Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4584045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 21
Found at i:2579162 original size:14 final size:14
Alignment explanation
Indices: 2579143--2579172 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2579133 CATTCAAAAA
2579143 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
2579157 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
2579171 AA
1 AA
2579173 GAAACTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:2591346 original size:16 final size:16
Alignment explanation
Indices: 2591320--2591364 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2591310 TTTGAATACA
*
2591320 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
2591337 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
2591352 ATTCAATTTATTT
1 ATTCAATTTATTT
2591365 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:2592261 original size:83 final size:83
Alignment explanation
Indices: 2592106--2592415 Score: 514
Period size: 83 Copynumber: 3.7 Consensus size: 83
2592096 TAACTGGAAC
*
2592106 AGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AGATGAATGTG-TTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
*
2592170 AACTAATCATTGAATTTAGA
64 AACCAATCATTGAATTTAGA
* *
2592190 AGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAA
1 AGATGAATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
2592255 CCAATCATTGAATTTAGA
66 CCAATCATTGAATTTAGA
*
2592273 AGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
1 AGATGAATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
*
2592338 CCAATCATTGAATTTGGA
66 CCAATCATTGAATTTAGA
* * *
2592356 AGATGAATGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 AGATGAATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
2592416 TAAGAACTAC
Statistics
Matches: 215, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
83 202 0.94
84 13 0.06
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.38
Consensus pattern (83 bp):
AGATGAATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
CCAATCATTGAATTTAGA
Found at i:2593269 original size:113 final size:114
Alignment explanation
Indices: 2593071--2593853 Score: 1069
Period size: 113 Copynumber: 6.9 Consensus size: 114
2593061 TCTATCATTT
* *
2593071 GATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 GATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
2593136 TTCATAATGAGAAGAATTTGTTCAACCTTTT-ATCTGAATTCATCACTG
66 TTCATAATGAGAAGAATTTGTTCAACCTTTTGATCTGAATTCATCACTG
*
2593184 GATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 GATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * ** *
2593249 TTCATAATAAGAAGAATTTGTTCAACCTTTTGGTTTGAATTCATCGTTT
66 TTCATAATGAGAAGAATTTGTTCAACCTTTTGATCTGAATTCATCACTG
* * * * *
2593298 GATGGATCAACATTACCAG-GAAGAGTTCATAATGAGAATAACTCGTCATCTGAAGAAGGAAGAA
1 GATGGATTATCTTTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA
*
2593362 GAAAGTTCATAATGAGAAGAATTTGTTTAACCTTTT-ATCTGAATTCATCACTG
62 G-AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGATCTGAATTCATCACTG
*
2593415 GATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 GATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * ** *
2593480 TTCATAATAAGAAGAATTTGTTCAACCTTTTGGTTTGAATTCATCGTTT
66 TTCATAATGAGAAGAATTTGTTCAACCTTTTGATCTGAATTCATCACTG
* * * *
2593529 GATGGATCAACATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAA
1 GATGGATTATCTTTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA
2593593 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-ATCTGAATTCATCACTG
62 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGATCTGAATTCATCACTG
*
2593645 GATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 GATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * *
2593710 TTCATAATGAGAAGAACTTGTTCAACTTTTTGGTTTGAATTCATCA-TT
66 TTCATAATGAGAAGAATTTGTTCAACCTTTTGATCTGAATTCATCACTG
* * * *
2593758 GATGGATCA-CATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
1 GATGGATTATCTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
2593821 GTTCATAATAAGAAGAAATTGTTCAACTTTTTG
65 GTTCATAATGAGAAGAATTTGTTCAACCTTTTG
2593854 CATAATTCTA
Statistics
Matches: 592, Mismatches: 63, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
111 3 0.01
112 77 0.13
113 191 0.32
114 120 0.20
115 1 0.00
116 46 0.08
117 119 0.20
118 35 0.06
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (114 bp):
GATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
TTCATAATGAGAAGAATTTGTTCAACCTTTTGATCTGAATTCATCACTG
Found at i:2593467 original size:231 final size:227
Alignment explanation
Indices: 2593068--2593852 Score: 1342
Period size: 231 Copynumber: 3.4 Consensus size: 227
2593058 AAATCTATCA
* * * *
2593068 TTTGATGGATTAGCTTTTCCAGAGAAG-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 TTTGATGGATCAACATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
2593132 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTATTTT
65 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTATTTT
2593197 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAA
130 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAA
2593262 GAATTTGTTCAACCTTTTGGTTTGAATTCATCG
195 GAATTTGTTCAACCTTTTGGTTTGAATTCATCG
* *
2593295 TTTGATGGATCAACATTACCAGGAAGAGTTCATAATGAGAATAACTCGTCATCTGAAGAAGGAAG
1 TTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
*
2593360 AAGAAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTATCTGAATTCATCACTGGATGGATTAT
63 AAG-AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTAT
2593425 TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
127 TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAA
2593490 GAAGAATTTGTTCAACCTTTTGGTTTGAATTCATCG
192 GAAGAATTTGTTCAACCTTTTGGTTTGAATTCATCG
2593526 TTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG
1 TTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
2593591 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTATT
63 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTATT
*
2593656 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
128 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAG
* *
2593721 AAGAACTTGTTCAACTTTTTGGTTTGAATTCATC-
193 AAGAATTTGTTCAACCTTTTGGTTTGAATTCATCG
* *
2593755 ATTGATGGATC-ACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG
1 TTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * *
2593819 AAGTTCATAATAAGAAGAAATTGTTCAACTTTTT
66 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
2593853 GCATAATTCT
Statistics
Matches: 536, Mismatches: 17, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
225 50 0.09
226 5 0.01
227 34 0.06
228 32 0.06
229 11 0.02
230 177 0.33
231 227 0.42
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (227 bp):
TTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTATTTTT
TCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAG
AATTTGTTCAACCTTTTGGTTTGAATTCATCG
Found at i:2594178 original size:3 final size:3
Alignment explanation
Indices: 2594170--2594279 Score: 170
Period size: 3 Copynumber: 36.7 Consensus size: 3
2594160 TTTTTATCCA
2594170 TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
2594215 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2594262 TAT TAT TAA TAT ATAT TA
1 TAT TAT TAT TAT -TAT TA
2594280 AATATATATA
Statistics
Matches: 99, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.04
3 89 0.90
4 6 0.06
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2594836 original size:15 final size:15
Alignment explanation
Indices: 2594816--2594847 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2594806 AAAAAAACAG
2594816 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
2594831 AAAAGAAAGAAGAGA
1 AAAAGAAAGAAAAGA
2594846 AA
1 AA
2594848 CTTACCAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:2595577 original size:20 final size:21
Alignment explanation
Indices: 2595540--2595580 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2595530 TTTATTCTTA
**
2595540 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
2595561 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
2595581 ATATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:2600732 original size:2 final size:2
Alignment explanation
Indices: 2600722--2600967 Score: 147
Period size: 2 Copynumber: 124.0 Consensus size: 2
2600712 ATTGAAAAAA
2600722 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
2600762 TT AT AT AT AA ACT AT AT TT AT AT AT AT ACT AT AT A- AT -T AT -T
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * * * * *
2600803 AT A- AG CT AT GT AC AT AA AT -T AT GT TT AT AT GA- ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
* * * * * *
2600844 AT AA ACT AT AT AT GT AA ACT AT AT AT GT AT AA ACT AT A- AA AT
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT
* * *
2600886 -T AT AT AGT TT AT AA ACT AT A- AT TT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
2600928 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
2600968 TAGTGAGTGG
Statistics
Matches: 187, Mismatches: 35, Indels: 44
0.70 0.13 0.17
Matches are distributed among these distances:
1 12 0.06
2 165 0.88
3 10 0.05
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2601082 original size:20 final size:20
Alignment explanation
Indices: 2601035--2601089 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2601025 GATTTTATTT
* *
2601035 AGAAATTTGGAGGCAAATTG
1 AGAAATTTAGAGGGAAATTG
*
2601055 -GGAATTTAGAGGGAAATTG
1 AGAAATTTAGAGGGAAATTG
2601074 AGAAATTTAGAGGGAA
1 AGAAATTTAGAGGGAA
2601090 TAGAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.42, C:0.02, G:0.33, T:0.24
Consensus pattern (20 bp):
AGAAATTTAGAGGGAAATTG
Found at i:2601100 original size:19 final size:20
Alignment explanation
Indices: 2601057--2601100 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
2601047 GCAAATTGGG
* *
2601057 AATTTAGAGGGAAATTGAGA
1 AATTTAGAGGGAAATAGAAA
2601077 AATTTAGAGGG-AATAGAAA
1 AATTTAGAGGGAAATAGAAA
2601096 AATTT
1 AATTT
2601101 GGGAAGTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (20 bp):
AATTTAGAGGGAAATAGAAA
Found at i:2601260 original size:16 final size:16
Alignment explanation
Indices: 2601239--2601291 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
2601229 AATATCTTAT
2601239 TGAATTTTCAATTTGA
1 TGAATTTTCAATTTGA
* * *
2601255 TGAATTGTAAATATCTTA
1 TGAATTTTCAAT-T-TGA
2601273 TTGAATTTTCAATTTGA
1 -TGAATTTTCAATTTGA
2601290 TG
1 TG
2601292 CAGTTTAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 12 0.43
17 3 0.11
18 3 0.11
19 10 0.36
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (16 bp):
TGAATTTTCAATTTGA
Found at i:2601261 original size:35 final size:35
Alignment explanation
Indices: 2601222--2601291 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
2601212 GTCATGGTTT
2601222 AATTGTAAATATCTTATTGAATTTTCAATTTGATG
1 AATTGTAAATATCTTATTGAATTTTCAATTTGATG
