Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 18 of 21
Found at i:3769064 original size:236 final size:235
Alignment explanation
Indices: 3768646--3769322 Score: 761
Period size: 236 Copynumber: 2.9 Consensus size: 235
3768636 TCATTGATGT
* * * *
3768646 TTTTATTTCTAAAATATCGATTTTCCACCATCGAGGATACTCCAATCCCGTTATTTCCGAGGAGA
1 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCTAA-CCCGTTTTTTTCGAGG-GA
* * *
3768711 TACTTCT-ACCTTAGTTTTATTTCTAAAACACTAGTTTTCCACCATC-GAGGATACTCCAA-CCT
64 TAC-TCTAACCTCAATTTTATTTCTAAAACACTAATTTTCCACCATCAG-GGATACTCCAACCCT
*
3768773 CGTT-TTTTCTAAGGGGATACTCCAACCTTGATTTTATTTCTAAAACA-CTGATTTTCCACCATC
127 -GTTATTTTCTAAGGGGATACTCCAACC-CGATTTTATTTCTAAAACATC-GATTTTCCACCATC
* * * *
3768836 GGGGATACTCTAATCC-CATTATTTTCGAGGGGATACTCCAATCCT-G
189 GGGGATACTCTAA-CCTCACTATTTTCGAGGGAAAACTCCAACCCTAG
* * * *
3768882 ATTTTATTTCTAAAACACCAATTTTTCACCATCGGGGATACTCTAACCC-TATTTTTTCGAGAGG
1 -TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCTAACCCGT-TTTTTTCGAG-GG
*
3768946 ATACTCTAACCCCAATTTTATTTCTAAAACACTAATTTTCCACCATCAGGGATACTCCAACCCTG
63 ATACTCTAACCTCAATTTTATTTCTAAAACACTAATTTTCCACCATCAGGGATACTCCAACCCTG
*
3769011 TTATTTTC-AAGGGGATACTCCAATCCCGATTTTATTTCTAAAACATCGATTTTCCACTATCGGG
128 TTATTTTCTAAGGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGGG
* **
3769075 GATACTCTAACCTCGCTATTTTTTAGGGAAAACTCCAACCCTAG
192 GATACTCTAACCTCACTATTTTCGAGGGAAAACTCCAACCCTAG
* * *
3769119 TTTTCTTTCTAAAATATCGATTTTCCACCATCAGGGATACTCTTATCCCGTTATTTTT-GAGGGG
1 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTC-TAACCCGTT-TTTTTCGA-GGG
* * * * * *
3769183 ATACTCCAATCTCAATTTTATTTTTAAAACA-TCGA-TTTCCACCATCAGGGATACTCTAACCCC
63 ATACTCTAACCTCAATTTTATTTCTAAAACACT-AATTTTCCACCATCAGGGATACTCCAACCCT
* * * * *
3769246 GTTA-TTTCTAAGAGGATACTCCAACCCCGATTTTGTTTCCAAAATATTGACTTTT-CACCATCG
127 GTTATTTTCTAAGGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCGA-TTTTCCACCATCG
* *
3769309 GAGATACTCCAACC
190 GGGATACTCTAACC
3769323 CAATTTTTAT
Statistics
Matches: 379, Mismatches: 44, Indels: 35
0.83 0.10 0.08
Matches are distributed among these distances:
235 10 0.03
236 267 0.70
237 95 0.25
238 7 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (235 bp):
TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCTAACCCGTTTTTTTCGAGGGATA
CTCTAACCTCAATTTTATTTCTAAAACACTAATTTTCCACCATCAGGGATACTCCAACCCTGTTA
TTTTCTAAGGGGATACTCCAACCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATA
CTCTAACCTCACTATTTTCGAGGGAAAACTCCAACCCTAG
Found at i:3769262 original size:315 final size:313
Alignment explanation
Indices: 3768646--3769323 Score: 809
Period size: 315 Copynumber: 2.2 Consensus size: 313
3768636 TCATTGATGT
* *
3768646 TTTTATTTCTAAAATATCGATTTTCCACCATCGAGGATACTCCAATCCCGTTATTTCCGAGGAGA
1 TTTTATTTCTAAAATATCAATTTTCCACCATCG-GGATACTCCAA-CCCGTTATTTCCAAGGAGA
* * ** *
3768711 TACTTCTACCTTAGTTTTATTTCTAAAACACTAGTTTTCCACCATCGAGGATACTCCAACCTCGT
64 TACTCCAACCCGAGTTTTATTTCTAAAACACGAGTTTTCCACCATCGAGGATACTCCAACCTCGT
* * * *
3768776 TTTTTCTAAGGGGATACTCCAACCTTGATTTTATTTCTAAAACACTGATTTTCCACCATCGGGGA
129 TTTTTCTAAGGGAAAACTCCAACCTAGATTTTATTTCTAAAACACTGATTTTCCACCATCAGGGA
*
3768841 TACTCTAATCCCATTATTTTCGAGGGGATACTCCAATCCTGATTTTATTTCTAAAACACCAATTT
194 TACTCTAATCCCATTATTTTCGAGGGGATACTCCAATCCTAATTTTATTTCTAAAACACCAATTT
* * * * * *
3768906 TTCACCATCGGGGATACTCTAACCCTATTTTTTCGAGAGGATACTCTAACCCCAA
259 TCCACCATCAGGGATACTCTAACCCCATTATTTCAAGAGGATACTCCAACCCCAA
* * *
3768961 TTTTATTTCTAAAACA-CTAATTTTCCACCATCAGGGATACTCCAACCCTGTTATTTTCAAGGGG
1 TTTTATTTCTAAAATATC-AATTTTCCACCATC-GGGATACTCCAACCC-GTTATTTCCAAGGAG
* * *
3769025 ATACTCCAATCCCGA-TTTTATTTCTAAAACATCGA-TTTTCCACTATCGGGGATACTCTAACCT
63 ATACTCCAA-CCCGAGTTTTATTTCTAAAACA-CGAGTTTTCCACCATCGAGGATACTCCAACCT
* *
3769088 CGCTATTTTT-T-AGGGAAAACTCCAACCCTAG-TTTTCTTTCTAAAATA-TCGATTTTCCACCA
126 CG-T-TTTTTCTAAGGGAAAACTCCAA-CCTAGATTTTATTTCTAAAACACT-GATTTTCCACCA
* * * *
3769149 TCAGGGATACTCTTATCCCGTTATTTTTGAGGGGATACTCCAAT-CTCAATTTTATTTTTAAAAC
187 TCAGGGATACTCTAATCCCATTATTTTCGAGGGGATACTCCAATCCT-AATTTTATTTCTAAAAC
* * * *
3769213 ATCGA-TTTCCACCATCAGGGATACTCTAACCCCGTTATTTCTAAGAGGATACTCCAACCCCGA
251 ACCAATTTTCCACCATCAGGGATACTCTAACCCCATTATTTC-AAGAGGATACTCCAACCCCAA
* * * *
3769276 TTTTGTTTCCAAAATATTGACTTTT-CACCATCGGAGATACTCCAACCC
1 TTTTATTTCTAAAATA-TCAATTTTCCACCATCGG-GATACTCCAACCC
3769324 AATTTTTATT
Statistics
Matches: 310, Mismatches: 39, Indels: 28
0.82 0.10 0.07
Matches are distributed among these distances:
314 40 0.13
315 248 0.80
316 17 0.05
317 5 0.02
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (313 bp):
TTTTATTTCTAAAATATCAATTTTCCACCATCGGGATACTCCAACCCGTTATTTCCAAGGAGATA
CTCCAACCCGAGTTTTATTTCTAAAACACGAGTTTTCCACCATCGAGGATACTCCAACCTCGTTT
TTTCTAAGGGAAAACTCCAACCTAGATTTTATTTCTAAAACACTGATTTTCCACCATCAGGGATA
CTCTAATCCCATTATTTTCGAGGGGATACTCCAATCCTAATTTTATTTCTAAAACACCAATTTTC
CACCATCAGGGATACTCTAACCCCATTATTTCAAGAGGATACTCCAACCCCAA
Found at i:3769340 original size:51 final size:50
Alignment explanation
Indices: 3769260--3769374 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 50
3769250 TTTCTAAGAG
* *
3769260 GATACTCCAACCCCGATTTTGTTTCCAAAATATTGACTTT-TCACCATCGGA
1 GATACTCCAA-CCCAATTTTATTTCCAAAATATTGA-TTTCTCACCATCGGA
* *
3769311 GATACTCCAACCCAATTTTTATTTTCAAAATATTGATTTCTCACCATCGGG
1 GATACTCCAACCCAA-TTTTATTTCCAAAATATTGATTTCTCACCATCGGA
3769362 GATACTCCAACCC
1 GATACTCCAACCC
3769375 TATTATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 7 0.12
51 51 0.88
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (50 bp):
GATACTCCAACCCAATTTTATTTCCAAAATATTGATTTCTCACCATCGGA
Found at i:3769374 original size:130 final size:129
Alignment explanation
Indices: 3769182--3769423 Score: 330
Period size: 130 Copynumber: 1.9 Consensus size: 129
3769172 TTTTTGAGGG
* * * *
3769182 GATACTCCAATCTCAATTTTATTTTTAAAACATCGATTTCCACCATCAGGGATACTCTAACCCCG
1 GATACTCCAATCCCAATTTTATTTTCAAAACATCGATTTCCACCATCAGGGATACTCCAACCCCA
3769247 TTATTTCT-AAGAGGATACTCCAACCCCGATTTTGT-T-TCCAAAATATTGACTTTTCACCATCG
66 TTATTTCTGAAG-GGATACTCCAACCCC-ATTTT-TATCTCCAAAATATTGACTTTTCACCATCG
3769309 GA
128 GA
* * *
3769311 GATACTCCAA-CCCAATTTTTATTTTCAAAATATTGATTTCTCACCATCGGGGATACTCCAACCC
1 GATACTCCAATCCCAA-TTTTATTTTCAAAACATCGATTTC-CACCATCAGGGATACTCCAACCC
* *
3769375 TATTATTTTTGAAGGGATACTCCAACCCCATTTTTATCTCCAAAATATT
64 CATTATTTCTGAAGGGATACTCCAACCCCATTTTTATCTCCAAAATATT
3769424 AAATTTTTAA
Statistics
Matches: 99, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
128 5 0.05
129 37 0.37
130 54 0.55
131 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (129 bp):
GATACTCCAATCCCAATTTTATTTTCAAAACATCGATTTCCACCATCAGGGATACTCCAACCCCA
TTATTTCTGAAGGGATACTCCAACCCCATTTTTATCTCCAAAATATTGACTTTTCACCATCGGA
Found at i:3772614 original size:33 final size:32
Alignment explanation
Indices: 3772571--3772638 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
3772561 CGTTACAAGC
* * *
3772571 CAATGTATCGATACATTTTGTGATGTATTGATA
1 CAATGCATCGATACATATTGTG-TGTATCGATA
*
3772604 CAATGCATCGATATATATTGTGTGTATCGATA
1 CAATGCATCGATACATATTGTGTGTATCGATA
3772636 CAA
1 CAA
3772639 ATTTAGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
CAATGCATCGATACATATTGTGTGTATCGATA
Found at i:3772696 original size:20 final size:20
Alignment explanation
Indices: 3772671--3772723 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
3772661 CCAATGACTT
**
3772671 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
3772691 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
3772711 GTATCGATACATT
1 GTATCGATACATT
3772724 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:3773319 original size:22 final size:22
Alignment explanation
Indices: 3773292--3773336 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
3773282 TTCTTTTCTC
3773292 TCCCCCTTTAATCAAAA-AATTTA
1 TCCCCC-TTAAT-AAAATAATTTA
3773315 TCCCCCTTAATAAAATAATTTA
1 TCCCCCTTAATAAAATAATTTA
3773337 ACAATTTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 11 0.52
23 6 0.29
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (22 bp):
TCCCCCTTAATAAAATAATTTA
Found at i:3774774 original size:20 final size:20
Alignment explanation
Indices: 3774744--3774794 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
3774734 GCTGCTAGTG
*
3774744 TGGGGGCTGCCCGTTGCGACC
1 TGGGGG-TGCCCGTCGCGACC
* *
3774765 TGGGGGTGCCGGTCGTGACC
1 TGGGGGTGCCCGTCGCGACC
3774785 TGGTGGGTGC
1 TGG-GGGTGC
3774795 TACCTAGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.04, C:0.25, G:0.49, T:0.22
Consensus pattern (20 bp):
TGGGGGTGCCCGTCGCGACC
Found at i:3775246 original size:13 final size:13
Alignment explanation
Indices: 3775228--3775263 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3775218 ATAAACCCCT
*
3775228 TGTATCGATACAG
1 TGTATCGATACAA
3775241 TGTATCGATACAA
1 TGTATCGATACAA
3775254 TGTATCGATA
1 TGTATCGATA
3775264 TAGAGAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3777459 original size:29 final size:29
Alignment explanation
Indices: 3777417--3777475 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3777407 TCTTCAAAAA
3777417 TCTCTACATCATTGTCAACAAAAGAAACT
1 TCTCTACATCATTGTCAACAAAAGAAACT
3777446 TCTCTACATCATTGTCAACAAAAGAAACT
1 TCTCTACATCATTGTCAACAAAAGAAACT
3777475 T
1 T
3777476 TCCTTTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.29
Consensus pattern (29 bp):
TCTCTACATCATTGTCAACAAAAGAAACT
Found at i:3781496 original size:32 final size:33
Alignment explanation
Indices: 3781432--3781499 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
3781422 CGTTACAAGC
* *
3781432 CAATGTATCGATACATTTTGTGATGTATCGATA
1 CAATGCATCGATACATATTGTGATGTATCGATA
3781465 CAATGCATCGATACATATTGTG-TGTATCGATA
1 CAATGCATCGATACATATTGTGATGTATCGATA
3781497 CAA
1 CAA
3781500 ATTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGCATCGATACATATTGTGATGTATCGATA
Found at i:3781557 original size:20 final size:20
Alignment explanation
Indices: 3781532--3781584 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
3781522 CCAATGACTT
**
3781532 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
3781552 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
3781572 GTATCGATACATT
1 GTATCGATACATT
3781585 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:3793177 original size:51 final size:51
Alignment explanation
Indices: 3793114--3793226 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
3793104 TTATTTTTGA
* *
3793114 GAGGATACTCCAACCCTAGTTTTATTTCTAAAACATCAATTTTCCACCATC
1 GAGGATACTCCAACCCCAGTTTTATTTCTAAAACAACAATTTTCCACCATC
* *
3793165 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACAACAGTTTTCCACCATC
1 GAGGATACTCCAACCCCAGTTTTATTTCTAAAACAACAATTTTCCACCATC
3793216 GAGGATACTCC
1 GAGGATACTCC
3793227 GACCTCGTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GAGGATACTCCAACCCCAGTTTTATTTCTAAAACAACAATTTTCCACCATC
Found at i:3793554 original size:79 final size:78
Alignment explanation
Indices: 3793166--3793706 Score: 485
Period size: 79 Copynumber: 6.8 Consensus size: 78
3793156 TCCACCATCG
* *
3793166 GGGATACTCCAACCCC-AGTTTTATTTCTAAAACAAC-AGTTTTCCACCATCGAGGATACTCCGA
1 GGGATACTCCAACCCCGA-TTTTATTTCTAAAACATCGA-TTTTCCACCATCGAGGATACTCCAA
* *
3793229 CCTCGTTATTTCCAA
64 CCTCGTTATTTTCGA
*
3793244 GGG-TATCTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACCATC-AGGGATACTCCAA
1 GGGATA-CTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGA-GGATACTCCAA
3793307 CCTCGTTATTTAT-GA
64 CCTCGTTATTT-TCGA
**
3793322 GGGATACTCCAACCTTGATTTTATTTCTAAAACATCGATTTTCCACCAT-GAGGGGATACTCCAA
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGA--GGATACTCCAA
*
3793386 CCTTGTTATTTTCGA
64 CCTCGTTATTTTCGA
* * * * * *
3793401 GGGGATACTCCAATCCTGATTTTATTTCTAAAA-ATTGAGTGTTTTTCCACAATTG-GACATACT
1 -GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGA----TTTTCCACCATCGAG-GATACT
**
3793464 CCAAACC-CGTTATTTTTTA
60 CC-AACCTCGTTATTTTCGA
* * * * * * * *
3793483 TGAGAGACTTCAACCCCGGTTTTCTTTCTAAAATATCGATTTTCCACTATCGAGGATAATCCAAC
1 -GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAAC
*
3793548 CTCGTTATTTTCAA
65 CTCGTTATTTTCGA
* * * **
3793562 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACCATCG-GTGATTCTTTAA
1 -GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGAG-GATACTCCAA
* *
3793626 CCCCATTATTTTCGA
64 CCTCGTTATTTTCGA
* * * * *
3793641 TGGGATACTCCAACCTCGATTTTGTTTCCAAAATATTGACTTTT-CACCATCG-GAGATACTCCA
1 -GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGA-TTTTCCACCATCGAG-GATACTCCA
3793704 ACC
63 ACC
3793707 CCATTTTTAT
Statistics
Matches: 383, Mismatches: 58, Indels: 43
0.79 0.12 0.09
Matches are distributed among these distances:
77 3 0.01
78 114 0.30
79 170 0.44
80 35 0.09
81 1 0.00
82 41 0.11
83 18 0.05
84 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACC
TCGTTATTTTCGA
Found at i:3794073 original size:32 final size:33
Alignment explanation
Indices: 3794015--3794077 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
3794005 TATCTAGATG
*
3794015 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
3794048 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
3794078 ACTCAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:3794088 original size:20 final size:19
Alignment explanation
Indices: 3794043--3794098 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
3794033 TGTATCGATA
* **
3794043 CATTATATCGATACATGTT
1 CATTGTATCGATACATACT
3794062 CATTGTATCGATACATACT
1 CATTGTATCGATACATACT
*
3794081 CAATTGTATCAATACATA
1 C-ATTGTATCGATACATA
3794099 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:3794152 original size:20 final size:20
Alignment explanation
Indices: 3794127--3794179 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3794117 TTAAGTGAAA
*
3794127 TGTATCGATACATG-GGACAT
1 TGTATCGATACATGAAGA-AT
3794147 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
*
3794167 TGTATTGATACAT
1 TGTATCGATACAT
3794180 TATGCCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:3795810 original size:3 final size:3
Alignment explanation
Indices: 3795796--3795832 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
3795786 ACTATCAAAA
* *
3795796 ATG ATG AAG ATG ATG ATG ATG ATG ATG ATA ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
3795833 GGTTGACTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:3800349 original size:20 final size:21
Alignment explanation
