Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 23 of 35
Found at i:3491020 original size:18 final size:18
Alignment explanation
Indices: 3491008--3491041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3490998 TTTTTAGTTT
3491008 ATTA-ATTTATTTTATTA
1 ATTATATTTATTTTATTA
*
3491025 ATTATTTTTATTTTATT
1 ATTATATTTATTTTATT
3491042 TTTGAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTATATTTATTTTATTA
Found at i:3491033 original size:13 final size:13
Alignment explanation
Indices: 3491005--3491044 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
3490995 GTTTTTTTAG
3491005 TTTATTAATT-TAT
1 TTTATTAATTAT-T
3491018 TTTATTAATTATT
1 TTTATTAATTATT
3491031 TTTATT--TTATT
1 TTTATTAATTATT
3491042 TTT
1 TTT
3491045 GAATGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.31
13 17 0.65
14 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTAATTATT
Found at i:3493196 original size:20 final size:19
Alignment explanation
Indices: 3493172--3493244 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
3493162 CACACCCAGA
3493172 TGTATCGATACATATTGCT
1 TGTATCGATACATATTGCT
* *
3493191 TAGTATCGATATATGTT-CT
1 T-GTATCGATACATATTGCT
* * *
3493210 TGGTATCGATATATAGTGAAT
1 T-GTATCGATACATATTG-CT
3493231 TGTATCGATACATA
1 TGTATCGATACATA
3493245 AAATTAGCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 17 0.39
20 25 0.57
21 2 0.05
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATATTGCT
Found at i:3493217 original size:19 final size:20
Alignment explanation
Indices: 3493173--3493224 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
3493163 ACACCCAGAT
*
3493173 GTATCGATACATATTGCTTA
1 GTATCGATATATATTGCTTA
* *
3493193 GTATCGATATATGTT-CTTG
1 GTATCGATATATATTGCTTA
3493212 GTATCGATATATA
1 GTATCGATATATA
3493225 GTGAATTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (20 bp):
GTATCGATATATATTGCTTA
Found at i:3493309 original size:13 final size:13
Alignment explanation
Indices: 3493272--3493309 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3493262 AACTTACTCA
*
3493272 GTATTGATACAGT
1 GTATTGATACATT
*
3493285 GTATCGATACATT
1 GTATTGATACATT
3493298 GTATTGATACAT
1 GTATTGATACAT
3493310 GGTAAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (13 bp):
GTATTGATACATT
Found at i:3501279 original size:27 final size:27
Alignment explanation
Indices: 3501249--3501302 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
3501239 TTTGGGAGAG
*
3501249 ATAACAAAAAGGGGGAGAAATTTGTTT
1 ATAACAAAAAGGAGGAGAAATTTGTTT
3501276 ATAACAAAAAGGAGGAGAAATTTGTTT
1 ATAACAAAAAGGAGGAGAAATTTGTTT
3501303 TAGAGTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (27 bp):
ATAACAAAAAGGAGGAGAAATTTGTTT
Found at i:3507926 original size:13 final size:13
Alignment explanation
Indices: 3507908--3507965 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
3507898 TTCAACGATT
3507908 TGTATCGATACAA
1 TGTATCGATACAA
3507921 TGTATCGATACATA
1 TGTATCGATACA-A
3507935 TTTTTTTGTATCGATACAA
1 ------TGTATCGATACAA
3507954 TGTATCGATACA
1 TGTATCGATACA
3507966 TATTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 24 0.63
14 1 0.03
19 1 0.03
20 12 0.32
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3507943 original size:33 final size:33
Alignment explanation
Indices: 3507906--3507987 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
3507896 ATTTCAACGA
3507906 TTTGTATCGATACAATGTATCGATACATATTTT
1 TTTGTATCGATACAATGTATCGATACATATTTT
3507939 TTTGTATCGATACAATGTATCGATACATATTTT
1 TTTGTATCGATACAATGTATCGATACATATTTT
3507972 TTTGTATCGATACAAT
1 TTTGTATCGATACAAT
3507988 TTAAGCTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (33 bp):
TTTGTATCGATACAATGTATCGATACATATTTT
Found at i:3507946 original size:20 final size:19
Alignment explanation
Indices: 3507921--3507989 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
3507911 ATCGATACAA
3507921 TGTATCGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
3507941 TGTATCGATACAA------
1 TGTATCGATACAATTTTTT
3507954 TGTATCGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
3507974 TGTATCGATACAATTT
1 TGTATCGATACAATTT
3507990 AAGCTATTGC
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.29
14 1 0.02
19 5 0.12
20 24 0.57
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (19 bp):
TGTATCGATACAATTTTTT
Found at i:3508029 original size:21 final size:21
Alignment explanation
Indices: 3508004--3508062 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
3507994 TATTGCCAAA
3508004 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
3508025 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
3508046 AAATGTATCGATACATT
1 AAATGTATCGATACATT
3508063 GTATCGATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:3508067 original size:13 final size:13
Alignment explanation
Indices: 3508049--3508106 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
3508039 ATTACTCAAA
3508049 TGTATCGATACAT
1 TGTATCGATACAT
3508062 TGTATCGATACA-
1 TGTATCGATACAT
* *
3508074 -CTA---AT-CTT
1 TGTATCGATACAT
3508082 TGTATCGATACAT
1 TGTATCGATACAT
3508095 TGTATCGATACA
1 TGTATCGATACA
3508107 CTGATCTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
7 1 0.03
8 2 0.06
9 2 0.06
11 2 0.06
12 2 0.06
13 26 0.74
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3508086 original size:20 final size:19
Alignment explanation
Indices: 3508061--3508126 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
3508051 TATCGATACA
3508061 TTGTATCGATACACTAATCT
1 TTGTATCGATACACT-ATCT
3508081 TTGTATCGAT--AC-A---
1 TTGTATCGATACACTATCT
3508094 TTGTATCGATACACTGATCT
1 TTGTATCGATACACT-ATCT
3508114 TTGTATCGATACA
1 TTGTATCGATACA
3508127 TGCAGGCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 23 0.59
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACACTATCT
Found at i:3508091 original size:33 final size:33
Alignment explanation
Indices: 3508049--3508127 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
3508039 ATTACTCAAA
3508049 TGTATCGATACATTGTATCGATACACTAATCTT
1 TGTATCGATACATTGTATCGATACACTAATCTT
*
3508082 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTAATCTT
3508115 TGTATCGATACAT
1 TGTATCGATACAT
3508128 GCAGGCAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTAATCTT
Found at i:3508171 original size:52 final size:52
Alignment explanation
Indices: 3508115--3508239 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
3508105 CACTGATCTT
* *
3508115 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
3508167 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3508219 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
3508240 CGTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3511389 original size:20 final size:20
Alignment explanation
Indices: 3511346--3511399 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
3511336 TTTCACAATT
* * *
3511346 TGTATCAATACATTGTTCAT
1 TGTATCGATACATTATTCAA
*
3511366 TGTATCGATACATTATTTAA
1 TGTATCGATACATTATTCAA
*
3511386 TGTATCGAAACATT
1 TGTATCGATACATT
3511400 CAGGCATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATTCAA
Found at i:3513900 original size:79 final size:79
Alignment explanation
Indices: 3513727--3514130 Score: 420
Period size: 79 Copynumber: 5.1 Consensus size: 79
3513717 ATTTATGTTT
* * * * * *
3513727 TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTCTCAAAACACTAA-TTTTCACAATCGGGG
1 TTATTTCCAAGGGGATACTCCAACCCTGGTTTTATTTTCACAACACCAATTTTTCACAATCGGGG
*
3513791 ATACTCCAACCTCG
66 ATACTCCAACCCCG
* * * *** *
3513805 TTTTTTCCAAGAGGATACTCTAACCCCAATTTTATTTTCACAACACCAATTTTTCACAATTGGGG
1 TTATTTCCAAGGGGATACTCCAACCCTGGTTTTATTTTCACAACACCAATTTTTCACAATCGGGG
*
3513870 ATACTCTAACCCCG
66 ATACTCCAACCCCG
* * * *
3513884 TTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTCCACAACACCAATTTTCCACAATTGGGG
1 TTATTTCCAAGGGGATACTCCAACCCTGGTTTTATTTTCACAACACCAATTTTTCACAATCGGGG
3513949 ATACTCCAA-CCCG
66 ATACTCCAACCCCG
** * * * * *
3513962 TTATTTCTGAGGGGATACTCCAATCTTGGTTTTA-TTTC-CAAAACTAATTTTTCACAATCGAGG
1 TTATTTCCAAGGGGATACTCCAACCCTGGTTTTATTTTCACAACACCAATTTTTCACAATCGGGG
*
3514025 ATACTCCAACCCTG
66 ATACTCCAACCCCG
* * * * * * * * *
3514039 TTATTTTCAAAGAGATAATCCAACCCTGGTCTTATTTCCAAAACACCAAATTTTCACAATCAGGG
1 TTATTTCCAAGGGGATACTCCAACCCTGGTTTTATTTTCACAACACCAATTTTTCACAATCGGGG
*
3514104 ATACACCAACCCCAG
66 ATACTCCAACCCC-G
3514119 TTTTATTTCCAA
1 --TTATTTCCAA
3514131 AATACCAATT
Statistics
Matches: 267, Mismatches: 52, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
76 29 0.11
77 31 0.12
78 75 0.28
79 122 0.46
80 1 0.00
82 9 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (79 bp):
TTATTTCCAAGGGGATACTCCAACCCTGGTTTTATTTTCACAACACCAATTTTTCACAATCGGGG
ATACTCCAACCCCG
Found at i:3514074 original size:155 final size:156
Alignment explanation
Indices: 3513740--3514115 Score: 443
Period size: 155 Copynumber: 2.4 Consensus size: 156
3513730 TTTTCGAGGG
* *
3513740 GATACTCCAACCCTGATTTTA-TTCTCAAAACACTAATTTTCACAATCGGGGATACTCCAACCTC
1 GATACTCCAACCCTGGTTTTATTTC-CAAAACACCAATTTTCACAATCGGGGATACTCCAACC-C
* * * * *
3513804 GTTTTTTCCAAGAGGATACTCTAACCCCAATTTTATTTTCACAACACCAATTTTTCACAATTGGG
64 GTTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTTCACAAAACCAATTTTTCACAATCGAG
* * *
3513869 GATACTCTAACCCCGTTATTTCCAAGGG
129 GATACTCCAACCCCGTTATTTCCAAAGA
* * *
3513897 GATACTCCAACCCCGGTTTTATTTCCACAACACCAATTTTCCACAATTGGGGATACTCCAACCCG
1 GATACTCCAACCCTGGTTTTATTTCCAAAACACCAATTTT-CACAATCGGGGATACTCCAACCCG
** * * **** *
3513962 TTATTTCTGAGGGGATACTCCAATCTTGGTTTTA-TTTC-CAAAACTAATTTTTCACAATCGAGG
65 TTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTTCACAAAACCAATTTTTCACAATCGAGG
* *
3514025 ATACTCCAACCCTGTTATTTTCAAAGA
130 ATACTCCAACCCCGTTATTTCCAAAGA
* * * *
3514052 GATAATCCAACCCTGGTCTTATTTCCAAAACACCAAATTTTCACAATCAGGGATACACCAACCC
1 GATACTCCAACCCTGGTTTTATTTCCAAAACACC-AATTTTCACAATCGGGGATACTCCAACCC
3514116 CAGTTTTATT
Statistics
Matches: 185, Mismatches: 31, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
155 93 0.50
156 10 0.05
157 58 0.31
158 24 0.13
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (156 bp):
GATACTCCAACCCTGGTTTTATTTCCAAAACACCAATTTTCACAATCGGGGATACTCCAACCCGT
TATTTCCAAGAGGATACTCCAACCCCAATTTTATTTTCACAAAACCAATTTTTCACAATCGAGGA
TACTCCAACCCCGTTATTTCCAAAGA
Found at i:3514115 original size:51 final size:51
Alignment explanation
Indices: 3514050--3514168 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 51
3514040 TATTTTCAAA
**
3514050 GAGATA-ATCCAACCCTGGTCTTATTTCCAAAACACCAAATTTTCACAATCAG
1 GAGATACA-CCAACCCCAGTCTTATTTCCAAAACACCAAATTTTCACAATC-G
* * *
3514102 G-GATACACCAACCCCAGTTTTATTTCCAAAATACCAATTTTTCACAATCG
1 GAGATACACCAACCCCAGTCTTATTTCCAAAACACCAAATTTTCACAATCG
*
3514152 GAGATACTCCAACCCCA
1 GAGATACACCAACCCCA
3514169 TTCTCTCTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 2 0.03
51 55 0.93
52 2 0.03
ACGTcount: A:0.35, C:0.29, G:0.09, T:0.26
Consensus pattern (51 bp):
GAGATACACCAACCCCAGTCTTATTTCCAAAACACCAAATTTTCACAATCG
Found at i:3514257 original size:79 final size:80
Alignment explanation
Indices: 3514100--3514290 Score: 197
Period size: 79 Copynumber: 2.4 Consensus size: 80
3514090 TTTCACAATC
* * * *
3514100 AGGGATACACCAACCCCAGTTTTATTTCCAAAATACCAATTTTTCACAATCGGAGATACTCCAAC
1 AGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCGGAGATACTCCAAC
*
3514165 CCCATTCTCTCTGAG
66 CCCATTATCTCTGAG
* * * * * * *
3514180 -GGGATACTCCAACCCTAATTTTATTTCTAAAACATCGATTTTCCACCATTGGGGATACTCCAAC
1 AGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCGGAGATACTCCAAC
** *
3514244 CCTGTTATTTCTGAG
66 CCCATTATCTCTGAG
** * *
3514259 AGGG-TACTCTGACCCCATTTTTATCTCCAAAA
1 AGGGATACTCCAACCCCAATTTTATTTCCAAAA
3514291 TATTAAATTT
Statistics
Matches: 89, Mismatches: 21, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
79 86 0.97
80 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (80 bp):
AGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCGGAGATACTCCAAC
CCCATTATCTCTGAG
Found at i:3519137 original size:31 final size:28
Alignment explanation
Indices: 3519099--3519155 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 28
3519089 ATTGGTGTTC
3519099 CAGAAATAAAATTGAGGTTGGAGTATCCCCA
1 CAGAAATAAAA--G-GGTTGGAGTATCCCCA
*
3519130 CAGAAATAACAGGGTTGGAGTATCCC
1 CAGAAATAAAAGGGTTGGAGTATCCC
3519156 TGATTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 1 0.04
31 10 0.40
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (28 bp):
CAGAAATAAAAGGGTTGGAGTATCCCCA
Found at i:3519294 original size:79 final size:79
Alignment explanation
Indices: 3519132--3519395 Score: 255
Period size: 79 Copynumber: 3.4 Consensus size: 79
3519122 TATCCCCACA
* * * * ** * *
3519132 GAAATAACAGGGTTGGAGTATCCCTGATTAT-AAAAATCGGTATTTT-GAAAATGTAATCGGGGT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAG-AAATAAAACCAGGGT
** *
3519195 TGGAGTATCCCCTCG
65 TAAAGTATCCCATCG
* * * **
3519210 AAAATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGA-TTTAGAAATAAGGCCAGGGT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGAT-ATTTTAGAAATAAAACCAGGGT
* * *
3519274 TGAAGTATCCTATTG
65 TAAAGTATCCCATCG
** * * *
3519289 GAAATAACGGGGTTGGAGTATCCCCGATTGTGGGAAATTGGTATTTTAGAAATAAAACCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAACCAGGGTT
*
3519354 AAAGTATCCCCTCG
66 AAAGTATCCCATCG
*
3519368 GAAATAACGGAGTTGGAGTATCCCCGAT
1 GAAATAACGGGGTTGGAGTATCCCCGAT
3519396 GAAAAATTAA
Statistics
Matches: 150, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
78 26 0.17
79 122 0.81
80 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (79 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAACCAGGGTT
AAAGTATCCCATCG
Found at i:3524711 original size:62 final size:62
Alignment explanation
Indices: 3524532--3525417 Score: 1172
Period size: 62 Copynumber: 14.3 Consensus size: 62
3524522 TCTTTATTTT
* * * * * *
3524532 CCTTTAGTCCTCAAAGAGCAAGAC-TCCCTTTTCTTTTTAAAGCCTACATGTGTTGGTGGCA-