2601257 AATTGTAAATATCTTATTGAATTTTCAATTTGATG
1 AATTGTAAATATCTTATTGAATTTTCAATTTGATG
2601292 CAGTTTAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (35 bp):
AATTGTAAATATCTTATTGAATTTTCAATTTGATG
Found at i:2601279 original size:19 final size:19
Alignment explanation
Indices: 2601222--2601279 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
2601212 GTCATGGTTT
2601222 AATTGTAAATATCTTATTG
1 AATTGTAAATATCTTATTG
* * *
2601241 AATTTTCAAT-T-TGA-TG
1 AATTGTAAATATCTTATTG
2601257 AATTGTAAATATCTTATTG
1 AATTGTAAATATCTTATTG
2601276 AATT
1 AATT
2601280 TTCAATTTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 10 0.33
17 3 0.10
18 3 0.10
19 14 0.47
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.48
Consensus pattern (19 bp):
AATTGTAAATATCTTATTG
Found at i:2601358 original size:15 final size:15
Alignment explanation
Indices: 2601338--2601373 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2601328 TTTCTATATA
2601338 TATATATATATAAAC
1 TATATATATATAAAC
*
2601353 TATATATGTATAAAC
1 TATATATATATAAAC
2601368 TATATA
1 TATATA
2601374 AAATATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:2601530 original size:7 final size:7
Alignment explanation
Indices: 2601520--2601560 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
2601510 TAGTTTATAG
2601520 AAACCCT
1 AAACCCT
2601527 AAACCCT
1 AAACCCT
2601534 AAACCCT
1 AAACCCT
*
2601541 AAACTCT
1 AAACCCT
*
2601548 TAACCCT
1 AAACCCT
2601555 -AACCCT
1 AAACCCT
2601561 TGAATTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:2601633 original size:19 final size:19
Alignment explanation
Indices: 2601605--2601647 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
2601595 ATCAAATATG
2601605 TATA-ATATATATAAACTA
1 TATATATATATATAAACTA
*
2601623 TATATATATATATAACCTA
1 TATATATATATATAAACTA
2601642 TATATA
1 TATATA
2601648 AAAACTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATATATATATAAACTA
Found at i:2601744 original size:7 final size:7
Alignment explanation
Indices: 2601734--2601764 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2601724 TAGTTTATAG
2601734 AAACCCT
1 AAACCCT
2601741 AAACCCT
1 AAACCCT
*
2601748 AAACTCT
1 AAACCCT
2601755 AAACCCT
1 AAACCCT
2601762 AAA
1 AAA
2601765 TTTTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:2601756 original size:14 final size:14
Alignment explanation
Indices: 2601734--2601821 Score: 61
Period size: 14 Copynumber: 6.3 Consensus size: 14
2601724 TAGTTTATAG
*
2601734 AAACCCTAAACCCT
1 AAACTCTAAACCCT
2601748 AAACTCTAAACCCT
1 AAACTCTAAACCCT
* * * *
2601762 AAATTTTAAAACAT
1 AAACTCTAAACCCT
*
2601776 AAA-TCCTAAACTCT
1 AAACT-CTAAACCCT
* ***
2601790 AAACTTTAAAATAT
1 AAACTCTAAACCCT
*
2601804 AAACTCTAAATCCT
1 AAACTCTAAACCCT
2601818 AAAC
1 AAAC
2601822 CTTGAACTAT
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
13 1 0.02
14 54 0.96
15 1 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (14 bp):
AAACTCTAAACCCT
Found at i:2601784 original size:28 final size:28
Alignment explanation
Indices: 2601747--2601821 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
2601737 CCCTAAACCC
*
2601747 TAAACTCTAAACCCTAAATTTTAAAACA
1 TAAACTCTAAACCCTAAACTTTAAAACA
* *
2601775 TAAA-TCCTAAACTCTAAACTTTAAAATA
1 TAAACT-CTAAACCCTAAACTTTAAAACA
*
2601803 TAAACTCTAAATCCTAAAC
1 TAAACTCTAAACCCTAAAC
2601822 CTTGAACTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.03
28 38 0.95
29 1 0.03
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.29
Consensus pattern (28 bp):
TAAACTCTAAACCCTAAACTTTAAAACA
Found at i:2601799 original size:21 final size:21
Alignment explanation
Indices: 2601738--2601813 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
2601728 TTATAGAAAC
* * *
2601738 CCTAAACCCTAAACTCTAAAC
1 CCTAAACTCTAAACTATAAAT
* *
2601759 CCTAAATTTTAAAAC-ATAAAT
1 CCTAAACTCT-AAACTATAAAT
*
2601780 CCTAAACTCTAAACTTTAAAAT
1 CCTAAACTCTAAACTAT-AAAT
*
2601802 -ATAAACTCTAAA
1 CCTAAACTCTAAA
2601814 TCCTAAACCT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 4 0.09
21 31 0.72
22 8 0.19
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.28
Consensus pattern (21 bp):
CCTAAACTCTAAACTATAAAT
Found at i:2602002 original size:35 final size:36
Alignment explanation
Indices: 2601936--2602004 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 36
2601926 AATAGTTAAC
*
2601936 ATATATAACCTATAGTATATGTATACATATAAACTAT
1 ATATATAACCTATAGTACATGTATA-ATATAAACTAT
* * *
2601973 ATATGTAACTTATAGTACATGTAT-GTATAAAC
1 ATATATAACCTATAGTACATGTATAATATAAAC
2602005 AATGTATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 7 0.25
37 21 0.75
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (36 bp):
ATATATAACCTATAGTACATGTATAATATAAACTAT
Found at i:2602017 original size:57 final size:58
Alignment explanation
Indices: 2601950--2602100 Score: 193
Period size: 57 Copynumber: 2.6 Consensus size: 58
2601940 ATAACCTATA
* *
2601950 GTATATGTATACATATAAACTATATATGTAACTTATAGTACATGTATGTATA-AA-CAAT
1 GTATATGTAT--ATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCAAT
* * *
2602008 GTATA-GTATATATAAACTATATATATAACCTATAGTATATGTATATATACAATCTAT
1 GTATATGTATATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCAAT
* *
2602065 TTATATGT-TATATAAACAATATATGTAACCTATAGT
1 GTATATGTATATATAAACTATATATGTAACCTATAGT
2602101 TTATAGACAA
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
55 36 0.44
56 2 0.02
57 37 0.45
58 7 0.09
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (58 bp):
GTATATGTATATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCAAT
Found at i:2602026 original size:55 final size:57
Alignment explanation
Indices: 2601962--2602100 Score: 185
Period size: 55 Copynumber: 2.5 Consensus size: 57
2601952 ATATGTATAC
* *
2601962 ATATAAACTATATATGTAACTTATAGTACATGTATGTATA-AA-CAATGTATA-GTAT
1 ATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCAATGTATATGT-T
* * * *
2602017 ATATAAACTATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTT
1 ATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCAATGTATATGTT
*
2602074 ATATAAACAATATATGTAACCTATAGT
1 ATATAAACTATATATGTAACCTATAGT
2602101 TTATAGACAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
55 36 0.49
56 2 0.03
57 33 0.45
58 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.40
Consensus pattern (57 bp):
ATATAAACTATATATGTAACCTATAGTACATGTATATATACAATCAATGTATATGTT
Found at i:2602032 original size:13 final size:13
Alignment explanation
Indices: 2602014--2602047 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2602004 CAATGTATAG
2602014 TATATATAAACTA
1 TATATATAAACTA
*
2602027 TATATATAACCTA
1 TATATATAAACTA
2602040 TAGTATAT
1 TA-TATAT
2602048 GTATATATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:2602032 original size:20 final size:20
Alignment explanation
Indices: 2601993--2602032 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2601983 TATAGTACAT
* *
2601993 GTATGTATAAACAATGTATA
1 GTATATATAAACAATATATA
*
2602013 GTATATATAAACTATATATA
1 GTATATATAAACAATATATA
2602033 TAACCTATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (20 bp):
GTATATATAAACAATATATA
Found at i:2602052 original size:24 final size:23
Alignment explanation
Indices: 2602025--2602078 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
2602015 ATATATAAAC
*
2602025 TATATATATAACCTATAGTATATG
1 TATATATACAACCTAT-GTATATG
* *
2602049 TATATATACAATCTATTTATATG
1 TATATATACAACCTATGTATATG
2602072 T-TATATA
1 TATATATA
2602079 AACAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 7 0.26
24 14 0.52
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (23 bp):
TATATATACAACCTATGTATATG
Found at i:2602157 original size:21 final size:21
Alignment explanation
Indices: 2602131--2602183 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2602121 TAGTGTACTA
* *
2602131 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
*
2602152 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
2602173 TATAGTTTATA
1 TATAGTTTATA
2602184 TTAATGTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:2602231 original size:15 final size:14
Alignment explanation
Indices: 2602194--2602449 Score: 82
Period size: 15 Copynumber: 16.9 Consensus size: 14
2602184 TTAATGTACT
2602194 ATATAATTTATATTA
1 ATATAA-TTATATTA
* *
2602209 ATGTTAATTATCTTAA
1 AT-ATAATTATATT-A
2602225 ATATAATTTATATTA
1 ATATAA-TTATATTA
2602240 ATATAATATATAGTTTA
1 ATATAAT-TATA--TTA
* *
2602257 TAAACTAAACTATATTA
1 -ATA-T-AATTATATTA
2602274 ATATTAATTATATTA
1 ATA-TAATTATATTA
*
2602289 ACTATAGTT-TA-T-
1 A-TATAATTATATTA
*
2602301 A-AT--TTATACT-
1 ATATAATTATATTA
*
2602311 ATATAATT-TATAA
1 ATATAATTATATTA
*
2602324 CATATAGTTTATATTA
1 -ATATA-ATTATATTA
2602340 ATATTAATGT-TA-TA
1 ATA-TAAT-TATATTA
*
2602354 GACTATATTTTATATTA
1 -A-TATA-ATTATATTA
*
2602371 ATAATAATTACAAATTA
1 AT-ATAATT--ATATTA
*
2602388 TAAACTATATTATATTA
1 -ATA-TA-ATTATATTA
2602405 ATATAAGTTAATATTA
1 ATATAA-TT-ATATTA
2602421 ATATTAATTATATTA
1 ATA-TAATTATATTA
2602436 ATATTAATTATATT
1 ATA-TAATTATATT
2602450 TCACTGTTTA
Statistics
Matches: 185, Mismatches: 21, Indels: 70
0.67 0.08 0.25
Matches are distributed among these distances:
8 2 0.01
9 2 0.01
10 4 0.02
11 2 0.01
12 3 0.02
13 3 0.02
14 11 0.06
15 75 0.41
16 46 0.25
17 22 0.12
18 5 0.03
19 8 0.04
20 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (14 bp):
ATATAATTATATTA
Found at i:2602256 original size:117 final size:117
Alignment explanation
Indices: 2602110--2602322 Score: 281
Period size: 117 Copynumber: 1.8 Consensus size: 117
2602100 TTTATAGACA
* * * ***
2602110 ATAATTTATATTAGTGTACTATATAGTTTATACTTTATAACCTATAGT-ATA-TAATT-TATAAA
1 ATAATTTATATTAATATAATATATAGTTTATAAACTA-AA-CTATAGTAATATTAATTATATAAA
*
2602172 CTATAGTTTAT-ATTAATGTACTATATAATTTATATTAATGTTAATTATCTTAAAT
64 CTATAGTTTATAATT--TATACTATATAATTTATATTAATGTTAATTATCTTAAAT
* *
2602227 ATAATTTATATTAATATAATATATAGTTTATAAACTAAACTATATTAATATTAATTATATTAACT
1 ATAATTTATATTAATATAATATATAGTTTATAAACTAAACTATAGTAATATTAATTATATAAACT
2602292 ATAGTTTATAATTTATACTATATAATTTATA
66 ATAGTTTATAATTTATACTATATAATTTATA
2602323 ACATATAGTT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
115 6 0.07
116 5 0.06
117 53 0.64
118 16 0.19
119 3 0.04
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (117 bp):
ATAATTTATATTAATATAATATATAGTTTATAAACTAAACTATAGTAATATTAATTATATAAACT
ATAGTTTATAATTTATACTATATAATTTATATTAATGTTAATTATCTTAAAT
Found at i:2602281 original size:65 final size:65
Alignment explanation
Indices: 2602201--2602448 Score: 208
Period size: 65 Copynumber: 3.8 Consensus size: 65
2602191 ACTATATAAT
* * *
2602201 TTATATTAATGTTAATTATCTTAAATATAATTTATATTAATATAATATATAGTTTATAAACTAAA
1 TTATATTAATATTAATTATATTAAATATAATTTATATTAATATAATATATAATTTATAAACTAAA
* * * *
2602266 CTATATTAATATTAATTATATTAACTATAGTTTATAATT--TATACTATATAATTTAT-AACATA
1 TTATATTAATATTAATTATATTAAATATAATTTAT-ATTAATATAATATATAATTTATAAAC-TA
*
2602328 TAGT
64 -A-A
* * * *
2602332 TTATATTAATATTAATGT-TA-TAGACTATATTTTATATTAATAATAAT-TACAAATTATAAACT