Indices: 3800324--3800362 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
3800314 TTTTTCTAGA
3800324 ATGTATCGATACAT-TGAATG
1 ATGTATCGATACATCTGAATG
3800344 ATGTATCGATACATCTGAA
1 ATGTATCGATACATCTGAA
3800363 AAAACCCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATCTGAATG
Found at i:3802238 original size:24 final size:24
Alignment explanation
Indices: 3802211--3802291 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
3802201 AAAGGGGAGA
*
3802211 AATTTTTTTATAAAAGAGAGCCTT
1 AATTATTTTATAAAAGAGAGCCTT
** * *
3802235 AATTATTTTATCAATGGGGAG---A
1 AATTATTTTAT-AAAAGAGAGCCTT
*
3802257 AATTTTTTTATAAAAGAGAGCCTT
1 AATTATTTTATAAAAGAGAGCCTT
3802281 AATTATTTTAT
1 AATTATTTTAT
3802292 CAATGGGGAG
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
21 6 0.14
22 10 0.24
24 20 0.48
25 6 0.14
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (24 bp):
AATTATTTTATAAAAGAGAGCCTT
Found at i:3802256 original size:27 final size:27
Alignment explanation
Indices: 3802226--3802302 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 27
3802216 TTTTATAAAA
3802226 GAGAGCCTTAATTATTTTATCAATGGG
1 GAGAGCCTTAATTATTTTATCAATGGG
* **
3802253 GAGA-----AATTTTTTTAT-AA--AA
1 GAGAGCCTTAATTATTTTATCAATGGG
3802272 GAGAGCCTTAATTATTTTATCAATGGG
1 GAGAGCCTTAATTATTTTATCAATGGG
3802299 GAGA
1 GAGA
3802303 AATTTTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 16
0.62 0.10 0.28
Matches are distributed among these distances:
19 4 0.11
21 2 0.06
22 10 0.28
24 10 0.28
25 2 0.06
27 8 0.22
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (27 bp):
GAGAGCCTTAATTATTTTATCAATGGG
Found at i:3802260 original size:46 final size:46
Alignment explanation
Indices: 3802204--3802310 Score: 214
Period size: 46 Copynumber: 2.3 Consensus size: 46
3802194 TATGACAAAA
3802204 GGGGAGAAATTTTTTTATAAAAGAGAGCCTTAATTATTTTATCAAT
1 GGGGAGAAATTTTTTTATAAAAGAGAGCCTTAATTATTTTATCAAT
3802250 GGGGAGAAATTTTTTTATAAAAGAGAGCCTTAATTATTTTATCAAT
1 GGGGAGAAATTTTTTTATAAAAGAGAGCCTTAATTATTTTATCAAT
3802296 GGGGAGAAATTTTTT
1 GGGGAGAAATTTTTT
3802311 AAGGGAGAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.39
Consensus pattern (46 bp):
GGGGAGAAATTTTTTTATAAAAGAGAGCCTTAATTATTTTATCAAT
Found at i:3808196 original size:10 final size:10
Alignment explanation
Indices: 3808181--3808207 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3808171 AGCCCACTCA
3808181 GTCACAATCG
1 GTCACAATCG
3808191 GTCACAATCG
1 GTCACAATCG
3808201 GTCACAA
1 GTCACAA
3808208 CTAGTTGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (10 bp):
GTCACAATCG
Found at i:3809507 original size:24 final size:25
Alignment explanation
Indices: 3809480--3809532 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
3809470 ACTTGAATTT
* *
3809480 CTTTGATGAATGAAAT-TATGTTTG
1 CTTTCATGAATGAAATGAATGTTTG
* *
3809504 CTTTCATGATTGTAATGAATGTTTG
1 CTTTCATGAATGAAATGAATGTTTG
3809529 CTTT
1 CTTT
3809533 ACTATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.49
Consensus pattern (25 bp):
CTTTCATGAATGAAATGAATGTTTG
Found at i:3809582 original size:38 final size:38
Alignment explanation
Indices: 3809505--3809582 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
3809495 TTATGTTTGC
* * * *
3809505 TTTCATGATTGTAATGAATGTTTGCTTTACTATTTTTT
1 TTTCATGAATGCAATGAATGTTTGCTTGACTATTATTT
*
3809543 TTTCATGAATGCAATTAATGTTTGCCTTGA-TATTATTT
1 TTTCATGAATGCAATGAATGTTTG-CTTGACTATTATTT
3809581 TT
1 TT
3809583 ATGAACGCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 30 0.88
39 4 0.12
ACGTcount: A:0.23, C:0.09, G:0.13, T:0.55
Consensus pattern (38 bp):
TTTCATGAATGCAATGAATGTTTGCTTGACTATTATTT
Found at i:3809675 original size:43 final size:42
Alignment explanation
Indices: 3809628--3809748 Score: 183
Period size: 43 Copynumber: 2.9 Consensus size: 42
3809618 GTATTGCTAT
3809628 AACAAAAAATGGGAGAAGTATTTTGAAAATAAATTTGGGGGAA
1 AACAAAAAA-GGGAGAAGTATTTTGAAAATAAATTTGGGGGAA
*
3809671 AACAAAAAGGGGGAGAAGTATTTTGAAAATAAATTTGGGGGAA
1 AACAAAAA-AGGGAGAAGTATTTTGAAAATAAATTTGGGGGAA
*
3809714 AACAAAAAGAGGGAGAAGTA-TTTG-CAATAAATTTG
1 AACAAAAA-AGGGAGAAGTATTTTGAAAATAAATTTG
3809749 TTTTAGAACT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 10 0.14
42 4 0.05
43 60 0.81
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.22
Consensus pattern (42 bp):
AACAAAAAAGGGAGAAGTATTTTGAAAATAAATTTGGGGGAA
Found at i:3811606 original size:22 final size:21
Alignment explanation
Indices: 3811555--3811606 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
3811545 CTTAGTTTTT
3811555 TCTTTTTCTTCTATTTTCTTC
1 TCTTTTTCTTCTATTTTCTTC
* *
3811576 TATTTTT-TCTCTCTTTTCTCTC
1 TCTTTTTCT-TCTATTTTCT-TC
3811598 TCTTCTTTC
1 TCTT-TTTC
3811607 AACTACACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.04
21 15 0.62
22 5 0.21
23 3 0.12
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (21 bp):
TCTTTTTCTTCTATTTTCTTC
Found at i:3812312 original size:166 final size:167
Alignment explanation
Indices: 3812105--3812479 Score: 424
Period size: 167 Copynumber: 2.3 Consensus size: 167
3812095 GTTCAATGAC
* * ** * * * * **
3812105 AATATTAGATGCATTTTAAAAATTTTAGACTAA-AGAAAATCCCCTCGAAAATATTTATGGAA-T
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGA-AAAATCCCCTCGAAAAAAATTA-CAAAGT
** * *
3812168 AGAAATCTTAGTTTTTCGGGAAAA-AGGGG-ATTTCAAA-GAAAAAAT-CTAAAACTCATGAAAA
64 AGAAAAATTAGTTTTT--GGAAAATAGGGGAATTT-AAAGGAAAAAATCCAAAAACTCAAGAAAA
** * *
3812229 TGAATTACTTTTTGAAAACTAATTTAATATAGAA-TAAATAAT
126 TGAAGGAATTTTTAAAAACTAATTTAATAT-GAATTAAATAAT
* *
3812271 GATATTTGAT-AAGTTTTAAAAATTAAAAACCAAGAAAAATCCCCTGGAAAAAAATTACAAAGTA
1 AATATTTGATGAA-TTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAAAGTA
*
3812335 GAAAAATTAGTTTTTTGAAAATAGGGGAATTTAAAGGAAAAAATCCAAAAACTCAAGAAAATGAA
65 GAAAAATTAGTTTTTGGAAAATAGGGGAATTTAAAGGAAAAAATCCAAAAACTCAAGAAAATGAA
*
3812400 GGAATTTTTAAAAACTAATTTAGTATGAATTAAATAAT
130 GGAATTTTTAAAAACTAATTTAATATGAATTAAATAAT
*
3812438 AATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCC
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC
3812480 TAAAAAAATA
Statistics
Matches: 176, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
164 5 0.03
165 11 0.06
166 73 0.41
167 85 0.48
168 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (167 bp):
AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAATTACAAAGTAG
AAAAATTAGTTTTTGGAAAATAGGGGAATTTAAAGGAAAAAATCCAAAAACTCAAGAAAATGAAG
GAATTTTTAAAAACTAATTTAATATGAATTAAATAAT
Found at i:3814199 original size:167 final size:167
Alignment explanation
Indices: 3814024--3814704 Score: 779
Period size: 168 Copynumber: 4.1 Consensus size: 167
3814014 TATTAGATTC
** * *
3814024 ATTTTAAAAATTTTAGACCAAAG-AAAATCCCCCCAAAAATATTTATGAAATAGAAAA-TTCGAT
1 ATTTTAAAAATTAAAAACCAAAGAAAAATCCCCCCAAAAA-ATTTATGGAATAGAAAACTTCG-T
* * * *
3814087 TTTTCAGGAAA-AGGAAAATTTCAAGGAAGAAATTCAAAAACTCATGAAAATGAATTAATTTTTG
64 ATTTC-GAAAATAGGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTG
3814151 AAAATTGATTTAATATGAAATAAATAATAATATTTGATGA
128 AAAATTGATTTAATATGAAATAAATAATAATATTTGATGA
* * *
3814191 ATTTTAAAAATTAAAAA-CAAAGAAAAATCCCTCCGAAAAAATTTACGGAATATAAAACTTCGTA
1 ATTTTAAAAATTAAAAACCAAAGAAAAATCCC-CCCAAAAAATTTATGGAATAGAAAACTTCGTA
* * * * * *
3814255 TTTTGAAAACATGAGAATTTCAATGAAAAAATTCAAAAACTTATGAAAATGAATGAATTTTTGAA
65 TTTCGAAAATAGGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAA
* * *
3814320 AAATGATTTAATATGAAATAAATAATAATATTTTATAA
130 AATTGATTTAATATGAAATAAATAATAATATTTGATGA
* * * * *** * * *
3814358 ATTTTAAAAATTAAAAAACTAAGGAACATCCTCTTGAAAAAATTTATGGAGTAGAAAATTTTGTA
1 ATTTTAAAAATTAAAAACCAAAGAAAAATCC-CCCCAAAAAATTTATGGAATAGAAAACTTCGTA
* * * *
3814423 TTTCGAAAATAGGAGAATTTCAAGGAAAAAATTTAAAAACTCATGAAAATGAATGCATTTTTTAA
65 TTTCGAAAATAGGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAA
* * * * *
3814488 AACTAATTTAATATGAAATAGATAAAAATATTTGATGG
130 AATTGATTTAATATGAAATAAATAATAATATTTGATGA
* * ** *
3814526 ATTTTAAAAATTAAAAACC-AAGAAAAATCCACACAAAAAATTT-T--TTTAGAAAACTCCGTAT
1 ATTTTAAAAATTAAAAACCAAAGAAAAATCCCCCCAAAAAATTTATGGAATAGAAAACTTCGTAT
* ** * *
3814587 TTCAAAAATAAAAAAATTTCAAGG-AAAAATTCAAAAGCTCATAAAAATGAATGAATTTTTGAAA
66 TTCGAAAATAGGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAA
* *
3814651 ATTGAATTAATAT-AAATTAAATAATAATATTTAATGA
131 ATTGATTTAATATGAAA-TAAATAATAATATTTGATGA
3814688 ATTTTAAAAATTAAAAA
1 ATTTTAAAAATTAAAAA
3814705 TTGATGAAAA
Statistics
Matches: 435, Mismatches: 72, Indels: 19
0.83 0.14 0.04
Matches are distributed among these distances:
161 3 0.01
162 78 0.18
163 32 0.07
165 1 0.00
166 18 0.04
167 150 0.34
168 152 0.35
169 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (167 bp):
ATTTTAAAAATTAAAAACCAAAGAAAAATCCCCCCAAAAAATTTATGGAATAGAAAACTTCGTAT
TTCGAAAATAGGAAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAA
ATTGATTTAATATGAAATAAATAATAATATTTGATGA
Found at i:3814499 original size:168 final size:167
Alignment explanation
Indices: 3814098--3814858 Score: 738
Period size: 168 Copynumber: 4.6 Consensus size: 167
3814088 TTTCAGGAAA
* * * *
3814098 AGGAAAATTTCAAGGAAGAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAATTGATTTA
1 AGGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATTAATTTA
* *
3814163 ATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACAAAGAAAAATCC-CTCCGA
66 ATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCT-TGA
* * * * *
3814227 AAAAATTTACGGAATATAAAACTTCGTATTTTGAAAAC
130 AAAAATTTACGGAGTAGAAAACTCCGTATTTCGAAAAT
* * * * *
3814265 ATGAGAATTTCAATGAAAAAATTCAAAAACTTATGAAAATGAATGAATTTTTGAAAAATGATTTA
1 AGGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATTAATTTA
* * * *
3814330 ATATGAAATAAATAATAATATTTTATAAATTTTAAAAATTAAAAAACTAAGGAACATCCTCTTGA
66 ATATGAAATAAATAATAATATTTGATGAATTTTAAAAATT-AAAAACTAAGAAAAATCCTCTTGA
* * **
3814395 AAAAATTTATGGAGTAGAAAATTTTGTATTTCGAAAAT
130 AAAAATTTACGGAGTAGAAAACTCCGTATTTCGAAAAT
* * * *
3814433 AGGAGAATTTCAAGGAAAAAATTTAAAAACTCATGAAAATGAATGCATTTTTTAAAACTAATTTA
1 AGGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATTAATTTA
* * * * * **
3814498 ATATGAAATAGATAAAAATATTTGATGGATTTTAAAAATTAAAAACCAAGAAAAATCCAC-ACAA
66 ATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTTGAA
*** *
3814562 AAAATTT---TTTTAGAAAACTCCGTATTTCAAAAAT
131 AAAATTTACGGAGTAGAAAACTCCGTATTTCGAAAAT
** * * *
3814596 AAAAAAATTTCAAGG-AAAAATTCAAAAGCTCATAAAAATGAATGAATTTTTGAAAATTGAA-TT
1 AGGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATT-AATTT
* * * *
3814659 AATAT-AAATTAAATAATAATATTTAATGAATTTTAAAAATTAAAAATTGATG-AAAATCCTTTT
65 AATATGAAA-TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACT-AAGAAAAATCCTCTT
* * * * * * **
3814722 GAAAAAAATTACGAAGAAGAAAATTCTGTATTTAAGAAAGG
128 GAAAAAATTTACGGAGTAGAAAACTCCGTATTT-CGAAAAT
* * * * * * * *
3814763 AGGCGAATTCCAAGGAAAAAA--GAAAAA-TGAATAAAAATGAATGAATTTTTCAAAACTGATTT
1 AGGAGAATTTCAAGGAAAAAATTCAAAAACT-CATGAAAATGAATGAATTTTTGAAAATTAATTT
* ** * *
3814825 GATGGGAATTAAA-AGATAATATTTGAAGAATTTT
65 AATATGAAATAAATA-ATAATATTTGATGAATTTT
3814859 GATGTATGAA
Statistics
Matches: 485, Mismatches: 94, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
161 3 0.01
162 84 0.17
163 44 0.09
165 3 0.01
166 77 0.16
167 127 0.26
168 145 0.30
169 2 0.00
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (167 bp):
AGGAGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATTAATTTA
ATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTTGAA
AAAATTTACGGAGTAGAAAACTCCGTATTTCGAAAAT
Found at i:3815866 original size:42 final size:42
Alignment explanation
Indices: 3815790--3815899 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
3815780 CAGTTAGGTC
* * * * *
3815790 AACAAACGATAAAGAAATCTCCCAAGTCTAAGCCAACAGGCTG
1 AACAAAAGATAAAGAAGTCTCCTAGGTATAAGCCAACAGGC-G
* * **
3815833 -ACAAATGATAAAGAAGTCTCCTAGGTATGAGCCAATGGGCG
1 AACAAAAGATAAAGAAGTCTCCTAGGTATAAGCCAACAGGCG
*
3815874 AAAAAAAGATAAAGAAGTCTCCTAGG
1 AACAAAAGATAAAGAAGTCTCCTAGG
3815900 CCATGAAGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (42 bp):
AACAAAAGATAAAGAAGTCTCCTAGGTATAAGCCAACAGGCG
Found at i:3816369 original size:24 final size:23
Alignment explanation
Indices: 3816325--3816370 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3816315 TTTATTCCTT
* * *
3816325 TTTCTTTTTACTTTTTGGATTTC
1 TTTCTTTTTAATTATTAGATTTC
3816348 TTTCTTTTTAATTAATTAGATTT
1 TTTCTTTTTAATT-ATTAGATTT
3816371 GATTGAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.17, C:0.09, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTCTTTTTAATTATTAGATTTC
Found at i:3817112 original size:165 final size:165
Alignment explanation
Indices: 3816914--3817277 Score: 391
Period size: 166 Copynumber: 2.2 Consensus size: 165
3816904 TAGACTAAAG
* * * * *
3816914 AAAATCCCCTCGAAAATATTTATGGA-AAGAAAACTC-AT-TTTTCGGGAAA-AGAAA-AATTTC
1 AAAATCCCCTTGAAAA-ATTTACGGAGTAGAAAACTCTATATTTT--GAAAACAAAAAGAATTTC
* ** * * *
3816974 AAAGAAAAAATCCAAAACTCATGAAAATGAATTAAATTTTTAAAACTGAT-TTATCATGAATTAT
63 -AAGAAAAAATCAAAAACTCATGAAAATGAAGGAAATTTTTAAAACTGATATAAT-ATGAATCAA
*
3817038 ATAATGATATTTGATA-AATTTTAAAAATTAAAAACCAAGA
126 ATAATAATATTTGA-AGAATTTTAAAAATTAAAAACCAAGA
3817078 AAAATCCCCTTGAAAACATTTACGGAGTAGAAAACTCTATATTTTGAAAACAAAAAGAATTTCAA
1 AAAATCCCCTTGAAAA-ATTTACGGAGTAGAAAACTCTATATTTTGAAAACAAAAAGAATTTCAA
* ** * * * * *
3817143 GGAAAAATCAAAAACTCATGAATGTGAAGGAATTTTTTGAAACTGATATAATGTGGATCAAATGA
65 GAAAAAATCAAAAACTCATGAAAATGAAGGAAATTTTTAAAACTGATATAATATGAATCAAATAA
* *
3817208 TAATATTTGAAGAATTTTAAAAATTATAAATCAAGA
130 TAATATTTGAAGAATTTTAAAAATTAAAAACCAAGA
* * *
3817244 AAAATCCCCCTGAAAAAATTACGAAGTAGAAAAC
1 AAAATCCCCTTGAAAAATTTACGGAGTAGAAAAC
3817278 AATGTATTGC
Statistics
Matches: 167, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
164 23 0.14
165 30 0.18
166 101 0.60
167 13 0.08
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (165 bp):
AAAATCCCCTTGAAAAATTTACGGAGTAGAAAACTCTATATTTTGAAAACAAAAAGAATTTCAAG
AAAAAATCAAAAACTCATGAAAATGAAGGAAATTTTTAAAACTGATATAATATGAATCAAATAAT
AATATTTGAAGAATTTTAAAAATTAAAAACCAAGA
Found at i:3817372 original size:155 final size:156
Alignment explanation
Indices: 3816997--3817418 Score: 390
Period size: 155 Copynumber: 2.6 Consensus size: 156
3816987 AAAACTCATG
* * * * *
3816997 AAAATGAATTAAATTTTTAAAACTGATTT-ATCATGAATTATATAATGATATTTGATA-AATTTT
1 AAAATGAA-TGAATTTTTGAAACTGATTTAAT-ATGAAATAAATAATAATATTTGA-AGAATTTT
* * * * ** **
3817060 AAAAATTAAAAACCAAGAAAAATCCCCTTGAAAACATTTACGGAGTAGAAAACTCTATATTTTGA
