 0.10
74 111 0.17
75 180 0.28
76 133 0.20
77 5 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:4020741 original size:15 final size:16
Alignment explanation
Indices: 4020721--4020757 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
4020711 TTAAATTTTA
*
4020721 TATTATTATTAAAT-T
1 TATTATTACTAAATAT
4020736 TATTATTACTAAATAT
1 TATTATTACTAAATAT
4020752 TATTAT
1 TATTAT
4020758 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATTACTAAATAT
Found at i:4020762 original size:2 final size:2
Alignment explanation
Indices: 4020755--4020788 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4020745 TAAATATTAT
4020755 TA TA TA TA TA TA TA TA TA TA -A 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 T
4020789 TACAAGCCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4022074 original size:16 final size:18
Alignment explanation
Indices: 4022042--4022080 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
4022032 CTTTTGTTTT
*
4022042 CTTTCATTTTAATTATTA
1 CTTTTATTTTAATTATTA
4022060 -TTTTATTTT-ATTATTA
1 CTTTTATTTTAATTATTA
4022076 CTTTT
1 CTTTT
4022081 GATATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTTATTTTAATTATTA
Found at i:4024079 original size:48 final size:47
Alignment explanation
Indices: 4024018--4024224 Score: 231
Period size: 48 Copynumber: 4.3 Consensus size: 47
4024008 GCTGTCACTC
* * *
4024018 AGGGAATATCAAATCTTGAATGAGAGGGATGTGTTCCGCTT-TTGCTGA
1 AGGGAATATCAAATCTTGAA-GAGAGAGATCTGTTCCGCTTACT-CTGA
* ** *
4024066 AGGGAATATCAAATCTTGAATGAGAGGGATCTGTTCCGCTTTTGTCTAA
1 AGGGAATATCAAATCTTGAA-GAGAGAGATCTGTTCCGC-TTACTCTGA
* *
4024115 AGGGAATATAAAATCTTGGAGA-AGAGA-CTTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGAAGAGAGAGATC-TGTTCCGCTTACTCTGA
* *
4024161 AGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGAAG-AGAGAGATCTGTTCCGCTTACTCTGA
*
4024209 AGGGAATATCAGATCT
1 AGGGAATATCAAATCT
4024225 GGGGAAGTTG
Statistics
Matches: 140, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
46 26 0.19
47 13 0.09
48 76 0.54
49 24 0.17
50 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (47 bp):
AGGGAATATCAAATCTTGAAGAGAGAGATCTGTTCCGCTTACTCTGA
Found at i:4024161 original size:95 final size:97
Alignment explanation
Indices: 4024018--4024197 Score: 244
Period size: 95 Copynumber: 1.9 Consensus size: 97
4024008 GCTGTCACTC
* * *
4024018 AGGGAATATCAAATCTTGAATGAGAGGGATGTGTTCCGCTTTTGCTGAAGGGAATATCAAATCTT
1 AGGGAATATAAAATCTTGAATGAGAGAGATGTGTTCCGCTTCTGCTGAAGGGAATATCAAATCTT
* *
4024083 GAATG-AGAGGGATCTGTTCCGCTTTTGTCTAA
66 GAA-GAAGAGAGACCTGTTCCGCTTTTGTCTAA
*
4024115 AGGGAATATAAAATCTTGGA-GA-AGAGACT-TGTTCCGCTTACT-CTGAAGGGAATATCAAATC
1 AGGGAATATAAAATCTTGAATGAGAGAGA-TGTGTTCCGCTT-CTGCTGAAGGGAATATCAAATC
4024176 TTGAAGAAGAGAGACCTGTTCC
64 TTGAAGAAGAGAGACCTGTTCC
4024198 ACTTACTCTG
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
94 1 0.01
95 51 0.69
96 4 0.05
97 18 0.24
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (97 bp):
AGGGAATATAAAATCTTGAATGAGAGAGATGTGTTCCGCTTCTGCTGAAGGGAATATCAAATCTT
GAAGAAGAGAGACCTGTTCCGCTTTTGTCTAA
Found at i:4024282 original size:113 final size:110
Alignment explanation
Indices: 4024135--4024335 Score: 330
Period size: 113 Copynumber: 1.8 Consensus size: 110
4024125 AAATCTTGGA
*
4024135 GAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCAC
1 GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAG-A-AGAGACCTGTTCCAC
*
4024200 TTACTCTGAAGGGAATATCAGATCTGGGGAAGTTGATCCATTGAATC
64 TTACTCTGAAGGGAATATCAAATCTGGGGAAGTTGATCCATTGAATC
* * *
4024247 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCT
1 GAAG-AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGACCTGTTCCACT
4024312 TACTCTGAAGGGAATATCAAATCT
65 TACTCTGAAGGGAATATCAAATCT
4024336 TAAAGAAGAG
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
111 37 0.45
112 5 0.06
113 41 0.49
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (110 bp):
GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGACCTGTTCCACTT
ACTCTGAAGGGAATATCAAATCTGGGGAAGTTGATCCATTGAATC
Found at i:4024356 original size:159 final size:158
Alignment explanation
Indices: 4024114--4024603 Score: 832
Period size: 159 Copynumber: 3.1 Consensus size: 158
4024104 CTTTTGTCTA
* *
4024114 AAGGGAATATAAAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTG
1 AAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTA
*
4024179 AAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGGGGAAGTTGATCCATTGA
66 AAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCT-GAGAAGTTGATCCATTGA
4024244 ATCGAAGCAGACTTGTTCCACTTACTCTG
130 ATCGAAGCAGACTTGTTCCACTTACTCTG
4024273 AAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTA
1 AAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTA
4024338 AAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAA
66 AAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAA
4024403 TCGAA-CAG-CTTGTTCCACTTACTCTG
131 TCGAAGCAGACTTGTTCCACTTACTCTG
*
4024429 AAGGG-A-ATCAAATC-TGGAGAAGAGAGACTTGTTCCGCTTACTCTGAAGGGAATATAAAATCT
1 AAGGGAATATCAAATCTTGGAG-A-AGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCT
* *
4024491 TAAAGAAGAGAGACTTGTTCCACTTACTCTGAAGGGAAT-TCAGATCTGATAAG-TGATCCATTG
64 TAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTG
*
4024554 AATCGAAGCAGACTTGTTTCACTTACTCTG
129 AATCGAAGCAGACTTGTTCCACTTACTCTG
*
4024584 AAGGGAATATGAAATCTTGG
1 AAGGGAATATCAAATCTTGG
4024604 GAATATCAAA
Statistics
Matches: 316, Mismatches: 8, Indels: 15
0.93 0.02 0.04
Matches are distributed among these distances:
153 22 0.07
154 25 0.08
155 100 0.32
156 24 0.08
157 10 0.03
158 26 0.08
159 109 0.34
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (158 bp):
AAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTA
AAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAA
TCGAAGCAGACTTGTTCCACTTACTCTG
Found at i:4024389 original size:46 final size:48
Alignment explanation
Indices: 4024247--4024389 Score: 204
Period size: 46 Copynumber: 3.0 Consensus size: 48
4024237 CCATTGAATC
4024247 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTG-G-A