1 TTATATTAATATTAAT-TATATTA-AATATAATTTATATTAAT-ATAATATATAATTTATAAACT
*
2602394 ATA
63 AAA
2602397 TTATATTAATA-TAAGTTAATATT-AATATTAA-TTATATTAATATTAATTATAT
1 TTATATTAATATTAA-TT-ATATTAAATA-TAATTTATATTAATA-TAA-TATAT
2602449 TTCACTGTTT
Statistics
Matches: 147, Mismatches: 18, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
63 3 0.02
64 22 0.15
65 64 0.44
66 36 0.24
67 15 0.10
68 7 0.05
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (65 bp):
TTATATTAATATTAATTATATTAAATATAATTTATATTAATATAATATATAATTTATAAACTAAA
Found at i:2602315 original size:14 final size:13
Alignment explanation
Indices: 2602298--2602336 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
2602288 AACTATAGTT
2602298 TATAATTTATACTA
1 TATAATTTATAC-A
2602312 TATAATTTATAACA
1 TATAATTTAT-ACA
*
2602326 TATAGTTTATA
1 TATAATTTATA
2602337 TTAATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (13 bp):
TATAATTTATACA
Found at i:2602366 original size:31 final size:29
Alignment explanation
Indices: 2602298--2602379 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
2602288 AACTATAGTT
*
2602298 TATAATTTATACT-ATATAATTTATAACA
1 TATAATTTATATTAATATAATTTATAACA
*
2602326 TATAGTTTATATTAATATTAATGTTATAGAC-
1 TATAATTTATATTAATA-TAAT-TTATA-ACA
*
2602357 TATATTTTATATTAATAATAATT
1 TATAATTTATATTAAT-ATAATT
2602380 ACAAATTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 11 0.24
29 3 0.07
30 5 0.11
31 24 0.52
32 3 0.07
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (29 bp):
TATAATTTATATTAATATAATTTATAACA
Found at i:2602419 original size:21 final size:20
Alignment explanation
Indices: 2602394--2602445 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
2602384 ATTATAAACT
2602394 ATATTATATTAA-TATAAGTTA
1 ATATTATATTAATTAT-A-TTA
2602415 ATATTAATATTAATTATATTA
1 ATATT-ATATTAATTATATTA
2602436 ATATTA-ATTA
1 ATATTATATTA
2602446 TATTTCACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
21 13 0.45
22 8 0.28
23 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTATATTAATTATATTA
Found at i:2603126 original size:16 final size:16
Alignment explanation
Indices: 2603105--2603159 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
2603095 CGGATCATTT
*
2603105 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
2603121 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
2603137 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
2603153 ACAGGTC
1 ACAGGTC
2603160 GGGTAATACC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:2603278 original size:64 final size:65
Alignment explanation
Indices: 2603210--2603330 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 65
2603200 GTTCATATCA
* * * *
2603210 GTCGGATGCAGTTCGGGTTCGGGTAT-CAT-ATTTTCA-GTTCAATTCGGGTTCAGGTCGTTCTC
1 GTCGGATGCAGATCGGGTTC-GG-ATCCATAATTTCCAGGTCCAAATCGGGTTCAGGTCGTTCTC
2603272 AG
64 AG
2603274 GTCGGATGCAGATCGGGTTCGGATCCATAATTTCCAGGTCCAAATCGGGTTCAGGTC
1 GTCGGATGCAGATCGGGTTCGGATCCATAATTTCCAGGTCCAAATCGGGTTCAGGTC
2603331 AACACCAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
62 2 0.04
63 5 0.10
64 25 0.50
65 18 0.36
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (65 bp):
GTCGGATGCAGATCGGGTTCGGATCCATAATTTCCAGGTCCAAATCGGGTTCAGGTCGTTCTCAG
Found at i:2605006 original size:18 final size:19
Alignment explanation
Indices: 2604985--2605022 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2604975 AAAAATGAAA
2604985 GAAAATGGAAAATAT-TTT
1 GAAAATGGAAAATATCTTT
* *
2605003 GAAATTGGACAATATCTTT
1 GAAAATGGAAAATATCTTT
2605022 G
1 G
2605023 GGATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.34
Consensus pattern (19 bp):
GAAAATGGAAAATATCTTT
Found at i:2606837 original size:21 final size:20
Alignment explanation
Indices: 2606800--2606843 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
2606790 TTCAGGTTTT
*
2606800 TTTCAATTTATTTTAGTTTAG
1 TTTCAATTTATTCTAG-TTAG
2606821 TTTCAA-TTACTTCTAGTTAG
1 TTTCAATTTA-TTCTAGTTAG
2606841 TTT
1 TTT
2606844 GTTGTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (20 bp):
TTTCAATTTATTCTAGTTAG
Found at i:2606876 original size:10 final size:10
Alignment explanation
Indices: 2606857--2606885 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2606847 GTTTTTCATC
2606857 AAAAAT-AAA
1 AAAAATAAAA
2606866 AAAAATAAAA
1 AAAAATAAAA
2606876 AAAAATAAAA
1 AAAAATAAAA
2606886 GGCACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:2610683 original size:16 final size:17
Alignment explanation
Indices: 2610664--2610695 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2610654 ATTTTACTCA
2610664 GTTTAAATAAA-AAAAT
1 GTTTAAATAAAGAAAAT
2610680 GTTTAAATAAAGAAAA
1 GTTTAAATAAAGAAAA
2610696 GTACTTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (17 bp):
GTTTAAATAAAGAAAAT
Found at i:2615105 original size:34 final size:34
Alignment explanation
Indices: 2615062--2615141 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
2615052 TACTCCTTTC
*
2615062 AGTATCGATACCATTTTTGCATTCTGGAATCCAT
1 AGTATCGATACCATTTTTGCATTATGGAATCCAT
2615096 AGTATCGATACCATTTTTGCATTATGGAATCCAT
1 AGTATCGATACCATTTTTGCATTATGGAATCCAT
2615130 AGTATCGATACC
1 AGTATCGATACC
2615142 TTCATCTTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (34 bp):
AGTATCGATACCATTTTTGCATTATGGAATCCAT
Found at i:2624961 original size:45 final size:46
Alignment explanation
Indices: 2624872--2624962 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
2624862 TTGAAAAAGC
* * **
2624872 CTGAGTGCATCGATGCATAGTCTTGTGCATCGATGTATCGAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
* *
2624918 CTGAGTGCATCGATTCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
2624963 TTCGATGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 20 0.51
46 19 0.49
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
Found at i:2629376 original size:32 final size:33
Alignment explanation
Indices: 2629340--2629409 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 33
2629330 ATTGGCATGA
2629340 AATTTTAGATTAATTTCATGCTAATTTACC-TT
1 AATTTTAGATTAATTTCATGCTAATTTACCTTT
2629372 AATTTTAGATTAATTTCATGCTAATTTACCTTT
1 AATTTTAGATTAATTTCATGCTAATTTACCTTT
2629405 AATTT
1 AATTT
2629410 AAGCTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 30 0.81
33 7 0.19
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (33 bp):
AATTTTAGATTAATTTCATGCTAATTTACCTTT
Found at i:2630474 original size:51 final size:51
Alignment explanation
Indices: 2630369--2630483 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
2630359 GTAACAATTG
* * * *
2630369 AATAAAATAATAATAAACTAAATATAATATTTTGATTTTATCCTTATTCCT
1 AATAAAATAATAATAAACTAAAGATAATATTTTGACTCTATCCTTATTCAT
* *
2630420 AATAAAATAATAATAAACTAAAGATGATGTTTT-AGCTCTAT-CTTAATTCAT
1 AATAAAATAATAATAAACTAAAGATAATATTTTGA-CTCTATCCTT-ATTCAT
2630471 AATAAAATAATAA
1 AATAAAATAATAA
2630484 ATATAATCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 4 0.07
51 52 0.93
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (51 bp):
AATAAAATAATAATAAACTAAAGATAATATTTTGACTCTATCCTTATTCAT
Found at i:2632745 original size:75 final size:75
Alignment explanation
Indices: 2632651--2632816 Score: 253
Period size: 75 Copynumber: 2.2 Consensus size: 75
2632641 CAAATTTATA
* **
2632651 AAGTCAAAT-TAAACCATTCTTGACTCTACTCGTCAAAATCCCGAATCAAGTTTGAATTTAAATC
1 AAGTCAAATATTAACCATTCTAAACTCTACTCGTCAAAATCCCGAATCAAGTTTGAATTTAAATC
2632715 GAATCAATCT
66 GAATCAATCT
* *
2632725 AAGTCAAATATTAACCATTCTAAACTCTACTCGTCTAAATCTCGAATCAAGTTTGAATTTAAATC
1 AAGTCAAATATTAACCATTCTAAACTCTACTCGTCAAAATCCCGAATCAAGTTTGAATTTAAATC
2632790 GAATCAATCT
66 GAATCAATCT
* **
2632800 AAATTTAATATTAACCA
1 AAGTCAAATATTAACCA
2632817 AATTTTAACC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 9 0.11
75 74 0.89
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (75 bp):
AAGTCAAATATTAACCATTCTAAACTCTACTCGTCAAAATCCCGAATCAAGTTTGAATTTAAATC
GAATCAATCT
Found at i:2635498 original size:22 final size:23
Alignment explanation
Indices: 2635460--2635503 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2635450 AGAACATATA
*
2635460 AAAATTTTCGACATGAATAAATG
1 AAAATTTTCGACATGAAAAAATG
2635483 AAAA-TTTCAGAC-TGAAAAAAT
1 AAAATTTTC-GACATGAAAAAAT
2635504 ATATATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.27
Consensus pattern (23 bp):
AAAATTTTCGACATGAAAAAATG
Found at i:2641076 original size:253 final size:253
Alignment explanation
Indices: 2640622--2641621 Score: 1427
Period size: 253 Copynumber: 4.0 Consensus size: 253
2640612 TAAGAGAACT
* * * * *
2640622 AAAGGATCAGTTACAAGAGTTGCTTGATCAAGGTTTCATCAGACTGAGTGTTTCACCTTGGGGAG
1 AAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGTTTCACCTTGAGGAG
* * * * * *
2640687 TACCTGTGTTGTTAGCGAAAAGAAAGAT-ATATCTATGCGATTTTGTATAGATTATTGATAGTTA
66 TACCTGTGTTGTTAGCAAAAACAAAGATGA-ATCTATGCGATTATGCATAGATTATCGATAATTA
* * *
2640751 AATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATTATCTGTTTGGTCAATTGGAA
130 AATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTATCGTCAATTGGAA
*
2640816 GGTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATATCATCAATTGAAGATTAA
195 GGTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATACCATCAATTGAAGATTAA
2640875 AAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGTTTCACCTTGAGGAG
1 AAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGTTTCACCTTGAGGAG
* * * *
2640940 TACCTGTGTTGTTGGCAAAAACAAAGATGAATCTATTCGATTATGCATAGATTATCGACAATTGA
66 TACCTGTGTTGTTAGCAAAAACAAAGATGAATCTATGCGATTATGCATAGATTATCGATAATTAA
2641005 ATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTATCGTCAATTGGAAG
131 ATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTATCGTCAATTGGAAG
* *
2641070 GTGCAACAGTGTTATCTAAGATTGATCTTCGGTCTGGATACCATCAATTGAAGATTAA
196 GTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATACCATCAATTGAAGATTAA
* * * * * * * *
2641128 AGAGG---AG------GATATTCCTAAGA-CAA-CTTTT-TGA-ATGTGAGTGTGTCACCTTGGG
1 AAAGGCTCAGTTACAAGA-ATTTCT-TGATCAAGGTTTTATCAGA-CTGAGTGTTTCACCTTGAG
* * * * * *
2641180 GAGTACCTGTGTTGTTAGCAAAAAGAAAGATGTATCTATGCGATTTTGTATAGATTATTGATAGT
63 GAGTACCTGTGTTGTTAGCAAAAACAAAGATGAATCTATGCGATTATGCATAGATTATCGATAAT
* * *
2641245 TAAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATTATCTGTTTGGTCAATTGG
128 TAAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTATCGTCAATTGG
*
2641310 AAGGTGCAACAATGTTATCTAAGATTGATCTTCGGTCT-AGATATCATCAATTGAAGATTAA
193 AAGGTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGA-ATACCATCAATTGAAGATTAA
*
2641371 AAAGGCTCAGTTACAAGAGTTTCTTGATCAAGGTTTTATCAGACTGAGTGTTTCACCTTGAGGAG
1 AAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGTTTCACCTTGAGGAG
* * * *
2641436 TACCTGTGTTATTGGCAAAAACAAAGATGAATCTATTCGATTATGCATAGATTATCGATAATTGA
66 TACCTGTGTTGTTAGCAAAAACAAAGATGAATCTATGCGATTATGCATAGATTATCGATAATTAA
2641501 ATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTATCGTCAATTGGAAG
131 ATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTATCGTCAATTGGAAG
* * *
2641566 GTGCAACAGTGTTATCTAAGATTGATCTTCGGTATGGATACCATCAATTGAAGATT
196 GTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATACCATCAATTGAAGATT
2641622 TAAGAGGAGG
Statistics
Matches: 657, Mismatches: 71, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
242 1 0.00
243 196 0.30
244 6 0.01
245 8 0.01
246 4 0.01
250 4 0.01
251 7 0.01
252 6 0.01
253 423 0.64
254 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.34
Consensus pattern (253 bp):
AAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGTTTCACCTTGAGGAG
TACCTGTGTTGTTAGCAAAAACAAAGATGAATCTATGCGATTATGCATAGATTATCGATAATTAA
ATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTATCGTCAATTGGAAG
GTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATACCATCAATTGAAGATTAA
Found at i:2641606 original size:496 final size:496
Alignment explanation
Indices: 2640666--2641660 Score: 1902
Period size: 496 Copynumber: 2.0 Consensus size: 496
2640656 TTCATCAGAC
* *
2640666 TGAGTGTTTCACCTTGGGGAGTACCTGTGTTGTTAGCGAAAAGAAAGATATATCTATGCGATTTT
1 TGAGTGTGTCACCTTGGGGAGTACCTGTGTTGTTAGCAAAAAGAAAGATATATCTATGCGATTTT
2640731 GTATAGATTATTGATAGTTAAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATT
66 GTATAGATTATTGATAGTTAAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATT
2640796 ATCTGTTTGGTCAATTGGAAGGTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATATCAT
131 ATCTGTTTGGTCAATTGGAAGGTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATATCAT
2640861 CAATTGAAGATTAAAAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGT
196 CAATTGAAGATTAAAAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGT
*
2640926 TTCACCTTGAGGAGTACCTGTGTTGTTGGCAAAAACAAAGATGAATCTATTCGATTATGCATAGA
261 TTCACCTTGAGGAGTACCTGTGTTATTGGCAAAAACAAAGATGAATCTATTCGATTATGCATAGA
2640991 TTATCGACAATTGAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTA
326 TTATCGACAATTGAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTA
*
2641056 TCGTCAATTGGAAGGTGCAACAGTGTTATCTAAGATTGATCTTCGGTCTGGATACCATCAATTGA
391 TCGTCAATTGGAAGGTGCAACAGTGTTATCTAAGATTGATCTTCGGTATGGATACCATCAATTGA
2641121 AGATTAAAGAGGAGGATATTCCTAAGACAACTTTTTGAATG
456 AGATTAAAGAGGAGGATATTCCTAAGACAACTTTTTGAATG
*
2641162 TGAGTGTGTCACCTTGGGGAGTACCTGTGTTGTTAGCAAAAAGAAAGATGTATCTATGCGATTTT
1 TGAGTGTGTCACCTTGGGGAGTACCTGTGTTGTTAGCAAAAAGAAAGATATATCTATGCGATTTT
2641227 GTATAGATTATTGATAGTTAAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATT
66 GTATAGATTATTGATAGTTAAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATT
2641292 ATCTGTTTGGTCAATTGGAAGGTGCAACAATGTTATCTAAGATTGATCTTCGGTCT-AGATATCA
131 ATCTGTTTGGTCAATTGGAAGGTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGA-ATATCA
*
2641356 TCAATTGAAGATTAAAAAGGCTCAGTTACAAGAGTTTCTTGATCAAGGTTTTATCAGACTGAGTG
195 TCAATTGAAGATTAAAAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTG
2641421 TTTCACCTTGAGGAGTACCTGTGTTATTGGCAAAAACAAAGATGAATCTATTCGATTATGCATAG
260 TTTCACCTTGAGGAGTACCTGTGTTATTGGCAAAAACAAAGATGAATCTATTCGATTATGCATAG
*
2641486 ATTATCGATAATTGAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGT
325 ATTATCGACAATTGAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGT
2641551 ATCGTCAATTGGAAGGTGCAACAGTGTTATCTAAGATTGATCTTCGGTATGGATACCATCAATTG
390 ATCGTCAATTGGAAGGTGCAACAGTGTTATCTAAGATTGATCTTCGGTATGGATACCATCAATTG
*
2641616 AAGATTTAAGAGGAGGATATTCCTAAGACAACTTTTTGAATG
455 AAGATTAAAGAGGAGGATATTCCTAAGACAACTTTTTGAATG
2641658 TGA
1 TGA
2641661 TATGGACACT
Statistics
Matches: 490, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
495 1 0.00
496 489 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (496 bp):
TGAGTGTGTCACCTTGGGGAGTACCTGTGTTGTTAGCAAAAAGAAAGATATATCTATGCGATTTT
GTATAGATTATTGATAGTTAAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATT
ATCTGTTTGGTCAATTGGAAGGTGCAACAATGTTATCTAAGATTGATCTTCGGTCTGAATATCAT
CAATTGAAGATTAAAAAGGCTCAGTTACAAGAATTTCTTGATCAAGGTTTTATCAGACTGAGTGT
TTCACCTTGAGGAGTACCTGTGTTATTGGCAAAAACAAAGATGAATCTATTCGATTATGCATAGA
TTATCGACAATTGAATAAAGTGACAATAAGAATAAGTATCCTCTTCTGATGATTGATGATCTGTA
TCGTCAATTGGAAGGTGCAACAGTGTTATCTAAGATTGATCTTCGGTATGGATACCATCAATTGA
AGATTAAAGAGGAGGATATTCCTAAGACAACTTTTTGAATG
Found at i:2646248 original size:22 final size:22
Alignment explanation
Indices: 2646216--2646269 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
2646206 TGTGCAACGC
*
2646216 ACATACCTTGCATTCTCATTTG
1 ACATACATTGCATTCTCATTTG
2646238 ACATACATTGCATTCTCATTTG
1 ACATACATTGCATTCTCATTTG
2646260 ACATACATTG
1 ACATACATTG
2646270 GGCTATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (22 bp):
ACATACATTGCATTCTCATTTG
Found at i:2654733 original size:16 final size:16
Alignment explanation
Indices: 2654712--2654742 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2654702 AAAGACTATA
*
2654712 ACCATGCATATCAAAC
1 ACCATGCATACCAAAC
2654728 ACCATGCATACCAAA
1 ACCATGCATACCAAA
2654743 AATATCATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.16
Consensus pattern (16 bp):
ACCATGCATACCAAAC
Found at i:2655266 original size:34 final size:33
Alignment explanation
Indices: 2655205--2655276 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 33
2655195 CCTTTACAAC
**
2655205 TCCCTAGTTTTTCACGGGATAAACTAGAACCCT
1 TCCCTAGTTTTAAACGGGATAAACTAGAACCCT
* * *
2655238 TCCCTAGCTTTTAAACGGGTTAAGCTAGAACCTT
1 TCCCTAG-TTTTAAACGGGATAAACTAGAACCCT
2655272 TCCCT
1 TCCCT
2655277 TTTACAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (33 bp):
TCCCTAGTTTTAAACGGGATAAACTAGAACCCT
Found at i:2655979 original size:21 final size:19
Alignment explanation
Indices: 2655955--2656012 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
2655945 ATATTTAATG
2655955 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
*
2655974 ACAAAAGAATATCAATTGTT-
1 A-AAAAG-ATACCAATTGTTA
2655994 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
2656013 CCAATTGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.32
19 6 0.18
20 6 0.18
21 11 0.32
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Found at i:2657174 original size:19 final size:18
Alignment explanation
Indices: 2657150--2657189 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
2657140 TCATTTTGAT
*
2657150 TTTCAAAATCAACTTTTGC
1 TTTCAAAATCAAATTTT-C
2657169 TTTCAAAATCAAATTTTC
1 TTTCAAAATCAAATTTTC
2657187 TTT
1 TTT
2657190 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTCAAAATCAAATTTTC
Found at i:2658647 original size:16 final size:16
Alignment explanation
Indices: 2658626--2658656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2658616 AGGCTATAAG
*
2658626 CATGCATATCAAACAC
1 CATGCATACCAAACAC
2658642 CATGCATACCAAACA
1 CATGCATACCAAACA
2658657 TATCATACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.16
Consensus pattern (16 bp):
CATGCATACCAAACAC
Found at i:2659173 original size:34 final size:34
Alignment explanation
Indices: 2659129--2659193 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
2659119 AACTCCCTAG
* *
2659129 TTTTTCATGGGATAAACTAGTACCTTTCCCTAAC
1 TTTTACATGGGATAAACTAGAACCTTTCCCTAAC
* *
2659163 TTTTACATGGGCTAAGCTAGAACCTTTCCCT
1 TTTTACATGGGATAAACTAGAACCTTTCCCT
2659194 TTTACAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (34 bp):
TTTTACATGGGATAAACTAGAACCTTTCCCTAAC
Found at i:2667230 original size:22 final size:22
Alignment explanation
Indices: 2667205--2667250 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2667195 TCGGTAGAGG
2667205 AATAATGGTTGTTCCAGTGCAA
1 AATAATGGTTGTTCCAGTGCAA
2667227 AATAATGGTTGTTCCAGTGCAA
1 AATAATGGTTGTTCCAGTGCAA
2667249 AA
1 AA
2667251 AAAACCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (22 bp):
AATAATGGTTGTTCCAGTGCAA
Found at i:2675513 original size:21 final size:20
Alignment explanation
Indices: 2675488--2675530 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2675478 GTAAATTTCT
*
2675488 AAAATAATATTATTAAAATAA
1 AAAATAATA-AATTAAAATAA
* *
2675509 AAAATTATAAATTACAATAA
1 AAAATAATAAATTAAAATAA
2675529 AA
1 AA
2675531 TTTTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATAATAAATTAAAATAA
Found at i:2675574 original size:29 final size:29
Alignment explanation
Indices: 2675514--2675612 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 29
2675504 AATAAAAAAT
* *
2675514 TATAAATTACAATAAAATTTTAATATTTA
1 TATAAATTACAATAAAATGTCAATATTTA
*
2675543 TATAAATTACAATAGAA-GTCAAT-TTT-
1 TATAAATTACAATAAAATGTCAATATTTA
* **
2675569 TA-ATATTACAAT-AAATACCAA-ACTATT-
1 TATAAATTACAATAAAATGTCAATA-T-TTA
2675596 TATAAATTACAATAAAA
1 TATAAATTACAATAAAA
2675613 GAAAAAACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
24 2 0.04
25 12 0.21
26 3 0.05
27 7 0.12
28 13 0.23
29 19 0.34
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (29 bp):
TATAAATTACAATAAAATGTCAATATTTA
Found at i:2678182 original size:2 final size:2
Alignment explanation
Indices: 2678122--2678162 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2678112 GACTTTTTGA
2678122 AT AT -T 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
2678163 TAAAAAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2678931 original size:38 final size:39
Alignment explanation
Indices: 2678886--2678971 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
2678876 TGTAGTGAGT
* *
2678886 ACTTCGGTGAAAATGGTGGGCACGACCTTATGTGT-AGC
1 ACTTCGGTGAAAATGGTGGGCACAACCTTATCTGTAAGC
* *
2678924 ACTTCGGTGCATATGGTGGGCACAACCTTATCTGTAAGC
1 ACTTCGGTGAAAATGGTGGGCACAACCTTATCTGTAAGC
*
2678963 ACTACGGTG
1 ACTTCGGTG
2678972 CATACATTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 31 0.74
39 11 0.26
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
ACTTCGGTGAAAATGGTGGGCACAACCTTATCTGTAAGC
Found at i:2681360 original size:23 final size:21
Alignment explanation
Indices: 2681330--2681372 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
2681320 TTCTCAAATT
*
2681330 CTTTTTCTTTTTGCATTTTTTTG
1 CTTTTTCTCTTT--ATTTTTTTG
2681353 CTTTTTCTCTTTATTTTTTT
1 CTTTTTCTCTTTATTTTTTT
2681373 TGTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.77
Consensus pattern (21 bp):
CTTTTTCTCTTTATTTTTTTG
Found at i:2683000 original size:21 final size:21
Alignment explanation
Indices: 2682969--2683008 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2682959 TCTGGAGTTT
*
2682969 TTTCTTTATAAGTTTGGCCATG
1 TTTCTTTATAA-TTGGGCCATG
2682991 TTTC-TTATAATTGGGCCA
1 TTTCTTTATAATTGGGCCA
2683009 GGTGAAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.47
Consensus pattern (21 bp):
TTTCTTTATAATTGGGCCATG
Found at i:2689295 original size:15 final size:15
Alignment explanation
Indices: 2689277--2689330 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
2689267 GCCTGACTAA
2689277 TTTATTTTATTTTAG
1 TTTATTTTATTTTAG
*
2689292 TTTAGTTTAGTTTTA-
1 TTTATTTTA-TTTTAG
* *
2689307 TTTCTTATATTTT-G
1 TTTATTTTATTTTAG
2689321 -TTATTTTATT
1 TTTATTTTATT
2689331 AGTTTTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
13 8 0.26
14 4 0.13
15 14 0.45
16 5 0.16