1 CCTTTAGTCCTCAAAGAGCAGGACGT-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * *
3524593 CCTTTAGTCCTCAAAGAGCATGACG-CTTTTTCTTTTCAAAGCCCACATGAATTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * * * *
3524654 TCTTTAGTCCTCAAAGAGCAGGACTTCTTTTCCTTTTTAAAGCCCATACGAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* *
3524716 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTCAAAGCCCACACGAGTTGGTAGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * * * *
3524778 CCTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTTAAAGCCCACACGAGCTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
** * * * *
3524840 TTTTTTAGTCCTCAAAGAGCAAGACG-CCTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCAC
1 -CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * * * * *
3524902 CCTTTAGTTCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGAGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * *
3524964 CATTTAGTCCTCAAAGAGCAAGAC-ACATTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
** *
3525026 CCTTTAGTCCTCAAAGAATAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGTAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * * ** *
3525088 CTTTTAATCCTCAAAGAGTAGGATATCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * *
3525150 CCTTTAGTCCTCAAAGAGCACGACGTCTTTTTCTTTTCAAAGTCTACACGAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* ***
3525212 CCTTTAGTCCTCAAAAAGCAGGATACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
* * * * *
3525274 CTTTTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTTCAAAACCCACACAAGTTGGTGGCAC
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
*
3525336 CCTTTAGTCCTCAAAGAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-
1 CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
3525397 CCTTTAAGTCCTCAAAGAGCA
1 CCTTT-AGTCCTCAAAGAGCA
3525418 AGAAGACACA
Statistics
Matches: 729, Mismatches: 88, Indels: 15
0.88 0.11 0.02
Matches are distributed among these distances:
60 30 0.04
61 71 0.10
62 604 0.83
63 24 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (62 bp):
CCTTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
Found at i:3525562 original size:41 final size:41
Alignment explanation
Indices: 3525474--3525573 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
3525464 TGGGACGCAT
* * *
3525474 TTTTTCCTTTTTCCTTTGTCTTCAAAGAGCAGGGCTCACCTC
1 TTTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACT-ACCTC
* * *
3525516 ATTTTCTTTTTTCCTTTGTCCTCGAAGAGCAAGACGT-CCTC
1 TTTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGAC-TACCTC
*
3525557 TTTTTCACTTTGTCCTT
1 TTTTTC-CTTTTTCCTT
3525574 AAGAAGTAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 9 0.19
42 37 0.79
43 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.13, T:0.46
Consensus pattern (41 bp):
TTTTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACTACCTC
Found at i:3525836 original size:45 final size:45
Alignment explanation
Indices: 3525737--3526146 Score: 259
Period size: 42 Copynumber: 9.6 Consensus size: 45
3525727 GACACTTTCC
* * * *
3525737 TCATTTTCTTT-TTTT--CTTTGTCCTCAAAGAGCAGGGCACACC
1 TCATTTCCTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT
**
3525779 TCATTTCC-TTCTTTTCCCTTAATCCTCAAAGAGCAGGACGCACT
1 TCATTTCCTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT
* * * *
3525823 TCGTTTCCTTTC-TTTCCCTTTTGTCCTCAAAGGGCAAGATGCAC-
1 TCATTTCCTTTCTTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACT
*
3525867 TCTATTT-C---CTTTTCCCTTTGTCCTTAAAGAGCAGGACGCAC-
1 TC-ATTTCCTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT
* * **
3525908 TCTATTT-C---CTTTTCCCTTTGTCTTCAAAGAGTAGGACGTGC-
1 TC-ATTTCCTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT
* * * * * *
3525949 -CTTTTCC-TT-TTCT-CCTTTATCCTCAAAGAGAAAGACACA-T
1 TCATTTCCTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT
* * *
3525989 TCCATTTCC-TTATTTTCCTTTTTTGTCCTCAAAGAGCAGGACGTACT
1 T-CATTTCCTTTCTTTTCC--CTTTGTCCTCAAAGAGCAGGACGCACT
* *
3526036 TCATTT-CTTTCTTTTCTCTTTTGTCCTCAAAGAGCAGGACGCATT
1 TCATTTCCTTTCTTTTC-CCTTTGTCCTCAAAGAGCAGGACGCACT
* * * * *
3526081 TCGTTGTCC--T-TTTT-CCTTTATCCTCAAAAAGTAGGACACACT
1 TCATT-TCCTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT
3526123 TCATTT-CTTT-TTTT-CCTTTGTCCT
1 TCATTTCCTTTCTTTTCCCTTTGTCCT
3526147 AGAAGAGTAG
Statistics
Matches: 293, Mismatches: 51, Indels: 48
0.75 0.13 0.12
Matches are distributed among these distances:
39 3 0.01
40 22 0.08
41 64 0.22
42 65 0.22
43 3 0.01
44 43 0.15
45 57 0.19
46 32 0.11
47 4 0.01
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (45 bp):
TCATTTCCTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT
Found at i:3525902 original size:86 final size:86
Alignment explanation
Indices: 3525737--3526094 Score: 290
Period size: 86 Copynumber: 4.2 Consensus size: 86
3525727 GACACTTTCC
* * * ** *
3525737 TCATTTTCTTTTTT-TC-TTTGTCCTCAAAGAGCAGGGCACAC-CTCATTTCCTTCTTTTCCCTT
1 TCATTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACGTACTCT-ATTTCCTT-TTCT-CCTT
*
3525799 AATCCTCAAAGAGCAGGACGCACT
63 TATCCTCAAAGAGCAGGACGCACT
* * * * * *
3525823 TCGTTTCCTTTCTTTCCCTTTTGTCCTCAAAGGGCAAGATGCACTCTATTTCCTTTTC-CCTTTG
1 TCATTTCCTTT-TTTCCCTTTTGTCCTCAAAGAGCAGGACGTACTCTATTTCCTTTTCTCCTTTA
*
3525887 TCCTTAAAGAGCAGGACGCAC-
65 TCCTCAAAGAGCAGGACGCACT
* * *
3525908 TCTATTTCC--TTTTCCC-TTTGTCTTCAAAGAGTAGGACGTGC-CT-TTTCCTTTTCTCCTTTA
1 TC-ATTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACGTACTCTATTTCCTTTTCTCCTTTA
* * *
3525968 TCCTCAAAGAGAAAGACACA-T
65 TCCTCAAAGAGCAGGACGCACT
*
3525989 TCCATTTCCTTATTTTCCTTTTTTGTCCTCAAAGAGCAGGACGTACT-TCATTTCTTTCTTTTCT
1 T-CATTTCCTT-TTTTCC-CTTTTGTCCTCAAAGAGCAGGACGTACTCT-ATTTC---CTTTTCT
* * *
3526053 CTTTTGTCCTCAAAGAGCAGGACGCATT
59 CCTTTATCCTCAAAGAGCAGGACGCACT
*
3526081 TCGTTGTCCTTTTT
1 TCATT-TCCTTTTT
3526095 CCTTTATCCT
Statistics
Matches: 216, Mismatches: 35, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
80 10 0.05
81 30 0.14
82 19 0.09
83 6 0.03
84 7 0.03
85 2 0.01
86 61 0.28
87 3 0.01
88 7 0.03
89 28 0.13
90 2 0.01
91 34 0.16
92 7 0.03
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (86 bp):
TCATTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACGTACTCTATTTCCTTTTCTCCTTTAT
CCTCAAAGAGCAGGACGCACT
Found at i:3526018 original size:46 final size:44
Alignment explanation
Indices: 3525956--3526069 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 44
3525946 TGCCTTTTCC
* *
3525956 TTTTCTCCTTTATCCTCAAAGAGAAAGAC-ACATTCCATTTCCTTA
1 TTTTCTCTTTTGTCCTCAAAGAGAAAGACGAC-TT-CATTTCCTTA
* * * * *
3526001 TTTTCCTTTTTTGTCCTCAAAGAGCAGGACGTACTTCATTTCTTTC
1 TTTT-CTCTTTTGTCCTCAAAGAGAAAGACG-ACTTCATTTCCTTA
3526047 TTTTCTCTTTTGTCCTCAAAGAG
1 TTTTCTCTTTTGTCCTCAAAGAG
3526070 CAGGACGCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
45 22 0.38
46 32 0.55
47 2 0.03
48 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.43
Consensus pattern (44 bp):
TTTTCTCTTTTGTCCTCAAAGAGAAAGACGACTTCATTTCCTTA
Found at i:3526158 original size:42 final size:42
Alignment explanation
Indices: 3525741--3526146 Score: 281
Period size: 41 Copynumber: 9.5 Consensus size: 42
3525731 CTTTCCTCAT
* * *
3525741 TTTCTTTTTTT-CTTTGTCCTCAAAGAGCAGGGCACACCTCA
1 TTTCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCA
* ** *
3525782 TTTCCTTCTTTTCCCTTAATCCTCAAAGAGCAGGACGCACTTCG
1 TTT-CTT-TTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCA
* * * *
3525826 TTTCCTTTCTTTCCCTTTTGTCCTCAAAGGGCAAGATGCAC-TCTA
1 TTT-CTTT-TTTTCC-TTTGTCCTCAAAGAGCAGGACGCACTTC-A
* * *
3525871 TTTC-CTTTTCCCTTTGTCCTTAAAGAGCAGGACGCAC-TCTA
1 TTTCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTC-A
* * * * ** *
3525912 TTTC-CTTTTCCCTTTGTCTTCAAAGAGTAGGACGTGC--CT
1 TTTCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCA
* * * * * *
3525951 TTTCCTTTTCTCCTTTATCCTCAAAGAGAAAGACACA-TTCCA
1 TTTCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTT-CA
* *
3525993 TTTCCTTATTTTCCTTTTTTGTCCTCAAAGAGCAGGACGTACTTCA
1 TTT-CTTTTTTTCC---TTTGTCCTCAAAGAGCAGGACGCACTTCA
* *
3526039 TTTCTTTCTTTTCTCTTTTGTCCTCAAAGAGCAGGACGCATTTCG
1 TTTCTTT-TTTTC-C-TTTGTCCTCAAAGAGCAGGACGCACTTCA
* * * * *
3526084 TTGTC-CTTTTTCCTTTATCCTCAAAAAGTAGGACACACTTCA
1 TT-TCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCA
3526126 TTTCTTTTTTTCCTTTGTCCT
1 TTTCTTTTTTTCCTTTGTCCT
3526147 AGAAGAGTAG
Statistics
Matches: 290, Mismatches: 56, Indels: 37
0.76 0.15 0.10
Matches are distributed among these distances:
39 4 0.01
40 23 0.08
41 62 0.21
42 52 0.18
43 14 0.05
44 45 0.16
45 56 0.19
46 31 0.11
47 3 0.01
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (42 bp):
TTTCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCA
Found at i:3526879 original size:30 final size:30
Alignment explanation
Indices: 3526843--3526949 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
3526833 CATTATTCAT
*
3526843 TGTATCGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTCTGGGTTTTACCCAAA
* *** * * *
3526873 TGTATCGATACATTGTTCATTGTATCGACACAT
1 TGTATCGATACATTCTGGGTTTTA-C-CCA-AA
3526906 TGTATCGATACATTCTGGGTTTTACCCAAA
1 TGTATCGATACATTCTGGGTTTTACCCAAA
3526936 TGTATCGATACATT
1 TGTATCGATACATT
3526950 TTTCAATGTA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
30 34 0.58
31 3 0.05
32 3 0.05
33 19 0.32
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (30 bp):
TGTATCGATACATTCTGGGTTTTACCCAAA
Found at i:3526908 original size:13 final size:13
Alignment explanation
Indices: 3526890--3526919 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3526880 ATACATTGTT
3526890 CATTGTATCGACA
1 CATTGTATCGACA
*
3526903 CATTGTATCGATA
1 CATTGTATCGACA
3526916 CATT
1 CATT
3526920 CTGGGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (13 bp):
CATTGTATCGACA
Found at i:3526939 original size:63 final size:63
Alignment explanation
Indices: 3526840--3526969 Score: 224
Period size: 63 Copynumber: 2.1 Consensus size: 63
3526830 ATACATTATT
* *
3526840 CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTGTTCATTGTATCGACA
1 CATTGTATCGATACATTCTGGGTTTTACCCAAATGTATCGATACATTGTTCAATGTATCGACA
* *
3526903 CATTGTATCGATACATTCTGGGTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATA
1 CATTGTATCGATACATTCTGGGTTTTACCCAAATGTATCGATACATTGTTCAATGTATCGACA
3526966 CATT
1 CATT
3526970 CAGGCATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (63 bp):
CATTGTATCGATACATTCTGGGTTTTACCCAAATGTATCGATACATTGTTCAATGTATCGACA
Found at i:3527784 original size:8 final size:8
Alignment explanation
Indices: 3527771--3527795 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3527761 CTAAGACTTC
3527771 CATGCATT
1 CATGCATT
3527779 CATGCATT
1 CATGCATT
3527787 CATGCATT
1 CATGCATT
3527795 C
1 C
3527796 TTGTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (8 bp):
CATGCATT
Found at i:3529025 original size:10 final size:11
Alignment explanation
Indices: 3529010--3529040 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
3529000 ATTTTTTGGG
3529010 ATTTTTAGAAT
1 ATTTTTAGAAT
3529021 ATTTTTAGAAT
1 ATTTTTAGAAT
3529032 ATTTTTAGA
1 ATTTTTAGA
3529041 TCGACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (11 bp):
ATTTTTAGAAT
Found at i:3529514 original size:28 final size:27
Alignment explanation
Indices: 3529481--3529551 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 27
3529471 TTCCACAATT
**
3529481 AGGGATACTCCAACCCTGTTATTTCCTC
1 AGGGATACTCCAACCCT-TTATTTCCAA
*
3529509 GGGGATACTCCAACCCCTTTATTTCCAA
1 AGGGATACTCCAA-CCCTTTATTTCCAA
3529537 AGGGATACTCCAACC
1 AGGGATACTCCAACC
3529552 TCGGTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.05
28 32 0.84
29 4 0.11
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (27 bp):
AGGGATACTCCAACCCTTTATTTCCAA
Found at i:3529525 original size:79 final size:79
Alignment explanation
Indices: 3529341--3529537 Score: 224
Period size: 79 Copynumber: 2.5 Consensus size: 79
3529331 ATTCATGTTT
* * * * * * *
3529341 TTATTTCCGATGGGATACTCCAATCTCAGTTTTATTTCCAAAACACCAATTTTTCACAATCGATG
1 TTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTCCACAATAGAGG
**
3529406 ATACTTTAACCCCG
66 ATACTCCAACCCCG
*
3529420 TTATTTCCAAGGGGATACTCCAACCCC-GATTTTATTTCCACAACACCAATTTTCCACAATTAG-
1 TTATTTCCAAGGGGATACTCCAACCCCAG-TTTTATTTCCAAAACACCAATTTTCCACAA-TAGA
*
3529483 GGATACTCCAACCCTG
64 GGATACTCCAACCCCG
**
3529499 TTATTTCCTCGGGGATACTCCAACCCC---TTTATTTCCAAA
1 TTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCCAAA
3529538 GGGATACTCC
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
76 11 0.11
78 1 0.01
79 88 0.86
80 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (79 bp):
TTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTCCACAATAGAGG
ATACTCCAACCCCG
Found at i:3529536 original size:107 final size:105
Alignment explanation
Indices: 3529413--3529609 Score: 281
Period size: 107 Copynumber: 1.9 Consensus size: 105
3529403 ATGATACTTT
*
3529413 AACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCACAACACCAATTTTCCACA
1 AACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCCA-AA-ACCAATTTTCCACA
3529478 ATTAGG-GATACTCCAA-CCCTGTTATTTCCTCGGGGATACTCC
64 A-TAGGAGATACTCCAACCCCT-TTATTTCCTCGGGGATACTCC
* * * * *
3529520 AACCCCTTTATTTCCAAAGGGATACTCCAACCTCGGTTTTATTTCCAAAATCAATTTTTCACAAT
1 AACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCCAAAACCAATTTTCCACAAT
*
3529585 CGGAGATACTCCAACCCCTTTATTT
66 AGGAGATACTCCAACCCCTTTATTT
3529610 TTGAGGGAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
104 3 0.04
105 29 0.36
106 6 0.07
107 43 0.53
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.31
Consensus pattern (105 bp):
AACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCCAAAACCAATTTTCCACAAT
AGGAGATACTCCAACCCCTTTATTTCCTCGGGGATACTCC
Found at i:3533965 original size:21 final size:21
Alignment explanation