63 AAAAATTATAAACCAAGAAAAATCCCCCTGAAAA-AATTACGAAGTAGAAAACAATATATTGCGA
3817125 AAACAAAAAGAATTTCAAGGAAAAATCAAAA
127 AAACAAAAAGAATTTCAAGGAAAAA-CAAAA
* * * * *
3817156 ACTCATGAATGTGAAGGAATTTTTTGAAACTGATATAATGTG-GATCAAATGATAATATTTGAAG
1 A---A--AA--TGAATGAA-TTTTTGAAACTGATTTAATATGAAAT-AAATAATAATATTTGAAG
* *
3817220 AATTTTAAAAATTATAAATCAAGAAAAATCCCCCTGAAAAAATTACGAAGTAGAAAACAATGTAT
57 AATTTTAAAAATTATAAACCAAGAAAAATCCCCCTGAAAAAATTACGAAGTAGAAAACAATATAT
* *
3817285 TGCG-AAA-AAAGAGAATTTTAAGGAAAAA-AATAA
122 TGCGAAAACAAAAAGAATTTCAAGGAAAAACAA-AA
* * *
3817318 AAAATGAATGAATTTTTGACAACGGATTTAATATGAAATAAATAATAATATTTGATGAATTTTTA
1 AAAATGAATGAATTTTTGA-AACTGATTTAATATGAAATAAATAATAATATTTGAAGAATTTTAA
* * *
3817383 AAATTTTAAACCCATG-AAAATCCTCCTGAAAAAATT
65 AAATTATAAA-CCAAGAAAAATCCCCCTGAAAAAATT
3817419 TGGGGAGAAA
Statistics
Matches: 214, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
154 7 0.03
155 70 0.33
156 5 0.02
157 2 0.01
159 2 0.01
161 2 0.01
162 4 0.02
163 19 0.09
164 5 0.02
165 26 0.12
166 70 0.33
167 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (156 bp):
AAAATGAATGAATTTTTGAAACTGATTTAATATGAAATAAATAATAATATTTGAAGAATTTTAAA
AATTATAAACCAAGAAAAATCCCCCTGAAAAAATTACGAAGTAGAAAACAATATATTGCGAAAAC
AAAAAGAATTTCAAGGAAAAACAAAA
Found at i:3819041 original size:42 final size:42
Alignment explanation
Indices: 3819008--3819236 Score: 123
Period size: 42 Copynumber: 5.4 Consensus size: 42
3818998 AAAGGATGGG
*
3819008 GGGTTTACCGAGGACTAAGCTGACAAGTAAACAAGAGATGAA
1 GGGTTGACCGAGGACTAAGCTGACAAGTAAACAAGAGATGAA
** * * * *
3819050 GGGTTGACCGAGGACTAAATTGATAGGTCACCATA-A-ATGTTAA
1 GGGTTGACCGAGGACTAAGCTGACAAGTAAACA-AGAGATG--AA
* * * *
3819093 GGGTTTACCGAGGACTGAGCCGACAAGTAAATAA-AGGATGAA
1 GGGTTGACCGAGGACTAAGCTGACAAGTAAACAAGA-GATGAA
* * * * * * *
3819135 -AGTTGACC-AGAGATTAAGTTAACAAGTCACCATATG-GGT-AA
1 GGGTTGACCGAG-GACTAAGCTGACAAGTAAACA-A-GAGATGAA
* * * *
3819176 TAGGTTTACCGAGGACTAAGCTAACTAGTAAACAATG-GATGAA
1 -GGGTTGACCGAGGACTAAGCTGACAAGTAAACAA-GAGATGAA
3819219 GGGTTGACCGAGGACTAA
1 GGGTTGACCGAGGACTAA
3819237 ACCGATGGTC
Statistics
Matches: 136, Mismatches: 38, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
40 2 0.01
41 24 0.18
42 55 0.40
43 50 0.37
44 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (42 bp):
GGGTTGACCGAGGACTAAGCTGACAAGTAAACAAGAGATGAA
Found at i:3819225 original size:169 final size:167
Alignment explanation
Indices: 3819009--3819330 Score: 454
Period size: 169 Copynumber: 1.9 Consensus size: 167
3818999 AAGGATGGGG
* **
3819009 GGTTTACCGAGGACTAAGCTGACAAGTAAACAAGAGATGAAGGGTTGACCGAGGACTAAATTGAT
1 GGTTTACCGAGGACTAAGCTAACAAGTAAACAAGAGATGAAGGGTTGACCGAGGACTAAACCGAT
* * *
3819074 AGGTCACCAT-AAATGTTAAGGGTTTA-CCGAGGACTGAGCCGACAAGTAAATAAAGGATGAAA-
66 -GGTCA-C-TGAAAGGATAAGGGTTTACCCGACGACTGAGCCGACAAGTAAATAAAGGAT-AAAG
* *
3819136 GTTGACCAGAGATTAAGTTAACAAGTCACCATATGGGTAATA
127 GTTGACCAGAGACTAAGCTAAC-AGTCACCATATGGGTAATA
*
3819178 GGTTTACCGAGGACTAAGCTAACTAGTAAACAATG-GATGAAGGGTTGACCGAGGACTAAACCGA
1 GGTTTACCGAGGACTAAGCTAACAAGTAAACAA-GAGATGAAGGGTTGACCGAGGACTAAACCGA
* *
3819242 TGGTCACTGAAGGGATAAGGGTTTACCCGACGACTGAGCCGACAGGTAAATAAAGGATAAAGGTT
65 TGGTCACTGAAAGGATAAGGGTTTACCCGACGACTGAGCCGACAAGTAAATAAAGGATAAAGGTT
*
3819307 GACTAGAGACTAAGCTAACAGTCA
130 GACCAGAGACTAAGCTAACAGTCA
3819331 ACAAAGGATG
Statistics
Matches: 137, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
166 1 0.01
167 22 0.16
168 54 0.39
169 59 0.43
170 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (167 bp):
GGTTTACCGAGGACTAAGCTAACAAGTAAACAAGAGATGAAGGGTTGACCGAGGACTAAACCGAT
GGTCACTGAAAGGATAAGGGTTTACCCGACGACTGAGCCGACAAGTAAATAAAGGATAAAGGTTG
ACCAGAGACTAAGCTAACAGTCACCATATGGGTAATA
Found at i:3819248 original size:84 final size:82
Alignment explanation
Indices: 3819009--3819248 Score: 229
Period size: 84 Copynumber: 2.9 Consensus size: 82
3818999 AAGGATGGGG
**
3819009 GGTTTACCGAGGACTAAGCTGACAAGTAAACAAGAGATGAAGGGTTGACCGAGGACTAAATTGAT
1 GGTTTACCGAGGACTAAGCTGACAAGTAAACAAG-GATGAAGGGTTGACCGAGGACTAAAACGAT
* *
3819074 AGGTCACCATAAATGTTAAG
65 -GGTCACCAT-AATGGTAAA
* * * * *
3819094 GGTTTACCGAGGACTGAGCCGACAAGTAAATAAAGGATGAA-AGTTGACC-AGAGATTAAGTTAA
1 GGTTTACCGAGGACTAAGCTGACAAGTAAA-CAAGGATGAAGGGTTGACCGAG-GACTAA---AA
*
3819157 C-A-AGTCACCAT-ATGGGTAATA
61 CGATGGTCACCATAAT-GGTAA-A
* * *
3819178 GGTTTACCGAGGACTAAGCTAACTAGTAAACAATGGATGAAGGGTTGACCGAGGACTAAACCGAT
1 GGTTTACCGAGGACTAAGCTGACAAGTAAACAA-GGATGAAGGGTTGACCGAGGACTAAAACGAT
3819243 GGTCAC
65 GGTCAC
3819249 TGAAGGGATA
Statistics
Matches: 124, Mismatches: 19, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
82 4 0.03
83 9 0.07
84 58 0.47
85 46 0.37
86 6 0.05
87 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (82 bp):
GGTTTACCGAGGACTAAGCTGACAAGTAAACAAGGATGAAGGGTTGACCGAGGACTAAAACGATG
GTCACCATAATGGTAAA
Found at i:3819459 original size:42 final size:41
Alignment explanation
Indices: 3819369--3819460 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 41
3819359 GAGCCAATAG
* *
3819369 GTAAACAAGGGATAAAGGTTGACCGAAGATTGAGCTGACAG
1 GTAAACAAGGGATAAAGGTTGACCGAAGACTGAGCTGACAA
* * *
3819410 GTCAACAATGGATCAAAGGTTTACC-AAGGACTGAGAC-GACAA
1 GTAAACAAGGGAT-AAAGGTTGACCGAA-GACTGAG-CTGACAA
3819452 GTAAACAAG
1 GTAAACAAG
3819461 TGATGACGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
41 13 0.32
42 27 0.66
43 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.27, T:0.16
Consensus pattern (41 bp):
GTAAACAAGGGATAAAGGTTGACCGAAGACTGAGCTGACAA
Found at i:3819541 original size:250 final size:252
Alignment explanation
Indices: 3819093--3819646 Score: 592
Period size: 250 Copynumber: 2.2 Consensus size: 252
3819083 TAAATGTTAA
* * * * *
3819093 GGGTTTACCGAGGACTGAGCCGACAAGTAAATAAAGGATGAAA-GTTGACC-AGAGATTAAGTTA
1 GGGTTTACCGGGGACTGAGCCGATAAGTAAACAAGGGATGAAAGGTTGACCGAGAGATTAAGCTA
* * * *
3819156 ACAAGTCACCATATGGGTAATAGGTTTACCGAGGACTAAGCTAACTAGTAAACAATGGATGAAGG
66 ACAAGTCAACATATGGATAATAGGTTTACCAAGGACTAAGCTAACAAGTAAACAATGGATGAAGG
* * * *
3819221 GTTGACCGAGGACTAAACCGATGGTCACTGAAGGGATAAGGGTTTACCCGACGACTGAGCCGACA
131 GTTGACCGAGGACTAAACCGATGGTCACTCAAGGGAAAAGAGTTTACCCAACGACTGAGCCGACA
* *
3819286 GGTAAATAAAGGATAAAGGTTGACTAG-AGACTAAGCTAACA-GTCAACAAAGGATGGG
196 GGTAAACAAAGGATAAAGGTTGAC-AGAAGACTAAGCTAACAGGTCAA-AAAGGATGAG
* * * *
3819343 GGGTTTACCGGGGACTGAGCCAATAGGTAAACAAGGGAT-AAAGGTTGACCGA-AGATTGAGCTG
1 GGGTTTACCGGGGACTGAGCCGATAAGTAAACAAGGGATGAAAGGTTGACCGAGAGATTAAGCTA
* * *
3819406 ACAGGTCAACA-ATGGATCAA-AGGTTTACCAAGGACTGAGAC-GACAAGTAAACAA-GTGATGA
66 ACAAGTCAACATATGGAT-AATAGGTTTACCAAGGACTAAG-CTAACAAGTAAACAATG-GATGA
* * * * *
3819467 CGGGTTGATCGGGGACTAAATCGATAGGTCAC-CAACGGGGAAAAGAGTTTA-CCAAGGACTGAG
128 AGGGTTGACCGAGGACTAAACCGAT-GGTCACTCAA--GGGAAAAGAGTTTACCCAACGACTGAG
** * * * * * * *
3819530 TTGATAGGTAAACAAAGGATAAAGGTTGACCGAAGACTGAGTTGATAGGTCAAAAAGGATGAT
190 CCGACAGGTAAACAAAGGATAAAGGTTGACAGAAGACTAAGCTAACAGGTCAAAAAGGATGAG
* * **
3819593 GGGTTTACGGGGGACTAAGCCGATAAGTAAACAAGGGATGACGGGTTGACCGAG
1 GGGTTTACCGGGGACTGAGCCGATAAGTAAACAAGGGATGAAAGGTTGACCGAG
3819647 GACTATGCCG
Statistics
Matches: 250, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
248 1 0.00
249 65 0.26
250 155 0.62
251 29 0.12
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (252 bp):
GGGTTTACCGGGGACTGAGCCGATAAGTAAACAAGGGATGAAAGGTTGACCGAGAGATTAAGCTA
ACAAGTCAACATATGGATAATAGGTTTACCAAGGACTAAGCTAACAAGTAAACAATGGATGAAGG
GTTGACCGAGGACTAAACCGATGGTCACTCAAGGGAAAAGAGTTTACCCAACGACTGAGCCGACA
GGTAAACAAAGGATAAAGGTTGACAGAAGACTAAGCTAACAGGTCAAAAAGGATGAG
Found at i:3819710 original size:168 final size:168
Alignment explanation
Indices: 3819367--3819750 Score: 369
Period size: 167 Copynumber: 2.3 Consensus size: 168
3819357 CTGAGCCAAT
* * *
3819367 AGGTAAACAAGGGATAAAGGTTGACCGAAGATTGAGCTGACAGGTCAACAATGGATCAAAGGTTT
1 AGGTAAACAAAGGATAAAGGTTGACCGAAGACTGAGCTGACAGGTCAACAAAGGATCAAAGGTTT
* * * * *
3819432 ACCAAGGACTGAGACGACAAGTAAACAAGTGATGACGGGTTGATCGGGGACTAAATCGATAGGTC
66 ACCAAGGACTAAGACGACAAGTAAACAAGGGATGACGGGTTGACCGAGGACTAAACCGATAGGTC
** * ** *
3819497 ACCAACGGGGAAAAGAGTTTACCAAGGACTGAGTTGAT
131 ACCAAAAGGGAAAAGAGTTTACCAAGGACTAAGCCGAC
* * * **
3819535 AGGTAAACAAAGGATAAAGGTTGACCGAAGACTGAGTTGATAGGTCAA-AAAGGATGATGGGTTT
1 AGGTAAACAAAGGATAAAGGTTGACCGAAGACTGAGCTGACAGGTCAACAAAGGATCAAAGGTTT
*** * * **
3819599 ACGGGGGACTAAGCCGATAAGTAAACAAGGGATGACGGGTTGACCGAGGACTATGCCGATAGGTC
66 ACCAAGGACTAAGACGACAAGTAAACAAGGGATGACGGGTTGACCGAGGACTAAACCGATAGGTC
* * * ** *
3819664 ACCATAAA-TGTAAAGAGGTTTATCGGGGATTAAGCCGAC
131 ACCA-AAAGGGAAAAGA-GTTTACCAAGGACTAAGCCGAC
* * * * * *
3819703 GGGTAAACCATGAGATAAAGGATGACC-AGTGACTGAGCTGACAAGTCA
1 AGGTAAACAAAG-GATAAAGGTTGACCGA-AGACTGAGCTGACAGGTCA
3819751 CTAAAGGGAT
Statistics
Matches: 172, Mismatches: 40, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
167 75 0.44
168 69 0.40
169 28 0.16
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (168 bp):
AGGTAAACAAAGGATAAAGGTTGACCGAAGACTGAGCTGACAGGTCAACAAAGGATCAAAGGTTT
ACCAAGGACTAAGACGACAAGTAAACAAGGGATGACGGGTTGACCGAGGACTAAACCGATAGGTC
ACCAAAAGGGAAAAGAGTTTACCAAGGACTAAGCCGAC
Found at i:3819902 original size:40 final size:42
Alignment explanation
Indices: 3819829--3819929 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 42
3819819 CTGAGCCAAT
* * *
3819829 GGGCAGACAAAGAATGAAGAAGTCTTCCAGGTTTAAACTGAC
1 GGGCAAACAAAGAATGAAGAAGTCTCCCAGGTTTAAACCGAC
*
3819871 GGGCAAACAAA-AA-GAAGAAGTCTCCCGGGTTTAAACCGAC
1 GGGCAAACAAAGAATGAAGAAGTCTCCCAGGTTTAAACCGAC
*
3819911 GAGCAGAA-AAAGAGATGAA
1 GGGCA-AACAAAGA-ATGAA
3819930 AAGGTCCTCC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 31 0.62
41 5 0.10
42 11 0.22
43 3 0.06
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.14
Consensus pattern (42 bp):
GGGCAAACAAAGAATGAAGAAGTCTCCCAGGTTTAAACCGAC
Found at i:3820450 original size:78 final size:78
Alignment explanation
Indices: 3820365--3820720 Score: 371
Period size: 78 Copynumber: 4.6 Consensus size: 78
3820355 TTGGAAACAT
* ** * * * *
3820365 GTGGGAAGTGCCCCTCATGGCTGTGTGATACATTAAAACCATTTAGTATTTGAGACAGAAGGATA
1 GTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATACCATCTAGTATTTGAGAAAGAAGGATA
* *
3820430 TGACTAGAAGTGT
66 TGACTGGAAGTGA
* * * *
3820443 GTGGGAAGTGCCCTTCTTGGCCATGTGATGCATCAATATCATCTAGTATTT-AGGAAAGAGGGAT
1 GTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATACCATCTAGTATTTGA-GAAAGAAGGAT
*
3820507 ATGACTGGAAGCGA
65 ATGACTGGAAGTGA
* * * * *
3820521 GTGGGAGGTGCCCCTCTTGGCCATGTGATTCATCAATATCATCTAGTGTTTGAG-AATAAGAGAT
1 GTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATACCATCTAGTATTTGAGAAAGAAG-GAT
*
3820585 AAGACTGGAAGTGA
65 ATGACTGGAAGTGA
** * * * * * *
3820599 GTGGGAAGTTTCCCTCTTGGCCATGCGATACATCAATACCATTTAATGTTTAAGAAAGAGGGATA
1 GTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATACCATCTAGTATTTGAGAAAGAAGGATA
3820664 TGACTGGAA--GA
66 TGACTGGAAGTGA
* * *
3820675 GTGGGAAATGCCCCTCTTGGCCTTGTGATGCATCAATATCC-TCTAG
1 GTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATA-CCATCTAG
3820721 GGATTGGATG
Statistics
Matches: 231, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
76 37 0.16
77 7 0.03
78 182 0.79
79 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (78 bp):
GTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATACCATCTAGTATTTGAGAAAGAAGGATA
TGACTGGAAGTGA
Found at i:3820603 original size:156 final size:154
Alignment explanation
Indices: 3820339--3820720 Score: 428
Period size: 156 Copynumber: 2.5 Consensus size: 154
3820329 TTCGTGGTTC
* * * * ** * *
3820339 AAGAAA-AGGGATACGATTGGAAACATGTGGGAAGTGCCCCTCATGGCTGTGTGATACATTAAAA
1 AAGAAAGAGGGATATGACTGG-AAGA-GTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATA
* * * *
3820403 CCATTTAGTATTTGAGACAGAAGGATATGACTAGAAGTGTGTGGGAAG-TGCCCTTCTTGGCCAT
64 TCATCTAGTATTTGAGACAGAAGGATAAGACTAGAAGTGAGTGGGAAGTTGCCC-TCTTGGCCAT
* * * *
3820467 GTGATGCATCAATATCATCTAGTATTT
128 GCGATACATCAATACCATCTAATATTT
* * *
3820494 AGGAAAGAGGGATATGACTGGAAGCGAGTGGGAGGTGCCCCTCTTGGCCATGTGATTCATCAATA
1 AAGAAAGAGGGATATGACTGGAA--GAGTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATA
* * * *
3820559 TCATCTAGTGTTTGAGA-ATAAGAGATAAGACTGGAAGTGAGTGGGAAGTTTCCCTCTTGGCCAT
64 TCATCTAGTATTTGAGACAGAAG-GATAAGACTAGAAGTGAGTGGGAAGTTGCCCTCTTGGCCAT
* *
3820623 GCGATACATCAATACCATTTAATGTTT
128 GCGATACATCAATACCATCTAATATTT
* * *
3820650 AAGAAAGAGGGATATGACTGGAAGAGTGGGAAATGCCCCTCTTGGCCTTGTGATGCATCAATATC
1 AAGAAAGAGGGATATGACTGGAAGAGTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATATC
*
3820715 CTCTAG
66 ATCTAG
3820721 GGATTGGATG
Statistics
Matches: 191, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
154 43 0.23
155 11 0.06
156 132 0.69
157 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (154 bp):
AAGAAAGAGGGATATGACTGGAAGAGTGGGAAGTGCCCCTCTTGGCCATGTGATACATCAATATC
ATCTAGTATTTGAGACAGAAGGATAAGACTAGAAGTGAGTGGGAAGTTGCCCTCTTGGCCATGCG
ATACATCAATACCATCTAATATTT
Found at i:3824126 original size:51 final size:51
Alignment explanation
Indices: 3824064--3824209 Score: 231
Period size: 50 Copynumber: 2.9 Consensus size: 51
3824054 TTTTAACTAG
* * *
3824064 ATGTATTGATACATTGAAAAATGTATCAATACATCTGGGTAAAAAGATAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAA
* *
3824115 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGT-AAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAA
*
3824165 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
3824210 TGTGACTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.53
51 41 0.47
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.28
Consensus pattern (51 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAAA
Found at i:3824137 original size:20 final size:20
Alignment explanation
Indices: 3824112--3824198 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
3824102 GTAAAAAGAT
3824112 AAAATGTATCGATACATTAA
1 AAAATGTATCGATACATTAA
3824132 AAAATGTATCGATACATCTGGGTAAAA
1 AAAATGTATCGATACA--T---T--AA
*
3824159 GACAGAATGTATCGATACATTGA
1 -A-A-AATGTATCGATACATTAA
3824182 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
3824199 CTAGGTAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
20 31 0.55
21 1 0.02
22 2 0.04
23 1 0.02
25 2 0.04
27 2 0.04
28 2 0.04
29 1 0.02
30 14 0.25
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (20 bp):
AAAATGTATCGATACATTAA
Found at i:3825708 original size:89 final size:89