1 GAAG-AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAGAA
* *
4024294 GAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTAAAGAA
1 GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTT-GAGAA
* *
4024343 G-AGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATC-TGAGAA
1 GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAGAA
4024389 G
1 G
4024390 TTGATCCATT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
46 43 0.49
47 5 0.06
48 37 0.43
49 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (48 bp):
GAAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAGAA
Found at i:4024498 original size:155 final size:156
Alignment explanation
Indices: 4024125--4024591 Score: 800
Period size: 155 Copynumber: 3.0 Consensus size: 156
4024115 AGGGAATATA
*
4024125 AAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGA
1 AAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAGAGA
*
4024190 CCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGGGGAAGTTGATCCATTGAATCGAAGCAGA
66 CCTGTTCCACTTACTCTGAAGGGAATATCAGATCT-GAGAAGTTGATCCATTGAATCGAAGCAGA
4024255 CTTGTTCCACTTACTCTGAAGGGAATATC
130 CTTGTTCCACTTACTCTGAAGGG-A-ATC
4024284 AAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAGAGA
1 AAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAGAGA
4024349 CCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAATCGAA-CAG-C
66 CCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAATCGAAGCAGAC
4024412 TTGTTCCACTTACTCTGAAGGGAATC
131 TTGTTCCACTTACTCTGAAGGGAATC
*
4024438 AAATC-TGGAGAAGAGAGACTTGTTCCGCTTACTCTGAAGGGAATATAAAATCTTAAAGAAGAGA
1 AAATCTTGGAG-A-AGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAGA
* *
4024502 GACTTGTTCCACTTACTCTGAAGGGAAT-TCAGATCTGATAAG-TGATCCATTGAATCGAAGCAG
64 GACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAATCGAAGCAG
*
4024565 ACTTGTTTCACTTACTCTGAAGGGAAT
129 ACTTGTTCCACTTACTCTGAAGGGAAT
4024592 ATGAAATCTT
Statistics
Matches: 298, Mismatches: 6, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
153 22 0.07
154 25 0.08
155 103 0.35
156 23 0.08
157 3 0.01
158 23 0.08
159 99 0.33
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (156 bp):
AAATCTTGGAGAAGAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAGAGA
CCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAATCGAAGCAGAC
TTGTTCCACTTACTCTGAAGGGAATC
Found at i:4024510 original size:48 final size:47
Alignment explanation
Indices: 4024411--4024529 Score: 179
Period size: 48 Copynumber: 2.6 Consensus size: 47
4024401 AATCGAACAG
* **
4024411 CTTGTTCCACTTACTCTGAAGGG-A-ATCAAATCTGGAGAAGAGAGA
1 CTTGTTCCACTTACTCTGAAGGGAATATAAAATCTAAAGAAGAGAGA
*
4024456 CTTGTTCCGCTTACTCTGAAGGGAATATAAAATCTTAAAGAAGAGAGA
1 CTTGTTCCACTTACTCTGAAGGGAATATAAAATC-TAAAGAAGAGAGA
4024504 CTTGTTCCACTTACTCTGAAGGGAAT
1 CTTGTTCCACTTACTCTGAAGGGAAT
4024530 TCAGATCTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 22 0.33
46 1 0.02
47 7 0.11
48 36 0.55
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (47 bp):
CTTGTTCCACTTACTCTGAAGGGAATATAAAATCTAAAGAAGAGAGA
Found at i:4024607 original size:16 final size:16
Alignment explanation
Indices: 4024586--4024617 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4024576 TTACTCTGAA
*
4024586 GGGAATATGAAATCTT
1 GGGAATATCAAATCTT
4024602 GGGAATATCAAATCTT
1 GGGAATATCAAATCTT
4024618 AAAGAAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (16 bp):
GGGAATATCAAATCTT
Found at i:4024700 original size:64 final size:63
Alignment explanation
Indices: 4024501--4024728 Score: 284
Period size: 64 Copynumber: 3.6 Consensus size: 63
4024491 TAAAGAAGAG
* *
4024501 AGACTTGTTCCACTTACTCTGAAGGGAAT-TCAGATCTGATAAGTGATCCATTGAATCGAAGC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTGAGAAGTGATCCATTGAATCGAAGC
* * * * * *
4024563 AGACTTGTTTCACTTACTCTGAAGGGAATATGAAATCTTGGGAA-T-ATCAAATCTTAA-AGAAG
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATC-TGAGAAGTGATC-CAT-TGAATCGAAG
*
4024625 AG
63 -C
* *
4024627 AGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGAGAAGTTGATCCATTGAATCGAAGC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTGAGAAG-TGATCCATTGAATCGAAGC
4024691 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCT
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCT
4024729 TGGAGAAGAG
Statistics
Matches: 137, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
62 31 0.23
63 17 0.12
64 79 0.58
65 7 0.05
66 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (63 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTGAGAAGTGATCCATTGAATCGAAGC
Found at i:4024719 original size:128 final size:126
Alignment explanation
Indices: 4024476--4024731 Score: 449
Period size: 128 Copynumber: 2.0 Consensus size: 126
4024466 TTACTCTGAA
* *
4024476 GGGAATATAAAATCTTAAAGAAGAGAGACTTGTTCCACTTACTCTGAAGGGAATTCAGATCTGAT
1 GGGAATATAAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATTCAGATCTGAG
* *
4024541 AAGTGATCCATTGAATCGAAGCAGACTTGTTTCACTTACTCTGAAGGGAATATGAAATCTT
66 AAGTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTT
*
4024602 GGGAATATCAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGA
1 GGGAATATAAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAAT-TCAGATCTGA
4024667 GAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTT
65 GAAG-TGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTT
4024730 GG
1 GG
4024732 AGAAGAGAGA
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
126 52 0.42
127 13 0.11
128 58 0.47
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (126 bp):
GGGAATATAAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATTCAGATCTGAG
AAGTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTT
Found at i:4024747 original size:48 final size:48
Alignment explanation
Indices: 4024691--4024824 Score: 223
Period size: 48 Copynumber: 2.8 Consensus size: 48
4024681 GAATCGAAGC
**
4024691 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAG
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAG
* *
4024739 AGACTTGTTCCGCTTACTCTGAAGGGAATATAAAATCTTAAAGAAGAG