Indices: 3533941--3533984 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3533931 TCTACCATTG
*
3533941 TTTCTGCTCGCCACCAAGGCA
1 TTTCTGCTCACCACCAAGGCA
*
3533962 TTTCTGCTCACCACCTAGGCA
1 TTTCTGCTCACCACCAAGGCA
3533983 TT
1 TT
3533985 ATCGCTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.36, G:0.16, T:0.30
Consensus pattern (21 bp):
TTTCTGCTCACCACCAAGGCA
Found at i:3534232 original size:103 final size:102
Alignment explanation
Indices: 3534077--3534429 Score: 418
Period size: 103 Copynumber: 3.4 Consensus size: 102
3534067 AACCTAATCG
* * * * *
3534077 CCACTAAGGCATCATCACTCTTAGTGATGCCAAGTTACTCCACATCCAATCACCATCAAGGCCTT
1 CCACCAAGGCATCATCACT-TTAGTGATACCAAGTCACTCCAAATCTAATCACCATCAAGGCCTT
*
3534142 ATTACCGTCAGTGACACCAAGTCACCTAATTCTGATCA
65 ATTACCGTCAGTGACACCAAGTCACCAAATTCTGATCA
** *
3534180 CCACCAAGGCATCATCACTTTAAAAGATACTAAGTCACTCCAAATCTAATCACCATCAAGGCCTT
1 CCACCAAGGCATCATCACTTT-AGTGATACCAAGTCACTCCAAATCTAATCACCATCAAGGCCTT
* * * *
3534245 ATTATCGTCAGTGACACCAAGTCACCCAATTTTGATCG
65 ATTACCGTCAGTGACACCAAGTCACCAAATTCTGATCA
* * * * * * *
3534283 CCAACAAGGCATCATCACTTTGAGTGACACCAAGTCACTCCAAGTCTAGTCGCCACCAAGGCATT
1 CCACCAAGGCATCATCACTTT-AGTGATACCAAGTCACTCCAAATCTAATCACCATCAAGGCCTT
* ** *
3534348 ATCACTATTAGTGACACCAAGTCACTCAAATTCTGATCA
65 ATTACCGTCAGTGACACCAAGTCAC-CAAATTCTGATCA
* * *
3534387 CCACCAAGGCGTCATGACTTTCAGTGACACCAAGTCACTCCAA
1 CCACCAAGGCATCATCACTTT-AGTGATACCAAGTCACTCCAA
3534430 TTTCGATCTC
Statistics
Matches: 213, Mismatches: 35, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
102 2 0.01
103 162 0.76
104 49 0.23
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (102 bp):
CCACCAAGGCATCATCACTTTAGTGATACCAAGTCACTCCAAATCTAATCACCATCAAGGCCTTA
TTACCGTCAGTGACACCAAGTCACCAAATTCTGATCA
Found at i:3534339 original size:155 final size:155
Alignment explanation
Indices: 3534151--3534437 Score: 359
Period size: 155 Copynumber: 1.9 Consensus size: 155
3534141 TATTACCGTC
* * * *
3534151 AGTGACACCAAGTCACCTAATTCTGATCACCACCAAGGCATCATCACT-TTAAAAGATACTAAGT
1 AGTGACACCAAGTCACCCAAGTCTGATCACCACCAAGGCATCATCACTATT-AAAGACACCAAGT
* * *
3534215 CACTCCAAA-TCTAATCACCATCAAGGCCTTATTA-TCGTCAGTGACACCAAGTCAC-CCAATTT
65 CACT-CAAATTCTAATCACCACCAAGGCCTCATGACT-GTCAGTGACACCAAGTCACTCCAATTT
*
3534277 TGATCGCCAACAAGGCATCATCACTTTG
128 CGATCGCCAACAAGGCATCATCACTTTG
* * **
3534305 AGTGACACCAAGTCACTCCAAGTCT-AGTCGCCACCAAGGCATTATCACTATTAGTGACACCAAG
1 AGTGACACCAAGTCAC-CCAAGTCTGA-TCACCACCAAGGCATCATCACTATTAAAGACACCAAG
* * *
3534369 TCACTCAAATTCTGATCACCACCAAGGCGTCATGACTTTCAGTGACACCAAGTCACTCCAATTTC
64 TCACTCAAATTCTAATCACCACCAAGGCCTCATGACTGTCAGTGACACCAAGTCACTCCAATTTC
3534434 GATC
129 GATC
3534438 TCCATTAAGG
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
154 21 0.19
155 77 0.69
156 14 0.12
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (155 bp):
AGTGACACCAAGTCACCCAAGTCTGATCACCACCAAGGCATCATCACTATTAAAGACACCAAGTC
ACTCAAATTCTAATCACCACCAAGGCCTCATGACTGTCAGTGACACCAAGTCACTCCAATTTCGA
TCGCCAACAAGGCATCATCACTTTG
Found at i:3534452 original size:52 final size:52
Alignment explanation
Indices: 3534024--3534437 Score: 256
Period size: 52 Copynumber: 8.0 Consensus size: 52
3534014 AGTCTTGATT
* * ** * ** *
3534024 GCCACCAAGGCATCATTACTTTTAGTGATGCCAAGTCACCCCAA-ACCTAATC
1 GCCACCAAGGCATCATCACTTTCAGTGACACCAAGTCACTCCAATTTC-GATC
* ** * * *
3534076 GCCACTAAGGCATCATCACTCTT-AGTGATGCCAAGTTACTCCACA-TCCAATC
1 GCCACCAAGGCATCATCACT-TTCAGTGACACCAAGTCACTCCA-ATTTCGATC
* * * * * ** *
3534128 ACCATCAAGGCCTTATTACCGTCAGTGACACCAAGTCAC-CTAA-TTCTGATC
1 GCCACCAAGGCATCATCACTTTCAGTGACACCAAGTCACTCCAATTTC-GATC
* * ** * * * *
3534179 ACCACCAAGGCATCATCACTTTAAAAGATACTAAGTCACTCCAA-ATCTAATC
1 GCCACCAAGGCATCATCACTTTCAGTGACACCAAGTCACTCCAATTTC-GATC
* * * * * * *
3534231 ACCATCAAGGCCTTATTA-TCGTCAGTGACACCAAGTCAC-CCAATTTTGATC
1 GCCACCAAGGCATCATCACT-TTCAGTGACACCAAGTCACTCCAATTTCGATC
* * * *
3534282 GCCAACAAGGCATCATCACTTTGAGTGACACCAAGTCACTCCAA-GTCTAGTC
1 GCCACCAAGGCATCATCACTTTCAGTGACACCAAGTCACTCCAATTTCGA-TC
* *
3534334 GCCACCAAGGCATTATCACTATT-AGTGACACCAAGTCACT-CAAATTCTGATC
1 GCCACCAAGGCATCATCACT-TTCAGTGACACCAAGTCACTCCAATTTC-GATC
* * *
3534386 ACCACCAAGGCGTCATGACTTTCAGTGACACCAAGTCACTCCAATTTCGATC
1 GCCACCAAGGCATCATCACTTTCAGTGACACCAAGTCACTCCAATTTCGATC
3534438 TCCATTAAGG
Statistics
Matches: 282, Mismatches: 65, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
50 3 0.01
51 79 0.28
52 186 0.66
53 14 0.05
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (52 bp):
GCCACCAAGGCATCATCACTTTCAGTGACACCAAGTCACTCCAATTTCGATC
Found at i:3534465 original size:52 final size:52
Alignment explanation
Indices: 3534254--3534474 Score: 216
Period size: 52 Copynumber: 4.3 Consensus size: 52
3534244 TATTATCGTC
* * *
3534254 AGTGACACCAAGTCAC-CCAATTTTGATCGCCAACAAGGCATCATCACTTTG
1 AGTGACACCAAGTCACTCCAATTTCGATCGCCACCAAGGCATCATCACTATG
* * * *
3534305 AGTGACACCAAGTCACTCCAA-GTCTAGTCGCCACCAAGGCATTATCACTATT
1 AGTGACACCAAGTCACTCCAATTTCGA-TCGCCACCAAGGCATCATCACTATG
* * * * * *
3534357 AGTGACACCAAGTCACT-CAAATTCTGATCACCACCAAGGCGTCATGACTTTC
1 AGTGACACCAAGTCACTCCAATTTC-GATCGCCACCAAGGCATCATCACTATG
* ** * * *
3534409 AGTGACACCAAGTCACTCCAATTTCGATCTCCATTAAGGCGTCACCAATATG
1 AGTGACACCAAGTCACTCCAATTTCGATCGCCACCAAGGCATCATCACTATG
3534461 AGTGACTA-CAAGTC
1 AGTGAC-ACCAAGTC
3534475 GTTAAAATTC
Statistics
Matches: 140, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
51 21 0.15
52 111 0.79
53 8 0.06
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (52 bp):
AGTGACACCAAGTCACTCCAATTTCGATCGCCACCAAGGCATCATCACTATG
Found at i:3534483 original size:104 final size:104
Alignment explanation
Indices: 3534151--3534485 Score: 250
Period size: 103 Copynumber: 3.2 Consensus size: 104
3534141 TATTACCGTC
* * ** * *
3534151 AGTGACACCAAGTCACCT--AATTCTGATCACCACCAAGGCATCATCACTTTAAAAGATACTAAG
1 AGTGACACCAAGTCA-CTAAAATTCTGATCACCAACAAGGCATCATCACTTTCAGTGACACCAAG
* * * * * * * ** * *
3534214 TCACTCCAAATCTAATCACCATCAAGGCCTTA-TTATCGTC
65 TCACTCCAAGTCGAGTCGCCACCAAGGCATCACCAAT-ATG
** * * *
3534254 AGTGACACCAAGTCAC-CCAATTTTGATCGCCAACAAGGCATCATCACTTTGAGTGACACCAAGT
1 AGTGACACCAAGTCACTAAAATTCTGATCACCAACAAGGCATCATCACTTTCAGTGACACCAAGT
* * * * *
3534318 CACTCCAAGTCTAGTCGCCACCAAGGCATTATCACTATT
66 CACTCCAAGTCGAGTCGCCACCAAGGCATCACCAATATG
* * * *
3534357 AGTGACACCAAGTCACTCAAATTCTGATCACCACCAAGGCGTCATGACTTTCAGTGACACCAAGT
1 AGTGACACCAAGTCACTAAAATTCTGATCACCAACAAGGCATCATCACTTTCAGTGACACCAAGT
* * ** *
3534422 CACTCCAATTTCGA-TCTCCATTAAGGCGTCACCAATATG
66 CACTCCAA-GTCGAGTCGCCACCAAGGCATCACCAATATG
**
3534461 AGTGACTA-CAAGTCGTTAAAATTCT
1 AGTGAC-ACCAAGTCACTAAAATTCT
3534486 AACCGCCATT
Statistics
Matches: 188, Mismatches: 38, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
102 1 0.01
103 96 0.51
104 87 0.46
105 4 0.02
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.25
Consensus pattern (104 bp):
AGTGACACCAAGTCACTAAAATTCTGATCACCAACAAGGCATCATCACTTTCAGTGACACCAAGT
CACTCCAAGTCGAGTCGCCACCAAGGCATCACCAATATG
Found at i:3537960 original size:85 final size:85
Alignment explanation
Indices: 3537858--3538028 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
3537848 CGATCGCCAC
3537858 AATCAGCTGGTCGTCGTACGTGCTCGCCCAAGACCTGGTCGCCAAGACGACCTGTGCACATTCTT
1 AATCAGCTGGTCGTCGTACGTGCTCGCCCAAGACCTGGTCGCCAAGACGACCTGTGCACATTCTT
3537923 TGATACCCTAACAAGCAGTT
66 TGATACCCTAACAAGCAGTT
3537943 AATCAGCTGGTCGTCGTACGTGCTCGCCCAAGACCTGGTCGCCAAGACGACCTGTGCACATTCTT
1 AATCAGCTGGTCGTCGTACGTGCTCGCCCAAGACCTGGTCGCCAAGACGACCTGTGCACATTCTT
3538008 TGATACCCTAACAAGCAGTT
66 TGATACCCTAACAAGCAGTT
3538028 A
1 A
3538029 GAGCTTGCAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (85 bp):
AATCAGCTGGTCGTCGTACGTGCTCGCCCAAGACCTGGTCGCCAAGACGACCTGTGCACATTCTT
TGATACCCTAACAAGCAGTT
Found at i:3542461 original size:2 final size:2
Alignment explanation
Indices: 3542449--3542486 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
3542439 TTAAAGTCTA
3542449 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3542487 GTTGAGGTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3543048 original size:2 final size:2
Alignment explanation
Indices: 3543041--3543087 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3543031 CAATATTTAC
3543041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3543083 AT AT A
1 AT AT A
3543088 CTTTTTTGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3544138 original size:2 final size:2
Alignment explanation
Indices: 3544131--3544155 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3544121 TTTATTAATT
3544131 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 T
3544156 GAGTAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3544863 original size:2 final size:2
Alignment explanation
Indices: 3544856--3544892 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3544846 CCAAAGAAAG
3544856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3544893 GTCAGGTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3546706 original size:2 final size:2
Alignment explanation
Indices: 3546699--3546742 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3546689 ATTCTAACGG
3546699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3546741 TA
1 TA
3546743 AAAGTAGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3549434 original size:10 final size:11
Alignment explanation
Indices: 3549419--3549462 Score: 65
Period size: 10 Copynumber: 4.1 Consensus size: 11
3549409 CAAAATTTTT
3549419 AATAATAA-AA
1 AATAATAATAA
3549429 AATAATAATAA
1 AATAATAATAA
3549440 AATAA-AATAA
1 AATAATAATAA
3549450 AATAATAAATAA
1 AATAAT-AATAA
3549462 A
1 A
3549463 TATTTTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 18 0.58
11 7 0.23
12 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAATAATAA
Found at i:3549436 original size:13 final size:13
Alignment explanation
Indices: 3549418--3549457 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
3549408 ACAAAATTTT
3549418 TAATAATAAAAAA
1 TAATAATAAAAAA
3549431 TAATAAT--AAAA
1 TAATAATAAAAAA
3549442 TAA-AATAAAATAA
1 TAATAATAAAA-AA
3549455 TAA
1 TAA
3549458 ATAAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 3 0.12
11 7 0.29
12 2 0.08
13 12 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TAATAATAAAAAA
Found at i:3549445 original size:18 final size:17
Alignment explanation
Indices: 3549418--3549462 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
3549408 ACAAAATTTT
3549418 TAAT-AATAAAA-AATAA
1 TAATAAATAAAATAA-AA
3549434 TAATAAAATAAAATAAAA
1 TAAT-AAATAAAATAAAA
3549452 TAATAAATAAA
1 TAATAAATAAA
3549463 TATTTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
18 13 0.50
19 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAATAAATAAAATAAAA
Found at i:3549451 original size:21 final size:22
Alignment explanation
Indices: 3549419--3549462 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
3549409 CAAAATTTTT
3549419 AATAATAAAAAATAAT-AATAA
1 AATAATAAAAAATAATAAATAA
3549440 AATAA-AATAAAATAATAAATAA
1 AATAATAA-AAAATAATAAATAA
3549462 A
1 A
3549463 TATTTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 13 0.62
22 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (22 bp):
AATAATAAAAAATAATAAATAA
Found at i:3552623 original size:20 final size:20
Alignment explanation
Indices: 3552598--3552649 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
3552588 TACAAGCCAA
**
3552598 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
3552618 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
3552637 TGTATCGATACAA
1 TGTATCGATACAA
3552650 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:3553851 original size:34 final size:34
Alignment explanation
Indices: 3553808--3553879 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
3553798 CTTTTTTGTT
3553808 ATAAGCTAAGTTTGATAAAACCAAATTTATACCA
1 ATAAGCTAAGTTTGATAAAACCAAATTTATACCA
3553842 ATAAGCTAAGTTTGATAAAACCAAATTTATACCA
1 ATAAGCTAAGTTTGATAAAACCAAATTTATACCA
3553876 ATAA
1 ATAA
3553880 TCTCTCCCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (34 bp):
ATAAGCTAAGTTTGATAAAACCAAATTTATACCA
Found at i:3558406 original size:13 final size:13
Alignment explanation
Indices: 3558388--3558413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3558378 CAATTTTTTG
3558388 TGTATCGATACAT
1 TGTATCGATACAT
3558401 TGTATCGATACAT
1 TGTATCGATACAT
3558414 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3558425 original size:32 final size:33
Alignment explanation
Indices: 3558368--3558431 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3558358 TACAAGCCAA
**
3558368 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
3558401 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
3558432 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:3559288 original size:20 final size:20
Alignment explanation
Indices: 3559263--3559397 Score: 87
Period size: 20 Copynumber: 7.8 Consensus size: 20
3559253 CTGCCAAGGA
3559263 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
3559283 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
*
3559298 --TGTACCGATACATTATTC
1 AATGTATCGATACATTATTC
3559316 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
* *
3559331 --TGTACCGATAGATTATTC
1 AATGTATCGATACATTATTC
3559349 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
3559364 --TGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
3559382 AATGTATCAATACATT
1 AATGTATCGATACATT
3559398 TGGGAATTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 42
0.64 0.05 0.31
Matches are distributed among these distances:
13 30 0.34
16 6 0.07
17 6 0.07
20 45 0.52
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:3559312 original size:33 final size:33
Alignment explanation
Indices: 3559265--3559397 Score: 230
Period size: 33 Copynumber: 4.0 Consensus size: 33
3559255 GCCAAGGAAA
*
3559265 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTACCGATACATTATTCAATGTATCGATACAT