Alignment explanation
Indices: 3825554--3825755 Score: 210
Period size: 89 Copynumber: 2.3 Consensus size: 89
3825544 GAGGTAAATG
* * * * ** ** *
3825554 CAAATGACATCTAATGGTGTAGATGTACATGAAATGATGTAAATGCAAGTATCAGTAAAATGGCA
1 CAAATGTCATCTAA-AGTGTAGATGTACATGAAATAATGCAAATGCAAACATCAACAAAAGGGCA
* ** *
3825619 AATGCATA-TGAGATGGTGCAAATAC
65 AATGCATACGGA-ATAATCCAAATAC
** *
3825644 CAAATGTCATCTAAAGTGTAGATGTATGTGAAATAATGCAAATGCAAACATCAACAGAAGGGCAA
1 CAAATGTCATCTAAAGTGTAGATGTACATGAAATAATGCAAATGCAAACATCAACAAAAGGGCAA
3825709 ATGCATACGGAATAATCCAAATAC
66 ATGCATACGGAATAATCCAAATAC
* *
3825733 C-AATGTTATCTAAAATGTAGATG
1 CAAATGTCATCTAAAGTGTAGATG
3825756 CAAATGAATC
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
88 20 0.22
89 58 0.62
90 15 0.16
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (89 bp):
CAAATGTCATCTAAAGTGTAGATGTACATGAAATAATGCAAATGCAAACATCAACAAAAGGGCAA
ATGCATACGGAATAATCCAAATAC
Found at i:3826675 original size:13 final size:11
Alignment explanation
Indices: 3826641--3826671 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3826631 TCCATTTCTC
3826641 TTTTTTTCTTT
1 TTTTTTTCTTT
3826652 TTTTTTTCTTT
1 TTTTTTTCTTT
*
3826663 TTTTCTTCT
1 TTTTTTTCT
3826672 CTTTCACAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:3826920 original size:11 final size:10
Alignment explanation
Indices: 3826904--3826981 Score: 56
Period size: 11 Copynumber: 7.7 Consensus size: 10
3826894 TATTTTCTCA
3826904 TCTTTTTCTT
1 TCTTTTTCTT
3826914 TCATTTTTCTCTT
1 TC--TTTT-TCTT
*
3826927 TTTTTTTACTT
1 TCTTTTT-CTT
*
3826938 TCTTTTTCAT
1 TCTTTTTCTT
*
3826948 TCGATTTT-TT
1 TC-TTTTTCTT
3826958 TCTTTTTC-T
1 TCTTTTTCTT
3826967 T-TTTTT-TT
1 TCTTTTTCTT
3826975 TCTTTTT
1 TCTTTTT
3826982 TTGTTTTTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
8 7 0.13
9 11 0.20
10 10 0.19
11 17 0.31
12 4 0.07
13 5 0.09
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.78
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:3826956 original size:1 final size:1
Alignment explanation
Indices: 3826952--3827008 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
3826942 TTTCATTCGA
* * * * * * *
3826952 TTTTTTTCTTTTTCTTTTTTTTTTCTTTTTTTGTTTTTGTTTTTGTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3827009 GTTGTTGTTT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:3826961 original size:20 final size:17
Alignment explanation
Indices: 3826904--3826981 Score: 61
Period size: 17 Copynumber: 4.4 Consensus size: 17
3826894 TATTTTCTCA
*
3826904 TCTTTTTCTTTCATTTTTC
1 TCTTTTTC-TT-ATTTTTT
**
3826923 TCTTTTT-TT-TTACTT
1 TCTTTTTCTTATTTTTT
3826938 TCTTTTTCATTCGATTTTTT
1 TCTTTTTC-TT--ATTTTTT
*
3826958 TCTTTTTCTTTTTTTTT
1 TCTTTTTCTTATTTTTT
3826975 TCTTTTT
1 TCTTTTT
3826982 TTGTTTTTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
15 10 0.21
17 17 0.35
19 9 0.19
20 12 0.25
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.78
Consensus pattern (17 bp):
TCTTTTTCTTATTTTTT
Found at i:3826988 original size:6 final size:6
Alignment explanation
Indices: 3826954--3827021 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
3826944 TCATTCGATT
* * * *
3826954 TTTTTC TTTTTC TTTTTT TTTTCTT TTTTTG TTTTTG TTTTTG -TTTTG
1 TTTTTG TTTTTG TTTTTG TTTT-TG TTTTTG TTTTTG TTTTTG TTTTTG
*
3827002 TTTTT- TTGTTG TTGTTTG TT
1 TTTTTG TTTTTG TT-TTTG TT
3827022 ATTTAGAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
5 9 0.17
6 34 0.63
7 11 0.20
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:3827007 original size:19 final size:20
Alignment explanation
Indices: 3826966--3827018 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
3826956 TTTCTTTTTC
* *
3826966 TTTTT-TTTTTCTTTTTTTG
1 TTTTTGTTTTTGTTTTGTTG
3826985 TTTTTGTTTTTGTTTTGTT-
1 TTTTTGTTTTTGTTTTGTTG
*
3827004 TTTTTGTTGTTGTTT
1 TTTTTGTTTTTGTTT
3827019 GTTATTTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (20 bp):
TTTTTGTTTTTGTTTTGTTG
Found at i:3827009 original size:25 final size:25
Alignment explanation
Indices: 3826952--3827018 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
3826942 TTTCATTCGA
* * *
3826952 TTTTTTTCTTTTTCTTTTTTTTTTC
1 TTTTTTTGTTTTTGTTTTTGTTTTC
*
3826977 TTTTTTTGTTTTTGTTTTTGTTTTG
1 TTTTTTTGTTTTTGTTTTTGTTTTC
*
3827002 TTTTTTTGTTGTTGTTT
1 TTTTTTTGTTTTTGTTT
3827019 GTTATTTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.85
Consensus pattern (25 bp):
TTTTTTTGTTTTTGTTTTTGTTTTC
Found at i:3828468 original size:10 final size:10
Alignment explanation
Indices: 3828453--3828477 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3828443 GTGAATCCTC
3828453 TAAGGCACTA
1 TAAGGCACTA
3828463 TAAGGCACTA
1 TAAGGCACTA
3828473 TAAGG
1 TAAGG
3828478 AAAATGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (10 bp):
TAAGGCACTA
Found at i:3830719 original size:13 final size:13
Alignment explanation
Indices: 3830701--3830725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3830691 CATAAAGTGT
3830701 TGTATCGATACAA
1 TGTATCGATACAA
3830714 TGTATCGATACA
1 TGTATCGATACA
3830726 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3830719 original size:33 final size:33
Alignment explanation
Indices: 3830681--3830747 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3830671 GTCAACAATT
3830681 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
3830714 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3830747 T
1 T
3830748 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3830806 original size:13 final size:13
Alignment explanation
Indices: 3830788--3830812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3830778 ATCACTTAAA
3830788 TGTATCGATACAT
1 TGTATCGATACAT
3830801 TGTATCGATACA
1 TGTATCGATACA
3830813 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3830950 original size:52 final size:52
Alignment explanation
Indices: 3830801--3830951 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 52
3830791 ATCGATACAT
** *
3830801 TGTATCGATACACTGA-TCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTCAATGTATCGATACATGCAGGCAAATTTTCCCAGA
* **
3830853 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTCCCAGA
3830905 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTC
3830952 ATATTTCGGG
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 1 0.01
52 88 0.99
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (52 bp):
TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTTTCCCAGA
Found at i:3834386 original size:156 final size:154
Alignment explanation
Indices: 3834108--3834895 Score: 559
Period size: 155 Copynumber: 5.1 Consensus size: 154
3834098 AAGTTCAAGG
* * * ** * ** * * *
3834108 AAAATTACGAAAAT-GCCTCTAGGAGATACCTTCGACGTTGAAGTACTTGATACCCCTAAAAGAC
1 AAAATTACCAAAATACCCT-TAGGAGATATCTTCGACGTAAAAGTGCCAGATATCCCTAAAGGAT
* * * * * *
3834172 TTAAAAAGGATTATAGA-TGGGACGAACCTATCCTAAATACCCCCTTTCAGCATAAAAGCGGACC
65 TTAAAAAGAATTACA-ACTGGGATGGACCTATCCTAAATACCACC-TTCGGCATAAAAGCGGACC
*
3834236 CGGTGACAACCTTGGAGTTGATTCTAA
128 TGGTGACAACCTTGGAGTTGATTCTAA
* ** * * *
3834263 AAAAATACCAAAATACCCTTATAAGATATCTTCGACGTAAAAGTGCCAGATATTCCTAACGGTTT
1 AAAATTACCAAAATACCCTTAGGAGATATCTTCGACGTAAAAGTGCCAGATATCCCTAAAGGATT
* * *
3834328 TAAAAAGGATTACAATCTGTGATGGACCTATCCTAAATACTCACCTTCGGCATAAAAGCAGACCT
66 TAAAAAGAATTACAA-CTGGGATGGACCTATCCTAAATAC-CACCTTCGGCATAAAAGCGGACCT
** * **
3834393 AATGACGACCTAAGAGTT-ATT-TCAA
129 GGTGACAACCTTGGAGTTGATTCT-AA
* * * * * * * * * * *
3834418 AAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCTGATACCCCTAAAAGACT
1 AAAATTACCAAAATACCCTTAGGAGATATCTTCGACGTAAAAGTGCCAGATATCCCTAAAGGATT
* ** * *
3834483 TAAAAAGAATTATAGA-TGGGATAAACCTATCCTAAATACCTACCTTCGACATAAAAGTGGACCT
66 TAAAAAGAATTACA-ACTGGGATGGACCTATCCTAAATACC-ACCTTCGGCATAAAAGCGGACCT
* * *
3834547 GGTGACAA-CTTAGGACTCGATTCTAG
129 GGTGACAACCTT-GGAGTTGATTCTAA
*
3834573 AAAATTACCAAAATA-CCTCTAGGAGATATCTTCGACATAAAAGTGCCCA-ATATCCCTAAAGGA
1 AAAATTACCAAAATACCCT-TAGGAGATATCTTCGACGTAAAAGTG-CCAGATATCCCTAAAGGA
* **
3834636 TTTAAAAAGCATTACAAACTGGGATGGACCTATCCTAAAT---ACC--CAACATAAAAGCGGACC
64 TTTAAAAAGAATTAC-AACTGGGATGGACCTATCCTAAATACCACCTTCGGCATAAAAGCGGACC
* * * **
3834696 TGGTGACGACCTAGGAGTTGGTTCTGG
128 TGGTGACAACCTTGGAGTTGATTCTAA
* * * * * * *
3834723 AAAATTACGAAAATGA-CCTCAAGG-GATACCTTCGACGTAGAAAAAT--CTGATACCCCTATAG
1 AAAATTACCAAAAT-ACCCT-TAGGAGATATCTTCGACGT--AAAAGTGCCAGATATCCCTAAAG
* * * * * * *
3834784 AACTTAAAAAGAATTATAGA-TGGGATGAACCTAACCTAAATACCCACCTTTGGCATAAAAACGG
62 GATTTAAAAAGAATTACA-ACTGGGATGGACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGG
* ** ** * *
3834848 ACCTAGTGATGACCGAGGAATTGGTTCTAA
125 ACCTGGTGACAACCTTGGAGTTGATTCTAA
3834878 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
3834896 CAATGGGTAT
Statistics
Matches: 494, Mismatches: 112, Indels: 54
0.75 0.17 0.08
Matches are distributed among these distances:
149 21 0.04
150 82 0.17
151 10 0.02
152 8 0.02
153 6 0.01
154 53 0.11
155 234 0.47
156 77 0.16
157 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (154 bp):
AAAATTACCAAAATACCCTTAGGAGATATCTTCGACGTAAAAGTGCCAGATATCCCTAAAGGATT
TAAAAAGAATTACAACTGGGATGGACCTATCCTAAATACCACCTTCGGCATAAAAGCGGACCTGG
TGACAACCTTGGAGTTGATTCTAA
Found at i:3834670 original size:310 final size:304
Alignment explanation
Indices: 3834108--3834895 Score: 942
Period size: 310 Copynumber: 2.6 Consensus size: 304
3834098 AAGTTCAAGG
* * * *
3834108 AAAATTACGAAAATGCCTCTAGGAGATACCTTCGACGTTGAAGTACTTGATACCCCTAAAAGACT
1 AAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCTGATACCCCTAAAAGACT
* * * *
3834173 TAAAAAGGATTATAGATGGGACGAACCTATCCTAAATACCCCCTTTC-AGCATAAAAGCGGACCC
66 TAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACCACC-TTCGA-CATAAAAGCGGACCT
* * * *
3834237 GGTGACAACCTT-GGAGTTGATTCTAAAAAAATACCAAAATACCCTTATAAGATATCTTCGACGT
129 GGTGACAA-CTTAGGAATTGATTCTAAAAAATTACCAAAATACCCTTAGAAGATATCTTCGACAT
* * * * * *
3834301 AAAAGTGCCAGATATTCCTAACGGTTTTAAAAAGGATTACAATCTGTGATGGACCTATCCTAAAT
193 AAAAGTGCCAGATATCCCTAAAGGATTTAAAAAGCATTACAAACTGGGATGGACCTATCCT-AA-
** *
3834366 ACTCACCTTCGGCATAAAAGCAGACCTAATGACGACCTAAGAGTTATTTC-AA
256 A-T-ACC--CAACATAAAAGCAGACCTAATGACGACCTAAGAGTTAGTTCTAA
3834418 AAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCTGATACCCCTAAAAGACT
1 AAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCTGATACCCCTAAAAGACT
* *
3834483 TAAAAAGAATTATAGATGGGATAAACCTATCCTAAATACCTACCTTCGACATAAAAGTGGACCTG
66 TAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACC-ACCTTCGACATAAAAGCGGACCTG
* * * *
3834548 GTGACAACTTAGGACTCGATTCTAGAAAATTACCAAAATA-CCTCTAGGAGATATCTTCGACATA
130 GTGACAACTTAGGAATTGATTCTAAAAAATTACCAAAATACCCT-TAGAAGATATCTTCGACATA
3834612 AAAGTGCCCA-ATATCCCTAAAGGATTTAAAAAGCATTACAAACTGGGATGGACCTATCCTAAAT
194 AAAGTG-CCAGATATCCCTAAAGGATTTAAAAAGCATTACAAACTGGGATGGACCTATCCTAAAT
* ** * * **
3834676 ACCCAACATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGTTCTGG
258 ACCCAACATAAAAGCAGACCTAATGACGACCTAAGAGTTAGTTCTAA
* * ** * *
3834723 AAAATTACGAAAATG-ACCTCAAGGGATACCTTCGACGTAGAAAAATCTGATACCCCT-ATAGAA
1 AAAATTACGAAAATGCCCCT-AGGGGATACCTTCGACGTAGAAGTACCTGATACCCCTAAAAG-A
* * * *
3834786 CTTAAAAAGAATTATAGATGGGATGAACCTAACCTAAATACCCACCTTTGGCATAAAAACGGACC
64 CTTAAAAAGAATTATAGATGGGATGAACCTATCCTAAATA-CCACCTTCGACATAAAAGCGGACC
* ** ** *
3834851 TAGTGATGACCGAGGAATTGGTTCTAAAAAATTACCAAAATACCC
128 TGGTGACAACTTAGGAATTGATTCTAAAAAATTACCAAAATACCC
3834896 CAATGGGTAT
Statistics
Matches: 414, Mismatches: 54, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
304 39 0.09
305 138 0.33
306 7 0.02
307 1 0.00
308 1 0.00
309 8 0.02
310 214 0.52
311 6 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (304 bp):
AAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAGAAGTACCTGATACCCCTAAAAGACT
TAAAAAGAATTATAGATGGGATGAACCTATCCTAAATACCACCTTCGACATAAAAGCGGACCTGG
TGACAACTTAGGAATTGATTCTAAAAAATTACCAAAATACCCTTAGAAGATATCTTCGACATAAA
AGTGCCAGATATCCCTAAAGGATTTAAAAAGCATTACAAACTGGGATGGACCTATCCTAAATACC
CAACATAAAAGCAGACCTAATGACGACCTAAGAGTTAGTTCTAA
Found at i:3836556 original size:19 final size:20
Alignment explanation
Indices: 3836534--3836588 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
3836524 TTTTTTTCCA
3836534 TCCTTTTTTCATTTTTTA-T
1 TCCTTTTTTCATTTTTTATT
**
3836553 TCCTTTTTCTTTTTTTTTATT
1 TCCTTTTT-TCATTTTTTATT
*
3836574 TCTTTCTTTTCATTT
1 TCCTT-TTTTCATTT
3836589 AATTGGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 8 0.29
20 8 0.29
21 9 0.32
22 3 0.11
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (20 bp):
TCCTTTTTTCATTTTTTATT
Found at i:3836560 original size:20 final size:20
Alignment explanation
Indices: 3836537--3836588 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
3836527 TTTTCCATCC
3836537 TTTTTTCATTTTTTATTCCT
1 TTTTTTCATTTTTTATTCCT
* *
3836557 TTTTCTT-TTTTTTTATTTCT
1 TTTT-TTCATTTTTTATTCCT
3836577 TTCTTTTCATTT
1 TT-TTTTCATTT
3836589 AATTGGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTCATTTTTTATTCCT
Found at i:3837326 original size:166 final size:165
Alignment explanation
Indices: 3836921--3837856 Score: 529
Period size: 166 Copynumber: 5.6 Consensus size: 165
3836911 AATAAATTAA
* * *
3836921 AATTTTCAAAACTGATTTAATGAAAATTAAATAACAATATTAGATGAATTTTAAAAATTTTAAAT
1 AATTTTCAAAACTGATTTAATGAAAATTAAATAATAATATTAGATGAATTTTAAAAATTATAAAC
* ** * * * * *
3836986 CAAGAAAAATCCTCCTAAAAATATTTACT-GAGTAGAATATTTGATTTTTC-AAGAAAATAGGCA
66 CAAGAAAAATCCCCCCGAAAATATTTA-TGGAGTAGAAAACTCGATTTTTCGAA-AAAAAAGGAA
*
3837049 TTTCAAGGAAAAAAATTAAAAACTCATGAAAATGATTT
129 TTTCAAGG-AAAAAATTAAAAACTCATGAAAATGAATT
* ** ** * * * * * * *
3837087 AAATTTTCAAAACTGATTT-ATGAGAATTCCACGACACTGTTAGAT-ACGTTTAAAAAATTTTAT
1 -AATTTTCAAAACTGATTTAATGAAAATTAAATAATAATATTAGATGA-ATTTTAAAAATTATAA
*
3837150 ACCAA-AGAAAATCCCCCC-AAAATTATTTATGGAATAGAAAACTCGATTTTTCGAAAAAAAAGG
64 ACCAAGA-AAAATCCCCCCGAAAA-TATTTATGGAGTAGAAAACTCGATTTTTCGAAAAAAAAGG
* * *
3837213 GATTTCAAAGAAAAGAATTCAAAACTCATGAAAATGAATT
127 AATTTCAAGGAAAA-AATTAAAAACTCATGAAAATGAATT
* * * * *
3837253 ACATTTTCGAAGCTGATTTAAT-ATAAATTAAATAATGATATTTGATGAATTTTAAAAATTAAAA
1 A-ATTTTCAAAACTGATTTAATGA-AAATTAAATAATAATATTAGATGAATTTTAAAAATTATAA
*
3837317 ACCAAGAAAAAGTCCCCCCGAAAACATTTATGG-GTAGAAAACTTCGCA--TTTCGAAAAAAAAG
64 ACCAAGAAAAA-TCCCCCCGAAAATATTTATGGAGTAGAAAAC-TCG-ATTTTTCGAAAAAAAAG
* * **
3837379 AAATTTCAAGGAAAAAATAAAAAAAACTCATGAAAATGAAGG
126 GAATTTCAAGGAAAAAAT--TAAAAACTCATGAAAATGAATT