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAG
*
4024787 AGACTTGTTCCACTTACTCTGAAGGGAATATCAGATCT
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCT
4024825 GATAAGTTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (48 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAG
Found at i:4024867 original size:160 final size:160
Alignment explanation
Indices: 4024602--4024902 Score: 557
Period size: 160 Copynumber: 1.9 Consensus size: 160
4024592 ATGAAATCTT
*
4024602 GGGAATATCAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGA
1 GGGAATATAAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGA
4024667 GAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGG
66 GAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGG
4024732 AGAAGAGAGACTTGTTCCGCTTACTCTGAA
131 AGAAGAGAGACTTGTTCCGCTTACTCTGAA
*
4024762 GGGAATATAAAATCTTAAAGAAGAGAGACTTGTTCCACTTACTCTGAAGGGAATATCAGATCTGA
1 GGGAATATAAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGA
* * *
4024827 TAAGTTGATCCATTGAATCGAAGCAGACTTGTTTCACTTACTCTGAAGGGAATATGAAATCTTGG
66 GAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGG
4024892 AGAAGAGAGAC
131 AGAAGAGAGAC
4024903 CTGAAAGTCT
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 136 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (160 bp):
GGGAATATAAAATCTTAAAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGATCTGA
GAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGG
AGAAGAGAGACTTGTTCCGCTTACTCTGAA
Found at i:4038228 original size:14 final size:15
Alignment explanation
Indices: 4038204--4038232 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4038194 AAAATCACTG
4038204 GAAAGTAAAAAAAAT
1 GAAAGTAAAAAAAAT
4038219 GAAA-TAAAAAAAAT
1 GAAAGTAAAAAAAAT
4038233 ACCTTCACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (15 bp):
GAAAGTAAAAAAAAT
Found at i:4040485 original size:16 final size:16
Alignment explanation
Indices: 4040464--4040512 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
4040454 TATATCTGCA
*
4040464 AAAATATTAATTAAAT
1 AAAATATTAAATAAAT
* *
4040480 AAAATATTAAACAATT
1 AAAATATTAAATAAAT
4040496 AAAATAATTAAATAAAT
1 AAAAT-ATTAAATAAAT
4040513 TACTAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATTAAATAAAT
Found at i:4041645 original size:20 final size:20
Alignment explanation
Indices: 4041609--4041646 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4041599 ATCCTATTCC
**
4041609 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
4041629 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
4041647 GTGAACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:4042007 original size:23 final size:25
Alignment explanation
Indices: 4041949--4042021 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
4041939 ATTTTAAAAT
4041949 TATAAACTTTTTAATAAAATTTAAA
1 TATAAACTTTTTAATAAAATTTAAA
*
4041974 TATAAACTTTTTAATAAAATTTATA
1 TATAAACTTTTTAATAAAATTTAAA
*
4041999 TAT-AA-TTTTTTATAAAATTTAAA
1 TATAAACTTTTTAATAAAATTTAAA
4042022 AGATAAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 16 0.36
24 2 0.04
25 27 0.60
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAAACTTTTTAATAAAATTTAAA
Found at i:4042017 original size:12 final size:12
Alignment explanation
Indices: 4041948--4042018 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
4041938 TATTTTAAAA
*
4041948 TTATAAACTTTT
1 TTATAAAATTTT
* *
4041960 TAATAAAATTTAA
1 TTATAAAATTT-T
* *
4041973 ATATAAACTTTT
1 TTATAAAATTTT
*
4041985 TAATAAAA-TTT
1 TTATAAAATTTT
* *
4041996 ATATATAATTTT
1 TTATAAAATTTT
4042008 TTATAAAATTT
1 TTATAAAATTT
4042019 AAAAGATAAA
Statistics
Matches: 42, Mismatches: 15, Indels: 4
0.69 0.25 0.07
Matches are distributed among these distances:
11 8 0.19
12 26 0.62
13 8 0.19
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
TTATAAAATTTT
Found at i:4045917 original size:205 final size:204
Alignment explanation
Indices: 4045565--4046232 Score: 896
Period size: 205 Copynumber: 3.3 Consensus size: 204
4045555 AAACTCTAAA
* * * * * *
4045565 TTTTTTGTAATTTATAATCGTAGAGGCGCAATATTACAACTTCTCTTTAATTTGAACATAATATC
1 TTTTTTGTAATTTATAAGCGTAGAGGCGTAGTATTGCAACTTATCTTTAATTTGAACCTAATATC
* *
4045630 GCTATATTCGAGATATTCTAAGCGGGATAAAAATCGTCTTGGAAATGGTTCGAAAACATGATTTT
66 GCTATATTCGAGACATTCTAAGCGGGATAAAAATCGTCTTGAAAATGGTTCGAAAACATGATTTT
4045695 GTGCATCAAGTACAATGTAAAATGATTTCATAGACATGTTCGAATGTTATTTATAGGTTGTAAAT
131 GTGCATCAAGTACAATGTAAAATGATTTCATAGACATGTTCGAATGTTATTTATAGGTTGTAAAT
4045760 AGGAGATTTT
196 AGGAGA-TTT
* *
4045770 TTTTTTGTAATTTATAATCGTAGAGGCGTAGTATTGCAACTTCTCTTTAATTTGAACCTAATATC
1 TTTTTTGTAATTTATAAGCGTAGAGGCGTAGTATTGCAACTTATCTTTAATTTGAACCTAATATC
*
4045835 GCTATATTCGAGACATTCTAAGCGGGATAAAAATCGTCTTGAAAATGGTTCGAAAACATAATTTT
66 GCTATATTCGAGACATTCTAAGCGGGATAAAAATCGTCTTGAAAATGGTTCGAAAACATGATTTT
4045900 GTGCATCAAGTACAATGTAAAATGATTTCATAGACATGTTCGAATGTTATTTATAGGTTGTAAAT
131 GTGCATCAAGTACAATGTAAAATGATTTCATAGACATGTTCGAATGTTATTTATAGGTTGTAAAT
4045965 AGGAGATTT
196 AGGAGATTT
*
4045974 TTTTTTGTAATTTATAAGCTTAGAGGCGTAGTATTGCAACTTATC-----TTT-AACCTAATATC
1 TTTTTTGTAATTTATAAGCGTAGAGGCGTAGTATTGCAACTTATCTTTAATTTGAACCTAATATC
* * * * *
4046033 GCCATATTCGAGACATTCTAAGTAGGG-TAAAAATTGTGTTGAAAATGGTTCGGAAAA-ATGCTT
66 GCTATATTCGAGACATTCTAAG-CGGGATAAAAATCGTCTTGAAAATGGTTC-GAAAACATGATT
* * ** * * *
4046096 TTGTGCATCAAGTATAAGGTAAAATGGCTTCATAGGCATG-TCTGAGTGTTATTT-TCGGGTTGT
129 TTGTGCATCAAGTACAATGTAAAATGATTTCATAGACATGTTC-GAATGTTATTTAT-AGGTTGT
* *
4046159 AAAAATGAGA---
192 AAATAGGAGATTT
* * * * * *
4046169 GTTTTCGTAATTTATAAGCTTAGAGGTGTAGTATTGTAACTTATCTTTAAGTTGAGA-CTAATAT
1 TTTTTTGTAATTTATAAGCGTAGAGGCGTAGTATTGCAACTTATCTTTAATTTGA-ACCTAATAT
4046233 GTAAAAATAG
Statistics
Matches: 422, Mismatches: 30, Indels: 26
0.88 0.06 0.05
Matches are distributed among these distances:
195 41 0.10
197 3 0.01
198 117 0.28
199 11 0.03
200 2 0.00
201 8 0.02
202 1 0.00
204 45 0.11
205 194 0.46
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (204 bp):
TTTTTTGTAATTTATAAGCGTAGAGGCGTAGTATTGCAACTTATCTTTAATTTGAACCTAATATC