3559298 TGTACCGATACATTATTCAATGTATCGATACAT
1 TGTACCGATACATTATTCAATGTATCGATACAT
*
3559331 TGTACCGATAGATTATTCAATGTATCGATACAT
1 TGTACCGATACATTATTCAATGTATCGATACAT
* *
3559364 TGTATCGATACATTATTCAATGTATCAATACAT
1 TGTACCGATACATTATTCAATGTATCGATACAT
3559397 T
1 T
3559398 TGGGAATTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 95 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTACCGATACATTATTCAATGTATCGATACAT
Found at i:3559369 original size:13 final size:13
Alignment explanation
Indices: 3559351--3559377 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3559341 GATTATTCAA
3559351 TGTATCGATACAT
1 TGTATCGATACAT
3559364 TGTATCGATACAT
1 TGTATCGATACAT
3559377 T
1 T
3559378 ATTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3566389 original size:11 final size:11
Alignment explanation
Indices: 3566367--3566400 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3566357 AGTCAAAAGT
3566367 AAAAACATAAAA
1 AAAAACA-AAAA
*
3566379 AAATACAAAAA
1 AAAAACAAAAA
3566390 AAAAACAAAAA
1 AAAAACAAAAA
3566401 CACACAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:3566691 original size:14 final size:15
Alignment explanation
Indices: 3566661--3566693 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3566651 CCCAACACAA
3566661 AAAAAAGAGAAAAAG
1 AAAAAAGAGAAAAAG
*
3566676 AAAAAAGA-AAACAG
1 AAAAAAGAGAAAAAG
3566690 AAAA
1 AAAA
3566694 TCTCGGTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAGAGAAAAAG
Found at i:3567714 original size:30 final size:30
Alignment explanation
Indices: 3567679--3567917 Score: 280
Period size: 30 Copynumber: 7.8 Consensus size: 30
3567669 TCTTCAAATC
*
3567679 TCTCTTCTCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
3567709 TCTCTTCCCAAAGTCCACGAATCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
3567739 TCTTTTCTTCAAAGTCCACAACTCAGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
3567770 TCTCTTTTCTAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
3567800 TCCTTTTCTCCCAAGTCCACGACTTAGTGGCA
1 T-CTCTTCT-CAAAGTCCACGACTCAGTGGCA
* * *
3567832 TTTTTTTTCTTCAAAGTCCACGACTCAATGGCA
1 --TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
3567865 TCTCTTCTCAAAGTCCATGACTCATTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
3567895 TCTCTTCCCAAAGTCCACGACTC
1 TCTCTTCTCAAAGTCCACGACTC
3567918 TGTCGCACCC
Statistics
Matches: 178, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
30 97 0.54
31 35 0.20
32 20 0.11
33 24 0.13
34 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:3567784 original size:61 final size:61
Alignment explanation
Indices: 3567686--3567917 Score: 277
Period size: 61 Copynumber: 3.8 Consensus size: 61
3567676 ATCTCTCTTC
* *
3567686 TCAAAGTCCACGACTTAGTGGCATCTCTTCCCAAAGTCCACGAATCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
* ** *
3567747 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
* * * * * * * *
3567809 CCCAAGTCCACGACTTAGTGGCATTTTTTTTCTTCAAAGTCCACGACTCAATGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCA--TCTCTTC-CCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
3567872 TCAAAGTCCATGACTCATTGGCATCTCTTCCCAAAGTCCACGACTC
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTC
3567918 TGTCGCACCC
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
60 15 0.10
61 53 0.37
62 26 0.18
63 18 0.13
64 9 0.06
65 22 0.15
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (61 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:3567864 original size:95 final size:91
Alignment explanation
Indices: 3567679--3567917 Score: 334
Period size: 95 Copynumber: 2.6 Consensus size: 91
3567669 TCTTCAAATC
* *
3567679 TCTCTTCTCAAAGTCCACGACTTAGTGGCATCTCTTCCCAAAGTCCACGAATCAGTGGCATCTTT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTT
*
3567744 TCTTCAAAGTCCACAACTCAGTGGCA
66 TCTTCAAAGTCCACAACTCAATGGCA
* * * * *
3567770 TCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTCCCAAGTCCACGACTTAGTGGCATTT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTCTTC-CCAAAGTCCACGACTCAGTGGCA--T
* *
3567835 TTTTTCTTCAAAGTCCACGACTCAATGGCA
62 CTTTTCTTCAAAGTCCACAACTCAATGGCA
* *
3567865 TCTCTTCTCAAAGTCCATGACTCATTGGCATCTCTTCCCAAAGTCCACGACTC
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTC
3567918 TGTCGCACCC
Statistics
Matches: 127, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
91 28 0.22
92 5 0.04
93 34 0.27
94 5 0.04
95 55 0.43
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (91 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTT
TCTTCAAAGTCCACAACTCAATGGCA
Found at i:3567992 original size:156 final size:156
Alignment explanation
Indices: 3567686--3567993 Score: 356
Period size: 156 Copynumber: 2.0 Consensus size: 156
3567676 ATCTCTCTTC
* * * *
3567686 TCAAAGTCCACGACTTAGTGGCATCTCTTCCCAAAGTCCACGAATCAGTGGCATCTTTTCTTCAA
1 TCAAAGTCCACGACTCAATGGCATCTCTTCCCAAAGTCCACGAATCAGTGGCATCTCTTCTCCAA
* * * * * *
3567751 AGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTCCCAAGT
66 AGTCCACAACTCAGTCGCATCTCCTTTCTAAGTCCACAACTCAGTGGCATCCTTTCCTCCAAAGC
*
3567816 CCACGACTTAGTGGCATTTTTTTTCT
131 CCACAACTTAGTGGCATTTTTTTTCT
* * * *
3567842 TCAAAGTCCACGACTCAATGGCATCTCTTCTCAAAGTCCATGACTCATTGGCATCTCTTC-CCAA
1 TCAAAGTCCACGACTCAATGGCATCTCTTCCCAAAGTCCACGAATCAGTGGCATCTCTTCTCCAA
* * * **
3567906 AGTCCACGACTCTGTCGCA-C-CCTTT-TAAGTCCACAACTCCGTGGCA-CCTTTCCCTTTTAAA
66 AGTCCACAACTCAGTCGCATCTCCTTTCTAAGTCCACAACTCAGTGGCATCCTTT-CC-TCCAAA
* * *
3567967 GCCCACAACTTCGTGGCACTCTTTTTC
129 GCCCACAACTTAGTGGCATTTTTTTTC
3567994 CTTTTACGTC
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
151 5 0.04
152 20 0.16
153 29 0.23
154 1 0.01
155 19 0.15
156 53 0.42
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.31
Consensus pattern (156 bp):
TCAAAGTCCACGACTCAATGGCATCTCTTCCCAAAGTCCACGAATCAGTGGCATCTCTTCTCCAA
AGTCCACAACTCAGTCGCATCTCCTTTCTAAGTCCACAACTCAGTGGCATCCTTTCCTCCAAAGC
CCACAACTTAGTGGCATTTTTTTTCT
Found at i:3568009 original size:34 final size:34
Alignment explanation
Indices: 3567926--3568400 Score: 246
Period size: 34 Copynumber: 15.0 Consensus size: 34
3567916 TCTGTCGCAC
* *
3567926 CCTTTTAAGTCCACAACTCCGTGGCAC-C-TTTC
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
*
3567958 CCTTTTAAAGCCCACAACTTCGTGGCACTCTTTTT
1 CCTTTT-AAGTCCACAACTTCGTGGCACTCTTTTT
* *
3567993 CCTTTTACGTCCACAACTCCGTGGCAC-CTTTTT
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
* * * *
3568026 -TTTTTCAAATTCCATAAC-TCTATGGCA--C-----
1 CCTTTT--AAGTCCACAACTTC-GTGGCACTCTTTTT
3568054 CCTTTTAAGTCCACAAC-TCTGTGGCA-T-TTTTT
1 CCTTTTAAGTCCACAACTTC-GTGGCACTCTTTTT
* ** * *
3568086 TCTTCAAAGTCCACGA-TTCCGTGGCACTATTTTT
1 CCTTTTAAGTCCACAACTT-CGTGGCACTCTTTTT
* * * *
3568120 TCTTTAAAGCCCACAACTTCGTGGCATTCTTTTT
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
3568154 CCTTTTAAGT---CAAC-TCTGTGGCA--C-----
1 CCTTTTAAGTCCACAACTTC-GTGGCACTCTTTTT
* * *
3568178 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
*
3568212 CCTTTTAAGTCCACAACTTTGTGGCA--C-----
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
* * *
3568239 CCTTTTTAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
* *
3568273 TCTTTTAAGTCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
* *
3568300 CCTTTTAAGTCCACAAC-TCTGGGGCA-TATTTTT
1 CCTTTTAAGTCCACAACTTC-GTGGCACTCTTTTT
* * * * *
3568333 CTTTTTAAAGCCCACAACTCCGTGGCATTCTTTCT
1 CCTTTT-AAGTCCACAACTTCGTGGCACTCTTTTT
*
3568368 CCTTTTAAGTCCACAACTCCGTGGCACT-TTTTT
1 CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
3568401 AAGTCCACAA
Statistics
Matches: 340, Mismatches: 56, Indels: 93
0.70 0.11 0.19
Matches are distributed among these distances:
24 8 0.02
26 1 0.00
27 70 0.21
28 1 0.00
29 7 0.02
30 2 0.01
31 10 0.03
32 31 0.09
33 38 0.11
34 150 0.44
35 22 0.06
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.37
Consensus pattern (34 bp):
CCTTTTAAGTCCACAACTTCGTGGCACTCTTTTT
Found at i:3568066 original size:61 final size:59
Alignment explanation
Indices: 3567993--3568487 Score: 362
Period size: 61 Copynumber: 8.1 Consensus size: 59
3567983 CACTCTTTTT
* * * **
3567993 CCTTTTACGTCCACAACTCCGTGGCACCTTTTTTTTTTCAAATTCCATAACTCTATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTTT--AAGTCCACAACTCCGTGGCAC
* * * *
3568054 CCTTTTAAGTCCACAACTCTGTGGCA--TTTTTTTCTTCAAAGTCCACGATTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTT-TT-TAAGTCCACAACTCCGTGGCAC
* * * * * * *
3568113 TATTTTTTCTTTAAAGCCCACAACTTCGTGGCATTCTTTTTCCTTTTAAGT---CAACTCTGTGG
1 -------CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT-TTTTTAAGTCCACAACTCCGTGG
3568175 CAC
57 CAC
* * * **
3568178 CCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT-TTTTTAAGTCCACAACTCCGTGGCAC
* *
3568239 CCTTTTTAGCCCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTTT-TTTTAAGTCCACAACTCCGTGGCAC
* * ** *
3568300 CCTTTTAAGTCCACAACTCTGGGGCATATTTTTCTTTTTAAAGCCCACAACTCCGTGGCATTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-TTTTT-AAGTCCACAACTCCGTGGCA-----
3568365 TC
59 -C
3568367 TCCTTTTAAGTCCACAACTCCGTGGCA-C----TTTTTTAAGTCCACAACTCCGTGGCAC
1 -CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTTTAAGTCCACAACTCCGTGGCAC
* ** * * **
3568422 CCTTTTAGGTCCACAACTCCGTGGCATTTTTCTTTTTTTAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTT-TTTTTTTAAGTCCACAACTCCGTGGCAC
3568482 CCTTTT
1 CCTTTT
3568488 CAAAAGCCCA
Statistics
Matches: 356, Mismatches: 45, Indels: 67
0.76 0.10 0.14
Matches are distributed among these distances:
54 25 0.07
55 1 0.00
58 40 0.11
59 22 0.06
60 40 0.11
61 153 0.43
62 5 0.01
63 1 0.00
65 11 0.03
66 21 0.06
67 1 0.00
68 28 0.08
69 7 0.02
70 1 0.00
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (59 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTTTAAGTCCACAACTCCGTGGCAC
Found at i:3568195 original size:27 final size:27
Alignment explanation
Indices: 3568164--3568447 Score: 181
Period size: 27 Copynumber: 9.5 Consensus size: 27
3568154 CCTTTTAAGT
* * *
3568164 CAACTCTGTGGCACCCTTTAAAGCCCA
1 CAACTCCGTGGCACCCTTTTAAGTCCA
3568191 CAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCA
1 CAACTCCGTGGCA--C-----CCTTTTAAGTCCA
** * *
3568225 CAACTTTGTGGCACCCTTTTTAGCCCA
1 CAACTCCGTGGCACCCTTTTAAGTCCA
3568252 CAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCA
1 CAACTCCGTGGCAC-C------CTTTTAAGTCCA
3568286 CAACTCCGTGGCACCCTTTTAAGTCCA
1 CAACTCCGTGGCACCCTTTTAAGTCCA
* * * * *
3568313 CAACTCTGGGGCATATTTTTCTTTTTAAAGCCCA
1 CAACTCCGTGGC--A----CCCTTTT-AAGTCCA
3568347 CAACTCCGTGGCATTCTTTCTCCTTTTAAGTCCA
1 CAACTCCGTGGCA------C-CCTTTTAAGTCCA
**
3568381 CAACTCCGTGGCACTTTTTTAAGTCCA
1 CAACTCCGTGGCACCCTTTTAAGTCCA
*
3568408 CAACTCCGTGGCACCCTTTTAGGTCCA
1 CAACTCCGTGGCACCCTTTTAAGTCCA
3568435 CAACTCCGTGGCA
1 CAACTCCGTGGCA
3568448 TTTTTCTTTT
Statistics
Matches: 206, Mismatches: 27, Indels: 48
0.73 0.10 0.17
Matches are distributed among these distances:
27 105 0.51
28 2 0.01
29 2 0.01
32 2 0.01
33 6 0.03
34 84 0.41
35 5 0.02
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (27 bp):
CAACTCCGTGGCACCCTTTTAAGTCCA
Found at i:3568495 original size:30 final size:29
Alignment explanation
Indices: 3568461--3568585 Score: 130
Period size: 29 Copynumber: 4.3 Consensus size: 29
3568451 TTCTTTTTTT
*
3568461 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCC-TTTCAA
*
3568491 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGGCA-CCCTTTCAA
*
3568520 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTCAA
* * ** *
3568548 AAGCACATAAGTTGGT-GCAACACTTTCAA
1 AAGCCCACAAGTCAGTGGC-ACCCTTTCAA
3568577 AAGCCCACA
1 AAGCCCACA
3568586 CAAGTTGGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
27 5 0.06
28 17 0.22
29 32 0.41
30 22 0.28
31 3 0.04
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAA
Found at i:3568597 original size:59 final size:58
Alignment explanation
Indices: 3568461--3568585 Score: 155
Period size: 57 Copynumber: 2.2 Consensus size: 58
3568451 TTCTTTTTTT
* * * *
3568461 AAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCA
1 AAGCCCACAAGTTAGTGGCAACC-TTTCAAAAGCACACAAGTCGGTGGCAACACTTTCA
* * *
3568520 AAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCACATAAGTTGGT-GCAACACTTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTCAAAAGCACACAAGTCGGTGGCAACACTTTC-A
3568577 AAGCCCACA
1 AAGCCCACA
3568586 CAAGTTGGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 9 0.16
57 28 0.48
59 21 0.36
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (58 bp):
AAGCCCACAAGTTAGTGGCAACCTTTCAAAAGCACACAAGTCGGTGGCAACACTTTCA
Found at i:3568725 original size:39 final size:39
Alignment explanation
Indices: 3568667--3568995 Score: 226
Period size: 39 Copynumber: 7.7 Consensus size: 39
3568657 AAGACTAATG
*
3568667 TCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATA
* * * ** *
3568706 TCGTTGGCCTTAAATCAGCATATTGGCACCTTGTCTCTAAAACCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA--------C-AAGCCCAATA
* *
3568754 TTGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATA
* * * *
3568793 TCGCTGACCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA-C--------AAGCCCAATA
* *
3568841 TCGCTGGCCTTGAATTAGCACATTGGCATAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATA
* * * * *
3568880 TCGCTGGCCCTAAATCAACATATTGGCATCTTATCTTTAAGACCAATA
1 TCGCTGGCCTTGAATCAGCACATTGG---C--A-C---AAGCCCAATA
3568928 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATA
*
3568967 TCGCTGGCCTTGAATCAGCATATTGGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
3568996 CTTCATCTTT
Statistics
Matches: 224, Mismatches: 39, Indels: 54
0.71 0.12 0.17
Matches are distributed among these distances:
39 123 0.55
42 2 0.01
43 1 0.00
44 1 0.00
45 1 0.00
47 1 0.00
48 95 0.42
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (39 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATA
Found at i:3568791 original size:87 final size:87
Alignment explanation