** * * * * * * * *
3837421 AATTTTTTGAAACTGATTTAATGTAGATCAAATTATAATATTTGAAGAATTTTAAAAAATAGAAA
1 AA-TTTTCAAAACTGATTTAATGAAAATTAAATAATAATATTAGATGAATTTTAAAAATTATAAA
* * * * * * * *
3837486 TCATGAAAAATCCCCCCGAAAA-AATTACGAAGTTGAAAA--CAATGTATT-GCAAAAAAAAGGA
65 CCAAGAAAAATCCCCCCGAAAATATTTATGGAGTAGAAAACTCGAT-TTTTCG-AAAAAAAA-G-
* * * *
3837547 GAATTTCAAGAAAAAAATCAAAAA-TGAATGAAAATGAATG
126 GAATTTCAAGGAAAAAATTAAAAACT-CATGAAAATGAATT
* * **** * * * ** *
3837587 AATTTTTGACAACTGATTTAATTTGGATCAAATGATAATAATTA-A-AAAAATTAAAAATTAGAA
1 AA-TTTTCAAAACTGATTTAATGAAAATTAAATAATAAT-ATTAGATGAATTTTAAAAATTATAA
* * * * * * * *
3837650 ATCTAGAAAAAT-CCCCCTAAAAGAATTATGAAGTAGAAAA-T-AATGTATTTCG-AAAAAAGGG
64 ACCAAGAAAAATCCCCCCGAAAATATTTATGGAGTAGAAAACTCGAT-T-TTTCGAAAAAAAAGG
* * * *
3837711 AAATTTCAA-GAAAAAAAT-AAAACATGAATGAAAATAAATG
127 -AATTTCAAGGAAAAAATTAAAAAC-T-CATGAAAATGAATT
*** * * * *
3837751 AATTTTTGGCAACTGATTTAAT-ATGAAA-TAAATAATAATATTTGATAAATTTTCAAAATTTTA
1 AA-TTTTCAAAACTGATTTAATGA--AAATTAAATAATAATATTAGATGAATTTTAAAAATTATA
* * * * * *
3837814 AACCCATG-AAAATTCTCCCGAAAAAATTTACGGAGAAGAAAAC
63 AA-CCAAGAAAAATCCCCCCGAAAATATTTATGGAGTAGAAAAC
3837857 CCTGTAATTT
Statistics
Matches: 612, Mismatches: 115, Indels: 84
0.75 0.14 0.10
Matches are distributed among these distances:
162 4 0.01
163 11 0.02
164 65 0.11
165 84 0.14
166 216 0.35
167 113 0.18
168 114 0.19
169 5 0.01
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (165 bp):
AATTTTCAAAACTGATTTAATGAAAATTAAATAATAATATTAGATGAATTTTAAAAATTATAAAC
CAAGAAAAATCCCCCCGAAAATATTTATGGAGTAGAAAACTCGATTTTTCGAAAAAAAAGGAATT
TCAAGGAAAAAATTAAAAACTCATGAAAATGAATT
Found at i:3837409 original size:168 final size:167
Alignment explanation
Indices: 3837157--3837808 Score: 436
Period size: 168 Copynumber: 3.9 Consensus size: 167
3837147 TATACCAAAG
* **
3837157 AAAATCCCCCC-AAAATTATTTATGGAATAGAAAACTCGATTTTTCGAAAAAAAAGGGATTTCAA
1 AAAATCCCCCCGAAAATCATTTATGGAATAGAAAACTCGA-TTTTCGAAAAAAAAGAAATTTCAA
** ** * *
3837221 AGAAAAGAATTCAAAACTCATGAAAATGAATTACA-TTTTCGAAGCTGATTTAATATAAATTAAA
65 AGAAAAGAATAAAAAACTCATGAAAATGAAGGA-ATTTTTCGAAACTGATTTAATATAAATCAAA
* * *
3837285 TAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGA
129 TAATAATATTTGAAGAATTTTAAAAAATAAAAACCAAGA
*
3837324 AAAAGTCCCCCCGAAAA-CATTTATGG-GTAGAAAACTTCGCA-TTTCGAAAAAAAAGAAATTTC
1 AAAA-TCCCCCCGAAAATCATTTATGGAATAGAAAAC-TCG-ATTTTCGAAAAAAAAGAAATTTC
* * * *
3837386 AAGGAAAA-AATAAAAAAAACTCATGAAAATGAAGGAATTTTTTGAAACTGATTTAATGTAGATC
63 AAAGAAAAGAAT--AAAAAACTCATGAAAATGAAGGAATTTTTCGAAACTGATTTAATATAAATC
* * * *
3837450 AAATTATAATATTTGAAGAATTTTAAAAAATAGAAATCATGA
126 AAATAATAATATTTGAAGAATTTTAAAAAATAAAAACCAAGA
* * * *
3837492 AAAATCCCCCCGAAAA--AATTA-CGAAGTTGAAAACAAT-G-TATT-GCAAAAAAAAGGAGAAT
1 AAAATCCCCCCGAAAATCATTTATGGAA-TAGAAAAC--TCGATTTTCG-AAAAAAAA-GA-AAT
* * * * * **
3837551 TTC-AAGAAAAAAATCAAAAA-TGAATGAAAATGAATGAATTTTT-GACAACTGATTTAATTTGG
60 TTCAAAGAAAAGAATAAAAAACT-CATGAAAATGAAGGAATTTTTCGA-AACTGATTTAATATAA
* * * ** * * * *
3837613 ATCAAATGATAATAATT-AAAAAAATTAAAAATTAGAAATCTAGA
123 ATCAAATAATAATATTTGAAGAATTTTAAAAAATAAAAACCAAGA
* * * * **
3837657 AAAAT-CCCCCTAAAA-GAATTAT-GAAGTAGAAAA-T-AATGTATTTCGAAAAAAGGGAAATTT
1 AAAATCCCCCCGAAAATCATTTATGGAA-TAGAAAACTCGA--T-TTTCGAAAAAAAAGAAATTT
* * * * * * *
3837717 C-AAGAAAAAAATAAAACA-TGAATGAAAATAAATGAATTTTTGGCAACTGATTTAATATGAAAT
62 CAAAGAAAAGAATAAAAAACT-CATGAAAATGAAGGAATTTTTCGAAACTGATTTAATAT-AAAT
*
3837780 -AAATAATAATATTTGATA-AATTTTCAAAA
125 CAAATAATAATATTTGA-AGAATTTTAAAAA
3837809 TTTTAAACCC
Statistics
Matches: 398, Mismatches: 59, Indels: 58
0.77 0.11 0.11
Matches are distributed among these distances:
162 1 0.00
164 77 0.19
165 61 0.15
166 79 0.20
167 68 0.17
168 107 0.27
169 5 0.01
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.27
Consensus pattern (167 bp):
AAAATCCCCCCGAAAATCATTTATGGAATAGAAAACTCGATTTTCGAAAAAAAAGAAATTTCAAA
GAAAAGAATAAAAAACTCATGAAAATGAAGGAATTTTTCGAAACTGATTTAATATAAATCAAATA
ATAATATTTGAAGAATTTTAAAAAATAAAAACCAAGA
Found at i:3837753 original size:164 final size:164
Alignment explanation
Indices: 3837364--3837772 Score: 511
Period size: 165 Copynumber: 2.5 Consensus size: 164
3837354 AAAACTTCGC
* * ** *
3837364 ATTTCGAAAAAAAAGAAATTTCAAGGAAAAAATAAAAAAAACTCATGAAAATGAAGGAATTTTTT
1 ATTTCGAAAAAAAGGAAATTTCAAGAAAAAAATAAAAATGA---ATGAAAATGAATGAA-TTTTT
* * * **
3837429 GA-AACTGATTTAATGTAGATCAAATTATAATATTTGAAGAATTTTAAAAAATAGAAATCATGAA
62 GACAACTGATTTAATGTAGATCAAATGATAATAATTGAAAAAAATTAAAAAATAGAAATCATGAA
*
3837493 AAATCCCCCCGAAAAAATTACGAAGTTGAAAACAATGT
127 AAATCCCCCCGAAAAAATTACGAAGTAGAAAACAATGT
* *
3837531 ATTGCAAAAAAAAGGAGAATTTCAAGAAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTGA
1 ATTTCGAAAAAAAGGA-AATTTCAAGAAAAAAAT-AAAAATGAATGAAAATGAATGAATTTTTGA
* * *
3837596 CAACTGATTTAATTTGGATCAAATGATAATAATT-AAAAAAATTAAAAATTAGAAATC-TAGAAA
64 CAACTGATTTAATGTAGATCAAATGATAATAATTGAAAAAAATTAAAAAATAGAAATCAT-GAAA
* * *
3837659 AAT-CCCCCTAAAAGAATTATGAAGTAGAAAATAATGT
128 AATCCCCCCGAAAA-AATTACGAAGTAGAAAACAATGT
* * *
3837696 ATTTCGAAAAAAGGGAAATTTCAAGAAAAAAATAAAACATGAATGAAAATAAATGAATTTTTGGC
1 ATTTCGAAAAAAAGGAAATTTCAAGAAAAAAATAAAA-ATGAATGAAAATGAATGAATTTTTGAC
3837761 AACTGATTTAAT
65 AACTGATTTAAT
3837773 ATGAAATAAA
Statistics
Matches: 212, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
163 4 0.02
164 64 0.30
165 66 0.31
166 43 0.20
167 13 0.06
168 16 0.08
169 6 0.03
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (164 bp):
ATTTCGAAAAAAAGGAAATTTCAAGAAAAAAATAAAAATGAATGAAAATGAATGAATTTTTGACA
ACTGATTTAATGTAGATCAAATGATAATAATTGAAAAAAATTAAAAAATAGAAATCATGAAAAAT
CCCCCCGAAAAAATTACGAAGTAGAAAACAATGT
Found at i:3839104 original size:16 final size:15
Alignment explanation
Indices: 3839083--3839121 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
3839073 TATTCTTTCA
*
3839083 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTCTC
3839098 TTCTTTCATTTTTTCTC
1 TT-TTTC-TTTTTTCTC
3839115 TTTTTCT
1 TTTTTCT
3839122 ACACTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 8 0.38
17 10 0.48
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTTTTCTC
Found at i:3839105 original size:23 final size:24
Alignment explanation
Indices: 3839075--3839119 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3839065 TTTCCTCATA
*
3839075 TTCTTTCA-TTTTTCTTTTTTTTC
1 TTCTTTCATTTTTTCTCTTTTTTC
3839098 TTCTTTCATTTTTTCTCTTTTT
1 TTCTTTCATTTTTTCTCTTTTT
3839120 CTACACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (24 bp):
TTCTTTCATTTTTTCTCTTTTTTC
Found at i:3839120 original size:23 final size:23
Alignment explanation
Indices: 3839075--3839121 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
3839065 TTTCCTCATA
*
3839075 TTCTTTCATTTTTCTTTTTTTTC
1 TTCTTTCATTTTTCTTCTTTTTC
3839098 TTCTTTCATTTTT-TCTCTTTTTC
1 TTCTTTCATTTTTCT-TCTTTTTC
3839121 T
1 T
3839122 ACACTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (23 bp):
TTCTTTCATTTTTCTTCTTTTTC
Found at i:3840886 original size:8 final size:8
Alignment explanation
Indices: 3840874--3840963 Score: 58
Period size: 9 Copynumber: 10.8 Consensus size: 8
3840864 AATCAAAAGT
3840874 AAAAAATTC
1 AAAAAA-TC
3840883 AAAAAATC
1 AAAAAATC
* *
3840891 AATCAAATA
1 AA-AAAATC
*
3840900 AAAAAAAC
1 AAAAAATC
*
3840908 CAAAAATC
1 AAAAAATC
*
3840916 AAAAAAATTT
1 -AAAAAA-TC
3840926 AAAAAATC
1 AAAAAATC
*
3840934 GAAAAAT-
1 AAAAAATC
3840941 AAAAAAT-
1 AAAAAATC
3840948 AATAAAATCC
1 AA-AAAAT-C
3840958 AAAAAA
1 AAAAAA
3840964 AAACACAACA
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
7 8 0.13
8 25 0.40
9 27 0.43
10 3 0.05
ACGTcount: A:0.73, C:0.10, G:0.01, T:0.16
Consensus pattern (8 bp):
AAAAAATC
Found at i:3840911 original size:26 final size:25
Alignment explanation
Indices: 3840843--3840917 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
3840833 TTGTTTGATA
*
3840843 AAATAAAAAAAACATAATAAT-AATC
1 AAATAAAAAAAACA-AAAAATCAATC
**
3840868 AAAAGTAAAAAATTCAAAAAATCAATC
1 -AAA-TAAAAAAAACAAAAAATCAATC
*
3840895 AAATAAAAAAAACCAAAAATCAA
1 AAATAAAAAAAACAAAAAATCAA
3840918 AAAAATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
25 17 0.41
26 11 0.27
27 13 0.32
ACGTcount: A:0.72, C:0.11, G:0.01, T:0.16
Consensus pattern (25 bp):
AAATAAAAAAAACAAAAAATCAATC
Found at i:3840923 original size:25 final size:25
Alignment explanation
Indices: 3840868--3840962 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
3840858 AATAATAATC
* * *
3840868 AAAAGTAAAAAATTCAAAAAATCAA
1 AAAAATAAAAAAATCCAAAAATCAA
** *
3840893 TCAAATAAAAAAAACCAAAAATCAA
1 AAAAATAAAAAAATCCAAAAATCAA
* *
3840918 AAAAATTTAAAAAATCGAAAAAT--A
1 AAAAA-TAAAAAAATCCAAAAATCAA
*
3840942 AAAAATAATAAAATCCAAAAA
1 AAAAATAAAAAAATCCAAAAA
3840963 AAAACACAAC
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
23 13 0.24
24 6 0.11
25 22 0.40
26 14 0.25
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (25 bp):
AAAAATAAAAAAATCCAAAAATCAA
Found at i:3840965 original size:43 final size:41
Alignment explanation
Indices: 3840874--3840964 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 41
3840864 AATCAAAAGT
3840874 AAAAAATTCAAAAAATCAATCAAATAAAAAAAACCAAAAATCA
1 AAAAAATTCAAAAAATCAA-CAAATAAAAAAAA-CAAAAATCA
* *
3840917 AAAAAATTTAAAAAATCGAA-AAATAAAAAATAA-TAAAATCCA
1 AAAAAATTCAAAAAATC-AACAAATAAAAAA-AACAAAAAT-CA
3840959 AAAAAA
1 AAAAAA
3840965 AACACAACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
41 5 0.12
42 18 0.42
43 18 0.42
44 2 0.05
ACGTcount: A:0.74, C:0.10, G:0.01, T:0.15
Consensus pattern (41 bp):
AAAAAATTCAAAAAATCAACAAATAAAAAAAACAAAAATCA
Found at i:3842484 original size:15 final size:15
Alignment explanation
Indices: 3842466--3842499 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3842456 AAATTTTCAA
3842466 AAATAAAATAAT-AAT
1 AAAT-AAATAATAAAT
3842481 AAATAAATAATAAAT
1 AAATAAATAATAAAT
3842496 AAAT
1 AAAT
3842500 TGTTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:3843178 original size:156 final size:154
Alignment explanation
Indices: 3842967--3843312 Score: 358
Period size: 156 Copynumber: 2.2 Consensus size: 154
3842957 CACCGGGTCG
* * *** * *
3842967 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATTGCATTTCTAGT-TTTTTTAAATCCTT
1 GCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCACCCCATTTATAGTATTTTTTAAATACTT
* * *
3843031 TAGGGTTGC-CGGGGTACTTGT-ATGTCGAAGGTATACCCATAAGGGCATTTTTGT-ATTTTCCT
66 TAGGG--GCACGGGATACTT-TCACGTCGAAGGTAT-CCCATAAGGGCATTTTGGTAATTTT--T
* *
3843093 AAAACCGAGTCTTAGGTTACCACCAGGTTT
125 AAAACCGAGTCTTAGGTTACCACCAAGTCT
* * *
3843123 GCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTATAGTATTTTTTAAGTATTT
1 GCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCACCCCATTTATAGTATTTTTTAAATACTT
* * * *
3843188 TAGGGGCATCGGGATACTTTCACGTTGAAGGTATCCCTTAGGGGCATTTTGGTAATTTTTTAAAC
66 TAGGGGCA-CGGGATACTTTCACGTCGAAGGTATCCCATAAGGGCATTTTGGTAATTTTTAAAAC
* **
3843253 CTAGTCTTAGGTTGTCACCAAGTCT
130 CGAGTCTTAGGTTACCACCAAGTCT
* * * * *
3843278 ACTTTTACGTCGAAGGTAGATATTTAGCATAGGTT
1 GCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTT
3843313 TGTCTCATCT
Statistics
Matches: 158, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
155 57 0.36
156 60 0.38
157 41 0.26
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (154 bp):
GCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCACCCCATTTATAGTATTTTTTAAATACTT
TAGGGGCACGGGATACTTTCACGTCGAAGGTATCCCATAAGGGCATTTTGGTAATTTTTAAAACC
GAGTCTTAGGTTACCACCAAGTCT
Found at i:3843326 original size:155 final size:157
Alignment explanation
Indices: 3843057--3843339 Score: 338
Period size: 155 Copynumber: 1.8 Consensus size: 157
3843047 CTTGTATGTC
* * *
3843057 GAAGGTATACCCATAAGGGCATTTTTGTATTTTCCTAAAACCGAGTCTTAGGTTACCACCAGGTT
1 GAAGGTATACCCATAAGGGCATTTTGGTATTTT-CTAAAACCGAGTCTTAGGTTACCACCAAGTC
* * * * * * *
3843122 TGCTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTATAGTATTTTT-TAAGTAT
65 TACTTTTACGTCGAAGGTAGATATTTAGCATAGGTTCACCCCATCTATAGTATTTTTGTAAGTAT
3843186 TTTAGGGGCATCGGGATACTTTCACGTT
130 TTTAGGGGCATCGGGATACTTTCACGTT
* * * * **
3843214 GAAGGTAT-CCCTTAGGGGCATTTTGGTAATTTT-TTAAACCTAGTCTTAGGTTGTCACCAAGTC
1 GAAGGTATACCCATAAGGGCATTTTGGT-ATTTTCTAAAACCGAGTCTTAGGTTACCACCAAGTC
*** * *
3843277 TACTTTTACGTCGAAGGTAGATATTTAGCATAGGTTTGTCTCATCTATAGTTTTTTTGTAAGT
65 TACTTTTACGTCGAAGGTAGATATTTAGCATAGGTTCACCCCATCTATAGTATTTTTGTAAGT
3843340 CCTTTAAAGT
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
155 69 0.67
156 21 0.20
157 13 0.13
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (157 bp):
GAAGGTATACCCATAAGGGCATTTTGGTATTTTCTAAAACCGAGTCTTAGGTTACCACCAAGTCT
ACTTTTACGTCGAAGGTAGATATTTAGCATAGGTTCACCCCATCTATAGTATTTTTGTAAGTATT
TTAGGGGCATCGGGATACTTTCACGTT
Found at i:3847154 original size:12 final size:11
Alignment explanation
Indices: 3847139--3847176 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3847129 AAAAGTGCAG
*
3847139 AAAAAGAGAGA
1 AAAAAAAGAGA
3847150 AAAAAAA-AGA
1 AAAAAAAGAGA
3847160 AGAAAAAAGAGA
1 A-AAAAAAGAGA
3847172 AAAAA
1 AAAAA
3847177 TGAAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:3847163 original size:13 final size:14
Alignment explanation
Indices: 3847139--3847167 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3847129 AAAAGTGCAG
3847139 AAAAAGAGAGAAAA
1 AAAAAGAGAGAAAA
3847153 AAAAAGA-AGAAAA
1 AAAAAGAGAGAAAA
3847166 AA
1 AA
3847168 GAGAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAGAAAA
Found at i:3849301 original size:8 final size:8
Alignment explanation
Indices: 3849288--3849343 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
3849278 GGCTATTGAA
3849288 AAAAAAAG
1 AAAAAAAG
3849296 -AAAAAAG
1 AAAAAAAG
**
3849303 ATGAAAAG
1 AAAAAAAG
3849311 AAAACAAGAG
1 AAAA-AA-AG
*
3849321 AGAAAAAG
1 AAAAAAAG
3849329 AGAAAAAAG
1 A-AAAAAAG
3849338 AAAAAA
1 AAAAAA
3849344 TTTCGAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
7 7 0.18
8 15 0.39
9 11 0.29
10 5 0.13
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:3850179 original size:44 final size:44
Alignment explanation
Indices: 3850129--3851710 Score: 959
Period size: 44 Copynumber: 36.2 Consensus size: 44
3850119 CCTATCTGAT
* * * *
3850129 GTATGGTTACCACCTTGGTTAGATTCTTTTTATTTTGATTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* ** ** * * *
3850173 GTATGGTTACCACCTTGGTCAAATT-TACCTCATTCCGGTCTAAC
1 GTATGGTTACCACCCTGGTCAAATTCT-TTTCATTTTGATTTGAC