GCTATATTCGAGACATTCTAAGCGGGATAAAAATCGTCTTGAAAATGGTTCGAAAACATGATTTT
GTGCATCAAGTACAATGTAAAATGATTTCATAGACATGTTCGAATGTTATTTATAGGTTGTAAAT
AGGAGATTT
Found at i:4048427 original size:40 final size:41
Alignment explanation
Indices: 4048381--4048459 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
4048371 TACCTATTGT
* **
4048381 GGCGTTTG-TACAAAAACGACGCTAATGTATAAATATTTGC
1 GGCGTTTGTTAAAAAAACGACGCTAAAATATAAATATTTGC
* *
4048421 GGCGTTTGTTAAAAAAATGCCGCTAAAATATAAATATTT
1 GGCGTTTGTTAAAAAAACGACGCTAAAATATAAATATTT
4048460 TATGGCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 8 0.24
41 25 0.76
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (41 bp):
GGCGTTTGTTAAAAAAACGACGCTAAAATATAAATATTTGC
Found at i:4049617 original size:22 final size:22
Alignment explanation
Indices: 4049592--4049638 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
4049582 ACGTTTTCAG
*
4049592 AAGCTATTATTTTCCTATTCGA
1 AAGCAATTATTTTCCTATTCGA
*
4049614 AAGCAATTATTTTTCTATTCGA
1 AAGCAATTATTTTCCTATTCGA
4049636 AAG
1 AAG
4049639 AAAAAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (22 bp):
AAGCAATTATTTTCCTATTCGA
Found at i:4050251 original size:41 final size:40
Alignment explanation
Indices: 4050213--4050341 Score: 138
Period size: 41 Copynumber: 3.1 Consensus size: 40
4050203 TATATAGCAT
*
4050213 CGTTTGTTGAACAAACGCCACTATAAACAACACTATAGCGG
1 CGTTTGTTGAA-AAACGCCACTATAAACAACTCTATAGCGG
* *
4050254 CGTTTG-TGTAAAAACGCCGCT-TAATTACCACTCTATTA-CGG
1 CGTTTGTTG-AAAAACGCCACTATAA--ACAACTCTA-TAGCGG
* *
4050295 CATTTGTTGAAAAAACGCCACTATAAACAACTCTATTGCGG
1 CGTTTGTTG-AAAAACGCCACTATAAACAACTCTATAGCGG
4050336 CGTTTG
1 CGTTTG
4050342 AGCTATAAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
39 3 0.04
40 12 0.17
41 39 0.54
42 15 0.21
43 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (40 bp):
CGTTTGTTGAAAAACGCCACTATAAACAACTCTATAGCGG
Found at i:4050391 original size:83 final size:82
Alignment explanation
Indices: 4050142--4050394 Score: 267
Period size: 83 Copynumber: 3.1 Consensus size: 82
4050132 TTTTTTGCCC
* * * * ** * * *
4050142 AAACACCACTATAAACAATACTATTGCGGCATTTGTTTGATAAACACCGCTAAATTA-C-TTATA
1 AAACGCCACTATAAACAACACTATAGCGGCGTTTGAGT-AAAAACACCGCTAAATTACCACTCTA
** *
4050205 TATAGCATCGTTTGTTGAAC
65 T-TA-CGGCGTTTGTTGAAA
* * *
4050225 AAACGCCACTATAAACAACACTATAGCGGCGTTTGTGTAAAAACGCCGCTTAATTACCACTCTAT
1 AAACGCCACTATAAACAACACTATAGCGGCGTTTGAGTAAAAACACCGCTAAATTACCACTCTAT
*
4050290 TACGGCATTTGTTGAAA
66 TACGGCGTTTGTTGAAA
* * * *
4050307 AAACGCCACTATAAACAACTCTATTGCGGCGTTTGAGCTATAAATACCGCTAAATTACCACTCTA
1 AAACGCCACTATAAACAACACTATAGCGGCGTTTGAG-TAAAAACACCGCTAAATTACCACTCTA
*
4050372 TTACGGCGTTTGTTTAAA
65 TTACGGCGTTTGTTGAAA
4050390 AAACG
1 AAACG
4050395 TAGCTAAAGT
Statistics
Matches: 144, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
82 60 0.42
83 80 0.56
84 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (82 bp):
AAACGCCACTATAAACAACACTATAGCGGCGTTTGAGTAAAAACACCGCTAAATTACCACTCTAT
TACGGCGTTTGTTGAAA
Found at i:4050401 original size:42 final size:42
Alignment explanation
Indices: 4050251--4050402 Score: 127
Period size: 42 Copynumber: 3.7 Consensus size: 42
4050241 AACACTATAG
* * *
4050251 CGGCGTTTGTGT-AAAAACGCCGCTTAATTACCACTCTATTA
1 CGGCGTTTGTTTAAAAAACGCAGCTAAATTACCACTCTATTA
* * * *
4050292 CGGCATTTGTTGAAAAAACGCCA-CTATAA--ACAACTCTATTG
1 CGGCGTTTGTTTAAAAAACG-CAGCTA-AATTACCACTCTATTA
** *
4050333 CGGCGTTTGAGCTATAAATAC-C-GCTAAATTACCACTCTATTA
1 CGGCGTTTG-TTTA-AAAAACGCAGCTAAATTACCACTCTATTA
*
4050375 CGGCGTTTGTTTAAAAAACGTAGCTAAA
1 CGGCGTTTGTTTAAAAAACGCAGCTAAA
4050403 GTATCATTTT
Statistics
Matches: 83, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
40 7 0.08
41 33 0.40
42 35 0.42
43 8 0.10
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (42 bp):
CGGCGTTTGTTTAAAAAACGCAGCTAAATTACCACTCTATTA
Found at i:4053821 original size:2 final size:2
Alignment explanation
Indices: 4053809--4053844 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
4053799 ATTATTTTAT
* *
4053809 TA TA TA CA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4053845 ACATTACGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4055625 original size:21 final size:21
Alignment explanation
Indices: 4055595--4055647 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
4055585 CTTCTTCTTC
4055595 TTCTTCTTCTCGATTTTCATA
1 TTCTTCTTCTCGATTTTCATA
*
4055616 TTCTTATTCTCGATTTTCATA
1 TTCTTCTTCTCGATTTTCATA
4055637 TTCTTCTTCTC
1 TTCTTCTTCTC
4055648 TTCAAGTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.13, C:0.25, G:0.04, T:0.58
Consensus pattern (21 bp):
TTCTTCTTCTCGATTTTCATA
Found at i:4057594 original size:21 final size:21
Alignment explanation
Indices: 4057564--4057604 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
4057554 TACAAAAAAT
4057564 ATTAAAAATTA-ATAAATATA
1 ATTAAAAATTATATAAATATA
4057584 ATTAGAAAATTATTATAAATA
1 ATTA-AAAATTA-TATAAATA
4057605 AACTAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
23 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTAAAAATTATATAAATATA
Found at i:4058702 original size:20 final size:20
Alignment explanation
Indices: 4058677--4058721 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4058667 TACGTAGTAT
4058677 CGATACTATATGAACAATAC
1 CGATACTATATGAACAATAC
4058697 CGATACTATATGAACAATAC
1 CGATACTATATGAACAATAC
*
4058717 TGATA
1 CGATA
4058722 TTGTTCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (20 bp):
CGATACTATATGAACAATAC
Found at i:4060654 original size:17 final size:17
Alignment explanation
Indices: 4060632--4060664 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4060622 ATCATGTTTA
*
4060632 AAAATAAAACTGAAAAT
1 AAAATAAAAATGAAAAT
4060649 AAAATAAAAATGAAAA
1 AAAATAAAAATGAAAA
4060665 CTTGAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATGAAAAT
Found at i:4060664 original size:24 final size:24
Alignment explanation
Indices: 4060630--4060682 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
4060620 TTATCATGTT
*
4060630 TAAAAATAAAAC-TGAAAATAAAA
1 TAAAAATAAAACTTGAAAAGAAAA