Indices: 3568607--3569043 Score: 649
Period size: 87 Copynumber: 5.0 Consensus size: 87
3568597 CATCTTCTTC
* * *
3568607 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTCGCT
3568672 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * * * * * * *
3568695 CAAGTCCAATATCGTTGGCCTTAAATCAGCATATTGGCACCTTGTCTCTAAAACCAATGTTGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
3568760 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
3568782 TAAGCCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
3568847 GCCTTGAATTAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * * * *
3568869 TAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCATCTTATCTTTAAGACCAATATCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
3568934 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
3568956 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
3569021 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
3569044 CCTTAACCAT
Statistics
Matches: 312, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 234 0.75
88 78 0.25
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:3569077 original size:52 final size:49
Alignment explanation
Indices: 3568961--3569240 Score: 269
Period size: 52 Copynumber: 5.6 Consensus size: 49
3568951 TGGCACAAGC
* *
3568961 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
* *
3569010 CCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGA
* *
3569062 CCAATGTCGCTGGCCTTGAATCAGCACATTCGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
* * * * * * * *
3569111 CCAATATCGTTGGCCTTGAATTAGCATATTGGCATCTTTAATATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTCATCTT--TAAGA
* * ** * *
3569163 CCGATGTCGCTGGTCTTGTCTCAGCACATTGGCA--TTC-TTTTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT-AAGA
* * *
3569210 CTAATGTCGCTGGCCATGCATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTG
3569241 TCATTCTTCG
Statistics
Matches: 190, Mismatches: 34, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 28 0.15
48 3 0.02
49 75 0.39
50 7 0.04
52 76 0.40
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
Found at i:3569170 original size:101 final size:101
Alignment explanation
Indices: 3568957--3569192 Score: 296
Period size: 101 Copynumber: 2.3 Consensus size: 101
3568947 ACATTGGCAC
* * * * *
3568957 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTCGCACCTTCATCTTTAAGACCAATATCGTTG
*
3569022 GCCTTGAATCAGCACATTGGCACCTTAACCATCTTT
66 GCCTTGAATCAGCACATTGGCACCTTAACCATCTCT
* *
3569058 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTCGCACCTTCATCTTTAAGTCCAATATCGTTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTCGCACCTTCATCTTTAAGACCAATATCGTTG
* * * *
3569123 GCCTTGAATTAGCATATTGGCATCTTTAA-TAT-TCCT
66 GCCTTGAATCAGCACATTGGCA-CCTTAACCATCT-CT
* * **
3569159 AAGCCCGATGTCGCTGGTCTTGTCTCAGCACATT
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCACATT
3569193 GGCATTCTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
100 1 0.01
101 110 0.95
102 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (101 bp):
AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTCGCACCTTCATCTTTAAGACCAATATCGTTG
GCCTTGAATCAGCACATTGGCACCTTAACCATCTCT
Found at i:3570112 original size:13 final size:13
Alignment explanation
Indices: 3570094--3570121 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3570084 ACCAAGGAAA
3570094 TGTATCGATACAT
1 TGTATCGATACAT
3570107 TGTATCGATACAT
1 TGTATCGATACAT
3570120 TG
1 TG
3570122 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3578023 original size:30 final size:30
Alignment explanation
Indices: 3577989--3578425 Score: 196
Period size: 30 Copynumber: 14.4 Consensus size: 30
3577979 GTTGTACTCA
*
3577989 GTCAAATCTTACCTC-TCTTGATTGTATTTG
1 GTCAAATCTTACCTCAT-TTGACTGTATTTG
* * *
3578019 GTCAATACCTT-CCTCATTTGACAGTATTCG
1 GTCAA-ATCTTACCTCATTTGACTGTATTTG
* * * **
3578049 GTCAAAT-TTCACCCCTCACTTAATTGTATTCA
1 GTCAAATCTT-A--CCTCATTTGACTGTATTTG
* * *
3578081 GTCAAGTCTTTCCTCATTTGACTGTACTTG
1 GTCAAATCTTACCTCATTTGACTGTATTTG
* * * **
3578111 GTCAAATATTACC-CTTCTTGACTATATTCA
1 GTCAAATCTTACCTCAT-TTGACTGTATTTG
* * *
3578141 GTTAAGACCTT-CCTCATTTGACTGTATTCG
1 GTCAA-ATCTTACCTCATTTGACTGTATTTG
** *
3578171 GTCAAAT-TTCACCCTTGTTTGATTGTATTTG
1 GTCAAATCTT-A-CCTCATTTGACTGTATTTG
* * * * *
3578202 GTCAAGTCTTTCCTCATTTGACTATACTTA
1 GTCAAATCTTACCTCATTTGACTGTATTTG
* * * *
3578232 ATCAAATCTTACCCCTTTTGATTGTATTTG
1 GTCAAATCTTACCTCATTTGACTGTATTTG
* * *
3578262 ATCAAGACCTT-CCTCATTTGACTATATTTG
1 GTCAA-ATCTTACCTCATTTGACTGTATTTG
* ** **
3578292 GTCAAATTTTACCCTCGCTTGACTGTATTCA
1 GTCAAATCTTA-CCTCATTTGACTGTATTTG
* * * *
3578323 GTTAAGA-C-TATCCTCATTTGACTATACTCG
1 GTCAA-ATCTTA-CCTCATTTGACTGTATTTG
* *
3578353 GTCAAATCTTACCTC-TCTTAACTGTATTCG
1 GTCAAATCTTACCTCAT-TTGACTGTATTTG
* * * *
3578383 GTTAAGA-C-TATCCTTATTTGACTGTACTCG
1 GTCAA-ATCTTA-CCTCATTTGACTGTATTTG
3578413 GTCAAATCTTACC
1 GTCAAATCTTACC
3578426 CTGTTTGATT
Statistics
Matches: 296, Mismatches: 85, Indels: 52
0.68 0.20 0.12
Matches are distributed among these distances:
28 4 0.01
29 12 0.04
30 196 0.66
31 59 0.20
32 23 0.08
33 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (30 bp):
GTCAAATCTTACCTCATTTGACTGTATTTG
Found at i:3578032 original size:60 final size:60
Alignment explanation
Indices: 3577951--3578508 Score: 414
Period size: 60 Copynumber: 9.2 Consensus size: 60
3577941 TTTGCTTGGC
* * * * ** *
3577951 TGTATTTAGTCAAGTCTTTCCTTATTTGGTTGTACTCAGTCAAATCTTACCTCTCTTGAT
1 TGTATTCAGTCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTTACCTCTCTTGAT
** * * * * *
3578011 TGTATTTGGTCAATACCTTCCTCATTTGACAGTATTCGGTCAAAT-TTCACCCCTCACTTAAT
1 TGTATTCAGTCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTT-A--CCTCTCTTGAT
* * * * *
3578073 TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGGTCAAATATTACC-CTTCTTGAC
1 TGTATTCAGTCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTTACCTC-TCTTGAT
* * * *
3578133 TATATTCAGTTAAGACCTTCCTCATTTGACTGTATTCGGTCAAAT-TTCACC-CTTGTTTGAT
1 TGTATTCAGTCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTT-ACCTC-T-CTTGAT
** * * * *** * *
3578194 TGTATTTGGTCAAGTCTTTCCTCATTTGACTATACTTAATCAAATCTTACCCCTTTTGAT
1 TGTATTCAGTCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTTACCTCTCTTGAT
* * * * * * *
3578254 TGTATT-TGATCAAGACCTTCCTCATTTGACTATATTTGGTCAAATTTTACCCTCGCTTGAC
1 TGTATTCAG-TCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTTA-CCTCTCTTGAT
* * * *
3578315 TGTATTCAGTTAAGA-CTATCCTCATTTGACTATACTCGGTCAAATCTTACCTCTCTTAAC
1 TGTATTCAGTCAAGACCT-TCCTCATTTGACTGTACTCGGTCAAATCTTACCTCTCTTGAT
* * * *
3578375 TGTATTCGGTTAAGA-CTATCCTTATTTGACTGTACTCGGTCAAATCTTACC-CTGTTTGAT
1 TGTATTCAGTCAAGACCT-TCCTCATTTGACTGTACTCGGTCAAATCTTACCTCT-CTTGAT
* * * * ** * * *
3578435 TGTATTCAGTCAAGTCATTCTTCATTTGACTGGACTCAATCAAATCTTGCC-CTACTCGAC
1 TGTATTCAGTCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTTACCTCT-CTTGAT
*
3578495 TGTATTCGGTCAAG
1 TGTATTCAGTCAAG
3578509 TCTTTCTTCA
Statistics
Matches: 402, Mismatches: 81, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
59 8 0.02
60 252 0.63
61 89 0.22
62 51 0.13
63 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (60 bp):
TGTATTCAGTCAAGACCTTCCTCATTTGACTGTACTCGGTCAAATCTTACCTCTCTTGAT
Found at i:3578245 original size:121 final size:121
Alignment explanation
Indices: 3577951--3578508 Score: 597
Period size: 121 Copynumber: 4.6 Consensus size: 121
3577941 TTTGCTTGGC
* * ** *
3577951 TGTATTTAGTCAAGTCTTTCCTTATTTGGTTGTACTCAGTCAAATCTTA-CCTCTCTTGATTGTA
1 TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAATCTTACCCT-TCTTGACTGTA
* * * * *
3578015 TTTGGTCAATACCTTCCTCATTTGACAGTATTCGGTCAAATTTCACCCCTCACTTAAT
65 TTCGGTCAAGACCTTCCTCATTTGACTGTATTCGGTCAAATTTCA-CCCTCGCTTGAT
** * *
3578073 TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGGTCAAATATTACCCTTCTTGACTATAT
1 TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAATCTTACCCTTCTTGACTGTAT
* * * *
3578138 TCAGTTAAGACCTTCCTCATTTGACTGTATTCGGTCAAATTTCACCCTTGTTTGAT
66 TCGGTCAAGACCTTCCTCATTTGACTGTATTCGGTCAAATTTCACCCTCGCTTGAT
** * * * *
3578194 TGTATTTGGTCAAGTCTTTCCTCATTTGACTATACTTAATCAAATCTTACCCCTT-TTGATTGTA
1 TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAATCTTA-CCCTTCTTGACTGTA
* * * * * *
3578258 TTTGATCAAGACCTTCCTCATTTGACTATATTTGGTCAAATTTTACCCTCGCTTGAC
65 TTCGGTCAAGACCTTCCTCATTTGACTGTATTCGGTCAAATTTCACCCTCGCTTGAT
* * * * * *
3578315 TGTATTCAGTTAAGACTATCCTCATTTGACTATACTCGGTCAAATCTTA-CCTCTCTTAACTGTA
1 TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAATCTTACCCT-TCTTGACTGTA
* * * *
3578379 TTCGGTTAAGA-CTATCCTTATTTGACTGTACTCGGTCAAATCTT-ACCCT-GTTTGAT
65 TTCGGTCAAGACCT-TCCTCATTTGACTGTATTCGGTCAAAT-TTCACCCTCGCTTGAT
* * * * * * *
3578435 TGTATTCAGTCAAGTCATTCTTCATTTGACTGGACTCAATCAAATCTTGCCCTACTCGACTGTAT
1 TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAATCTTACCCTTCTTGACTGTAT
3578500 TCGGTCAAG
66 TCGGTCAAG
3578509 TCTTTCTTCA
Statistics
Matches: 360, Mismatches: 69, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
119 3 0.01
120 64 0.18
121 192 0.53
122 98 0.27
123 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (121 bp):
TGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAGTCAAATCTTACCCTTCTTGACTGTAT
TCGGTCAAGACCTTCCTCATTTGACTGTATTCGGTCAAATTTCACCCTCGCTTGAT
Found at i:3578699 original size:12 final size:12
Alignment explanation
Indices: 3578684--3578708 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3578674 GTGAAAATAA
3578684 AAAGAAAAAAAG
1 AAAGAAAAAAAG
3578696 AAAGAAAAAAAG
1 AAAGAAAAAAAG
3578708 A
1 A
3578709 GAAAAAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:3578707 original size:20 final size:20
Alignment explanation
Indices: 3578682--3578724 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3578672 AAGTGAAAAT
3578682 AAAAAGAAAAAAAGAAAGAA
1 AAAAAGAAAAAAAGAAAGAA
* *
3578702 AAAAAGAGAAAAAGCAAGAA
1 AAAAAGAAAAAAAGAAAGAA
3578722 AAA
1 AAA
3578725 TAGCAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAGAAAGAA
Found at i:3582683 original size:24 final size:25
Alignment explanation
Indices: 3582631--3582693 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 25
3582621 TGAAACTAGT
3582631 TTAAAA-ATAAAA-TAAAACAAAAC
1 TTAAAATATAAAATTAAAACAAAAC
** *
3582654 AAAAAATATAAAATTAAAAGAAAA-
1 TTAAAATATAAAATTAAAACAAAAC
*
3582678 TTAAAAT-TGAAATTAA
1 TTAAAATATAAAATTAA
3582694 TAATTATGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
23 12 0.38
24 11 0.34
25 9 0.28
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (25 bp):
TTAAAATATAAAATTAAAACAAAAC
Found at i:3584433 original size:66 final size:65
Alignment explanation
Indices: 3584237--3584602 Score: 235
Period size: 66 Copynumber: 5.6 Consensus size: 65
3584227 GCAAAACTAA
* * ** * * * *
3584237 CAAACAAAGGTGATAAGGAGATAAT-TTCAAATCTAAAAGGGCTGACTA-GCTCAAAACTGATAC
1 CAAACAAAGGTGACAAGGATATAATCTT-AGGTCTAAAA-GGTTAACTAGGGT-AAAACTGATAT
*
3584300 AAT
63 AGT
* * * * * * *
3584303 CAAGCGAAA-GTGACAAGGATATAATCTTAGTTCTAAAAAGGTTGACCAAGGTGAAACTCATATA
1 CAAAC-AAAGGTGACAAGGATATAATCTTAGGTCT-AAAAGGTTAACTAGGGTAAAACTGATATA
3584367 GT
64 GT
* * * *
3584369 CAAGCAAAGGTGACAAGGATATAATCTTAGGTCTAAAAGGCTTAACTAGGGCAAAACAGTTATAG
1 CAAACAAAGGTGACAAGGATATAATCTTAGGTCTAAAAGG-TTAACTAGGGTAAAACTGATATAG
3584434 T
65 T
* * * * * * * * *
3584435 TAAACAAAGGTGACAAGGATGTAAAC-TAGGTTTAGAGGGTTAATTAGGGTAAAACTGGTACAGT
1 CAAACAAAGGTGACAAGGATATAATCTTAGGTCTAAAAGGTTAACTAGGGTAAAACTGATATAGT
* * *
3584499 CAAACAAAGGTGACTAA-GATATAATTCTCTA--TCTAAAAGGGTTGATTAGGGTAAAAC-CATA
1 CAAACAAAGGTGAC-AAGGATATAA-TCT-TAGGTCTAAAA-GGTTAACTAGGGTAAAACTGATA
*
3584560 TAGC
62 TAGT
* * ** * *
3584564 CAAATAAAGGTAATTAGGATATAATTTTAGATCTAAAAG
1 CAAACAAAGGTGACAAGGATATAATCTTAGGTCTAAAAG
3584603 CTTGTCCATG
Statistics
Matches: 237, Mismatches: 49, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
63 2 0.01
64 43 0.18
65 55 0.23
66 124 0.52
67 13 0.05
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (65 bp):
CAAACAAAGGTGACAAGGATATAATCTTAGGTCTAAAAGGTTAACTAGGGTAAAACTGATATAGT
Found at i:3584505 original size:64 final size:66
Alignment explanation
Indices: 3584366--3584522 Score: 176
Period size: 64 Copynumber: 2.4 Consensus size: 66
3584356 AAACTCATAT
* * *
3584366 AGTCAAGCAAAGGTGACAAGGATATAATCTTAGGTCTAAAAGGCTTAACTAGGGCAAAACAGTTA
1 AGTCAAACAAAGGTGACAAGGATATAAACTTAGGTCTAAAAGGCTTAACTAGGGCAAAACAGGTA
*
3584431 T
66 C
* * * * * * * *
3584432 AGTTAAACAAAGGTGACAAGGATGTAAAC-TAGGT-TTAGAGGGTTAATTAGGGTAAAACTGGTA
1 AGTCAAACAAAGGTGACAAGGATATAAACTTAGGTCTAAAAGGCTTAACTAGGGCAAAACAGGTA
3584495 C
66 C
3584496 AGTCAAACAAAGGTGACTAA-GATATAA
1 AGTCAAACAAAGGTGAC-AAGGATATAA
3584523 TTCTCTATCT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 44 0.58
65 7 0.09
66 25 0.33
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (66 bp):
AGTCAAACAAAGGTGACAAGGATATAAACTTAGGTCTAAAAGGCTTAACTAGGGCAAAACAGGTA
C
Found at i:3584598 original size:65 final size:66
Alignment explanation
Indices: 3584470--3584602 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 66
3584460 CTAGGTTTAG
** * * **
3584470 AGGGTTAATTAGGGTAAAACTGGTACAGTCAAACAAAGGTGACTAAGATATAATTCTCTATCTAA
1 AGGGTTAATTAGGGTAAAACTCATACAGCCAAACAAAGGTAACTAAGATATAATTCTAGATCTAA
3584535 A
66 A
* * * * * *
3584536 AGGGTTGATTAGGGTAAAAC-CATATAGCCAAATAAAGGTAATTAGGATATAATTTTAGATCTAA
1 AGGGTTAATTAGGGTAAAACTCATACAGCCAAACAAAGGTAACTAAGATATAATTCTAGATCTAA
3584600 A
66 A
3584601 AG
1 AG
3584603 CTTGTCCATG
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
65 36 0.65
66 19 0.35
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (66 bp):
AGGGTTAATTAGGGTAAAACTCATACAGCCAAACAAAGGTAACTAAGATATAATTCTAGATCTAA
A
Found at i:3584933 original size:132 final size:129
Alignment explanation
Indices: 3584657--3584934 Score: 308
Period size: 132 Copynumber: 2.1 Consensus size: 129
3584647 ATATAATTCT
* * * * * *