**
3850217 GTATGGTTACCACCCTGGTC-AATTCTTTT-ATTCCGATTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * ** * *
3850259 GTATGGCTACCACCCTAGTCAAA-TCTGCCTCTTTCTTG-TCTGAC
1 GTATGGTTACCACCCTGGTCAAATTCT-TTTCATT-TTGATTTGAC
* * * *
3850303 ATATAGTTACTACCCTGGTCAGATTCTTTTCATTTTGATTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * ** *
3850347 GTATGGTTACCACCGTAGTTAAATCTGCCTTTT--TCCTG-TCTGAC
1 GTATGGTTACCACCCTGGTCAAAT-T--CTTTTCATTTTGATTTGAC
* * * * ** *
3850391 ATA-GGATTACCACCCTAGTCAGATTCTTTTTATTTCAATTTTAC
1 GTATGG-TTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * *
3850435 GTAAGGTTACCACCTTGGTCAAATCTGCCTTTT--TTCTG-CTTGAC
1 GTATGGTTACCACCCTGGTCAAAT-T--CTTTTCATTTTGATTTGAC
* * * *
3850479 GTATGGTTACCACCTTGGCCAAGTTCTTTTCATTCATG-TTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATT-TTGATTTGAC
* * * * * * *
3850523 GTATGGTTACCAACCTAGTCAAACTCTTCTCATTTCGGTCT-AGC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGA-C
* * * ** * *
3850567 GTATGGTTACCACTCTAGTCAGATTCTTTTCATCCTG-CTTAAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * *
3850610 GTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATG-TTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATT-TTGATTTGAC
* * * * ** *
3850654 GTATGGTTAGCACCCTGGTCAAACTCTTCTCATTTCGACCTGAT
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * *
3850698 GTATGGTTACTACCCTGGTCAGATTCTTTTCATCTTGA-TTGAT
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * *
3850741 GTATGGTTACCACCTTGGTGAAGTTCTTTTCATTCTTG-TTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATT-TTGATTTGAC
* * * * * * *
3850785 GTATGTTTACCACCCTGGTCAAACTCTTCTCATTTGGGTCTGGC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * *
3850829 -TATGGTTACCACCCTGGTCAGATTCTTTTCATTCT-ACTTGAT
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * * * * * *
3850871 GTTTGGTTACCACCCTAGTCAAACTCTTCTCATTTCGGTCTGGC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * * *
3850915 ATATGGTTACCACCCTGGTCAGATTCTTTTCATCTTG-CTTGAT
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * * *
3850958 GTATGGTTACCACCCTAGTTAAGTTATTTTCATTCAT-ATTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATT-TTGATTTGAC
* * *
3851002 GTATGGTTACCACCTTGGTCAAA--CTTTTCTTATTTTGGTCT-AGC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTC--ATTTTGATTTGA-C
* * * * ** *
3851046 GTATGGTTATCACCCTGGTTAGATTCTTTTTATCCT-ACTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
** * * * *
3851089 GTATGGTTATGACCCTGGTCAAGTTCTTTTTATTCATG-TTTAAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATT-TTGATTTGAC
* * * * * *
3851133 ATATGGTTACCACCCTAGTCAAATTCTTCTCATTTCGATCTAAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* ** *
3851177 GTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGAT
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * *
3851221 GTATGGTTACAACCCTGGTGAAGTTCTTTTCATTCATG-TTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATT-TTGATTTGAC
* * * * * * * *
3851265 ATATGGTTACCACCCTGGTCAAACTCTTCTAATATTGGTCT-AA
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* ** * *
3851308 GCTATGGTTACCACCCTGGTCAGATTCTTTTCATCCT-ACTTGAT
1 G-TATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * *
3851352 GTATGGTTACCACCCTGGTCAAACTT-TTCTCATTTCGGTTTGAC
1 GTATGGTTACCACCCTGGTCAAA-TTCTTTTCATTTTGATTTGAC
* * * * * ** *
3851396 ATATCGTTACCACCCTAGTCAGATTTTTTTCATCCTG-CTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * * * * *
3851439 GTATGATTACCACCCTAGTCAAACTCTTCTCATTTCGGTCTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * ** * *
3851483 GTATGGATTACTACCCTGGTCAAATTTTTTTCATCCT-ACTTGAT
1 GTATGG-TTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * *
3851527 GTATGGTTACCACCCTGGTCAAGTTTTTTTCATTCATG-TTTGGC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATT-TTGATTTGAC
* * * *
3851571 GTATGGTTACCACCTTGGTCAAACTCTTCTCATTCTGATTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * * * *
3851615 GTATGGTTATCACCTTGTTCAGAGTCTTTTCATTCTGATTTGAC
1 GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
* * * * *
3851659 TTATGGTTACCGCCCTAGTCAAATTTTCTTTC-TTCTTG-TTTAAC
1 GTATGGTTACCACCCTGGTCAAATTCT-TTTCATT-TTGATTTGAC
3851703 GTATGGTT
1 GTATGGTT
3851711 TTTGCCCTAG
Statistics
Matches: 1158, Mismatches: 322, Indels: 116
0.73 0.20 0.07
Matches are distributed among these distances:
41 10 0.01
42 38 0.03
43 298 0.26
44 755 0.65
45 42 0.04
46 5 0.00
47 10 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (44 bp):
GTATGGTTACCACCCTGGTCAAATTCTTTTCATTTTGATTTGAC
Found at i:3850633 original size:131 final size:130
Alignment explanation
Indices: 3850215--3851710 Score: 847
Period size: 131 Copynumber: 11.4 Consensus size: 130
3850205 TTCCGGTCTA
* * * *
3850215 ACGTATGGTTACCACCCTGGTCAA-TTCTTTT-ATTC-CGATTTGACGTATGGCTACCACCCTAG
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATG-TTTGACGTATGGTTACCACCCTGG
* * * * * **
3850277 TCAAA-TCTGCCTC-TTTCTTGTCTGACATATAGTTACTACCCTGGTCAGATTCTTTTCATTTTG
65 TCAAACTCT-TCTCATTTC-GGTCTG-CGTATGGTTACCACCCTGGTCAGATTCTTTTCATCCTG
*
3850340 ATTTG
127 -CTTG
* * * * * * * *
3850345 ACGTATGGTTACCACCGTAGTTAAATCTGCCTTT--TTCCTGTCTGACATA-GGATTACCACCCT
1 ACGTATGGTTACCACCTTGGTCAAGT-T-CTTTTCATTCATGTTTGACGTATGG-TTACCACCCT
* * * * * ** * * * * * *
3850407 AGTCAGATTCTTTTTATTTCAATTTTACGTAAGGTTACCACCTTGGTCAAATCTGCCTTTT--TT
63 GGTCAAACTCTTCTCATTTC-GGTCTGCGTATGGTTACCACCCTGGTCAGAT-T--CTTTTCATC
3850470 CTGCTTG
124 CTGCTTG
* * *
3850477 ACGTATGGTTACCACCTTGGCCAAGTTCTTTTCATTCATGTTTGACGTATGGTTACCAACCTAGT
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATGTTTGACGTATGGTTACCACCCTGGT
* *
3850542 CAAACTCTTCTCATTTCGGTCTAGCGTATGGTTACCACTCTAGTCAGATTCTTTTCATCCTGCTT
66 CAAACTCTTCTCATTTCGGTCT-GCGTATGGTTACCACCCTGGTCAGATTCTTTTCATCCTGCTT
*
3850607 A
130 G
*
3850608 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATGTTTGACGTATGGTTAGCACCCTGGT
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATGTTTGACGTATGGTTACCACCCTGGT
** * * * *
3850673 CAAACTCTTCTCATTTCGACCTGATGTATGGTTACTACCCTGGTCAGATTCTTTTCATCTTGATT
66 CAAACTCTTCTCATTTCGGTCTG-CGTATGGTTACCACCCTGGTCAGATTCTTTTCATCCTGCTT
3850738 G
130 G
* * * *
3850739 ATGTATGGTTACCACCTTGGTGAAGTTCTTTTCATTCTTGTTTGACGTATGTTTACCACCCTGGT
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATGTTTGACGTATGGTTACCACCCTGGT
* * *
3850804 CAAACTCTTCTCATTTGGGTCTG-GCTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTACTT
66 CAAACTCTTCTCATTTCGGTCTGCG-TATGGTTACCACCCTGGTCAGATTCTTTTCATCCTGCTT
3850868 G
130 G
* * * * ** * * * * *
3850869 ATGTTTGGTTACCACCCTAGTCAAACTCTTCTCATTTC-GGTCTGGCATATGGTTACCACCCTGG
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCA-TTCATGTTTGACGTATGGTTACCACCCTGG
* * * * * * * * *
3850933 TCAGATTCTTTTCATCTT-GCT-TGATGTATGGTTACCACCCTAGTTA-AGTTATTTTCATTCAT
65 TCAAACTCTTCTCAT-TTCGGTCTG-CGTATGGTTACCACCCTGGTCAGA-TTCTTTTCA-TCCT
**
3850995 ATTTG
126 GCTTG
* *
3851000 ACGTATGGTTACCACCTTGGTCAA--ACTTTTC-TT-AT-TTTGGTCTAGCGTATGGTTATCACC
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATGTTT-G---A-CGTATGGTTACCACC
* * * * ** *
3851060 CTGGTTAGATTCTT-T--TTATC-CTACTTGACGTATGGTTATGACCCTGGTCA-AGTTCTTTTT
61 CTGGTCAAACTCTTCTCATT-TCGGT-C-TG-CGTATGGTTACCACCCTGGTCAGA-TTCTTTTC
* * *
3851120 ATTCATGTTTA
121 A-TCCTGCTTG
* * * * * * *
3851131 ACATATGGTTACCACCCTAGTCAAATTCTTCTCATT--TCGATCTAACGTATGGTTACCACCCTG
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCAT-G-TTTGACGTATGGTTACCACCCTG
* * * * * * * * * *
3851194 GTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACAACCCTGGTGA-AGTTCTTTTCATTCAT
64 GTCAAACTCTTCTCATTTCGGTCTG-CGTATGGTTACCACCCTGGTCAGA-TTCTTTTCA-TCCT
*
3851258 GTTTG
126 GCTTG
* * ** * * * *
3851263 ACATATGGTTACCACCCTGGTCAAACTCTTCT-AAT-ATTGGTCT-AAGCTATGGTTACCACCCT
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCA-T-GTTTGACG-TATGGTTACCACCCT
* * * * * * *
3851325 GGTCAGATTCTTTTCA--TC-CTACTTGATGTATGGTTACCACCCTGGTCAAACTT-TTCTCATT
63 GGTCAAACTCTTCTCATTTCGGT-C-TG-CGTATGGTTACCACCCTGGTCAGA-TTCTTTTCA-T
* * *
3851386 TCGGTTTG
123 CCTGCTTG
* * * * * * * * *
3851394 ACATATCGTTACCACCCTAGTC-AGATTTTTTTCA-TCCTGCTTGACGTATGATTACCACCCTAG
1 ACGTATGGTTACCACCTTGGTCAAG-TTCTTTTCATTCATGTTTGACGTATGGTTACCACCCTGG
* * * *
3851457 TCAAACTCTTCTCATTTCGGTCTGACGTATGGATTACTACCCTGGTCAAATTTTTTTCATCCTAC
65 TCAAACTCTTCTCATTTCGGTCTG-CGTATGG-TTACCACCCTGGTCAGATTCTTTTCATCCTGC
3851522 TTG
128 TTG
* * * * *
3851525 ATGTATGGTTACCACCCTGGTCAAGTTTTTTTCATTCATGTTTGGCGTATGGTTACCACCTTGGT
1 ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATGTTTGACGTATGGTTACCACCCTGGT
* * * * * * * *
3851590 CAAACTCTTCTCA-TTCTGATTTGACGTATGGTTATCACCTTGTTCAGAGTCTTTTCATTCTGAT
66 CAAACTCTTCTCATTTC-GGTCTG-CGTATGGTTACCACCCTGGTCAGATTCTTTTCATCCTG-C
3851654 TTG
128 TTG
* * * * * * * *
3851657 ACTTATGGTTACCGCCCTAGTCAAATTTTCTTTC-TTCTTGTTTAACGTATGGTT
1 ACGTATGGTTACCACCTTGGTCAAGTTCT-TTTCATTCATGTTTGACGTATGGTT
3851711 TTTGCCCTAG
Statistics
Matches: 1096, Mismatches: 205, Indels: 128
0.77 0.14 0.09
Matches are distributed among these distances:
126 2 0.00
127 4 0.00
128 4 0.00
129 15 0.01
130 180 0.16
131 488 0.45
132 356 0.32
133 35 0.03
134 5 0.00
135 5 0.00
136 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (130 bp):
ACGTATGGTTACCACCTTGGTCAAGTTCTTTTCATTCATGTTTGACGTATGGTTACCACCCTGGT
CAAACTCTTCTCATTTCGGTCTGCGTATGGTTACCACCCTGGTCAGATTCTTTTCATCCTGCTTG
Found at i:3851898 original size:43 final size:42
Alignment explanation
Indices: 3851817--3851904 Score: 104
Period size: 43 Copynumber: 2.1 Consensus size: 42
3851807 TTATCTACTT
* * *
3851817 GTCGATTTTGACCTAGGAGACTTCTTCACCCTTTGTCTGCCC
1 GTCGACTTTGACCCAGGAGACTTCTTCACCCTTCGTCTGCCC
* ** *
3851859 GTCGACTTTGACCCGGGAGACCTTCTTCATTCTTCGTCTGCTC
1 GTCGACTTTGACCCAGGAGA-CTTCTTCACCCTTCGTCTGCCC
3851902 GTC
1 GTC
3851905 ATCTCAAACC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 17 0.45
43 21 0.55
ACGTcount: A:0.12, C:0.32, G:0.20, T:0.35
Consensus pattern (42 bp):
GTCGACTTTGACCCAGGAGACTTCTTCACCCTTCGTCTGCCC
Found at i:3851964 original size:43 final size:43
Alignment explanation
Indices: 3851917--3852049 Score: 108
Period size: 43 Copynumber: 3.1 Consensus size: 43
3851907 CTCAAACCTT
*
3851917 GGAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTCAGTCCTA
1 GGAGACTTCCTTCATCAATCGTCTGCCCGTCGGCTCAGTCCTA
* * * * ** * * * *
3851960 GGAGACTTCCTTTAT-ACTTTGTTTGCTTGTCGACTTAGACCCA
1 GGAGACTTCCTTCATCA-ATCGTCTGCCCGTCGGCTCAGTCCTA
* * * *
3852003 GAAGAC-TCCTTCATCCATCGTCTGCCCGTCAGCTCAGTCTTA
1 GGAGACTTCCTTCATCAATCGTCTGCCCGTCGGCTCAGTCCTA
3852045 GGAGA
1 GGAGA
3852050 TTTCTTTATC
Statistics
Matches: 62, Mismatches: 26, Indels: 5
0.67 0.28 0.05
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (43 bp):
GGAGACTTCCTTCATCAATCGTCTGCCCGTCGGCTCAGTCCTA
Found at i:3852110 original size:85 final size:85
Alignment explanation
Indices: 3851926--3852085 Score: 207
Period size: 85 Copynumber: 1.9 Consensus size: 85
3851916 TGGAGACTTT
* * * * * *
3851926 CTTCATCAATCGTCTGCCCGTCGGCTCAGTCCTAGGAGACTTCCTTTATACTTTGTTTGCTTGTC
1 CTTCATCAATCGTCTGCCCGTCAGCTCAGTCCTAGGAGACTTCCTTTATACTTTGTCTACCTATA
3851991 GACTTAGACCCAGAAGACTC
66 GACTTAGACCCAGAAGACTC
* * *
3852011 CTTCATCCATCGTCTGCCCGTCAGCTCAGTCTTAGGAGA-TTTCTTTAT-CTTTCGTCTACCTAT
1 CTTCATCAATCGTCTGCCCGTCAGCTCAGTCCTAGGAGACTTCCTTTATACTTT-GTCTACCTAT
*
3852074 AGGCTTAGACCC
65 AGACTTAGACCC
3852086 TAGAGATTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 4 0.06
84 24 0.38
85 36 0.56
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.34
Consensus pattern (85 bp):
CTTCATCAATCGTCTGCCCGTCAGCTCAGTCCTAGGAGACTTCCTTTATACTTTGTCTACCTATA
GACTTAGACCCAGAAGACTC
Found at i:3852474 original size:43 final size:43
Alignment explanation
Indices: 3852249--3852475 Score: 120
Period size: 43 Copynumber: 5.3 Consensus size: 43
3852239 AGGTGACTTG
* * *
3852249 TCGGCTTTGTCCATAGTCAACCATTCCTCTCTTTGTTTACCTA
1 TCGGCTTTGTCCCTAATCAACCTTTCCTCTCTTTGTTTACCTA
* * * ** * * *
3852292 TTC-GCTTTGTCCCCAATAAACTTTTTATTTC-TTGGTGACCTA
1 -TCGGCTTTGTCCCTAATCAACCTTTCCTCTCTTTGTTTACCTA
* * * * * * *
3852334 TTGGCTTTGT-CCTCGATCAGCCTTTCTTACCCTTTGTTTACGTG
1 TCGGCTTTGTCCCT-AATCAACCTTTCCT-CTCTTTGTTTACCTA
* * * * ** * * * * *
3852378 TCTGCTATGTCCCTAGT-AAACTTTTTTCTCCTAGGTGACCTG
1 TCGGCTTTGTCCCTAATCAACCTTTCCTCTCTTTGTTTACCTA
* *
3852420 TCGACTTTGTCCCTAATCAACCATTCCTCTCTTTGTTTACCTA
1 TCGGCTTTGTCCCTAATCAACCTTTCCTCTCTTTGTTTACCTA
3852463 TCGGCTTTGTCCC
1 TCGGCTTTGTCCC
3852476 CGATAAACTT
Statistics
Matches: 124, Mismatches: 53, Indels: 13
0.65 0.28 0.07
Matches are distributed among these distances:
41 3 0.02
42 46 0.37
43 55 0.44
44 17 0.14
45 3 0.02
ACGTcount: A:0.15, C:0.29, G:0.14, T:0.43
Consensus pattern (43 bp):
TCGGCTTTGTCCCTAATCAACCTTTCCTCTCTTTGTTTACCTA
Found at i:3852499 original size:85 final size:85
Alignment explanation
Indices: 3852226--3853169 Score: 888
Period size: 85 Copynumber: 11.1 Consensus size: 85
3852216 AAACCTGGAG
* * *
3852226 ACTTCTTACTCTTAGGTGACTTGTCGGCTTTGTCCATAGTCAACCATTCCTCTCTTTGTTTACCT
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCTAGTCAACCATTCCTCTCTTTGTTTACCT
* *
3852291 ATTC-GCTTTGTCCCCAATAA
66 -GTCGGCTTTGTCCCCGATAA
* * * * * * * * * * *
3852311 ACTTTTTATTTCTTGGTGACCTATTGGCTTTGT-CCTCGATCAGCCTTTCTTACCCTTTGTTTAC
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCTAG-TCAACCATTCCT-CTCTTTGTTTAC
* * * *
3852375 GTGTCTGCTATGT-CCCTAGTAA
64 CTGTCGGCTTTGTCCCCGA-TAA
* * * *
3852397 ACTTTTTTCTCCTAGGTGACCTGTCGACTTTGTCCCTAATCAACCATTCCTCTCTTTGTTTACCT
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCTAGTCAACCATTCCTCTCTTTGTTTACCT
*
3852462 ATCGGCTTTGTCCCCGATAA
66 GTCGGCTTTGTCCCCGATAA
* * * * *
3852482 ACTTCTTACTCCAAGGTGACCTGTCAGCTTT-TTCCTCGTCAACCATTTCTCTCTTTGTTTACCT
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCTAGTCAACCATTCCTCTCTTTGTTTACCT
*
3852546 GTGGGCTTTGTCCCC-AGTAA
66 GTCGGCTTTGTCCCCGA-TAA
* * * ** * * * *
3852566 ACTTTTTACTTCTAGGTGACCAGTCAACTTTTTCCCCAGTCAACCATTCTTTTCTTAT-TTTACC
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCTAGTCAACCATTCCTCTCTT-TGTTTACC
* * * * *
3852630 TATCAGCTTTGTCTCCGGTAT
65 TGTCGGCTTTGTCCCCGATAA
* * * * *
3852651 ACTTTTTACTCCCAGGTGACTTGTCAGCTTTGT-CCTCAGTCAACCATTCCCCTCTTTGTTTATC
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCT-AGTCAACCATTCCTCTCTTTGTTTA-C
* * *
3852715 CTGTCGACTTTGTCCTCGGTAA
64 CTGTCGGCTTTGTCCCCGATAA
* * *
3852737 ACTTCTTACTCC-AGGTAACTTGTCGGCTTTGTCCCCAGTCAACCATTCCTCTCTTTGTTTACCT