4060653 TAAAAATGAAAACTTGAAAAGAAAA
1 TAAAAAT-AAAACTTGAAAAGAAAA
*
4060678 GAAAA
1 TAAAA
4060683 GAGAGAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
24 5 0.19
25 14 0.54
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (24 bp):
TAAAAATAAAACTTGAAAAGAAAA
Found at i:4067180 original size:13 final size:13
Alignment explanation
Indices: 4067162--4067210 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
4067152 CTTAGCATGT
4067162 TTAAAAATAAAAC
1 TTAAAAATAAAAC
4067175 TT-AAAATAAAA-
1 TTAAAAATAAAAC
4067186 -TAAAAATGAAAAC
1 TTAAAAAT-AAAAC
* *
4067199 TTGAAAAGAAAA
1 TTAAAAATAAAA
4067211 GAAAATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 1 0.03
11 5 0.17
12 13 0.43
13 6 0.20
14 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.20
Consensus pattern (13 bp):
TTAAAAATAAAAC
Found at i:4067197 original size:24 final size:24
Alignment explanation
Indices: 4067163--4067215 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
4067153 TTAGCATGTT
*
4067163 TAAAAATAAAACTT-AAAATAAAA
1 TAAAAATAAAACTTGAAAAGAAAA
4067186 TAAAAATGAAAACTTGAAAAGAAAA
1 TAAAAAT-AAAACTTGAAAAGAAAA
*
4067211 GAAAA
1 TAAAA
4067216 TAGAGAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
24 7 0.27
25 12 0.46
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.17
Consensus pattern (24 bp):
TAAAAATAAAACTTGAAAAGAAAA
Found at i:4068319 original size:292 final size:292
Alignment explanation
Indices: 4067795--4068379 Score: 1161
Period size: 292 Copynumber: 2.0 Consensus size: 292
4067785 TATTATAATG
4067795 TGACGTTTTTTTTTTATTTTTGTCATATTTAATGATTAATGGTATATCTTTTATGATAATTTTAA
1 TGACGTTTTTTTTTTATTTTTGTCATATTTAATGATTAATGGTATATCTTTTATGATAATTTTAA
4067860 AAATGATCATTGGTTTTTGTCACTATATGTTTGGCGCCAAAATCTTCCCACCAATTTTTTTTGTG
66 AAATGATCATTGGTTTTTGTCACTATATGTTTGGCGCCAAAATCTTCCCACCAATTTTTTTTGTG
4067925 GGAAACCTTTTAATGACATTTAGATAAAATAATGACGTAAAATCGTCTCCAATGAAAAACATGTA
131 GGAAACCTTTTAATGACATTTAGATAAAATAATGACGTAAAATCGTCTCCAATGAAAAACATGTA
4067990 TTAGTGACAATTTATTATAATGACGATTCAATTTGAATTAGTGGCGTTGCACATTAGTCACTAAT
196 TTAGTGACAATTTATTATAATGACGATTCAATTTGAATTAGTGGCGTTGCACATTAGTCACTAAT
4068055 AAGTTTTATTCTTGACAATTTAATTTGTCATA
261 AAGTTTTATTCTTGACAATTTAATTTGTCATA
*
4068087 TGACGTTTTTTTTTTATTTTTGTCATATTTATTGATTAATGGTATATCTTTTATGATAATTTTAA
1 TGACGTTTTTTTTTTATTTTTGTCATATTTAATGATTAATGGTATATCTTTTATGATAATTTTAA
4068152 AAATGATCATTGGTTTTTGTCACTATATGTTTGGCGCCAAAATCTTCCCACCAATTTTTTTTGTG
66 AAATGATCATTGGTTTTTGTCACTATATGTTTGGCGCCAAAATCTTCCCACCAATTTTTTTTGTG
4068217 GGAAACCTTTTAATGACATTTAGATAAAATAATGACGTAAAATCGTCTCCAATGAAAAACATGTA
131 GGAAACCTTTTAATGACATTTAGATAAAATAATGACGTAAAATCGTCTCCAATGAAAAACATGTA
4068282 TTAGTGACAATTTATTATAATGACGATTCAATTTGAATTAGTGGCGTTGCACATTAGTCACTAAT
196 TTAGTGACAATTTATTATAATGACGATTCAATTTGAATTAGTGGCGTTGCACATTAGTCACTAAT
4068347 AAGTTTTATTCTTGACAATTTAATTTGTCATA
261 AAGTTTTATTCTTGACAATTTAATTTGTCATA
4068379 T
1 T
4068380 TTTATAAGAC
Statistics
Matches: 292, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 292 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (292 bp):
TGACGTTTTTTTTTTATTTTTGTCATATTTAATGATTAATGGTATATCTTTTATGATAATTTTAA
AAATGATCATTGGTTTTTGTCACTATATGTTTGGCGCCAAAATCTTCCCACCAATTTTTTTTGTG
GGAAACCTTTTAATGACATTTAGATAAAATAATGACGTAAAATCGTCTCCAATGAAAAACATGTA
TTAGTGACAATTTATTATAATGACGATTCAATTTGAATTAGTGGCGTTGCACATTAGTCACTAAT
AAGTTTTATTCTTGACAATTTAATTTGTCATA
Found at i:4069154 original size:2 final size:2
Alignment explanation
Indices: 4069149--4069179 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4069139 AAAATTGAAT
4069149 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 T
4069180 TGAGTTGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4072839 original size:19 final size:19
Alignment explanation
Indices: 4072815--4072861 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
4072805 AGTGATTTTC
*
4072815 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAGC-AAAATGAAA
4072834 TTTTGAAAAGCAAAATGAAA
1 TTTTG-AAAGCAAAATGAAA
4072854 TTTTGAAA
1 TTTTGAAA
4072862 AAGGATTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (19 bp):
TTTTGAAAGCAAAATGAAA
Found at i:4072856 original size:20 final size:20
Alignment explanation
Indices: 4072815--4072862 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4072805 AGTGATTTTC
*
4072815 TTTTG-AAAGCTAAAATGGA
1 TTTTGAAAAGCTAAAATGAA
4072834 TTTTGAAAAGC-AAAATGAAA
1 TTTTGAAAAGCTAAAATG-AA
4072854 TTTTGAAAA
1 TTTTGAAAA
4072863 AGGATTTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAGCTAAAATGAA
Found at i:4075353 original size:13 final size:14
Alignment explanation
Indices: 4075335--4075363 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4075325 GGGCGCGAGG
4075335 TTTGTC-TTTTATT
1 TTTGTCTTTTTATT
4075348 TTTGTCTTTTTATT
1 TTTGTCTTTTTATT
4075362 TT
1 TT
4075364 ATCTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTGTCTTTTTATT
Found at i:4075428 original size:17 final size:17
Alignment explanation
Indices: 4075396--4075442 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
4075386 AAAAAAATCT
4075396 AAATT-TTTT-AAT-TA
1 AAATTATTTTAAATATA
4075410 AAATTATTTTAAATATA
1 AAATTATTTTAAATATA
*
4075427 AAAATATTATTAAATA
1 AAATTATT-TTAAATA
4075443 AACCTTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 5 0.18
15 4 0.14
16 3 0.11
17 9 0.32
18 7 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTATTTTAAATATA
Found at i:4076120 original size:57 final size:57
Alignment explanation
Indices: 4076052--4076168 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
4076042 ACGTCTCTTG
4076052 CACCTTTTTATCACTTGGTTTCTCCTTTATTTGGGTCGTCGCACCAATTGTATGCAC
1 CACCTTTTTATCACTTGGTTTCTCCTTTATTTGGGTCGTCGCACCAATTGTATGCAC
4076109 CACCTTTTTATCACTTGGTTTCTCCTTTATTTGGGTCGTCGCACCAATTGTATGCAC
1 CACCTTTTTATCACTTGGTTTCTCCTTTATTTGGGTCGTCGCACCAATTGTATGCAC
4076166 CAC
1 CAC
4076169 TTGAACAATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.41
Consensus pattern (57 bp):
CACCTTTTTATCACTTGGTTTCTCCTTTATTTGGGTCGTCGCACCAATTGTATGCAC
Found at i:4076509 original size:21 final size:20
Alignment explanation