3584657 GTCTAAAAAGGTTGACTAGGGCAAAACTGATACAGTCAAATGAAAGTGACTAGGATATAACCTAG
1 GTCTAAAAGGGTTGACTAAGGCAAAACCGAAACAGTCAAATGAAAGTGACTAAGATATAACCTAA
* * * *
3584722 GTCTAGAGGGCTGACAAAGGAAAAATTAAGACAATCAAATGAAGGTGATTGAGAAATAATCCTAG
66 GTCTAAAGGGCTGACAAAGGAAAAATCAAGACAATCAAATGAAAGTGA-TGAGAAATAAACCTAG
* * *
3584787 GTCTAAAAGAGTTGACTAAGGTAAAACCGAAACAGTCAAATGAAGGTGA-TGAAGATATAATCCT
1 GTCTAAAAGGGTTGACTAAGGCAAAACCGAAACAGTCAAATGAAAGTGACT-AAGATATAA-CCT
* * * * * * *
3584851 AAGTCTAAAAGGGTTGACTAAGGCAAAATCAATATAGTCAAATGAAAGTGA-GCAGGATATAAAC
64 AAGTCT-AAAGGGCTGACAAAGGAAAAATCAAGACAATCAAATGAAAGTGATG-A-GAAATAAAC
3584915 CTAG
126 CTAG
3584919 GTCTAAAAGGGTTGAC
1 GTCTAAAAGGGTTGAC
3584935 CAATGAGAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
129 1 0.01
130 51 0.42
131 9 0.07
132 61 0.50
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.21
Consensus pattern (129 bp):
GTCTAAAAGGGTTGACTAAGGCAAAACCGAAACAGTCAAATGAAAGTGACTAAGATATAACCTAA
GTCTAAAGGGCTGACAAAGGAAAAATCAAGACAATCAAATGAAAGTGATGAGAAATAAACCTAG
Found at i:3584946 original size:66 final size:66
Alignment explanation
Indices: 3584657--3584952 Score: 275
Period size: 66 Copynumber: 4.5 Consensus size: 66
3584647 ATATAATTCT
* * *
3584657 GTCTAAAAAGGTTGACTAGGGCAAAA-CTGATACAGTCAAATGAAAGTGACT-AGGATAT-AACC
1 GTCTAAAAGGGTTGACTAAGGCAAAATC-AATACAGTCAAATGAAAGTGA-TGAGGATATAAACC
3584719 TAG
64 TAG
* * * * * * * * * *
3584722 GTCT-AGAGGGCTGACAAAGGAAAAATTAAGACAATCAAATGAAGGTGATTGA-GAAATAATCCT
1 GTCTAAAAGGGTTGACTAAGGCAAAATCAATACAGTCAAATGAAAGTGA-TGAGGATATAAACCT
3584785 AG
65 AG
* * * * * *
3584787 GTCTAAAAGAGTTGACTAAGGTAAAACCGAA-ACAGTCAAATGAAGGTGATGAAGATATAATCCT
1 GTCTAAAAGGGTTGACTAAGGCAAAATC-AATACAGTCAAATGAAAGTGATGAGGATATAAACCT
*
3584851 AA
65 AG
*
3584853 GTCTAAAAGGGTTGACTAAGGCAAAATCAATATAGTCAAATGAAAGTGA-GCAGGATATAAACCT
1 GTCTAAAAGGGTTGACTAAGGCAAAATCAATACAGTCAAATGAAAGTGATG-AGGATATAAACCT
3584917 AG
65 AG
* *
3584919 GTCTAAAAGGGTTGACCAATG-AGAAATCAATACA
1 GTCTAAAAGGGTTGACTAAGGCA-AAATCAATACA
3584953 ATTAAGCAAA
Statistics
Matches: 187, Mismatches: 35, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
64 37 0.20
65 22 0.12
66 126 0.67
67 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (66 bp):
GTCTAAAAGGGTTGACTAAGGCAAAATCAATACAGTCAAATGAAAGTGATGAGGATATAAACCTA
G
Found at i:3584974 original size:66 final size:66
Alignment explanation
Indices: 3584657--3585002 Score: 230
Period size: 66 Copynumber: 5.3 Consensus size: 66
3584647 ATATAATTCT
* * * * *
3584657 GTCTAAAAAGGTTGACTAGGGCAAAA-CTGATACAGTCAAATGAAAGTGA-CTAGGATATAA-CC
1 GTCTAAAAGGGTTGACCAAGGCAAAATC-AATACAATCAAATGAAAGTGAGC-AGGATATAATCC
*
3584719 TAG
64 TAA
* * * * * * * *
3584722 GTCT-AGAGGGCTGACAAAGGAAAAATTAAGACAATCAAATGAAGGTGATTG-A-GAAATAATCC
1 GTCTAAAAGGGTTGACCAAGGCAAAATCAATACAATCAAATGAAAGTGA--GCAGGATATAATCC
*
3584784 TAG
64 TAA
* * * * * * *
3584787 GTCTAAAAGAGTTGACTAAGGTAAAACCGAA-ACAGTCAAATGAAGGTGATG-AAGATATAATCC
1 GTCTAAAAGGGTTGACCAAGGCAAAATC-AATACAATCAAATGAAAGTGA-GCAGGATATAATCC
3584850 TAA
64 TAA
* * * *
3584853 GTCTAAAAGGGTTGACTAAGGCAAAATCAATATAGTCAAATGAAAGTGAGCAGGATATAAACCTA
1 GTCTAAAAGGGTTGACCAAGGCAAAATCAATACAATCAAATGAAAGTGAGCAGGATATAATCCTA
*
3584918 G
66 A
* *
3584919 GTCTAAAAGGGTTGACCAATG-AGAAATCAATACAAT-TAA-GCAAAGGTG-GCTAGGATATAAT
1 GTCTAAAAGGGTTGACCAAGGCA-AAATCAATACAATCAAATG-AAA-GTGAGC-AGGATATAAT
* *
3584980 CTTAT
62 CCTAA
*
3584985 GTCTAAAATGGTTGACCA
1 GTCTAAAAGGGTTGACCA
3585003 GGGTAAAACT
Statistics
Matches: 228, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
64 39 0.17
65 28 0.12
66 159 0.70
67 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (66 bp):
GTCTAAAAGGGTTGACCAAGGCAAAATCAATACAATCAAATGAAAGTGAGCAGGATATAATCCTA
A
Found at i:3585325 original size:65 final size:66
Alignment explanation
Indices: 3585175--3585351 Score: 207
Period size: 65 Copynumber: 2.7 Consensus size: 66
3585165 AGATGAAAGC
* * * * * *
3585175 ATATAGTCAACTAAAGGTGCCCAAGG-TGAAACCTAAGTCAAAAAGGGATTAACTATGGTGAAAC
1 ATATAGTCAACTAAAGGTG-ACTAGGATGAAACCTAAGTCAAAAAGAGATTAACCAAGGCGAAAC
3585239 TG
65 TG
* *
3585241 ATATAGTCAACTAAGGGTGACTAGGAT-AGAACCTAAGTCAAAAAGAG-TTTACCAAGGCGAAAC
1 ATATAGTCAACTAAAGGTGACTAGGATGA-AACCTAAGTCAAAAAGAGATTAACCAAGGCGAAAC
3585304 TG
65 TG
* * *
3585306 GTATAGTGAACTAAAGGTGACTAGGATGAAACCTAAGATAAAAAAG
1 ATATAGTCAACTAAAGGTGACTAGGATGAAACCTAAG-TCAAAAAG
3585352 GTTGATCGGG
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
65 51 0.54
66 44 0.46
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (66 bp):
ATATAGTCAACTAAAGGTGACTAGGATGAAACCTAAGTCAAAAAGAGATTAACCAAGGCGAAACT
G
Found at i:3585365 original size:31 final size:35
Alignment explanation
Indices: 3585329--3585408 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 35
3585319 AAGGTGACTA
3585329 GGATGAAACC-TA-AGAT-A-AAAAAGGTTGATCG
1 GGATGAAACCATATAGATGACAAAAAGGTTGATCG
* *
3585360 GGATGAAACCAATATAGTTGACTAAAAGGGTTGATCG
1 GGATGAAACC-ATATAGATGAC-AAAAAGGTTGATCG
3585397 GGATGAAACCAT
1 GGATGAAACCAT
3585409 TTGAGTCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 10 0.24
33 2 0.05
34 3 0.07
35 1 0.02
36 2 0.05
37 23 0.56
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
GGATGAAACCATATAGATGACAAAAAGGTTGATCG
Found at i:3585465 original size:40 final size:39
Alignment explanation
Indices: 3585421--3585496 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
3585411 GAGTCAATGG
3585421 ATGAAAAGTATTGA-CTAGCACAAAACCTA-AATGTCAAAAA
1 ATGAAAA-TATT-ATCTAGCACAAAACCTACAA-GTCAAAAA
* *
3585461 ATGAAAATGTTATCTAGGACAAAACCTACAAGTCAA
1 ATGAAAATATTATCTAGCACAAAACCTACAAGTCAA
3585497 CAGATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
38 1 0.03
39 22 0.69
40 9 0.28
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (39 bp):
ATGAAAATATTATCTAGCACAAAACCTACAAGTCAAAAA
Found at i:3585527 original size:41 final size:40
Alignment explanation
Indices: 3585440--3585660 Score: 173
Period size: 40 Copynumber: 5.5 Consensus size: 40
3585430 ATTGACTAGC
* * * * *
3585440 ACAAAACCTA-AATGTCAAAAAATGAAAA-TGTTATCTAGG
1 ACAAAACCTACAA-GTCAACAATTGAAAAGGGTTAACCAGG
*
3585479 ACAAAACCTACAAGTCAACAGATTAAAAAGGGTTAACCAGG
1 ACAAAACCTACAAGTCAACA-ATTGAAAAGGGTTAACCAGG
* * * **
3585520 ACAAAACCTAGAAGTCAACAAGTT-TAAAGGGTTAATCAAT
1 ACAAAACCTACAAGTCAACAA-TTGAAAAGGGTTAACCAGG
* * **
3585560 ACGAAACCTACAAGTCAACAAATGAAAAGGG-TAGACTTGG
1 ACAAAACCTACAAGTCAACAATTGAAAAGGGTTA-ACCAGG
* * * ** *
3585600 ACAAAACCTACAAGTCAATAGA-TGAAAATGATTGCCCATG
1 ACAAAACCTACAAGTCAACA-ATTGAAAAGGGTTAACCAGG
3585640 ACAAAACCTACAAGTCAACAA
1 ACAAAACCTACAAGTCAACAA
3585661 GTTTAAAGGG
Statistics
Matches: 144, Mismatches: 30, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
39 20 0.14
40 93 0.65
41 31 0.22
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (40 bp):
ACAAAACCTACAAGTCAACAATTGAAAAGGGTTAACCAGG
Found at i:3585537 original size:80 final size:77
Alignment explanation
Indices: 3585440--3585660 Score: 201
Period size: 80 Copynumber: 2.8 Consensus size: 77
3585430 ATTGACTAGC
* * *
3585440 ACAAAACCTAAATGTCAAAAAATGAAAATGTTATCTAGGACAAAACCTACAAGTCAACAGATTAA
1 ACAAAACCTAAA-GTCAAAAGATGAAAATGTTATC-AAGACAAAACCTACAAGTCAACA-AATAA
3585505 AAAGGGTTA-ACCAGG
63 AAAGGG-TAGACCAGG
* * ** * * *
3585520 ACAAAACCTAGAAGTCAACAAGTTTAAAGGGTTAATCAATACGAAACCTACAAGTCAACAAATGA
1 ACAAAACCTA-AAGTCAA-AAGATGAAAATGTT-ATCAAGACAAAACCTACAAGTCAACAAATAA
**
3585585 AAAGGGTAGACTTGG
63 AAAGGGTAGACCAGG
* ** *
3585600 ACAAAACCTACAAGTCAATAGATGAAAATGATTGCCCATGACAAAACCTACAAGTCAACAA
1 ACAAAACCTA-AAGTCAAAAGATGAAAATG-TT-ATCAAGACAAAACCTACAAGTCAACAA
3585661 GTTTAAAGGG
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
79 9 0.08
80 69 0.62
81 31 0.28
82 3 0.03
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (77 bp):
ACAAAACCTAAAGTCAAAAGATGAAAATGTTATCAAGACAAAACCTACAAGTCAACAAATAAAAA
GGGTAGACCAGG
Found at i:3585643 original size:120 final size:120
Alignment explanation
Indices: 3585443--3585672 Score: 311
Period size: 120 Copynumber: 1.9 Consensus size: 120
3585433 GACTAGCACA
* * *
3585443 AAACCTAAATGTCAAAAAATGAAAATGTTATCTAGGACAAAACCTACAAGTCAACAGATTAAAAA
1 AAACCTAAATGTCAAAAAATGAAAAGGGTAACTAGGACAAAACCTACAAGTCAACAGATTAAAAA
* *
3585508 GGGTTAACCAGGACAAAACCTAGAAGTCAACAAGTTTAAAGGGTTAATCAATACG
66 GGATTAACCAGGACAAAACCTACAAGTCAACAAGTTTAAAGGGTTAATCAATACG
* * * *
3585563 AAACCTACAA-GTCAACAAATGAAAAGGGTAGACTTGGACAAAACCTACAAGTCAATAGA-TGAA
1 AAACCTA-AATGTCAAAAAATGAAAAGGGTA-ACTAGGACAAAACCTACAAGTCAACAGATTAAA
* ** *
3585626 AATGATTGCCCATGACAAAACCTACAAGTCAACAAGTTTAAAGGGTT
64 AAGGATTAACCAGGACAAAACCTACAAGTCAACAAGTTTAAAGGGTT
3585673 GATAGAGATG
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
120 68 0.72
121 27 0.28
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (120 bp):
AAACCTAAATGTCAAAAAATGAAAAGGGTAACTAGGACAAAACCTACAAGTCAACAGATTAAAAA
GGATTAACCAGGACAAAACCTACAAGTCAACAAGTTTAAAGGGTTAATCAATACG
Found at i:3586462 original size:30 final size:29
Alignment explanation
Indices: 3586377--3586465 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 29
3586367 AGATTTGAAC
* * **
3586377 AAAACCAGAAATCTAAA-AATGATTTGGGC
1 AAAACCA-AAAACTAAACAATGACTTGGAT
* *
3586406 AAAACC-AAGACTAAACTAAGTAACTTGGAT
1 AAAACCAAAAACTAAAC-AA-TGACTTGGAT
3586436 AAAACCAAAAACCTAAACAATGACTTGGAT
1 AAAACCAAAAA-CTAAACAATGACTTGGAT
3586466 TCAATGAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
27 7 0.15
29 8 0.17
30 21 0.45
31 5 0.11
32 6 0.13
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (29 bp):
AAAACCAAAAACTAAACAATGACTTGGAT
Found at i:3587704 original size:31 final size:31
Alignment explanation
Indices: 3587663--3587804 Score: 139
Period size: 30 Copynumber: 4.6 Consensus size: 31
3587653 CTTCAAATAC
*
3587663 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCAATCT
*
3587694 CTTCTCAAAGTCCACGACTTAGTGGC-AT-T
1 CTTCTCAAAGTCCACGACTCAGTGGCAATCT
* * * * *
3587723 TTGTCCCAAAGTCCACGACTCGGTGGCATTTT
1 CT-TCTCAAAGTCCACGACTCAGTGGCAATCT
* **
3587755 TTTCTCCAAAGTCCATAACTCAGTGGCAATCAT
1 CTTCT-CAAAGTCCACGACTCAGTGGCAATC-T
3587788 -TT-TCAAAGTCCACGACT
1 CTTCTCAAAGTCCACGACT
3587805 TTGTGGTACC
Statistics
Matches: 91, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
29 2 0.02
30 35 0.38
31 28 0.31
32 25 0.27
33 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTCAGTGGCAATCT
Found at i:3587796 original size:62 final size:60
Alignment explanation
Indices: 3587669--3587804 Score: 150
Period size: 62 Copynumber: 2.2 Consensus size: 60
3587659 ATACCTTCTT
* *
3587669 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTTAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATTTTGT-CC
* * * * *
3587730 AAAGTCCACGACTCGGTGGCATTTTTTTCTCCAAAGTCCATAACTCAGTGGCAATCATTT-T-C
1 AAAGTCCACGACTCAGTGGCAATCTCTTCT-CAAAGTCCACAACTCAGTGGC-AT--TTTGTCC
3587792 AAAGTCCACGACT
1 AAAGTCCACGACT
3587805 TTGTGGTACC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 26 0.41
62 32 0.50
63 2 0.03
64 1 0.02
65 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATTTTGTCC
Found at i:3587862 original size:33 final size:33
Alignment explanation
Indices: 3587817--3588080 Score: 172
Period size: 33 Copynumber: 7.9 Consensus size: 33
3587807 GTGGTACCCT
3587817 TTTAAAGTCCACAACTCCATGGCATCCTTTTCC
1 TTTAAAGTCCACAACTCCATGGCATCCTTTTCC
* * * *
3587850 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
1 TTTAAAGTCCACAACTCCATGGCA-TCCTTTTC-C
**
3587885 TTTAAAGTCCACAACTCTGTGGCAT-CTGTTTCC
1 TTTAAAGTCCACAACTCCATGGCATCCT-TTTCC
*
3587918 TTCAAAGTCCACAACT-CAGTGGCATCCCTTTTTCC
1 TTTAAAGTCCACAACTCCA-TGGCAT-CC-TTTTCC
*
3587953 TGT-AAGTCCACAACT-CAGTGGCAT-CTTTT--
1 TTTAAAGTCCACAACTCCA-TGGCATCCTTTTCC
* * * *
3587982 TTCT-AGGTCCACGACTCCGTGGCA-CCTTTTTCTT
1 TT-TAAAGTCCACAACTCCATGGCATCC-TTTTC-C
* *** *
3588016 TTTAAAGACCACAACTTTGTGGCACTCTTTTTCCC
1 TTTAAAGTCCACAACTCCATGGCA-TCCTTTT-CC
*
3588051 TTTTAAA-TCCACAACTCCGTGGCA-CCTTTT
1 -TTTAAAGTCCACAACTCCATGGCATCCTTTT
3588081 TAAGTTCACA
Statistics
Matches: 184, Mismatches: 28, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
29 1 0.01
30 17 0.09
31 9 0.05
32 1 0.01
33 50 0.27
34 50 0.27
35 47 0.26
36 9 0.05
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (33 bp):
TTTAAAGTCCACAACTCCATGGCATCCTTTTCC
Found at i:3587882 original size:34 final size:34
Alignment explanation
Indices: 3587817--3588081 Score: 253
Period size: 34 Copynumber: 7.9 Consensus size: 34
3587807 GTGGTACCCT
* *
3587817 TTTAAAGTCCACAACTCCATGGCA-TCCTTTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* *
3587850 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTC-C
* *
3587885 TTTAAAGTCCACAACTCTGTGGCA-TCTGTTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * *
3587918 TTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCC
1 TTTAAAGTCCACAACTCCGTGGCA-CTCTTTTTCC
* *
3587953 TGT-AAGTCCACAACTCAGTGGCA-TCTTTTT--
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * * *
3587983 TCT-AGGTCCACGACTCCGTGGCAC-CTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTC-C
* **
3588016 TTTAAAGACCACAACTTTGTGGCACTCTTTTTCCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTT-CC
3588051 TTTTAAA-TCCACAACTCCGTGGCAC-CTTTTT
1 -TTTAAAGTCCACAACTCCGTGGCACTCTTTTT
3588082 AAGTTCACAA
Statistics
Matches: 191, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
30 25 0.13
32 6 0.03
33 46 0.24
34 56 0.29
35 51 0.27
36 7 0.04
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (34 bp):
TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
Found at i:3588083 original size:27 final size:27
Alignment explanation
Indices: 3588051--3588106 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
3588041 TCTTTTTCCC
3588051 TTTTAAATCCACAACTCCGTGGCACCT
1 TTTTAAATCCACAACTCCGTGGCACCT
* * *
3588078 TTTTAAGTTCACAACTCCGTGGCATCT
1 TTTTAAATCCACAACTCCGTGGCACCT
3588105 TT
1 TT
3588107 CTCCTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (27 bp):
TTTTAAATCCACAACTCCGTGGCACCT