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTATTTTATTTTAG
Found at i:2689332 original size:170 final size:172
Alignment explanation
Indices: 2689050--2689393 Score: 674
Period size: 170 Copynumber: 2.0 Consensus size: 172
2689040 ATATTATGGT
2689050 TGCAATATATCCCAACACATTGCCTCGATTCGATTCTGTGAATTCAAGCCTGACTAATTTATTTT
1 TGCAATATATCCCAACACATTGCCTCGATTCGATTCTGTGAATTCAAGCCTGACTAATTTATTTT
2689115 ATTTTAGTTTAGTTTAGTTTTATTTCTTATATTTTGTTATTTTATTAG-TTTA-TTTCTTTTTTA
66 ATTTTAGTTTAGTTTAGTTTTATTTCTTATATTTTGTTATTTTATTAGTTTTATTTTCTTTTTTA
2689178 GGTCATGTTTCCACATTGATCATCACACAGTCAACCAACACA
131 GGTCATGTTTCCACATTGATCATCACACAGTCAACCAACACA
2689220 TGCAATATATCCCAACACATTGCCTCGATTCGATTCTGTGAATTCAAGCCTGACTAATTTATTTT
1 TGCAATATATCCCAACACATTGCCTCGATTCGATTCTGTGAATTCAAGCCTGACTAATTTATTTT
2689285 ATTTTAGTTTAGTTTAGTTTTATTTCTTATATTTTGTTATTTTATTAGTTTTATTTTCTTTTTTA
66 ATTTTAGTTTAGTTTAGTTTTATTTCTTATATTTTGTTATTTTATTAGTTTTATTTTCTTTTTTA
2689350 GGTCATGTTTCCACATTGATCATCACACAGTCAACCAACACA
131 GGTCATGTTTCCACATTGATCATCACACAGTCAACCAACACA
2689392 TG
1 TG
2689394 TTGTCTTTGC
Statistics
Matches: 172, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
170 113 0.66
171 4 0.02
172 55 0.32
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (172 bp):
TGCAATATATCCCAACACATTGCCTCGATTCGATTCTGTGAATTCAAGCCTGACTAATTTATTTT
ATTTTAGTTTAGTTTAGTTTTATTTCTTATATTTTGTTATTTTATTAGTTTTATTTTCTTTTTTA
GGTCATGTTTCCACATTGATCATCACACAGTCAACCAACACA
Found at i:2704022 original size:30 final size:30
Alignment explanation
Indices: 2703988--2704044 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
2703978 AGGACCACTA
*
2703988 TCCATATGTTCCGAAGAACATAGGTAATTG
1 TCCATATGTCCCGAAGAACATAGGTAATTG
* *
2704018 TCCATATGTCCCTAAGGACATAGGTAA
1 TCCATATGTCCCGAAGAACATAGGTAA
2704045 CCCTCGACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (30 bp):
TCCATATGTCCCGAAGAACATAGGTAATTG
Found at i:2704887 original size:22 final size:22
Alignment explanation
Indices: 2704862--2704910 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
2704852 TTCATGATCC
* *
2704862 TATAACTTATATCACATGT-TCA
1 TATAACTCATATAACAT-TCTCA
*
2704884 TATAGCTCATATAACATTCTCA
1 TATAACTCATATAACATTCTCA
2704906 TATAA
1 TATAA
2704911 TTTCATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (22 bp):
TATAACTCATATAACATTCTCA
Found at i:2709206 original size:99 final size:99
Alignment explanation
Indices: 2709034--2709227 Score: 307
Period size: 99 Copynumber: 2.0 Consensus size: 99
2709024 ATTATATCTA
* * * *
2709034 TACAATAAACCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCGGGCTTTATGGATAAGAT
1 TACAATAAACCTTGAGTTATCCATCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGAATAAGAT
* *
2709099 TCAGCTAGCCTGATAAAGGTGATTATAATACATT
66 TCAACTAGCCTGATAAAGGTGATTACAATACATT
* * *
2709133 TACAATAAAGCTTGAGTTGTCCATCTAAAGTAATTGGTTAAACGCCCCGGCTTTATGAATAAGAT
1 TACAATAAACCTTGAGTTATCCATCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGAATAAGAT
2709198 TCAACTAGCCTGATAAAGGTGATTACAATA
66 TCAACTAGCCTGATAAAGGTGATTACAATA
2709228 TTGAGCTATC
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (99 bp):
TACAATAAACCTTGAGTTATCCATCTAAAGCAATTGGTTAAACGCCCCGGCTTTATGAATAAGAT
TCAACTAGCCTGATAAAGGTGATTACAATACATT
Found at i:2709533 original size:85 final size:85
Alignment explanation
Indices: 2709409--2710229 Score: 940
Period size: 85 Copynumber: 9.7 Consensus size: 85
2709399 ATCTGTCAAC
* * ** *
2709409 CAAGACGAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGGCA
1 CAAGGCGAGAAGGGTTATCTGTGAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
*
2709474 CATCAAATTTACAACATAACT
65 CATCAAATTTACAGCATAACT
* * * * *
2709495 CAAGGCAAGAAGGGTTATCTATGAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAT
1 CAAGGCGAGAAGGGTTATCTGTGAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAC
2709560 ATCAAATTTACAGCATAACT
66 ATCAAATTTACAGCATAACT
* * * * *** * *
2709580 TAAGGCAAGAAGAGTTATCTGTCAACTGTGACCTTCGAGTTCTATTACATTTAGCTCAAAGGCAC
1 CAAGGCGAGAAGGGTTATCTGTGAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAC
* *
2709645 ATCAAATTTACAACATAGCT
66 ATCAAATTTACAGCATAACT
* *
2709665 CAAGGCAAGAAGGGTTATCTGTCG-ACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA
1 CAAGGCGAGAAGGGTTATCTGT-GAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
*
2709729 TATC-AATTTACAGCATAACT
65 CATCAAATTTACAGCATAACT
* * * * ** *
2709749 CAAAGTGAGAAGGGTTATATGTCAATC-GTGATCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
1 CAAGGCGAGAAGGGTTATCTGTGAA-CAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
* * *
2709813 CATCAGATTTACAGTATAGCT
65 CATCAAATTTACAGCATAACT
* *
2709834 CAAGGCGAGAAGGGTTATCTGTCG-ATAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA
1 CAAGGCGAGAAGGGTTATCTGT-GAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
*
2709898 TATC-AATTTACAGCATAACT
65 CATCAAATTTACAGCATAACT
* * *** * *
2709918 CAAGGTGAGAAGGGTTATCTGTCAACTGTGACCTTCAAGTTTGATTACATTCAGCTCAAAGGCAC
1 CAAGGCGAGAAGGGTTATCTGTGAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAC
*
2709983 ATCAAATTTACAGCATAGCT
66 ATCAAATTTACAGCATAACT
* ** * * * *
2710003 CAAGGCAAGAAGGCCTATCTGTTG-ACAAAGACTTTCGAGTTTGATTACACTCAGCTAAAAGGCA
1 CAAGGCGAGAAGGGTTATCTG-TGAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
* *
2710067 TATTC-AATTTACAACATAACT
65 CA-TCAAATTTACAGCATAACT
* *
2710088 CAAGGCGAGAAGGGTTATCTG-GTAGCAAAGACCTTTGAGTTCGATTACATTCAGCTCAAAGGCA
1 CAAGGCGAGAAGGGTTATCTGTG-AACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
*
2710152 CATCAAATTTACAGCATAGCT
65 CATCAAATTTACAGCATAACT
* * ** *
2710173 CAAGGCGAGAAGGGCTATCTGTCAACAAA-AATTGTCGAGTTCGATTCCATTCAGCTC
1 CAAGGCGAGAAGGGTTATCTGTGAACAAAGACCT-TCGAGTTCGATTACATTCAGCTC
2710230 GATGACACAT
Statistics
Matches: 613, Mismatches: 107, Indels: 31
0.82 0.14 0.04
Matches are distributed among these distances:
83 1 0.00
84 143 0.23
85 446 0.73
86 23 0.04
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (85 bp):
CAAGGCGAGAAGGGTTATCTGTGAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAC
ATCAAATTTACAGCATAACT
Found at i:2709787 original size:254 final size:253
Alignment explanation
Indices: 2709409--2710229 Score: 1006
Period size: 254 Copynumber: 3.2 Consensus size: 253
2709399 ATCTGTCAAC
* * * *
2709409 CAAGACGAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTTGATTACATTCAGCTCAAAGGCA
1 CAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
* * *
2709474 CATCAAATTTACAACATAACTCAAGGCAAGAAGGGTTATCTATGAACCAAGACCTTCGAGTTCGA
65 CATCAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAA-CAAGA-CTTCGAGTTCGA
* * *
2709539 TTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTTAAGGCAAGAAGAGTTATCTGTCA
128 TTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCA
** * * *
2709604 ACTGTGACCTTCGAGTTCTATTACATTTAGCTCAAAGGCACATCAAATTTACAACATAGCT
193 ACTAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCT
* * * *
2709665 CAAGGCAAGAAGGGTTATCTGTCGACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAT
1 CAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAC
* ** * **
2709730 ATC-AATTTACAGCATAACTCAAAGTGAGAAGGGTTATATGTCAATCGTGATCTTCGAGTTCGAT
66 ATCAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAA-CAAGA-CTTCGAGTTCGAT
* * * * * *
2709794 TACATTCAGCTCAAAGGCACATCAGATTTACAGTATAGCTCAAGGCGAGAAGGGTTATCTGTCGA
129 TACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA
* * *
2709859 -TAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATC-AATTTACAGCATAACT
194 CT-AAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCT
* *** * *
2709918 CAAGGTGAGAAGGGTTATCTGTCAACTGTGACCTTCAAGTTTGATTACATTCAGCTCAAAGGCAC
1 CAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAC
* ** ** *
2709983 ATCAAATTTACAGCATAGCTCAAGGCAAGAAGGCCTATCTGTTGACAAAGACTTTCGAGTTTGAT
66 ATCAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAAC-AAGAC-TTCGAGTTCGAT
* *
2710048 TACACTCAGCTAAAAGGCATATTC-AATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGGT-
129 TACACTCAGCTCAAAGGCATA-TCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCT-GTC
* * *
2710111 AGCAAAGACCTTTGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCT
192 AACTAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCT
* ** *
2710173 CAAGGCGAGAAGGGCTATCTGTCAACAAA-AATTGTCGAGTTCGATTCCATTCAGCTC
1 CAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCAGCTC
2710230 GATGACACAT
Statistics
Matches: 474, Mismatches: 82, Indels: 19
0.82 0.14 0.03
Matches are distributed among these distances:
253 75 0.16
254 276 0.58
255 102 0.22
256 21 0.04
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (253 bp):
CAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAC
ATCAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAGACTTCGAGTTCGATTA
CACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACT
AAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCT
Found at i:2709834 original size:169 final size:169
Alignment explanation
Indices: 2709439--2710229 Score: 1131
Period size: 169 Copynumber: 4.7 Consensus size: 169
2709429 GCCAACAAAA
* * *
2709439 GACCTTCGAGTTTGATTACATTCAGCTCAAAGGCACATCAAATTTACAACATAACTCAAGGCAAG
1 GACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCAAG
* *
2709504 AAGGGTTATCTAT-GAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATT
66 AAGGGTTATCTGTCG-ACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATC-AATT
* * *
2709568 TACAGCATAACTTAAGGCAAGAAGAGTTATCTGTCAACTGT
129 TACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACTGT
* * *
2709609 GACCTTCGAGTTCTATTACATTTAGCTCAAAGGCACATCAAATTTACAACATAGCTCAAGGCAAG
1 GACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCAAG
2709674 AAGGGTTATCTGTCGACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTA
66 AAGGGTTATCTGTCGACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTA
* * *
2709739 CAGCATAACTCAAAGTGAGAAGGGTTATATGTCAA-TCGT
131 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACT-GT
* * * *
2709778 GATCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAGATTTACAGTATAGCTCAAGGCGAG
1 GACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCAAG
*
2709843 AAGGGTTATCTGTCGATAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTA
66 AAGGGTTATCTGTCGACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTA
*
2709908 CAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACTGT
131 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACTGT
* *
2709947 GACCTTCAAGTTTGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCAAG
1 GACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCAAG
** * * * *
2710012 AAGGCCTATCTGTTGACAAAGACTTTCGAGTTTGATTACACTCAGCTAAAAGGCATATTCAATTT
66 AAGGGTTATCTGTCGACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATA-TCAATTT
* * ***
2710077 ACAACATAACTCAAGGCGAGAAGGGTTATCTGGT-AGCAAA
130 ACAGCATAACTCAAGGCGAGAAGGGTTATCT-GTCAACTGT
* *
2710117 GACCTTTGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCGAG
1 GACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCAAG
* * ** * *
2710182 AAGGGCTATCTGTCAACAAA-AATTGTCGAGTTCGATTCCATTCAGCTC
66 AAGGGTTATCTGTCGACAAAGACCT-TCGAGTTCGATTACACTCAGCTC
2710230 GATGACACAT
Statistics
Matches: 562, Mismatches: 53, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
168 1 0.00
169 306 0.54
170 252 0.45
171 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (169 bp):
GACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCAAG
AAGGGTTATCTGTCGACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAATTTA
CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACTGT
Found at i:2711848 original size:16 final size:16
Alignment explanation
Indices: 2711823--2711867 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
2711813 TTATTGTTAT
2711823 TTTTTCATTTTTTAACC
1 TTTTT-ATTTTTTAACC
2711840 TTTTTATTTTTTAACC
1 TTTTTATTTTTTAACC
2711856 TTTTTATTTTTT
1 TTTTTATTTTTT
2711868 TTATTTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATTTTTTAACC
Found at i:2715697 original size:55 final size:55
Alignment explanation
Indices: 2715617--2715723 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
2715607 TGAAAGTGTT
* *
2715617 GAGATGTTTAAAGGAAATGTCGATTGTCAATCCTAAATTTGCGAAAATCAAGAAA
1 GAGATGTTTAAAAGAAATGTCGATTGTCAATCCTAAATTTGCAAAAATCAAGAAA
* * *
2715672 GAGATTTTTAAAAGAAATGTCGATTGTCAATCCTAGATTTTCAAAAATCAAG
1 GAGATGTTTAAAAGAAATGTCGATTGTCAATCCTAAATTTGCAAAAATCAAG
2715724 GAAGGAATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (55 bp):
GAGATGTTTAAAAGAAATGTCGATTGTCAATCCTAAATTTGCAAAAATCAAGAAA
Found at i:2716012 original size:18 final size:18
Alignment explanation
Indices: 2715970--2716012 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2715960 GCTTAAGATG
*
2715970 ACCTAAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAC
* * *
2715988 ACATAAAGGAAATAGAAC
1 ACCTAAAGAAAATAAAAC
2716006 ACCTAAA
1 ACCTAAA
2716013 AATAATTCTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.14, G:0.09, T:0.14
Consensus pattern (18 bp):
ACCTAAAGAAAATAAAAC
Found at i:2719304 original size:33 final size:33
Alignment explanation
Indices: 2719239--2719317 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
2719229 ATCCTTTTCC
*
2719239 TTTGGGATCTTGCGTCAACTTCTTATTTTTCTT
1 TTTGGGATCTTGCGTCAACTTCTTATTCTTCTT
** *
2719272 TTTGGGATCTTGTTTCATCTTCTGT-TTCTTCTT
1 TTTGGGATCTTGCGTCAACTTCT-TATTCTTCTT
*
2719305 CCTT-GGATCTTGC
1 -TTTGGGATCTTGC
2719318 CTCATATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
33 35 0.92
34 3 0.08
ACGTcount: A:0.09, C:0.20, G:0.16, T:0.54
Consensus pattern (33 bp):
TTTGGGATCTTGCGTCAACTTCTTATTCTTCTT
Found at i:2722200 original size:30 final size:31
Alignment explanation
Indices: 2722113--2722207 Score: 106
Period size: 30 Copynumber: 3.1 Consensus size: 31
2722103 AATCATTCTT
* * *
2722113 ATTTTTACATTTATACC-TTTAATTTTTTG-
1 ATTTTTAAATTTATGCCTTTTAATTTCTTGC
*
2722142 ACTTTTTAAATTTATGCCTTTTAGTTTCTTGC
1 A-TTTTTAAATTTATGCCTTTTAATTTCTTGC
* *
2722174 ATTTTTTAATTTA-GTCTTTTAATTTCTTGC
1 ATTTTTAAATTTATGCCTTTTAATTTCTTGC
2722204 ATTT
1 ATTT
2722208 ATCTTTATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
29 1 0.02
30 33 0.59
31 21 0.38
32 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (31 bp):
ATTTTTAAATTTATGCCTTTTAATTTCTTGC
Found at i:2722553 original size:139 final size:136
Alignment explanation
Indices: 2722353--2722752 Score: 437
Period size: 139 Copynumber: 2.9 Consensus size: 136
2722343 CCCTAAACTA
* *
2722353 TTTAATTTAGGGGAATATTCAATTTGATCATTGCCTTAATGCTTGAGGTTCCATTTCGATTATTC
1 TTTAATTTA-GGGAATATTCAATTTGATCATCGCCTTAATGC-TGAGGTTCCATTTTGATTATTC
*
2722418 GATTCAATAATTGATCAAGATAAATTAGGATTAATATTAAAGCATCCATTTTAGGCTTAATTTCA
64 GATTCAATAATT-ATCAAGATAAATTAGGATTAATATTAAAGCATTCATTTTAGG-TTAATTTCA
2722483 C-TTTAATCC
127 CTTTTAATCC
* * * *
2722492 TTTGATTTAGAGGAATATTCAATTTGACCCTCGCCTTAATGTCTGAGGATCCATTTTGATTATTC
1 TTTAATTTAG-GGAATATTCAATTTGATCATCGCCTTAATG-CTGAGGTTCCATTTTGATTATTC
* * * ** * * * *
2722557 AATTCAATAGTTAGTTAA-ACTCGATTATGATTAATATTAGAGCCTTCACTTTAGGTTAATTTCA
64 GATTCAATAATTA-TCAAGA-TAAATTAGGATTAATATTAAAGCATTCATTTTAGGTTAATTTCA
*
2722621 CTTTTAGTCC
127 CTTTTAATCC
* * * * *
2722631 TTTAATTTAGGGAATATTCTATTTGGTCATCGCCTTAATAACCGAGGTTCTATTTTGATTATTCG
1 TTTAATTTAGGGAATATTCAATTTGATCATCGCCTTAAT-GCTGAGGTTCCATTTTGATTATTCG
* * * *
2722696 ATTCAATAATT-TACTAGAAACAAGTAGGATTAATATTAAAGCTTTCATTTTTAGGTT
65 ATTCAATAATTAT-CAAGATA-AATTAGGATTAATATTAAAGCATTCA-TTTTAGGTT
2722753 TAGTCCTTTA
Statistics
Matches: 213, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
136 1 0.00
137 1 0.00
138 90 0.42
139 120 0.56
140 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (136 bp):
TTTAATTTAGGGAATATTCAATTTGATCATCGCCTTAATGCTGAGGTTCCATTTTGATTATTCGA
TTCAATAATTATCAAGATAAATTAGGATTAATATTAAAGCATTCATTTTAGGTTAATTTCACTTT
TAATCC
Found at i:2723497 original size:27 final size:27
Alignment explanation
Indices: 2723459--2723523 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
2723449 CTGCATACTA
2723459 TATTTTAATTTGCATACTATAAATCTT
1 TATTTTAATTTGCATACTATAAATCTT
2723486 TATTTTAATTTGCATACTATAAATCTT
1 TATTTTAATTTGCATACTATAAATCTT
2723513 TATTTTAATTT
1 TATTTTAATTT
2723524 TATACATTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.55
Consensus pattern (27 bp):
TATTTTAATTTGCATACTATAAATCTT
Found at i:2724605 original size:20 final size:21
Alignment explanation
Indices: 2724580--2724631 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2724570 TTTTCCCAAT
*
2724580 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2724600 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2724621 TCGCAATGCGA
1 TCGCAATGCGA
2724632 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2724645 original size:20 final size:20
Alignment explanation
Indices: 2724620--2724734 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
2724610 AATTGGGAAA
*
2724620 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2724640 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
2724660 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
2724681 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2724701 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
2724721 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2724735 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2724664 original size:61 final size:61
Alignment explanation
Indices: 2724617--2724744 Score: 175
Period size: 61 Copynumber: 2.1 Consensus size: 61
2724607 GCGAATTGGG
* * * * *
2724617 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
2724678 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
2724739 ATAATC
1 AAAATC
2724745 TCAATACGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:2724950 original size:22 final size:22
Alignment explanation
Indices: 2724922--2724965 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2724912 CACTCTCTCA
2724922 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2724944 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2724966 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2725238 original size:20 final size:20
Alignment explanation
Indices: 2725209--2725252 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2725199 GCGATTTTAG
2725209 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
2725229 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
2725249 TTTC
1 TTTC
2725253 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:2726592 original size:18 final size:18
Alignment explanation
Indices: 2726571--2726615 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2726561 TCCACTTCGG
*
2726571 GAGCCATCACCTCATCCA
1 GAGCCATCACCTCACCCA
*
2726589 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2726607 GAGCCATCA
1 GAGCCATCA
2726616 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2727116 original size:20 final size:20
Alignment explanation
Indices: 2727091--2727136 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2727081 TAGTTTACTT
2727091 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
2727111 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
2727131 TCGCAA
1 TCGCAA
2727137 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:2727152 original size:19 final size:19
Alignment explanation
Indices: 2727130--2727188 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
2727120 GGAAATGGCT
2727130 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATAAAA
*
2727149 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATAAAA
*
2727163 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATAAAA
*
2727182 ATTGCAA
1 ATCGCAA
2727189 CGACAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.50
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATAAAA
Found at i:2727165 original size:14 final size:14
Alignment explanation
Indices: 2727146--2727204 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
2727136 ATGCGAAATA
2727146 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2727160 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
2727179 AAAATTGCAACGAC
1 AAAATCGCAACGAC
2727193 AAAATCGCAACG
1 AAAATCGCAACG
2727205 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2727172 original size:33 final size:33
Alignment explanation
Indices: 2727130--2727217 Score: 149
Period size: 33 Copynumber: 2.7 Consensus size: 33
2727120 GGAAATGGCT
*
2727130 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2727163 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2727196 ATCGCAACGCGAAATGAAAATC
1 ATCGCAATGCGAAATGAAAATC
2727218 ACAATAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2727261 original size:14 final size:14
Alignment explanation
Indices: 2727233--2727328 Score: 77
Period size: 14 Copynumber: 6.3 Consensus size: 14
2727223 AATATTTGTG
*
2727233 TTTTG-CGTTGTGA
1 TTTTGTCGTTGCGA
2727246 TTTTGTCGTTGCGA
1 TTTTGTCGTTGCGA
*
2727260 TTTCATTTCGCATTGCGA
1 TTT--TGTCG--TTGCGA
2727278 TTTTGTCGTTGCGA
1 TTTTGTCGTTGCGA
*
2727292 TTTTCATTTCGCATTGCGA
1 -TTT--TGTCG--TTGCGA
2727311 TTTTGTCGTTGCGA
1 TTTTGTCGTTGCGA
2727325 TTTT
1 TTTT
2727329 CATTTCGCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
13 5 0.07
14 26 0.38
15 3 0.04
16 12 0.18
17 4 0.06
18 12 0.18
19 6 0.09
ACGTcount: A:0.10, C:0.16, G:0.23, T:0.51
Consensus pattern (14 bp):
TTTTGTCGTTGCGA
Found at i:2727302 original size:33 final size:33
Alignment explanation
Indices: 2727244--2727340 Score: 187
Period size: 33 Copynumber: 3.0 Consensus size: 33
2727234 TTTGCGTTGT
2727244 GATTTTGTCGTTGCGA-TTTCATTTCGCATTGC
1 GATTTTGTCGTTGCGATTTTCATTTCGCATTGC
2727276 GATTTTGTCGTTGCGATTTTCATTTCGCATTGC
1 GATTTTGTCGTTGCGATTTTCATTTCGCATTGC
2727309 GATTTTGTCGTTGCGATTTTCATTTCGCATTG
1 GATTTTGTCGTTGCGATTTTCATTTCGCATTG
2727341 TGATAGCCAT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 16 0.25
33 48 0.75
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