Indices: 4076462--4076512 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
4076452 GTTGATCCCC
4076462 TCGCTGATGGAGTCAATGCA
1 TCGCTGATGGAGTCAATGCA
* * *
4076482 CCTGCTGATGGAGTCCATTCA
1 TC-GCTGATGGAGTCAATGCA
4076503 TTCGCTGATG
1 -TCGCTGATG
4076513 TTGTTCCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (20 bp):
TCGCTGATGGAGTCAATGCA
Found at i:4077204 original size:201 final size:202
Alignment explanation
Indices: 4076855--4077384 Score: 685
Period size: 201 Copynumber: 2.6 Consensus size: 202
4076845 TGCTCCAATC
* *
4076855 TTACATTATACTTGGTGCACAAAAGCATGCTTTCGAATCA-TTTCAAC-ACGATTTTTACCCCGC
1 TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTTCAACGA-GATTTTTACCCCGC
** * * * **
4076918 TTCTAATATATTGAATGTGGCGATATTAGGCTCAACTTAAAGATAAGTTATAATACTA-GTCCTC
65 TTAGAATATCTCGAATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACG-CCTC
* * * *
4076982 T-ATGCTTATAAATTACGAAAAATCTCCTATTTACAACTCGGAAATAACACTTAAACATGCCTAT
129 TAATGCTGATAAATTACGAAAAATCTCCTATTTACAACCCGAAAATAACACTCAAACATGCCTAT
*
4077046 GAAGCCATT
194 AAAGCCATT
* * * *
4077055 TTACCTTATACTCGATGCACAAAAGCATGCTTTCGAACCATTTTCAACGTGATTTTTATCCCGCT
1 TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTTCAACGAGATTTTTACCCCGCT
* * *
4077120 TAGAATATCCCGAATGTGGCAACATTAGACTCAACTTAAAGATAAGTTGCAATACTACGCCTCTA
66 TAGAATATCTCGAATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACGCCTCTA
* * * * *
4077185 AT-CTGATAAATTACGAAAAATCTCCTTTTTACAACCCGAAAATTACACTCGAGCTTGCCTATAA
131 ATGCTGATAAATTACGAAAAATCTCCTATTTACAACCCGAAAATAACACTCAAACATGCCTATAA
4077249 AGCCATT
196 AGCCATT
* * * ** *
4077256 TTACATTGTACTTAATGCACAAAATCATGCTTTCGAACCATTTT-AGGGAGATTTTTACCCCACT
1 TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTTCAACGAGATTTTTACCCCGCT
* * *
4077320 TAGAATGTCTCTAATGTGGCAATATTAGGCTCAAATTAAAGATAAGTTGCAATACTACGCCTCTA
66 TAGAATATCTCGAATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACGCCTCTA
4077385 GGCTTATAAG
Statistics
Matches: 284, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
200 110 0.39
201 171 0.60
202 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (202 bp):
TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTTCAACGAGATTTTTACCCCGCT
TAGAATATCTCGAATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACGCCTCTA
ATGCTGATAAATTACGAAAAATCTCCTATTTACAACCCGAAAATAACACTCAAACATGCCTATAA
AGCCATT
Found at i:4077435 original size:200 final size:199
Alignment explanation
Indices: 4076855--4077447 Score: 665
Period size: 201 Copynumber: 3.0 Consensus size: 199
4076845 TGCTCCAATC
* * * *
4076855 TTACATTATACTTGGTGCACAAAAGCATGCTTTCGAATCATTTCAACACGATTTTTACCCCGCTT
1 TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTTAAGA-GATTTTTACCCCGCTT
** * * **
4076920 CTAATATAT-TGAATGTGGCGATATTAGGCTCAACTTAAAGATAAGTTATAATACTA-GTCCTCT
65 AGAATATCTCT-AATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACG-CCTCT
* * * ** *
4076983 ATGCTTATAAATTACGAAAAATCTCCTATTTACA-ACTCGGAAATAACACTTAAACATGCCTATG
128 AAGCTTATAAATTACGAAAAATCTCCTATTTACACCCT-GAAAATAACACTCGAACATGCCTATA
4077047 AAGCCATT
192 AAGCCATT
* * * *
4077055 TTACCTTATACTCGATGCACAAAAGCATGCTTTCGAACCATTTTCAACGTGATTTTTATCCCGCT
1 TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTT-AA-GAGATTTTTACCCCGCT
* * * *
4077120 TAGAATATCCCGAATGTGGCAACATTAGACTCAACTTAAAGATAAGTTGCAATACTACGCCTCTA
64 TAGAATATCTCTAATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACGCCTCTA
* * * * * *
4077185 ATCTGATAAATTACGAAAAATCTCCTTTTTACAACCC-GAAAATTACACTCGAGCTTGCCTATAA
129 AGCTTATAAATTACGAAAAATCTCCTATTTAC-ACCCTGAAAATAACACTCGAACATGCCTATAA
4077249 AGCCATT
193 AGCCATT
* * * * *
4077256 TTACATTGTACTTAATGCACAAAATCATGCTTTCGAACCATTTTAGGGAGATTTTTACCCCACTT
1 TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTTA-AGAGATTTTTACCCCGCTT
* * *
4077321 AGAATGTCTCTAATGTGGCAATATTAGGCTCAAATTAAAGATAAGTTGCAATACTACGCCTCTAG
65 AGAATATCTCTAATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACGCCTCTAA
* * * * * * *
4077386 GCTTATAAGTTAC-AAAAGTTTTACAATTTACACCCTGTAAATAACACTCGAACATACCTATA
130 GCTTATAAATTACGAAAA-ATCTCCTATTTACACCCTGAAAATAACACTCGAACATGCCTATA
4077448 GAAACTATTG
Statistics
Matches: 325, Mismatches: 59, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
199 8 0.02
200 152 0.47
201 162 0.50
202 2 0.01
203 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (199 bp):
TTACATTATACTTGATGCACAAAAGCATGCTTTCGAACCATTTTAAGAGATTTTTACCCCGCTTA
GAATATCTCTAATGTGGCAATATTAGGCTCAACTTAAAGATAAGTTGCAATACTACGCCTCTAAG
CTTATAAATTACGAAAAATCTCCTATTTACACCCTGAAAATAACACTCGAACATGCCTATAAAGC
CATT
Found at i:4082168 original size:17 final size:17
Alignment explanation
Indices: 4082146--4082199 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
4082136 GTGTTCGGGA
4082146 TGAGGCTACTGGAAGTT
1 TGAGGCTACTGGAAGTT
4082163 TGAGGCTACTGGAAGTT
1 TGAGGCTACTGGAAGTT
** *
4082180 TGTTGCTTCTGGAAGTT
1 TGAGGCTACTGGAAGTT
4082197 TGA
1 TGA
4082200 TGCTTCAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.35
Consensus pattern (17 bp):
TGAGGCTACTGGAAGTT
Found at i:4082203 original size:17 final size:17
Alignment explanation
Indices: 4082154--4082205 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
4082144 GATGAGGCTA
* *
4082154 CTGGAAGTTTGAGGCTA
1 CTGGAAGTTTGATGCTT
*
4082171 CTGGAAGTTTGTTGCTT
1 CTGGAAGTTTGATGCTT
4082188 CTGGAAGTTTGATGCTT
1 CTGGAAGTTTGATGCTT
4082205 C
1 C
4082206 AAGGTGAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.17, C:0.13, G:0.31, T:0.38
Consensus pattern (17 bp):
CTGGAAGTTTGATGCTT
Found at i:4083328 original size:36 final size:36
Alignment explanation
Indices: 4083288--4083378 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 36
4083278 CCAAATATAA
* *
4083288 CTACTGTGTATGAGGTGGTTAATAATTCTACATCAC
1 CTACTGTGAATGAGGTGGTTAATAAGTCTACATCAC
* ** *
4083324 CTACTGT-AATTGAGGTGGTTGATGGGTCTGCATCAC
1 CTACTGTGAA-TGAGGTGGTTAATAAGTCTACATCAC
*
4083360 CTAATGTGAATGAGGTGGT
1 CTACTGTGAATGAGGTGGT
4083379 CAATGGTAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.02
36 43 0.93
37 2 0.04
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (36 bp):