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCTAGTCAACCATTCCTCTCTTTGTTTACCT
3852801 GTCGGCTTTGTCCCCGATAA
66 GTCGGCTTTGTCCCCGATAA
* * * *
3852821 ACTTCTTACTCCCAGGTGACTTGTTGGCTTTG-CCCTCGGTCAACCATTTCC-CTCTTTGTTTAC
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCT-AGTCAACCA-TTCCTCTCTTTGTTTAC
* *
3852884 ATGTCGGCTTTATCCCCGATAA
64 CTGTCGGCTTTGTCCCCGATAA
* * * * * * *
3852906 ACTTCTTGCTCCCAAGTGACCTGTCGACTTTG-CCCTCGGTCAACCATTCCCCTCTTTGTTTACT
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCT-AGTCAACCATTCCTCTCTTTGTTTACC
* * *
3852970 TGTCAGCTTTGTCCTCGGTAA
65 TGTCGGCTTTGTCCCCGATAA
* * * * *
3852991 ACTTCTTACTCCTTGGTGACCTATCGGCTTTGT-GCTCGGTCAATCATTCCTCTCTTTGTTTACC
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCT-AGTCAACCATTCCTCTCTTTGTTTACC
* *
3853055 TGTCGGCTTTGTCCTCGGTAA
65 TGTCGGCTTTGTCCCCGATAA
* * * **
3853076 ACTTCTTACACCTTGGTGACCTGTCGGCTTTGTGCCC-AATCAACCATTCCTCTCTTTGTTTAAT
1 ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGT-CCCTAGTCAACCATTCCTCTCTTTGTTTACC
* * *
3853140 TATTGGCTTTGTCCCCGGTAA
65 TGTCGGCTTTGTCCCCGATAA
*
3853161 GCTTCTTAC
1 ACTTCTTAC
3853170 CTCTAGGGTT
Statistics
Matches: 711, Mismatches: 127, Indels: 42
0.81 0.14 0.05
Matches are distributed among these distances:
83 1 0.00
84 116 0.16
85 495 0.70
86 95 0.13
87 4 0.01
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (85 bp):
ACTTCTTACTCCTAGGTGACCTGTCGGCTTTGTCCCTAGTCAACCATTCCTCTCTTTGTTTACCT
GTCGGCTTTGTCCCCGATAA
Found at i:3856205 original size:156 final size:154
Alignment explanation
Indices: 3855803--3856217 Score: 371
Period size: 156 Copynumber: 2.7 Consensus size: 154
3855793 AAAAGTGGGC
* * ** *
3855803 ATTTAGGATAGGTTCATCACATTTCTAGTCTTTTTAAGTCCTTTAGGATTA-CGGGGGTACTTTT
1 ATTTAGGATAGGTTCATCACATCTATAGTCTTTTTAAGTCCTTTAGGGGTATC-GGGGTACTTTC
* * * *
3855867 ATGTCAAAAGTATACCCATAG-G-GGCATTTTCGTATATTCCTAGAACCGAGTCTTAGGTTGTCA
65 ATGTCAAAGGTAT-CCCCT-GTGAGGTATTTTCGTA-ATT-TTAGAACCGAGTCTTAGGTTGTCA
* ** * *
3855930 CTGGGTTTGCTTTTATGCTGAAGGTTGGT
126 CCGGGTCCGCTTTTATGCTGAAGGTAGAT
* * * * * * *
3855959 ATTTAGGATCGGTTCACCCCTTCTATATTCCTTTTTAAGT-CTTTCAGGGGTATCAGGATACTTT
1 ATTTAGGATAGGTTCATCACATCTATAGT-CTTTTTAAGTCCTTT-AGGGGTATCGGGGTACTTT
* * * * **
3856023 CACGTCGAAGGTAT-CCCT-TAAGGGTATTTTGGTAATTTTATGAAACCTCGTCTTAGGTTGTCA
64 CATGTCAAAGGTATCCCCTGTGA-GGTATTTTCGTAATTTTA-G-AACCGAGTCTTAGGTTGTCA
3856086 CCGGGTCCGCTTTTA--CATCGAAGGTAGAT
126 CCGGGTCCGCTTTTATGC-T-GAAGGTAGAT
* *
3856115 ATTTAGGATAGGTTCATCTCATCTATAGTCTTTTTTAAGTCCTTTAGGGGTATC-GGGTACTTCC
1 ATTTAGGATAGGTTCATCACATCTATAGTC-TTTTTAAGTCCTTTAGGGGTATCGGGGTACTTTC
**
3856179 ATGTCAAAGGTATCCCCTGTGAGGTATTTTTATAATTTT
65 ATGTCAAAGGTATCCCCTGTGAGGTATTTTCGTAATTTT
3856218 TCTTGAACTT
Statistics
Matches: 206, Mismatches: 39, Indels: 28
0.75 0.14 0.10
Matches are distributed among these distances:
154 3 0.01
155 28 0.14
156 135 0.66
157 39 0.19
158 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (154 bp):
ATTTAGGATAGGTTCATCACATCTATAGTCTTTTTAAGTCCTTTAGGGGTATCGGGGTACTTTCA
TGTCAAAGGTATCCCCTGTGAGGTATTTTCGTAATTTTAGAACCGAGTCTTAGGTTGTCACCGGG
TCCGCTTTTATGCTGAAGGTAGAT
Found at i:3857610 original size:167 final size:165
Alignment explanation
Indices: 3857399--3857931 Score: 709
Period size: 167 Copynumber: 3.2 Consensus size: 165
3857389 ATACGGGGTA
* * * * *
3857399 TTTTCTACTTCGTAAATTTTTTTGAGAAGCTTTTTCTCAATTTTTAATTTGTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTTTTGAGGAGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAA
* * *
3857464 TATCATTATTTATTTAATATTAATTCAGTTTTAAAAAATAAATTCATTTGCATGAGTTTTGAATT
66 TATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGAGTTTTGGA-T
*
3857529 TTTTTCCTTCAAATTCCTTTTTTTCTAAAATACGATG
130 TTTTTCCTTAAAATTCCTTTTTTTC-AAAATACGATG
*
3857566 TTTTCTACTCCGTAAATTTTTTTGAGGAGATTTTTATTAATTTTTAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTTTTGAGGAGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAA
*
3857631 TATCATTATTTATTTCATATTAATTCAGTTTTGAAAAATAAATTCATTTTCATGAGTTTTGGA-T
66 TATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGAGTTTTGGATT
* * * * * *
3857695 TTTTCCTTGAAATTTCCCTTATTTCGAAATACGGTC
131 TTTTCCTT-AAAATTCCTTTTTTTCAAAATACGATG
*
3857731 TTTTCTACTCCGTAAATTTTTTCGAAGG-GATTTTTCTTAA-TTTTAATTTTTAAAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTTG-AGGAGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAA
** * *
3857794 ACGTCATTATTTATTTCATAGTAATTCAGTTTTAAAAGATAAATTCATTTTCAT-ATGTTTTGGA
65 ATATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGA-GTTTTGGA
* *
3857858 TTTTTTCCTTAAAATCCCTTTTCTTCGAAAA-ATCGA-G
129 TTTTTTCCTTAAAATTCCTTTTTTTC-AAAATA-CGATG
* * *
3857895 TTTTCTACTTCGTAAATTTTTTTCAAGAGAATTTTTC
1 TTTTCTACTCCGTAAATTTTTTTGAGGAG-ATTTTTC
3857932 CCGATTCAAA
Statistics
Matches: 322, Mismatches: 36, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
163 3 0.01
164 114 0.35
165 72 0.22
166 15 0.05
167 118 0.37
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (165 bp):
TTTTCTACTCCGTAAATTTTTTTGAGGAGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAA
TATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGAGTTTTGGATT
TTTTCCTTAAAATTCCTTTTTTTCAAAATACGATG
Found at i:3858575 original size:11 final size:11
Alignment explanation
Indices: 3858559--3858587 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3858549 AAAAAAGAAG
3858559 AAAGAAAAAAT
1 AAAGAAAAAAT
3858570 AAAG-AAAAAT
1 AAAGAAAAAAT
3858580 AAAGAAAA
1 AAAGAAAA
3858588 TAGGTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAGAAAAAAT
Found at i:3859772 original size:164 final size:164
Alignment explanation
Indices: 3859387--3859848 Score: 687
Period size: 164 Copynumber: 2.8 Consensus size: 164
3859377 ATATATATTT
*
3859387 TAAATATTAATCATTTTTAAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGATTTC
1 TAAATATTAATCATTTTTAAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTC
** *
3859452 AAAAACTTTTCGTATCTTTTCGAATATCCATTAAGGTTCGAAATGA-TTTTTTTCAAAAATAAAT
66 AAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTCAAAAATAAAT
** *
3859516 AAATAATATTAAATTTGCTCCTTGTTAATTACAA
131 AAATAATATTAAATTCACTCCTCGTTAATTACAA
* * *
3859550 CAAATATTAATCATTTTTAAATCTTTCATATT-TCTATGGGTATCCGTTGGGGTATAAAAGATTT
1 TAAATATTAATCATTTTTAAATCTTTTATATTCT-TATGGGTATCCGTAGGGGTATAAAAGATTT
3859614 CAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTCAAAAATAAA
65 CAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTCAAAAATAAA
*
3859679 TAAATAATATTAAATTCATTCCTCGTTAATTACAA
130 TAAATAATATTAAATTCACTCCTCGTTAATTACAA
* * * * *
3859714 TAAACATTAATCGCTTTTT-AATCTTTTATATTCTTATGGGTATCTGTAAGGATATAAAAGATTT
1 TAAATATTAATC-ATTTTTAAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTT
* ** * * *
3859778 AAAAAACTTTTCGTATCTTTTTAGGTATCCATTAAGGTACGAAATGATTTTTTTTCCAATATAGA
65 CAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTCAAAAATAAA
3859843 TAAATA
130 TAAATA
3859849 TCAATTATTT
Statistics
Matches: 270, Mismatches: 25, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
163 103 0.38
164 161 0.60
165 6 0.02
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (164 bp):
TAAATATTAATCATTTTTAAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTC
AAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTCAAAAATAAAT
AAATAATATTAAATTCACTCCTCGTTAATTACAA
Found at i:3861269 original size:155 final size:153
Alignment explanation
Indices: 3860656--3861546 Score: 826
Period size: 156 Copynumber: 5.7 Consensus size: 153
3860646 TTCATGCTGG
* * *
3860656 AGGTGGGTATTTAGGATAGGTTCAATCCTTTTTATAGTCCTTTTACGTCTTTTAGAGGTATCGAG
1 AGGTGGGTATTTAGGATAGGTTC-ATCCCTTTTATAGTCCTTTTAAGTCCTTTAG-GGTAT-GAG
* * * *
3860721 ATACTTCCACGTCGAAGGTATCCCCTAAGGACATTTTTGTAATTTTTCAAAATCGAGTCCTAGGT
63 ATACTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTTGTAATTTTTCAAAATCGAGTCTTAGGT
* * *
3860786 TATCACTGGGGCTACTTTTATGCCAAA
128 TATCACTAGGTCTGCTTTTATGCC-AA
* * * *
3860813 AGGTGGGTATTTAGGATAGGTTCATTCCTTTGATAGTTCTTTTAAG-CTCTTTAGGGGTATCGGG
1 AGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTAAGTC-CTTTA-GGGTAT-GAG
* * ** *
3860877 ATACTTTCACGTCGAAGGTATCTCTTAGGGGCATTTTCATAATTTTTCAAAATAGAGTCTTAGGT
63 ATACTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTTGTAATTTTTCAAAATCGAGTCTTAGGT
*
3860942 TATCAC-CGAGTCTGCTTTTATGCCAA
128 TATCACTAG-GTCTGCTTTTATGCCAA
* * * * *
3860968 AGGTGGGTATTTAGGATAGGTTCATTCCTTTTGTAGTTCTTTTTAAGCCCTTTAGGGGTATTAGG
1 AGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAG-TCCTTTTAAGTCCTTTA-GGGTATGA-G
* * * ** * *
3861033 ATACTTTCACGTTGAAGGTATCCCCTAGAGGTATTTTCATAATTTTTCAAAATCGAGTCCTAGTT
63 ATACTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTTGTAATTTTTCAAAATCGAGTCTTAGGT
* * * *
3861098 TGTCACTGGGTTTGCTTTCATGCCAA
128 TATCACTAGGTCTGCTTTTATGCCAA
*
3861124 AGGTGAGTATTTAGGATA-GTTCATCCCTTTTATGAGTCCTTTTAAGTCCTTTAGGGTTACTGAG
1 AGGTGGGTATTTAGGATAGGTTCATCCCTTTTAT-AGTCCTTTTAAGTCCTTTAGGG-TA-TGAG
* * * ** * * *
3861188 ATACTTTTACATCAAAGGTATAGTCGTAGGGGCATTTTTGTAATTTTT-AGAA-CTAGCTCTTAG
63 ATACTTTCACGTCGAAGGTAT-CCCCTAGGGGCATTTTTGTAATTTTTCAAAATCGAG-TCTTAG
* * *
3861251 GTCATCACTAGGTCTGCTTTTATGTCGA
126 GTTATCACTAGGTCTGCTTTTATGCCAA
* * * * * *
3861279 AGGTGGGTATTTAGGATTGGTTCACCCCTTTTATAGTCCTTTCAAGTCCTTCAGGGTTACCGGGA
1 AGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTAAGTCCTTTAGGG-TA-TGAGA
* * * * * *
3861344 TGCTTTCACGTCAAAGGTATACCCATAGGGGCATTTTGGTAATTTTTTAGAATCGAGTCTTAGGT
64 TACTTTCACGTCGAAGGTAT-CCCCTAGGGGCATTTTTGTAATTTTTCAAAATCGAGTCTTAGGT
* * * ** *
3861409 TGTCACCAAGTCCACTTTTATGCCGA
128 TATCACTAGGTCTGCTTTTATGCCAA
** * * * *
3861435 AGGTAAGTATTTAGAATAGGTTCAT-CTTATTTGA-AATCCTTTTTAAGTCCTTTAGGAGTATCA
1 AGGTGGGTATTTAGGATAGGTTCATCCCT-TTT-ATAGTCC-TTTTAAGTCCTTTAGG-GTATGA
* * * *
3861498 GGTA-TTTCTACATCGAAGGTATCCCTTAGGAGCATTTTTGTAATTTTTC
62 GATACTTTC-ACGTCGAAGGTATCCCCTAGGGGCATTTTTGTAATTTTTC
3861547 TTAAACTTAA
Statistics
Matches: 607, Mismatches: 107, Indels: 42
0.80 0.14 0.06
Matches are distributed among these distances:
154 6 0.01
155 226 0.37
156 328 0.54
157 46 0.08
158 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (153 bp):
AGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTAAGTCCTTTAGGGTATGAGATA
CTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTTGTAATTTTTCAAAATCGAGTCTTAGGTTAT
CACTAGGTCTGCTTTTATGCCAA
Found at i:3861389 original size:311 final size:310
Alignment explanation
Indices: 3860656--3861546 Score: 879
Period size: 311 Copynumber: 2.9 Consensus size: 310
3860646 TTCATGCTGG
* * * *
3860656 AGGTGGGTATTTAGGATAGGTTCAATCCTTTTTATAGTCCTTTTACGTCTTTTAGAGGTATCGAG
1 AGGTGGGTATTTAGGATAGGTTC-ATCCCTTTTATAGTCCTTTTAAGTCCTTTAG-GGTATCGGG
* * * *
3860721 ATACTTCCACGTCGAAGGTATCCCCTAAGGACATTTTTGTAATTTTTCAAAATCGAGTCCTAGGT
64 ATACTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTCAAAATCGAGTCCTAGGT
* * * * *
3860786 TATCACTGGGGCTACTTTTATGCCAAAAGGTGGGTATTTAGGATAGGTTCATTCCTTTGATAGTT
129 TGTCACTGGGGCTACTTTCATGCCAAAAGGTGAGTATTTAGGATAGGTTCATCCCTTTGATAGTC
* * * *
3860851 CTTTTAAGCTCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTATCTCTTAGGGGCATTTTCA
194 CTTTTAAGCTCTTTAGGGGTATCGAGATACTTTCACATCAAAGGTATCTCGTAGGGGCATTTTCA
* * *
3860916 TAATTTTTCAAAATAGAGTCTTAGGTTATCACCGAGTCTGCTTTTATGCCAA
259 TAATTTTTCAAAATAGACTCTTAGGTCATCACAGAGTCTGCTTTTATGCCAA
* * * * **
3860968 AGGTGGGTATTTAGGATAGGTTCATTCCTTTTGTAGTTCTTTTTAAGCCCTTTAGGGGTATTAGG
1 AGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAG-TCCTTTTAAGTCCTTTA-GGGTATCGGG
* * * * *
3861033 ATACTTTCACGTTGAAGGTATCCCCTAGAGGTATTTTCATAATTTTTCAAAATCGAGTCCTAGTT
64 ATACTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTCAAAATCGAGTCCTAGGT
** * *
3861098 TGTCACTGGGTTTGCTTTCATGCC-AAAGGTGAGTATTTAGGATA-GTTCATCCCTTTTATGAGT
129 TGTCACTGGGGCTACTTTCATGCCAAAAGGTGAGTATTTAGGATAGGTTCATCCCTTTGAT-AGT
* * *
3861161 CCTTTTAAG-TCCTTTAGGGTTA-CTGAGATACTTTTACATCAAAGGTATAGTCGTAGGGGCATT
193 CCTTTTAAGCT-CTTTAGGGGTATC-GAGATACTTTCACATCAAAGGTAT-CTCGTAGGGGCATT
** * * *
3861224 TTTGTAATTTTT-AGAACTAG-CTCTTAGGTCATCACTAG-GTCTGCTTTTATGTCGA
255 TTCATAATTTTTCA-AAATAGACTCTTAGGTCATCAC-AGAGTCTGCTTTTATGCCAA
* * * * *
3861279 AGGTGGGTATTTAGGATTGGTTCACCCCTTTTATAGTCCTTTCAAGTCCTTCAGGGTTACCGGGA
1 AGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTAAGTCCTTTAGGG-TATCGGGA
* * * * * * *
3861344 TGCTTTCACGTCAAAGGTATACCCATAGGGGCATTTTGGTAATTTTTTAGAATCGAGTCTTAGGT
65 TACTTTCACGTCGAAGGTAT-CCCCTAGGGGCATTTTCGTAATTTTTCAAAATCGAGTCCTAGGT
*** * * * * * * ** *
3861409 TGTCACCAAGTCCACTTTTATGCC-GAAGGTAAGTATTTAGAATAGGTTCATCTTATTTGA-AAT
129 TGTCACTGGGGCTACTTTCATGCCAAAAGGTGAGTATTTAGGATAGGTTCATC-CCTTTGATAGT
* * * * * *
3861472 CCTTTTTAAG-TCCTTTAGGAGTATC-AGGTA-TTTCTACATCGAAGGTATCCCTTAGGAGCATT
193 CC-TTTTAAGCT-CTTTAGGGGTATCGAGATACTTTC-ACATCAAAGGTATCTCGTAGGGGCATT
**
3861534 TTTGTAATTTTTC
255 TTCATAATTTTTC
3861547 TTAAACTTAA
Statistics
Matches: 474, Mismatches: 89, Indels: 33
0.80 0.15 0.06
Matches are distributed among these distances:
309 3 0.01
310 75 0.16
311 220 0.46
312 170 0.36
313 6 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (310 bp):
AGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTAAGTCCTTTAGGGTATCGGGAT
ACTTTCACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTCAAAATCGAGTCCTAGGTTG
TCACTGGGGCTACTTTCATGCCAAAAGGTGAGTATTTAGGATAGGTTCATCCCTTTGATAGTCCT
TTTAAGCTCTTTAGGGGTATCGAGATACTTTCACATCAAAGGTATCTCGTAGGGGCATTTTCATA
ATTTTTCAAAATAGACTCTTAGGTCATCACAGAGTCTGCTTTTATGCCAA
Found at i:3867744 original size:20 final size:22
Alignment explanation
Indices: 3867719--3867773 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
3867709 CAAAACCCAG
3867719 ATGTATCGATACAATGAT-AA-
1 ATGTATCGATACAATGATCAAT
*
3867739 ATGTATCGATACAATTATCAAT
1 ATGTATCGATACAATGATCAAT
*
3867761 ATGTATCAATACA
1 ATGTATCGATACA
3867774 TTTACTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 17 0.55
21 2 0.06
22 12 0.39
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (22 bp):
ATGTATCGATACAATGATCAAT
Found at i:3868401 original size:61 final size:59
Alignment explanation
Indices: 3868248--3868703 Score: 347
Period size: 61 Copynumber: 7.4 Consensus size: 59
3868238 AATGAGAGAT
* * * * *
3868248 CGCCCTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTTTGTGGGCTTTAAAAGAAAAAAAGAAG
1 CGCCCTGCTCTTTGAGGACTAAAAGGTGCTACCAACTTGTGT-GGCTTT----GAAAAGAA-AAG
* * * * *