GATTTTGTCGTTGCGATTTTCATTTCGCATTGC
Found at i:2727371 original size:20 final size:19
Alignment explanation
Indices: 2727317--2727384 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
2727307 GCGATTTTGT
**
2727317 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* * *
2727336 CATTGTGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
2727356 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
2727376 CGTTGCGAT
1 CGTTGCGAT
2727385 TTTAAGTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 12 0.31
20 24 0.62
21 3 0.08
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:2727846 original size:42 final size:42
Alignment explanation
Indices: 2727749--2727837 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
2727739 GACTCACCTG
* * *
2727749 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
* * *
2727791 TCCTCCCTCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
2727833 TCATC
1 TCATC
2727838 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.44, G:0.15, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCCCCAACCGTTCAAGAGGCCACTA
Found at i:2729280 original size:14 final size:14
Alignment explanation
Indices: 2729246--2729284 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2729236 TTGATTGTTT
2729246 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
2729260 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
2729274 TGTTGATTTGT
1 AATTGATTTGT
2729285 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:2729445 original size:19 final size:19
Alignment explanation
Indices: 2729421--2729507 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
2729411 ATCGCAACGA
2729421 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2729440 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2729459 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2729478 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
2729492 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2729508 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 49 0.75
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:2729465 original size:38 final size:33
Alignment explanation
Indices: 2729411--2729507 Score: 149
Period size: 38 Copynumber: 2.8 Consensus size: 33
2729401 GAAACTGACT
2729411 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
2729444 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAA
2729482 ATCGCAACGAGAAAATCGCAATGCGA
1 ATCGCAACGAGAAAATCGCAATGCGA
2729508 TTTTCATTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
33 23 0.39
34 1 0.02
35 2 0.03
36 2 0.03
37 1 0.02
38 30 0.51
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAATGCGAAATGAAA
Found at i:2729551 original size:20 final size:20
Alignment explanation
Indices: 2729526--2729621 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
2729516 TCGCATTGCG
*
2729526 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
2729546 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
2729567 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
2729586 ATTTTCGCA-TTGCGATAGCC
1 ATTTTCG-AGTTGCGATAGCC
*
2729606 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
2729622 TTCCCCGTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.05
20 54 0.89
21 4 0.07
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:2729559 original size:34 final size:36
Alignment explanation
Indices: 2729514--2729601 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
2729504 GCGATTTTCA
*
2729514 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCATTGCGATTTTCTTCAATTGCGATAGCCAT
*
2729548 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCATTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
2729588 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
2729602 AGCCATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
34 12 0.27
35 5 0.11
38 1 0.02
39 1 0.02
40 26 0.58
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (36 bp):
TTTCGCATTGCGATTTTCTTCAATTGCGATAGCCAT
Found at i:2729612 original size:40 final size:41
Alignment explanation
Indices: 2729526--2729621 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
2729516 TCGCATTGCG
* * ***
2729526 ATTTTCTAGTTGCGATAGCCATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGATAGCCATTTTCGCATTGCGATTAGCC
*
2729567 A-TTTCGAATTGCGATAGCCATTTTCGCATTGCGA-TAGCC
1 ATTTTCGAGTTGCGATAGCCATTTTCGCATTGCGATTAGCC
*
2729606 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
2729622 TTCCCCGTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.07
40 42 0.91
41 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (41 bp):
ATTTTCGAGTTGCGATAGCCATTTTCGCATTGCGATTAGCC
Found at i:2729860 original size:20 final size:20
Alignment explanation
Indices: 2729844--2729900 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
2729834 ATTGCGATTT
2729844 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGAAAG
2729864 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGAAAG
2729884 TCAGAATCTCGTTGCGA
1 TCAGAATCTCGTTGCGA
2729901 TTTTGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (20 bp):
TCAGAATCTCGTTGCGAAAG
Found at i:2730198 original size:12 final size:12
Alignment explanation
Indices: 2730179--2730212 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2730169 CTCTCCGGCG
2730179 ACATCCGTTCCT
1 ACATCCGTTCCT
*
2730191 ATATCCGTTCCT
1 ACATCCGTTCCT
2730203 ACATCC-TTCC
1 ACATCCGTTCC
2730213 CCATCCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:2733350 original size:19 final size:19
Alignment explanation
Indices: 2733326--2733418 Score: 62
Period size: 19 Copynumber: 5.4 Consensus size: 19
2733316 GCAACGAGAG
2733326 AATCGCAATACGAAATGAA
1 AATCGCAATACGAAATGAA
*
2733345 AATCGC-A-ACG---CGAA
1 AATCGCAATACGAAATGAA
** *
2733359 TTTCGCAATGCGAAATGAA
1 AATCGCAATACGAAATGAA
*
2733378 AATCGC-A-ACG-AGTG--
1 AATCGCAATACGAAATGAA
*
2733392 AATCGCAATGCGAAATGAA
1 AATCGCAATACGAAATGAA
2733411 AATCGCAA
1 AATCGCAA
2733419 CGTGAATTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 20
0.63 0.13 0.24
Matches are distributed among these distances:
14 13 0.25
15 2 0.04
16 7 0.13
17 8 0.15
18 2 0.04
19 21 0.40
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATACGAAATGAA
Found at i:2733350 original size:33 final size:33
Alignment explanation
Indices: 2733313--2733420 Score: 164
Period size: 33 Copynumber: 3.3 Consensus size: 33
2733303 GGAAATTACT
*
2733313 ATCGCAACGAGAGAATCGCAATACGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* *
2733346 ATCGCAACGCGA-ATTTCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGA-ATCGCAATGCGAAATGAAA
*
2733379 ATCGCAACGAGTGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
2733412 ATCGCAACG
1 ATCGCAACG
2733421 TGAATTTAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
32 1 0.01
33 65 0.97
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:2733602 original size:14 final size:14
Alignment explanation
Indices: 2733583--2733619 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2733573 CATCAATTAA
2733583 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2733597 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2733611 ACAAATCAA
1 ACAAATCAA
2733620 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2735055 original size:42 final size:42
Alignment explanation
Indices: 2735008--2735087 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
2734998 CGATGACAGT
* *
2735008 GGCCTCTTAAACGCTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * *
2735050 GGCCTCTTTAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGA
2735088 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (42 bp):
GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:2735484 original size:91 final size:90
Alignment explanation
Indices: 2735309--2735493 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
2735299 ATTTCAAACT
*
2735309 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
2735374 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
2735402 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
2735466 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
2735493 T
1 T
2735494 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:2737261 original size:33 final size:33
Alignment explanation
Indices: 2737204--2737338 Score: 153
Period size: 33 Copynumber: 3.9 Consensus size: 33
2737194 ACGAGATAAT
**
2737204 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
** *
2737238 GAGAATCGCAACGCGAAATGACTATCGTAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
2737271 GAGAATCGCAACACGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA--CG--A
*
2737308 TGAAAATCGCAACGCGAAATGAAAATCGCAA
1 -GAGAATCGCAACGCGAAATGAAAATCGCAA
2737339 TGCGATTTTG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 44 0.49
34 14 0.16
35 2 0.02
37 1 0.01
38 28 0.31
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:2737269 original size:19 final size:19
Alignment explanation
Indices: 2737179--2737343 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
2737169 TCTTTTGGTT
*
2737179 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
2737198 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2737218 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2737236 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2737252 GAAATGACTATCGTAA--C
1 GAAATGAAAATCGCAACGC
* *
2737269 G--A-GAGAATCGCAACAC
1 GAAATGAAAATCGCAACGC
2737285 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2737304 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2737323 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2737342 GA
1 GA
2737344 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 24
0.75 0.09 0.15
Matches are distributed among these distances:
14 17 0.14
15 2 0.02
16 4 0.03
17 3 0.03
18 3 0.03
19 61 0.51
20 27 0.23
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2737326 original size:38 final size:35
Alignment explanation
Indices: 2737179--2737343 Score: 149
Period size: 33 Copynumber: 4.6 Consensus size: 35
2737169 TCTTTTGGTT
*
2737179 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAA-GCG--AA-GAGAATCGCAACGC
**
2737218 GGAAATGACTATCGCAA-CG-AGAGAATCGCAACGC
1 -GAAATGAAAATCGCAAGCGAAGAGAATCGCAACGC
** * *
2737252 GAAATGACTATCGTAA-CG-AGAGAATCGCAACAC
1 GAAATGAAAATCGCAAGCGAAGAGAATCGCAACGC
*
2737285 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAA-GCG-AA-GAGAATCGCAACGC
2737323 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAA-GCGA
2737344 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
33 44 0.40
34 14 0.13
35 3 0.03
37 2 0.02
38 32 0.29
40 14 0.13
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (35 bp):
GAAATGAAAATCGCAAGCGAAGAGAATCGCAACGC
Found at i:2737372 original size:19 final size:19
Alignment explanation
Indices: 2737339--2737383 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2737329 AAAATCGCAA