CTACTGTGAATGAGGTGGTTAATAAGTCTACATCAC
Found at i:4085651 original size:43 final size:43
Alignment explanation
Indices: 4085604--4085952 Score: 283
Period size: 43 Copynumber: 8.1 Consensus size: 43
4085594 TTTTAAACAA
* * *
4085604 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTGTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTG
* * * * *
4085647 AAAAATGTCGCAATAGATGTTGATATTTAGCGGCGTTTGTCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTG
* * *
4085690 AAAAATGCCGCAGTAGGTGTTGATATTTAGCGGCGTTTTTATG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTG
* * * * *
4085733 ACAAACGTCGCAATAGGTGTTGATATTTAGCAGCATTTTTTTAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCT-G
* * *
4085777 ATAAACGCCGCAATAGGT-TATGATGTTTAGCGGCGTTTTTCTC
1 AAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTTTCTG
* * * * * **
4085820 TAAAACGCCACAGTAGGTGTTGATGTTTTGCGGCG-TTTTCCC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTG
* * * * * ** *
4085862 ACAAACGCCGCAGTAGGTTTTGATGTTTTGCTACG-TTTTCTC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTG
* * * * * *
4085904 ACAAACGCCGCAGTAGGTATTGATGTTTTGCGACGTTTTTGCT-
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTT-CTG
4085947 AAAAAC
1 AAAAAC
4085953 ACCGGTAAAG
Statistics
Matches: 259, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
42 74 0.29
43 147 0.57
44 38 0.15
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTG
Found at i:4085835 original size:130 final size:129
Alignment explanation
Indices: 4085606--4085885 Score: 312
Period size: 130 Copynumber: 2.2 Consensus size: 129
4085596 TTAAACAAAA
* * * *
4085606 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTGTGAAAAATGTCGCAATAGATGTTGAT
1 AAACGCCGCAATAGGTATTGATATTTAGCAGCATTTGTGTGAAAAACGCCGCAATAGATGTTGAT
* * *
4085671 ATTTAGCGGCGTTTGTCAGAAAAATGCCGCAGTAGGTGTTGATATTTAGCGGCGTTTTTATGAC
66 ATTTAGCGGCGTTTGTCACAAAAACGCCACAGTAGGTGTTGATATTTAGCGGCGTTTTTATGAC
* * * * * *
4085735 AAACGTCGCAATAGGTGTTGATATTTAGCAGCATTTTTTTAGATAAACGCCGCAATAGGT-TATG
1 AAACGCCGCAATAGGTATTGATATTTAGCAGCATTTGTGT-GAAAAACGCCGCAATAGATGT-TG
* * * * * * ***
4085799 ATGTTTAGCGGCGTTTTTCTCTAAAACGCCACAGTAGGTGTTGATGTTTTGCGGCG-TTTTCCCA
64 ATATTTAGCGGCGTTTGTCACAAAAACGCCACAGTAGGTGTTGATATTTAGCGGCGTTTTTATGA
4085863 C
129 C
* *
4085864 AAACGCCGCAGTAGGTTTTGAT
1 AAACGCCGCAATAGGTATTGAT
4085886 GTTTTGCTAC
Statistics
Matches: 124, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
129 60 0.48
130 64 0.52
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (129 bp):
AAACGCCGCAATAGGTATTGATATTTAGCAGCATTTGTGTGAAAAACGCCGCAATAGATGTTGAT
ATTTAGCGGCGTTTGTCACAAAAACGCCACAGTAGGTGTTGATATTTAGCGGCGTTTTTATGAC
Found at i:4085930 original size:84 final size:85
Alignment explanation
Indices: 4085779--4085942 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 85
4085769 TTTTTTAGAT
* *
4085779 AAACGCCGCAATAGGTTATGATGTTTAGCGGCGTTTTTCTCTAAAACGCCACAGTAGGTGTTGAT
1 AAACGCCGCAATAGGTTATGATGTTTAGCGACGTTTTTCTCTAAAACGCCACAGTAGGTATTGAT
*
4085844 GTTTTGCGGCGTTTTCCCAC
66 GTTTTGCGACGTTTTCCCAC
* * * * *
4085864 AAACGCCGCAGTAGGTTTTGATGTTTTGCTACG-TTTTCTC-ACAAACGCCGCAGTAGGTATTGA
1 AAACGCCGCAATAGGTTATGATGTTTAGCGACGTTTTTCTCTA-AAACGCCACAGTAGGTATTGA
4085927 TGTTTTGCGACGTTTT
65 TGTTTTGCGACGTTTT
4085943 TGCTAAAAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 1 0.01
84 41 0.59
85 28 0.40
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (85 bp):
AAACGCCGCAATAGGTTATGATGTTTAGCGACGTTTTTCTCTAAAACGCCACAGTAGGTATTGAT
GTTTTGCGACGTTTTCCCAC
Found at i:4086383 original size:21 final size:21
Alignment explanation
Indices: 4086358--4086425 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
4086348 CTGATATACG
4086358 GCTTCTCTATGTGCTGCCGCT
1 GCTTCTCTATGTGCTGCCGCT
*
4086379 GCTTCTCTCTGTGCTGCCGCT
1 GCTTCTCTATGTGCTGCCGCT
* * *
4086400 GCTTCTTTATATGCTTCCGCT
1 GCTTCTCTATGTGCTGCCGCT
4086421 GCTTC
1 GCTTC
4086426 CGCTGCTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.04, C:0.34, G:0.21, T:0.41
Consensus pattern (21 bp):
GCTTCTCTATGTGCTGCCGCT
Found at i:4086425 original size:9 final size:9
Alignment explanation
Indices: 4086411--4086441 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
4086401 CTTCTTTATA
4086411 TGCTTCCGC
1 TGCTTCCGC
4086420 TGCTTCCGC
1 TGCTTCCGC
4086429 TGCTTCCGC
1 TGCTTCCGC
4086438 TGCT
1 TGCT
4086442 GCTCTGGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.42, G:0.23, T:0.35
Consensus pattern (9 bp):
TGCTTCCGC
Found at i:4086451 original size:12 final size:12
Alignment explanation
Indices: 4086436--4086491 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
4086426 CGCTGCTTCC
4086436 GCTGCTGCTCTG
1 GCTGCTGCTCTG
*
4086448 GCTGCT--T-TT
1 GCTGCTGCTCTG
*
4086457 ACTGCTGCTCTG
1 GCTGCTGCTCTG
*
4086469 GCTGCTTCTCTG
1 GCTGCTGCTCTG
*
4086481 GCTGCTTCTCT
1 GCTGCTGCTCT
4086492 CTCTACTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
9 6 0.17
10 1 0.03
11 1 0.03
12 28 0.78
ACGTcount: A:0.02, C:0.32, G:0.25, T:0.41
Consensus pattern (12 bp):
GCTGCTGCTCTG
Found at i:4086451 original size:21 final size:21
Alignment explanation
Indices: 4086411--4086476 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
4086401 CTTCTTTATA
*
4086411 TGCTTCCGCTGCT--TC-CGC
1 TGCTTCCGCTGCTGCTCTGGC
4086429 TGCTTCCGCTGCTGCTCTGGC
1 TGCTTCCGCTGCTGCTCTGGC
***
4086450 TGCTTTTACTGCTGCTCTGGC
1 TGCTTCCGCTGCTGCTCTGGC
4086471 TGCTTC
1 TGCTTC
4086477 TCTGGCTGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
18 13 0.32
20 2 0.05
21 25 0.62
ACGTcount: A:0.02, C:0.36, G:0.24, T:0.38
Consensus pattern (21 bp):
TGCTTCCGCTGCTGCTCTGGC
Found at i:4086484 original size:21 final size:21
Alignment explanation
Indices: 4086427--4086486 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
4086417 CGCTGCTTCC
**
4086427 GCTGCTTCCGCTGCTGCTCTG
1 GCTGCTTCTACTGCTGCTCTG
*
4086448 GCTGCTTTTACTGCTGCTCTG
1 GCTGCTTCTACTGCTGCTCTG
4086469 GCTGCTTCT-CTGGCTGCT
1 GCTGCTTCTACT-GCTGCT
4086487 TCTCTCTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.02, C:0.33, G:0.27, T:0.38