Found at i:3588126 original size:98 final size:97
Alignment explanation
Indices: 3587881--3588137 Score: 263
Period size: 98 Copynumber: 2.6 Consensus size: 97
3587871 GCACTCTTTT
* * *
3587881 TCTTTTTAAAGTCCACAACTCTGTGGCATCTGTTTCC--TTCAAAGTCCACAACTCAGTGGCATC
1 TCTTTTT-AAGTCCACAACTCCGTGGCATCT-TTTCCTTTTCAAAGACCACAACTTAGTGGCATC
*
3587944 CCTTTTTCCTGTAAGTCCACAACTCAGTGGCATC
64 CCTTTTTCCTGTAAATCCACAACTCAGTGGCATC
* * * * * * * *
3587978 TTTTTTCTAGGTCCACGACTCCGTGGCACCTTTTTCTTTTTAAAGACCACAACTTTGTGGCA-CT
1 TCTTTT-TAAGTCCACAACTCCGTGGCATCTTTTCCTTTTCAAAGACCACAACTTAGTGGCATCC
* *
3588042 CTTTTTCCCTTTTAAATCCACAACTCCGTGGCA-C
65 CTTTTT-CC-TGTAAATCCACAACTCAGTGGCATC
* * *
3588076 -CTTTTTAAGTTCACAACTCCGTGGCATCTTTCTCCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCATCTTT-TCCTTTTC-AAAGACCACAACTTAGTGGCA
3588138 ACCTTCAAAA
Statistics
Matches: 129, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
96 26 0.20
97 41 0.32
98 42 0.33
99 20 0.16
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (97 bp):
TCTTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTTCAAAGACCACAACTTAGTGGCATCCC
TTTTTCCTGTAAATCCACAACTCAGTGGCATC
Found at i:3588233 original size:49 final size:49
Alignment explanation
Indices: 3588180--3588981 Score: 758
Period size: 49 Copynumber: 16.6 Consensus size: 49
3588170 TTCTTTTAAC
* * *
3588180 CCAATATCGCTCGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* * *
3588229 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* * *
3588272 CCAATATCGCTGGCCTTGAATTAGCAGATTGGCACCTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* * *
3588321 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* *
3588364 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
*
3588413 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* *
3588456 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
*
3588505 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* *
3588548 CCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG---TCTTTAAGT
* * * **
3588600 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
** * * *
3588649 CCGGTATCGCTGGCCTTGAATTAGCATATTGGCACCTTCGTCATCTTCAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC-T-TT-AAGT
* ** *
3588701 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAATT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* * * *
3588750 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCGTCATCTTTCAA-A
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-GTCTTT-AAGT
* * ** *
3588802 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* ** * * * *
3588851 CCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAATATTTCTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GT-CTT-TAAGT
* * ** * *
3588903 CCAATGTCGCTGGCTTTGCCTCAGCACATTGGCA--TTTTTCTTCAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
* * *
3588950 CTAAATGTCGCTGGCCATGAATCAGCACATTG
1 C-CAATATCGCTGGCCTTGAATCAGCACATTG
3588982 TCATTCTTCG
Statistics
Matches: 623, Mismatches: 91, Indels: 79
0.79 0.11 0.10
Matches are distributed among these distances:
43 152 0.24
44 4 0.01
47 4 0.01
48 33 0.05
49 264 0.42
50 8 0.01
51 4 0.01
52 152 0.24
53 2 0.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGT
Found at i:3588619 original size:52 final size:51
Alignment explanation
Indices: 3588540--3588981 Score: 433
Period size: 52 Copynumber: 8.8 Consensus size: 51
3588530 ACATTGGCAC
* * *
3588540 CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-TCAT
* *
3588592 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA--TCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
** * * * *
3588641 CTTTAAGTCCGGTATCGCTGGCCTTGAATTAGCATATTGGCACCTTCGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TTCAT
*
3588693 CTTCAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
* * * * *
3588742 CTTTAATTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TTCAT
* *
3588794 CTTTCAA-ACCAATGTCGCCGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
* * * ** *
3588843 CCTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAAT-AT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT--TCAT
* * **
3588895 -TTCTAAGCCCAATGTCGCTGGCTTTGCCTCAGCACATTGGCA--TTTT--T
1 CTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
* * *
3588942 CTTCAAGTCTAAATGTCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTG
3588982 TCATTCTTCG
Statistics
Matches: 319, Mismatches: 56, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
47 5 0.02
48 30 0.09
49 120 0.38
50 5 0.02
51 3 0.01
52 153 0.48
53 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCAT
Found at i:3588685 original size:101 final size:92
Alignment explanation
Indices: 3588180--3588936 Score: 976
Period size: 92 Copynumber: 7.9 Consensus size: 92
3588170 TTCTTTTAAC
* *
3588180 CCAATATCGCTCGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
*
3588245 TGAATCAGCACATTGGCACCTTTAAGC
66 TGAATCAGCACATTGGCACCTTTAAGT
* * *
3588272 CCAATATCGCTGGCCTTGAATTAGCAGATTGGCACCTTTGTCTTTAAGACCAATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
*
3588337 TGAATCAGCACATTGGCACCTTTAAGC
66 TGAATCAGCACATTGGCACCTTTAAGT
3588364 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
3588429 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
3588456 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
3588521 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
* * *
3588548 CCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATGTCGCTGG
3588613 CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
63 CCTTGAATCAGCACATTGGCA----C--CTTTAAGT
** * * *
3588649 CCGGTATCGCTGGCCTTGAATTAGCATATTGGCACCTTCGTCATCTTCAAGTCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC-T-TT-AAGACCAATGTCGCTGG
*
3588714 CCTTGAATCAGCACATTGGCACCTTCATCTTTAATT
63 CCTTGAATCAGCACATTGGCA----C--CTTTAAGT
* * *
3588750 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCGTCATCTTTCAA-ACCAATGTCGCCG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-GTCTTT-AAGACCAATGTCGCTG
3588814 GCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
62 GCCTTGAATCAGCACATTGGCA-C--C-T--TTAAGT
* * * * * *
3588851 CCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAATATTTCTAAGCCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-GT-CTT-TAAGACCAATGTCGCTGG
* **
3588916 CTTTGCCTCAGCACATTGGCA
63 CCTTGAATCAGCACATTGGCA
3588937 TTTTTCTTCA
Statistics
Matches: 604, Mismatches: 40, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
92 308 0.51
95 41 0.07
98 5 0.01
99 6 0.01
100 6 0.01
101 230 0.38
102 5 0.01
103 1 0.00
104 2 0.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (92 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAGT
Found at i:3589944 original size:30 final size:29
Alignment explanation
Indices: 3589878--3590014 Score: 125
Period size: 30 Copynumber: 4.4 Consensus size: 29
3589868 ATACGTTCTT
* *
3589878 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-AT-TTTTCCC
3589909 AAAGTCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCATTTT-TCCC
*
3589939 AAAGTCCACGACTCGGTGGCATTTTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCA---TTTTTC-CC
**
3589972 AAAGTCCATAACTCAGTGGCAATCATTTT--C
1 AAAGTCCACGACTCAGTGGC-AT--TTTTCCC
3590002 AAAGTCCACGACT
1 AAAGTCCACGACT
3590015 TTGTAGCACC
Statistics
Matches: 90, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
29 2 0.02
30 37 0.41
31 21 0.23
32 2 0.02
33 27 0.30
34 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
AAAGTCCACGACTCAGTGGCATTTTTCCC
Found at i:3590005 original size:63 final size:60
Alignment explanation
Indices: 3589878--3590185 Score: 162
Period size: 68 Copynumber: 4.9 Consensus size: 60
3589868 ATACGTTCTT
*
3589878 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATTTTGT-CC
* * * * *
3589939 AAAGTCCACGACTCGGTGGCATTTTTTTTCTCCAAAGTCCATAACTCAGTGGCAATCATTT-T-C
1 AAAGTCCACGACTCAGTGGCA-ATCTCTTCT-CAAAGTCCACAACTCAGTGGC-AT--TTTGTCC
** * * * * *
3590002 AAAGTCCACGACTTTGTAGC-A-CCCTT-TTAAAGTCCACAACTCCGTGGCATCTTTTTCC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAT-TTTGTCC
* * * * * * *
3590060 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGTCCACAACTCTGTGGCATCTGTT
1 ---AAAGTCCACGACTCAGTGGCAATC----TCTTCTCAAAGTCCACAACTCAGTGGCAT-T-TT
3590125 -TCCTTC
57 GT-C--C
* * *
3590131 AAAGTCCACAACTCTGTGGC-ATCTGTTTCCTTCAAAGTCCACAACTCAGTGGCAT
1 AAAGTCCACGACTCAGTGGCAATCT-CTT-C-TCAAAGTCCACAACTCAGTGGCAT
3590186 CCCATTTTCC
Statistics
Matches: 191, Mismatches: 32, Indels: 43
0.72 0.12 0.16
Matches are distributed among these distances:
56 3 0.02
57 3 0.02
58 19 0.10
59 1 0.01
60 2 0.01
61 35 0.18
62 6 0.03
63 39 0.20
64 4 0.02
65 1 0.01
66 25 0.13
67 5 0.03
68 44 0.23
69 3 0.02
71 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATTTTGTCC
Found at i:3590089 original size:34 final size:34
Alignment explanation
Indices: 3590027--3590356 Score: 291
Period size: 33 Copynumber: 10.1 Consensus size: 34
3590017 GTAGCACCCT
3590027 TTTAAAGTCCACAACTCCGTGGCA-TCTTTTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* *
3590060 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTC-C
* *
3590095 TTTAAAGTCCACAACTCTGTGGCA-TCTGTTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * *
3590128 TTCAAAGTCCACAACTCTGTGGCA-TCTGTTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * * *
3590161 TTCAAAGTCCACAACTCAGTGGCATCCCATTTTCC
1 TTTAAAGTCCACAACTCCGTGGCA-CTCTTTTTCC
* *
3590196 TGT-AAGTCCACAACTCAGTGGCA-TCTTTTT--
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * * * **
3590226 TCT-AGGTCCACGACTCCGTGACAC-CTTTTTATT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTT-CC
*
3590259 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTT-CC
*
3590294 TTTTAAA-TCCATAACTCCGTGGCAC-C---TT--
1 -TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
*
3590322 TTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
3590354 TTT
1 TTT
3590357 TCAAAAGCCC
Statistics
Matches: 247, Mismatches: 32, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.01
27 20 0.08
30 25 0.10
31 2 0.01
32 8 0.03
33 80 0.32
34 53 0.21
35 51 0.21
36 6 0.02
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (34 bp):
TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
Found at i:3590186 original size:33 final size:32
Alignment explanation
Indices: 3589878--3590224 Score: 254
Period size: 33 Copynumber: 10.8 Consensus size: 32
3589868 ATACGTTCTT
* *
3589878 AAAGTCCACGACTCAGTGGCAATCTCTT-C-TC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCCTTC
*
3589909 AAAGTCCACGACTCAGTGGCAT-TTTGTCC--C
1 AAAGTCCACAACTCAGTGGCATCTTT-TCCTTC
* * * * *
3589939 AAAGTCCACGACTCGGTGGCATTTTTTTTCTCC
1 AAAGTCCACAACTCAGTGGCA-TCTTTTCCTTC
* *
3589972 AAAGTCCATAACTCAGTGGCAATC-ATT--TTC
1 AAAGTCCACAACTCAGTGGC-ATCTTTTCCTTC
* ** * **
3590002 AAAGTCCACGACTTTGTAGCA-CCCTT--TT-
1 AAAGTCCACAACTCAGTGGCATCTTTTCCTTC
* *
3590030 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTT
1 AAAGTCCACAACTCAGTGGCATC-TTTTCCTTC
* * * *
3590063 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
1 AAAGTCCACAACTCAGTGGCA-TC-TTTTC-CTTC
*
3590098 AAAGTCCACAACTCTGTGGCATCTGTTTCCTTC
1 AAAGTCCACAACTCAGTGGCATCT-TTTCCTTC
*
3590131 AAAGTCCACAACTCTGTGGCATCTGTTTCCTTC
1 AAAGTCCACAACTCAGTGGCATCT-TTTCCTTC
3590164 AAAGTCCACAACTCAGTGGCATCCCATTTTCCTGT-
1 AAAGTCCACAACTCAGTGGCAT--C-TTTTCCT-TC
3590199 -AAGTCCACAACTCAGTGGCATCTTTT
1 AAAGTCCACAACTCAGTGGCATCTTTT
3590225 TTCTAGGTCC
Statistics
Matches: 268, Mismatches: 28, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
28 18 0.07
29 8 0.03
30 43 0.16
31 28 0.10
32 8 0.03
33 96 0.36
34 36 0.13
35 29 0.11
36 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (32 bp):
AAAGTCCACAACTCAGTGGCATCTTTTCCTTC
Found at i:3590326 original size:27 final size:27
Alignment explanation
Indices: 3590294--3590349 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
3590284 TCTTTTTCCC
*
3590294 TTTTAAATCCATAACTCCGTGGCACCT
1 TTTTAAATCCACAACTCCGTGGCACCT
* *
3590321 TTTTAAGTCCACAACTCCGTGGCATCT
1 TTTTAAATCCACAACTCCGTGGCACCT
3590348 TT
1 TT
3590350 CTCCTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (27 bp):
TTTTAAATCCACAACTCCGTGGCACCT
Found at i:3590477 original size:49 final size:49
Alignment explanation
Indices: 3590417--3591041 Score: 506
Period size: 49 Copynumber: 12.8 Consensus size: 49
3590407 GGCATCTTCT
* * * **
3590417 TTTAAGCCCAATATCGCTAGCCTTAAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
3590466 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* ** *
3590509 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGGTT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
3590558 TTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
3590601 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC
* * * * *
3590653 TTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
** * * * *
3590702 TTTAAGTCCGGTATCACTGGCCTTTAATCAGCATATTAGCACCTTCGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
3590751 ATTTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATC
1 --TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
3590803 TTTAATTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTCATCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATC
* * * *
3590855 TTTCAA-ACCAATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * * *
3590904 CTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAATA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCATC
* * ** * **
3590954 TTCCTAAGCCCAATGTCGCTGGCCTTGCCTCAGCACATTGGCA--TTTTTC
1 TT--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
3591003 TTCAAGTCTAAATGTCGCTGGCCATGAATCAGCACATTG
1 TTTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTG
3591042 TCATTCTTCG
Statistics
Matches: 460, Mismatches: 89, Indels: 55
0.76 0.15 0.09
Matches are distributed among these distances:
43 74 0.16
47 4 0.01