*
2737339 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
2737358 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
2737377 TGCGATT
1 TGCGATT
2737384 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:2737961 original size:20 final size:20
Alignment explanation
Indices: 2737936--2738047 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
2737926 GCTATGTAAA
2737936 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
2737956 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
2737976 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* * *
2737997 TAGCATTGCGAT-TTACTAAT
1 TCGCATTGCGATGTAAGT-AT
* * *
2738017 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
2738037 TCGCATTGCGA
1 TCGCATTGCGA
2738048 ATTATCAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.04
20 59 0.77
21 15 0.19
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:2738010 original size:41 final size:40
Alignment explanation
Indices: 2737958--2738047 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
2737948 AGTAAGATTC
*
2737958 GCATTGCGATTTACGT-ATTCGCATTGCGATTTTCCTAATTA
1 GCATTGCGATTTAC-TAATTCGCATTGCGATTTACCT-ATTA
* * *
2737999 GCATTGCGATTTACTAATTCGCGTTGCGATTTACGTATTC
1 GCATTGCGATTTACTAATTCGCATTGCGATTTACCTATTA
2738039 GCATTGCGA
1 GCATTGCGA
2738048 ATTATCAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 13 0.30
41 31 0.70
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (40 bp):
GCATTGCGATTTACTAATTCGCATTGCGATTTACCTATTA
Found at i:2738068 original size:21 final size:20
Alignment explanation
Indices: 2738044--2738103 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
2738034 TATTCGCATT
2738044 GCGAATTATCAAAATCGCAAC
1 GCGAATTA-CAAAATCGCAAC
* *
2738065 GCGAA-TACGTAAATCGCAAT
1 GCGAATTAC-AAAATCGCAAC
*
2738085 GCGAATTAGGAAAATCGCA
1 GCGAATTA-CAAAATCGCA
2738104 TTGCGATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.03
20 16 0.50
21 15 0.47
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGAATTACAAAATCGCAAC
Found at i:2738088 original size:61 final size:61
Alignment explanation
Indices: 2737956--2738088 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 61
2737946 ATAGTAAGAT
* * * ** * *
2737956 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTAGCATTGCGATTTACTAAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATAGCAACGCGATATACTAAA
* *
2738017 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-CAAAATCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCCAAAATAGCAACGCGATATAC-TAAA
*
2738078 TCGCAATGCGA
1 TCGCATTGCGA
2738089 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 3 0.05
61 52 0.88
62 4 0.07
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATAGCAACGCGATATACTAAA
Found at i:2738108 original size:21 final size:21
Alignment explanation
Indices: 2738037--2738109 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
2738027 ATTTACGTAT
*
2738037 TCGCATTGCGAATTATC-AAAA
1 TCGCAATGCGAATTA-CGAAAA
* *
2738058 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
2738078 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
*
2738099 TCGCATTGCGA
1 TCGCAATGCGA
2738110 TAGTCAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 16 0.37
21 26 0.60
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:2739469 original size:23 final size:23
Alignment explanation
Indices: 2739439--2739498 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
2739429 ACTTTAATGC
2739439 TTGTACATGCAAATGAGATGGTT
1 TTGTACATGCAAATGAGATGGTT
2739462 TTGTACATGCAAATGAGATGGTT
1 TTGTACATGCAAATGAGATGGTT
*
2739485 TTGTACCTG-AAATG
1 TTGTACATGCAAATG
2739499 TATATTTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 5 0.14
23 31 0.86
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (23 bp):
TTGTACATGCAAATGAGATGGTT
Found at i:2747986 original size:38 final size:37
Alignment explanation
Indices: 2747945--2748153 Score: 210
Period size: 38 Copynumber: 5.6 Consensus size: 37
2747935 TTTTTTCAAA
* * *
2747945 AAAAATGTTTTTAAAATTATATATTATATAATTTTCC
1 AAAAATGTTTTAAAAACTATATATTATATAATTTTTC
* *
2747982 AAAAAATGATTTTTAAAACTATATATTATATCATTTTTC
1 -AAAAATG-TTTTAAAAACTATATATTATATAATTTTTC
* * * *
2748021 AAAAATATTTAAAAAACTATATACTATATAAGTTTTC
1 AAAAATGTTTTAAAAACTATATATTATATAATTTTTC
* *
2748058 -AAATTGTTTTAAAAACTATATAATATATAAATGTTTTC
1 AAAAATGTTTTAAAAACTATATATTATAT-AAT-TTTTC
* *
2748096 -AAAATGTTTTCAAAACTATATATTATAT-ATATTT-
1 AAAAATGTTTTAAAAACTATATATTATATAATTTTTC
* *
2748130 AAAAATATTTTCAAAAATTATATA
1 AAAAATGTTTT-AAAAACTATATA
2748154 AAATTTAAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
35 12 0.08
36 36 0.25
37 27 0.19
38 43 0.30
39 27 0.19
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAAATGTTTTAAAAACTATATATTATATAATTTTTC
Found at i:2748005 original size:37 final size:37
Alignment explanation
Indices: 2747944--2748057 Score: 99
Period size: 39 Copynumber: 3.0 Consensus size: 37
2747934 TTTTTTTCAA
*
2747944 AAAAAATG-TTTTTAAAATTATATATTATATAATTTTCC
1 AAAAAATGATTTTTAAAA--CTATATTATATAATTTTCC
* *
2747982 AAAAAATGATTTTTAAAACTATATATTATATCATTTTTC
1 AAAAAATGATTTTTAAAAC--TATATTATATAATTTTCC
**
2748021 -AAAAAT-ATTTAAAAAACTATATACTATATAAGTTTTC
1 AAAAAATGATTTTTAAAACTATAT--TATATAA-TTTTC
2748058 AAATTGTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
35 5 0.08
37 15 0.24
38 18 0.29
39 25 0.40
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAAAATGATTTTTAAAACTATATTATATAATTTTCC
Found at i:2748102 original size:11 final size:11
Alignment explanation
Indices: 2748086--2748110 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2748076 TATAATATAT
2748086 AAATGTTTTCA
1 AAATGTTTTCA
2748097 AAATGTTTTCA
1 AAATGTTTTCA
2748108 AAA
1 AAA
2748111 CTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:2748146 original size:74 final size:72
Alignment explanation
Indices: 2747945--2748154 Score: 199
Period size: 74 Copynumber: 2.8 Consensus size: 72
2747935 TTTTTTCAAA
* * * * *
2747945 AAAAATGTTTTTAAAATTATATATTATATAATTTTCCAAAAAATGATTTTTAAAACTATATATTA
1 AAAAATGTTTTAAAAACTATATATTATATAAGTTT---AAAAAT-ATTTTAAAAACTATATAATA
*
2748010 TATCATTTTTC
62 TATAATTTTTC
* * * * * *
2748021 AAAAATATTTAAAAAACTATATACTATATAAGTTTTCAAATTGTTTTAAAAACTATATAATATAT
1 AAAAATGTTTTAAAAACTATATATTATATAAG-TTTAAAAATATTTTAAAAACTATATAATATAT
2748086 AAATGTTTTC
65 -AAT-TTTTC
* *
2748096 -AAAATGTTTTCAAAACTATATATTATATATA-TTTAAAAATATTTTCAAAAATTATATAA
1 AAAAATGTTTTAAAAACTATATATTATATA-AGTTTAAAAATATTTT-AAAAACTATATAA
2748155 AATTTAAAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
73 31 0.28
74 43 0.39
75 6 0.06
76 26 0.24
77 3 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (72 bp):
AAAAATGTTTTAAAAACTATATATTATATAAGTTTAAAAATATTTTAAAAACTATATAATATATA
ATTTTTC
Found at i:2749102 original size:84 final size:81
Alignment explanation
Indices: 2748880--2749506 Score: 609
Period size: 84 Copynumber: 7.6 Consensus size: 81
2748870 AAGTTGAATA
* * * * *
2748880 TAATCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
1 TAATCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
** *
2748945 TGTGCCCTCAAAGCTGAGTG
63 TGTGCCCT-TGAGCTGAGCG
* ** * * *
2748965 TAATCGAACTTGGGGGGTCTTTGG-CAGATAGCCCTTCTCGAATTAAGCTATGCTGCAAATGATG
1 TAATCGAAC-TCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
*
2749029 TGCCGTTGAGCTGAGCG
65 TGCCCTTGAGCTGAGCG
* * * * * *
2749046 TAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
1 TAATCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* *
2749111 TGTGCCCTCGAAGCTGAGTG
63 TGTGCCCTTG-AGCTGAGCG
** * * *
2749131 TAATCGAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGT
1 TAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
2749195 G-CCTTGGAGCTGAGCG
66 GCCCTT-GAGCTGAGCG
* *
2749211 TAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGG-T--CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
** *
2749276 TGTGCCCTCAAAGCTGAGTG
63 TGTGCCCT-TGAGCTGAGCG
** * *
2749296 TAATCGAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
2749360 G-CCTTGGAGCTGAGCG
66 GCCCTT-GAGCTGAGCG
* *
2749376 TAGTCGAACTCGAAGGTCTTTGGTTGGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTCTTTGG-T--CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * * *
2749441 TATGCCCTCGAAGCCGAGTG
63 TGTGCCCTTG-AGCTGAGCG
** *
2749461 TAATCGAACTCGGGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTA
1 TAATCGAACTC--GAAGGTCTTTGGTCAGATAACCCTTCTCGACTTA
2749507 GACTATGCTG
Statistics
Matches: 443, Mismatches: 77, Indels: 46
0.78 0.14 0.08
Matches are distributed among these distances:
80 66 0.15
81 97 0.22
82 38 0.09
83 19 0.04
84 122 0.28
85 85 0.19
86 6 0.01
87 10 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (81 bp):
TAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCCTTGAGCTGAGCG
Found at i:2749227 original size:165 final size:165
Alignment explanation
Indices: 2748886--2749521 Score: 983
Period size: 165 Copynumber: 3.8 Consensus size: 165
2748876 AATATAATCA
* * * *
2748886 AACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 AACTCAAAGGTC-TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
* *
2748950 CCTCAAAGCTGAGTGTAATCGAACTTGGGGGGTCTTTGGCAGATAGCCCTTCTCGAATTAAGCTA
65 CCTCAAAGCTGAGTGTAATCGAAC-TCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
2749015 TGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCG
129 TGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCG
* * * *
2749052 AACTCAAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGC
1 AACTCAAAGGTC-TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
*
2749116 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
65 CCTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
*
2749181 GCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
130 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
* *
2749217 AACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
1 AACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
2749282 CTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
66 CTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
2749347 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
131 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
* * * * *
2749382 AACTCGAAGGTCTTTGGTTGGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
1 AACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
* *
2749447 CTCGAAGCCGAGTGTAATCGAACTCGGGGGGGTCTTTGGCAGATAGCCCTTCTCGACTT-AGACT
66 CTCAAAGCTGAGTGTAATCGAACTC--GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAG-CT
*
2749511 ATGCTGTAAAT
128 ATGCTGCAAAT
2749522 AGTTTGTTTA
Statistics
Matches: 445, Mismatches: 20, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
164 7 0.02
165 307 0.69
166 87 0.20
167 44 0.10
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (165 bp):
AACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
CTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
Done.