Consensus pattern (21 bp):
GCTGCTTCTACTGCTGCTCTG
Found at i:4093747 original size:25 final size:22
Alignment explanation
Indices: 4093696--4093750 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4093686 TAACTGTCTA
* *
4093696 AAACAGCATTCCCTTAATTATG
1 AAACAACATTCCCTTAATTACG
4093718 AAACAACATTCCCTTAATTACG
1 AAACAACATTCCCTTAATTACG
4093740 AAACAACATTC
1 AAACAACATTC
4093751 GTGTTCAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.27
Consensus pattern (22 bp):
AAACAACATTCCCTTAATTACG
Found at i:4093773 original size:21 final size:22
Alignment explanation
Indices: 4093747--4093792 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
4093737 ACGAAACAAC
*
4093747 ATTCGTGTTCAGTAAAAAAA-A
1 ATTCGTGTTCACTAAAAAAATA
4093768 ATTCGTGTTCACTAAAAAAATA
1 ATTCGTGTTCACTAAAAAAATA
4093790 ATT
1 ATT
4093793 AATGAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (22 bp):
ATTCGTGTTCACTAAAAAAATA
Found at i:4094498 original size:42 final size:42
Alignment explanation
Indices: 4094415--4094498 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
4094405 AAACGCCGAA
* *
4094415 AAGGAACTACTCTATTACTGTGTTTTTTTACGAAAATGCCACT
1 AAGGAACTACTCTATTACTGCGTTTTTTTAC-AAAACGCCACT
*
4094458 AAGGAACTATTCTATTA-TGGCGTTTTTTTA-ATAAACGCCAC
1 AAGGAACTACTCTATTACT-GCGTTTTTTTACA-AAACGCCAC
4094499 AAAATTAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.03
42 9 0.25
43 26 0.72
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (42 bp):
AAGGAACTACTCTATTACTGCGTTTTTTTACAAAACGCCACT
Found at i:4095910 original size:41 final size:41
Alignment explanation
Indices: 4095834--4096022 Score: 274
Period size: 41 Copynumber: 4.6 Consensus size: 41
4095824 ATACAAAAAC
*
4095834 AAATGCCACTATTGATT-ACACTATTGTGGCGTTTGT-TAAA
1 AAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCT-AA
*
4095874 AAATGCCACTATTGATTAATACTATTGCGGCGTTTGTCTAA
1 AAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAA
* * *
4095915 AAACGCCACTATTGATTAACACTATTGTGACGTTTGTCTAA
1 AAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAA
* *
4095956 AAATGCCACCATTGATTAACACTATTGCGGCGTTTGTATAA
1 AAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAA
* *
4095997 AAACGCCACTATTGATTATCACTATT
1 AAATGCCACTATTGATTAACACTATT
4096023 TTCGCGTTTG
Statistics
Matches: 133, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 17 0.13
41 115 0.86
42 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (41 bp):
AAATGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAA
Found at i:4095949 original size:82 final size:82
Alignment explanation
Indices: 4095838--4096022 Score: 302
Period size: 82 Copynumber: 2.3 Consensus size: 82
4095828 AAAAACAAAT
* * *
4095838 GCCACTATTGATT-ACACTATTGTGGCGTTTGT-TAAAAAATGCCACTATTGATTAATACTATTG
1 GCCACTATTGATTAACACTATTGTGACGTTTGTCT-AAAAATGCCACCATTGATTAACACTATTG
*
4095901 CGGCGTTTGTCTAAAAAC
65 CGGCGTTTGTATAAAAAC
4095919 GCCACTATTGATTAACACTATTGTGACGTTTGTCTAAAAATGCCACCATTGATTAACACTATTGC
1 GCCACTATTGATTAACACTATTGTGACGTTTGTCTAAAAATGCCACCATTGATTAACACTATTGC
4095984 GGCGTTTGTATAAAAAC
66 GGCGTTTGTATAAAAAC
*
4096001 GCCACTATTGATTATCACTATT
1 GCCACTATTGATTAACACTATT
4096023 TTCGCGTTTG
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
81 13 0.13
82 83 0.86
83 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (82 bp):
GCCACTATTGATTAACACTATTGTGACGTTTGTCTAAAAATGCCACCATTGATTAACACTATTGC
GGCGTTTGTATAAAAAC
Found at i:4096115 original size:42 final size:42
Alignment explanation
Indices: 4096069--4096192 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 42
4096059 TATATTATGG
4096069 CGTTTGTGGTATAAACGCCGCTAATTTACCACTCTATTGCGA
1 CGTTTGTGGTATAAACGCCGCTAATTTACCACTCTATTGCGA
* * *
4096111 CGTTT-TGGCTA-AAACGCCG-TAAAATTTA-TACTCTATTACGG
1 CGTTTGTGG-TATAAACGCCGCT--AATTTACCACTCTATTGCGA
* * * *
4096152 TGTTTGTGATATAAATGCCGCTAATTTACCATTCTATTGCG
1 CGTTTGTGGTATAAACGCCGCTAATTTACCACTCTATTGCG
4096193 GTGTTTTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
40 1 0.02
41 33 0.50
42 31 0.47
43 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (42 bp):
CGTTTGTGGTATAAACGCCGCTAATTTACCACTCTATTGCGA
Found at i:4096195 original size:42 final size:42
Alignment explanation
Indices: 4096070--4096198 Score: 133
Period size: 42 Copynumber: 3.1 Consensus size: 42
4096060 ATATTATGGC
*
4096070 GTTTGTGGTATAAACGCCGCTAATTTACCACTCTATTGCGACGT
1 GTTTGTGATATAAACGCCGCTAATTTACCACTCTATTGCG--GT
* * *
4096114 -TTTG-GCTA-AAACGCCG-TAAAATTTA-TACTCTATTACGGT
1 GTTTGTGATATAAACGCCGCT--AATTTACCACTCTATTGCGGT
* *
4096153 GTTTGTGATATAAATGCCGCTAATTTACCATTCTATTGCGGT
1 GTTTGTGATATAAACGCCGCTAATTTACCACTCTATTGCGGT
4096195 GTTT
1 GTTT
4096199 TTTTTGTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 27 0.39
42 31 0.44
43 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (42 bp):
GTTTGTGATATAAACGCCGCTAATTTACCACTCTATTGCGGT
Found at i:4097202 original size:33 final size:34
Alignment explanation
Indices: 4097161--4097243 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 34
4097151 AAATACTTAC
4097161 TTTATTTTGTTAATTTGGTTGGA-TTTTT-TTAAA
1 TTTATTTTGTTAATTTGGTTGGACTTTTTGTT-AA
* * *
4097194 TTTTTTTTGTTTATTTTGTTGGACTTTTTGTTAA
1 TTTATTTTGTTAATTTGGTTGGACTTTTTGTTAA
*
4097228 TTTATTTTGATAATTT
1 TTTATTTTGTTAATTT
4097244 TGTTTATTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 20 0.48
34 20 0.48
35 2 0.05
ACGTcount: A:0.18, C:0.01, G:0.13, T:0.67
Consensus pattern (34 bp):
TTTATTTTGTTAATTTGGTTGGACTTTTTGTTAA
Found at i:4097230 original size:34 final size:33
Alignment explanation
Indices: 4097161--4097247 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 33
4097151 AAATACTTAC
*
4097161 TTTATTTTGTTAATTTGGTTGGATTTTTTTAAA
1 TTTATTTTGTTAATTTTGTTGGATTTTTTTAAA
* *
4097194 TTTTTTTTGTTTATTTTGTTGGACTTTTTGTT-AA
1 TTTATTTTGTTAATTTTGTTGGA-TTTTT-TTAAA
*
4097228 TTTATTTTGATAATTTTGTT
1 TTTATTTTGTTAATTTTGTT
4097248 TATTACCATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 20 0.43
34 24 0.52
35 2 0.04
ACGTcount: A:0.17, C:0.01, G:0.14, T:0.68
Consensus pattern (33 bp):
TTTATTTTGTTAATTTTGTTGGATTTTTTTAAA
Done.