48 28 0.06
49 191 0.42
50 12 0.03
51 4 0.01
52 145 0.32
53 2 0.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:3590526 original size:43 final size:43
Alignment explanation
Indices: 3590465--3590638 Score: 231
Period size: 43 Copynumber: 3.9 Consensus size: 43
3590455 GCACCTTTGT
*
3590465 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
3590508 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
3590551 CTTGGTTTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
1 C------TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
3590600 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTG
3590639 CCGCCTTTGT
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
43 75 0.66
49 39 0.34
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3590646 original size:43 final size:43
Alignment explanation
Indices: 3590417--3590646 Score: 199
Period size: 43 Copynumber: 5.1 Consensus size: 43
3590407 GGCATCTTCT
* * * *
3590417 TTTAAGCCCAATATCGCTAGCCTTAAATCAGCATATTGGCACCTTTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATT-G--CC---GCC
* * * *
3590466 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGCCGCC
* **
3590509 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGGTT
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATT-G--CC---GCC
* * * * *
3590558 TTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGCCGCC
*
3590601 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCGCC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGCCGCC
3590644 TTT
1 TTT
3590647 GTCATCTTTA
Statistics
Matches: 146, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
43 75 0.51
44 1 0.01
46 3 0.02
48 2 0.01
49 65 0.45
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGCCGCC
Found at i:3590678 original size:52 final size:51
Alignment explanation
Indices: 3590600--3591041 Score: 361
Period size: 52 Copynumber: 8.8 Consensus size: 51
3590590 ACATTGGCAC
* *
3590600 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCAT
* * * * *
3590652 CTTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGCA--TCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
** * * * *
3590701 CTTTAAGTCCGGTATCACTGGCCTTTAATCAGCATATTAGCACCTTCGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCAT
* * *
3590753 -TTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACC--TTCAT
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
* * * *
3590802 CTTTAATTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTCATCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCAT
* * * *
3590854 CTTTCAA-ACCAATGTCGCCGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
* * * * *
3590903 CCTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATC-TTTAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
* * * ** *
3590953 ATTCCTAAGCCCAATGTCGCTGGCCTTGCCTCAGCACATTGGCA--TTTT--T
1 CTT--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
* * * * *
3591002 CTTCAAGTCTAAATGTCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTG
3591042 TCATTCTTCG
Statistics
Matches: 309, Mismatches: 66, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
47 4 0.01
48 28 0.09
49 115 0.37
50 10 0.03
51 7 0.02
52 143 0.46
53 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (51 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
Found at i:3590752 original size:101 final size:99
Alignment explanation
Indices: 3590406--3591041 Score: 664
Period size: 101 Copynumber: 6.5 Consensus size: 99
3590396 CACAAGTTGG
* * * *
3590406 TGGCATCTTCT-TTTAAGCCCAATATCGCTAGCCTTAAATCAGCATATTGGCACCTT-T-GTCTT
1 TGGCATCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTT
3590468 TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
3590502 TGGCA----C-CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGGT--T-T
1 TGGCATCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATCT
*
3590559 TTAAGACCAATGTTGCTGGCCTTGAATCAGCACAT
65 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* *
3590594 TGGCA----C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCGCCTTTGTCATCT
1 TGGCATCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATCT
* * *
3590654 TTAAGTCCAATGTCGCTAGCCTTGAATCAACACAT
65 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
** * * *
3590689 TGGCATCTTCATCTTTAAGTCCGGTATCACTGGCCTTTAATCAGCATATTAGCACCTTCGTCAT-
1 TGGCATCTTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATC
* *
3590753 TTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCACAT
64 TTT-AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
3590790 TGGCACCTTCATCTTTAATTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTCATCATC
1 TGGCATCTTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATC
*
3590855 TTTCAA-ACCAATGTCGCCGGCCTTGAATCAGCACAT
64 TTT-AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * * *
3590891 TGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTT-TAATAT
1 TGGCATCTTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCT
* **
3590955 TCCTAAGCCCAATGTCGCTGGCCTTGCCTCAGCACAT
65 T--TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * * *
3590992 TGGCAT-TTTTCTTCAAGTCTAAATGTCGCTGGCCATGAATCAGCACATTG
1 TGGCATCTTCTCTTTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTG
3591042 TCATTCTTCG
Statistics
Matches: 466, Mismatches: 54, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
92 128 0.27
93 3 0.01
94 2 0.00
95 37 0.08
96 5 0.01
99 14 0.03
100 33 0.07
101 238 0.51
102 6 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (99 bp):
TGGCATCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTT
TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:3591973 original size:31 final size:31
Alignment explanation
Indices: 3591932--3592072 Score: 146
Period size: 30 Copynumber: 4.6 Consensus size: 31
3591922 CTTCAAATAC
*
3591932 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCAATCT
3591963 CTTCTCAAAGTCCACGACTCAGTGGC-AT-T
1 CTTCTCAAAGTCCACGACTCAGTGGCAATCT
* * * * *
3591992 TTGTCCCAAAGTCCACGACTCGGTGGCATTTT
1 CT-TCTCAAAGTCCACGACTCAGTGGCAATCT
* **
3592024 TTTCTCCAAAGTCCATAACTCAGTGGCAATCAT
1 CTTCT-CAAAGTCCACGACTCAGTGGCAATC-T
3592057 -TT-TCAAAGTCCACGAC
1 CTTCTCAAAGTCCACGAC
3592073 CTTGTGGCAC
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
29 2 0.02
30 35 0.38
31 29 0.32
32 25 0.27
33 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTCAGTGGCAATCT
Found at i:3592064 original size:62 final size:60
Alignment explanation
Indices: 3591938--3592110 Score: 160
Period size: 62 Copynumber: 2.9 Consensus size: 60
3591928 ATACCTTCTT
*
3591938 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATTTTGT-CC
* * * * *
3591999 AAAGTCCACGACTCGGTGGCATTTTTTTCTCCAAAGTCCATAACTCAGTGGCAATCATTT-T-C
1 AAAGTCCACGACTCAGTGGCAATCTCTTCT-CAAAGTCCACAACTCAGTGGC-AT--TTTGTCC
* * * *
3592061 AAAGTCCACGAC-CTTGTGGC-A-CCCTT-TTAAAGTCCACAACTCCGTGGCAT
1 AAAGTCCACGACTC-AGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCAT
3592111 CTTTTTCCTT
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
57 2 0.02
58 18 0.19
59 1 0.01
60 2 0.02
61 27 0.29
62 37 0.40
63 2 0.02
64 1 0.01
65 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATTTTGTCC
Found at i:3592107 original size:28 final size:28
Alignment explanation
Indices: 3592031--3592149 Score: 71
Period size: 33 Copynumber: 4.0 Consensus size: 28
3592021 TTTTTTCTCC
* * * *
3592031 AAAGTCCATAACTCAGTGGCAATCATTTT
1 AAAGTCCACAACTCCGTGGC-ACCCTTTT
* *
3592060 CAAAGTCCACGAC-CTTGTGGCACCCTTTT
1 -AAAGTCCACAACTC-CGTGGCACCCTTTT
3592089 AAAGTCCACAACTCCGTGGCATCTTTTTCC-TTT
1 AAAGTCCACAACTCCGTGGCA-C-----CCTTTT
* *
3592122 AAAGCCCACAACTCCGTGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT
3592150 TCTTTTTAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
27 1 0.01
28 20 0.28
29 9 0.13
30 15 0.21
32 1 0.01
33 23 0.32
34 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (28 bp):
AAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:3592131 original size:33 final size:33
Alignment explanation
Indices: 3592086--3592382 Score: 274
Period size: 34 Copynumber: 9.1 Consensus size: 33
3592076 GTGGCACCCT
3592086 TTTAAAGTCCACAACTCCGTGGCATCTTTTTCC
1 TTTAAAGTCCACAACTCCGTGGCATCTTTTTCC
* *
3592119 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCA-TCTTTTTC-C
* *
3592154 TTTAAAGTCCACAACTCTGTGGCATCTGTTTCC
1 TTTAAAGTCCACAACTCCGTGGCATCTTTTTCC
* * *
3592187 TTCAAAGTCCACAACTCAGTGGCATCCCATTTTCC
1 TTTAAAGTCCACAACTCCGTGGCAT--CTTTTTCC
* *
3592222 TGT-AAGTCCACAACTCAGTGGCATCTTTTT--
1 TTTAAAGTCCACAACTCCGTGGCATCTTTTTCC
* * * * * *
3592252 TCT-AGGTCCACGACTCCGTGACACCTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCATCTTTTTC-C
*
3592285 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTAAAGTCCACAACTCCGTGGCA-TCTTTTT-CC
* *
3592320 TTTTAAA-TCCATAACTCCGTGGCA-C--CTT--
1 -TTTAAAGTCCACAACTCCGTGGCATCTTTTTCC
*
3592348 TTT-AAGTCCACAACTCCGTGGCATCTTTCTCC
1 TTTAAAGTCCACAACTCCGTGGCATCTTTTTCC
3592380 TTT
1 TTT
3592383 TCAAAAGCCC
Statistics
Matches: 215, Mismatches: 32, Indels: 35
0.76 0.11 0.12
Matches are distributed among these distances:
26 2 0.01
27 19 0.09
28 1 0.00
30 25 0.12
31 2 0.01
32 8 0.04
33 49 0.23
34 52 0.24
35 50 0.23
36 7 0.03
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTAAAGTCCACAACTCCGTGGCATCTTTTTCC
Found at i:3592352 original size:27 final size:27
Alignment explanation
Indices: 3592320--3592375 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
3592310 TCTTTTTCCC
*
3592320 TTTTAAATCCATAACTCCGTGGCACCT
1 TTTTAAATCCACAACTCCGTGGCACCT
* *
3592347 TTTTAAGTCCACAACTCCGTGGCATCT
1 TTTTAAATCCACAACTCCGTGGCACCT
3592374 TT
1 TT
3592376 CTCCTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (27 bp):
TTTTAAATCCACAACTCCGTGGCACCT
Found at i:3592405 original size:98 final size:97
Alignment explanation
Indices: 3592083--3592406 Score: 259
Period size: 98 Copynumber: 3.3 Consensus size: 97
3592073 CTTGTGGCAC
* * * * * *
3592083 CCTTTT-AAAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTAAAGCCCACAACTCCGTGGCACT
1 CCTTTTCAAAGCCCACAACTCAGTGGCATCCCATTTTCCTGTAAA-TCCACAACTCAGTGGCA-T
*
3592145 CTTTTTCTTTTTAAAGTCCACAACTCTGTGGCATCTGTTT
64 C----TCTTTTT-AAGTCCACAACTCCGTGGCATCT-TTT
* *
3592185 CC--TTCAAAGTCCACAACTCAGTGGCATCCCATTTTCCTGTAAGTCCACAACTCAGTGGCATCT
1 CCTTTTCAAAGCCCACAACTCAGTGGCATCCCATTTTCCTGTAAATCCACAACTCAGTGGCATCT
* * * * *
3592248 TTTTTCTAGGTCCACGACTCCGTGACACCTTTT
66 CTTTT-TAAGTCCACAACTCCGTGGCATCTTTT
* * * * * * * *
3592281 TCTTTTTAAAGCCCACAACTCCGTGGCA-CTCTTTTTCCCTTTTAAATCCATAACTCCGTGGCA-
1 CCTTTTCAAAGCCCACAACTCAGTGGCATCCCATTTT-CC-TGTAAATCCACAACTCAGTGGCAT
3592344 C-CTTTTTAAGTCCACAACTCCGTGGCATCTTTCT
64 CTCTTTTTAAGTCCACAACTCCGTGGCATCTTT-T
* *
3592378 CCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 CCTTTTC-AAAGCCCACAACTCAGTGGCA
3592407 ACCTTCAAAA
Statistics
Matches: 180, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
96 26 0.14
97 39 0.22
98 43 0.24
99 19 0.11
100 2 0.01
101 23 0.13
102 17 0.09
103 11 0.06
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (97 bp):
CCTTTTCAAAGCCCACAACTCAGTGGCATCCCATTTTCCTGTAAATCCACAACTCAGTGGCATCT
CTTTTTAAGTCCACAACTCCGTGGCATCTTTT
Found at i:3592503 original size:49 final size:49
Alignment explanation
Indices: 3592443--3593067 Score: 481
Period size: 49 Copynumber: 12.8 Consensus size: 49
3592433 GGCATATTCT
* * **
3592443 TTTAAGCCCAATATCGCTCGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
3592492 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * ** *
3592535 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAGCTTGGTT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
3592584 TTTAAGAT-TAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAG-TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
** *
3592627 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTACCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC
* ** * * *
3592679 TTTAAGTCCAATGTCGCCAGCCTTGAATCAACACATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
** * * *
3592728 TTTAAGTCCGGTATCGCTGGCCTTTAATCAGCATATTAGCACCTTCGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
3592777 ATTTTCAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATC
1 --TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
3592829 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTCATCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATC
* * * ** *
3592881 TTTCAA-ACCAATGTCACCAGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * * *
3592930 CTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAATA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCATC
* * ** * **
3592980 TTCCTAAGCCCAATGTCGCTGGCCTTGCCTCAGCACATTGGCA--TTTTTC
1 TT--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
3593029 TTCAAGTCTAAATGTCGCTGGCCATGAATCAGCACATTG
1 TTTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTG
3593068 TCATTCTTCG
Statistics
Matches: 455, Mismatches: 92, Indels: 59
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.00
43 72 0.16
47 4 0.01
48 28 0.06
49 190 0.42
50 12 0.03
51 4 0.01
52 142 0.31
53 2 0.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:3592552 original size:43 final size:43
Alignment explanation
Indices: 3592491--3592659 Score: 212
Period size: 43 Copynumber: 3.8 Consensus size: 43
3592481 GCACCTTTGT
*
3592491 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
3592534 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAGC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* ** *
3592578 TTGGTTTTTAAGATTAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
*
3592626 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
3592660 TATTACCGCC
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
43 68 0.64
44 1 0.01
48 1 0.01
49 36 0.34
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Done.