3868313 TGTCCC-ACTCTTTGAGGAGTAAAAGGTGCTACCAACTTATTTAGGCTTTGAAAAGAAAAG
1 CG-CCCTGCTCTTTGAGGACTAAAAGGTGCTACCAACTTGTGT-GGCTTTGAAAAGAAAAG
*
3868373 CTGCCCTGCTCTTTGAGGACTAAGAGGTGCTACCAACTTGTGTGGGCTTTGAAAAGAAAAG
1 C-GCCCTGCTCTTTGAGGACTAAAAGGTGCTACCAACTTGTGT-GGCTTTGAAAAGAAAAG
* * *
3868434 -GCATCCTGATCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGCTTT-AAAAGTAGAAGG
1 CGC--CCTGCTCTTTGAGGACTAAAAGGTGCTACCAACTTGTGTGGCTTTGAAAAG-A-AAAG
* * * *
3868495 CGTCCTGCTCTTTGAGGACTGAAAGGTG-TCACCAACTCGTGTGGGCTTT-AAGAGGAAAAG
1 CGCCCTGCTCTTTGAGGACTAAAAGGTGCT-ACCAACTTGTGT-GGCTTTGAA-AAGAAAAG
* * * * * *
3868555 -GCATCCTACTCTTTGAGGACTGAATGGTACCACCAACTTGTGTGGGCTTT-AAAAGGAGAAG
1 CGC--CCTGCTCTTTGAGGACTAAAAGGTGCTACCAACTTGTGT-GGCTTTGAAAA-GAAAAG
* *
3868616 -GCATCCTGCTCTTTGAGGATTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
1 CGC--CCTGCTCTTTGAGGACT-AAAAGGTGCTACCAACTTGTGT-GGCTTTGAAAA-GAAAAG
* *
3868677 ACGTCCTGCTCTTTGAAGACTAAAAGG
1 -CGCCCTGCTCTTTGAGGACTAAAAGG
3868704 ATAAAAGGTT
Statistics
Matches: 327, Mismatches: 45, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
59 8 0.02
60 55 0.17
61 219 0.67
62 5 0.02
63 1 0.00
65 36 0.11
66 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (59 bp):
CGCCCTGCTCTTTGAGGACTAAAAGGTGCTACCAACTTGTGTGGCTTTGAAAAGAAAAG
Found at i:3881816 original size:13 final size:13
Alignment explanation
Indices: 3881798--3881823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3881788 ACATTTTGGG
3881798 ATGTATCGATACA
1 ATGTATCGATACA
3881811 ATGTATCGATACA
1 ATGTATCGATACA
3881824 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3881818 original size:33 final size:32
Alignment explanation
Indices: 3881776--3881843 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
3881766 CGTTACAAGC
*
3881776 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
3881809 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
3881841 CAA
1 CAA
3881844 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:3881942 original size:13 final size:13
Alignment explanation
Indices: 3881924--3881948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3881914 ACATTTGGTT
3881924 ATGTATCGATACA
1 ATGTATCGATACA
3881937 ATGTATCGATAC
1 ATGTATCGATAC
3881949 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3884242 original size:13 final size:13
Alignment explanation
Indices: 3884220--3884257 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3884210 ATAAACCCTT
* *
3884220 TGTATGGATACAC
1 TGTATCGATACAA
3884233 TGTATCGATACAA
1 TGTATCGATACAA
3884246 TGTATCGATACA
1 TGTATCGATACA
3884258 GAGAATGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3884473 original size:8 final size:8
Alignment explanation
Indices: 3884460--3884493 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
3884450 AACATCATTC
3884460 ATCACAAA
1 ATCACAAA
3884468 ATCACAAA
1 ATCACAAA
3884476 ATCACAAA
1 ATCACAAA
3884484 ATCACAAA
1 ATCACAAA
3884492 AT
1 AT
3884494 TTAATCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:3886865 original size:20 final size:21
Alignment explanation
Indices: 3886818--3886870 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3886808 GCCAATGACC
*
3886818 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
3886839 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
3886859 TGTATCGATACA
1 TGTATCGATACA
3886871 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:3886876 original size:13 final size:13
Alignment explanation
Indices: 3886858--3886882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3886848 ACATTTGGTC
3886858 ATGTATCGATACA
1 ATGTATCGATACA
3886871 ATGTATCGATAC
1 ATGTATCGATAC
3886883 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3888310 original size:78 final size:79
Alignment explanation
Indices: 3888088--3888377 Score: 284
Period size: 79 Copynumber: 3.7 Consensus size: 79
3888078 TATTTTGCAG
* * * ** * *
3888088 ATAAAAACGAGGTTGAAGTATCCCCTCGAAAACAAC-AGGGTTGGAGTATCCTCGATAGTGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGA-GGTTGGAGTATCCTCGATGGTGAAAA
* *
3888152 ACTGATATTTT-GAAA
65 ATTGATGTTTTAG-AA
* * * * ** * *
3888167 ACAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACAAGATTAGAACATCCCCAATGGTGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAA
*
3888232 TTGGTGTTTTAGAA
66 TTGATGTTTTAGAA
* * *
3888246 ATAAAATCAGGGTTAGAGT-TCCCCTAAAAAATAACGAGGTTGGAGTATCCTCGATGGTGGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAA
*
3888310 TCGATGTTTTAGAA
66 TTGATGTTTTAGAA
* * *
3888324 ATAAAA-CTGGGGTTGGAGTATCCCCTTAAAAATAACGGGGCT-GAGGTATCCTCG
1 ATAAAATC-GGGGTTGGAGTATCCCCTAAAAAATAACGAGGTTGGA-GTATCCTCG
3888378 CGAAAATAAC
Statistics
Matches: 171, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
77 1 0.01
78 66 0.39
79 102 0.60
80 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (79 bp):
ATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAA
TTGATGTTTTAGAA
Found at i:3888426 original size:185 final size:185
Alignment explanation
Indices: 3888195--3888543 Score: 461
Period size: 185 Copynumber: 1.9 Consensus size: 185
3888185 TATCCCCTAA
* * **
3888195 AAAATAACAAGATTAGAACATCCCCAATGGTGAAAAATTGGTGTTTTAGAAATAAAATCAGGGTT
1 AAAATAACAAGATTAGAACATCCCCAATGGTGAAAAATTAGTGTTTTAGAAATAAAACCAGAATT
* * *
3888260 AGAGT-TCCCCTAAAAAATAACGAGGTTGGAGTATC-CTCGATGGTGGAAAATCGATGTTTTAGA
66 AGAGTATCCACTAAAAAA-AACGAGGTTGGAGTATCTC-CAATGGTGAAAAATCGATGTTTTAGA
* *
3888323 AATAAAA-CTGGGGTTGGAGTATCCCCTTAAAAATAACGGGGCTGAGGTATCCTCGCG
129 AATAAAATC-GAGGTTGGAGTATCCCCTCAAAAATAACGGGGCTGAGGTATCCTCGCG
* * ** *
3888380 AAAATAACAGGGTTAGAGTATCCCCGATGGTGAAAAATTAGTGTTTTAGAAATAAAACCAGAATT
1 AAAATAACAAGATTAGAACATCCCCAATGGTGAAAAATTAGTGTTTTAGAAATAAAACCAGAATT
* *** * *
3888445 GGAGTATCCACTCGGAAAAATGAGGTTGGAGTATCTCCAATGGTGAAAAATCGGTGTTTTAGAAA
66 AGAGTATCCACTAAAAAAAACGAGGTTGGAGTATCTCCAATGGTGAAAAATCGATGTTTTAGAAA
*
3888510 TAAAATCGAGGTTGGAGTATCCCCTCAGAAATAA
131 TAAAATCGAGGTTGGAGTATCCCCTCAAAAATAA
3888544 TGGGTTGGAG
Statistics
Matches: 140, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
185 130 0.93
186 10 0.07
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (185 bp):
AAAATAACAAGATTAGAACATCCCCAATGGTGAAAAATTAGTGTTTTAGAAATAAAACCAGAATT
AGAGTATCCACTAAAAAAAACGAGGTTGGAGTATCTCCAATGGTGAAAAATCGATGTTTTAGAAA
TAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGCTGAGGTATCCTCGCG
Found at i:3888488 original size:78 final size:76
Alignment explanation
Indices: 3888389--3888594 Score: 245
Period size: 78 Copynumber: 2.6 Consensus size: 76
3888379 GAAAATAACA
*
3888389 GGGTTAGAGTATCCCCGATGGTGAAAAATTAGTGTTTTAGAAATAAAACC-AGAATTGGAGTATC
1 GGGTTGGAGTAT-CCCGATGGTGAAAAATT-GTGTTTTAGAAATAAAACCGAG-ATTGGAGTATC
*
3888453 CACTCGGAAA-AAT
63 CACTCAGAAATAAT
* * * *
3888466 GAGGTTGGAGTATCTCCAATGGTGAAAAATCGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATC
1 G-GGTTGGAGTATC-CCGATGGTGAAAAAT-TGTGTTTTAGAAATAAAACCGAGATTGGAGTATC
*
3888531 CCCTCAGAAATAAT
63 CACTCAGAAATAAT
*
3888545 GGGTTGGAGTATCCCTGATGGTGAAAAATCTGTGTTTTGGAAATATAAAC
1 GGGTTGGAGTATCCC-GATGGTGAAAAAT-TGTGTTTTAGAAATA-AAAC
3888595 ATCAATGAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
77 4 0.04
78 98 0.88
79 9 0.08
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (76 bp):
GGGTTGGAGTATCCCGATGGTGAAAAATTGTGTTTTAGAAATAAAACCGAGATTGGAGTATCCAC
TCAGAAATAAT
Found at i:3891032 original size:20 final size:20
Alignment explanation
Indices: 3890986--3891043 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
3890976 ATAATGATAA
3890986 ATGTATCGATACAATTATAAGT
1 ATGTATCGATAC-ATT-TAAGT
**
3891008 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTAAGT
*
3891028 ATGTATAGATACATTT
1 ATGTATCGATACATTT
3891044 CTTTGGCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 18 0.55
21 3 0.09
22 12 0.36
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTAAGT
Found at i:3891113 original size:21 final size:21
Alignment explanation
Indices: 3891062--3891121 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
3891052 GTATGCTAGA
3891062 TATT-TTTGTATCAATACATT
1 TATTGTTTGTATCAATACATT
* **
3891082 T-TAGGCATGTATCAATACATT
1 TAT-TGTTTGTATCAATACATT
*
3891103 TATTGTTTGTATCGATACA
1 TATTGTTTGTATCAATACA
3891122 AATTATAGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 27 0.90
22 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (21 bp):
TATTGTTTGTATCAATACATT
Found at i:3895258 original size:20 final size:20
Alignment explanation
Indices: 3895233--3895287 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
3895223 ATTTGCCTGC
*
3895233 ATGTATCGATATATTGAATA
1 ATGTATCGATACATTGAATA
3895253 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
3895273 ATGTATCGATACATT
1 ATGTATCGATACATT
3895288 TCCTTGGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:3896234 original size:49 final size:49
Alignment explanation
Indices: 3896077--3896391 Score: 312
Period size: 49 Copynumber: 6.3 Consensus size: 49
3896067 CAAAGAATGA
* * * *
3896077 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGATGAA--TGC
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGC
* * * ** * * * *
3896124 CAATGTGCTGAGAT-AAGGCCAGCGACATTGGGCTTATGAATGTTAAAGATGC
1 CAATATGCTGA-TTCAAGGCCAACGACATCAGACTTA--AA-GATGAAGGTGC
* * *
3896176 CAATATGCTGATTCAAGGCCAAAGATATCGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGC
* * *
3896225 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAATGTGT
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGC
* * **
3896274 CAATGTGCTGATTCAAGGTCAACGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGAT-G--AAGGTGC
* * *
3896326 CAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGC
3896375 CAATATGCTGATTCAAG
1 CAATATGCTGATTCAAG
3896392 AGCAGTGATA
Statistics
Matches: 223, Mismatches: 35, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
47 28 0.13
48 1 0.00
49 114 0.51
50 7 0.03
51 1 0.00
52 72 0.32
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGAAGGTGC
Found at i:3896402 original size:150 final size:148
Alignment explanation
Indices: 3896077--3896391 Score: 402
Period size: 150 Copynumber: 2.1 Consensus size: 148
3896067 CAAAGAATGA
* * * * *
3896077 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGATGAATGCCAATGTGCTGAGATAAGG
1 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAATGCCAATGTGCTGAGATAAGG
* * * * *
3896142 CCAGCGACATTGGGCTTATGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAAAGATATCGG
66 CCAACGACATTGGACTTAAGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAAAGACATCAG
*
3896207 ACTTAAAGATGAAGGTGC
131 ACTTAAAGATAAAGGTGC
* *
3896225 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAATGTGTCAATGTGCTGA-TTCA
1 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAA--TGCCAATGTGCTGAGAT-A
* * * *
3896289 AGGTCAACGACATTGGACTTAA-AGATGGTT-AAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
63 AGGCCAACGACATTGGACTTAAGA-AT-GTTAAAGATGCCAATATGCTGATTCAAGGCCAAAGAC
*
3896352 ATCAGTCTTAAAGATAAAGGTGC
126 ATCAGACTTAAAGATAAAGGTGC
3896375 CAATATGCTGATTCAAG
1 CAATATGCTGATTCAAG
3896392 AGCAGTGATA
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
148 39 0.27
149 2 0.01
150 100 0.69
151 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (148 bp):
CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAATGCCAATGTGCTGAGATAAGG
CCAACGACATTGGACTTAAGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAAAGACATCAG
ACTTAAAGATAAAGGTGC
Found at i:3896405 original size:101 final size:98
Alignment explanation
Indices: 3896077--3896503 Score: 335
Period size: 101 Copynumber: 4.4 Consensus size: 98
3896067 CAAAGAATGA
* * * * * * * *
3896077 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGATGAA--TGCCAATGTGCTGAGAT-A
1 CAATATGCTGATTCAAGGCCAAAGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGA-TTCA
* ** * * *
3896139 AGGCCAGCGACATTGGGCTTATGAATGTTAAAGATGC
65 AGGCCAACGACATCAGACTTA--AA-GATAAAGGTGC
*
3896176 CAATATGCTGATTCAAGGCCAAAGATATCGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAAAGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
3896241 GGCCAACGATATCAGACTTAAAGATGAATGTGT
66 GGCCAACGACATCAGACTTAAAGATAAAGGTGC
* * * * *
3896274 CAATGTGCTGATTCAAGGTCAACGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATT
1 CAATATGCTGATTCAAGGCCAAAGATATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
*
3896339 CAAGGCCAACGACATCAGTCTTAAAGATAAAGGTGC
63 CAAGGCCAACGACATCAGACTTAAAGATAAAGGTGC
** *
3896375 CAATATGCTGATTCAAGAG-CAGTGATATTGGGC-T-----T--A--TGCCAATATGCTGATTCA
1 CAATATGCTGATTCAAG-GCCAAAGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
* ** * **
3896429 GGGCCAACGACATTGGTCTTAAAG-GCAAGGTGC
65 AGGCCAACGACATCAGACTTAAAGATAAAGGTGC
* * **
3896462 CAATATGCTAATTCAAGGCTAGCGATATTGGACTTAAAGATG
1 CAATATGCTGATTCAAGGCCAAAGATATTGGACTTAAAGATG
3896504 CCACGGAGTT
Statistics
Matches: 268, Mismatches: 45, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
86 1 0.00
87 34 0.13
88 39 0.15
90 1 0.00
93 1 0.00
95 1 0.00
98 42 0.16
99 40 0.15
100 2 0.01
101 106 0.40
102 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (98 bp):
CAATATGCTGATTCAAGGCCAAAGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAACGACATCAGACTTAAAGATAAAGGTGC
Found at i:3896444 original size:39 final size:39
Alignment explanation
Indices: 3896372--3896449 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
3896362 AAGATAAAGG
** *
3896372 TGCCAATATGCTGATTCAAGAGCAGTGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGAGCAACGACATTGGGCTTA
* *
3896411 TGCCAATATGCTGATTC-AGGGCCAACGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGAG-CAACGACATTGGGCTTA
3896450 AAGGCAAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 3 0.09
39 30 0.91
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGAGCAACGACATTGGGCTTA
Found at i:3896543 original size:34 final size:32
Alignment explanation
Indices: 3896497--3896679 Score: 132
Period size: 34 Copynumber: 5.8 Consensus size: 32
3896487 TATTGGACTT
*
3896497 AAAGATGCCACGGAGTTGTGGACTTACAGGAAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAGG-AA
*
3896530 AAAGGATGCCACGGAGGTGTTGG-CTTAAAAGGAA
1 AAA-GATGCCACGGAGTTG-TGGACTT-AAAGGAA
*
3896564 AAAGATGCCACAGAGTTGTGGACTTAAAAGG--
1 AAAGATGCCACGGAGTTGTGGACTT-AAAGGAA
* *
3896595 ---G-TGCCACGGAGTTATGGACTTTGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAGGAA
* * * *
3896625 AAAGATGCCACAGAGTCGTGGACTT--TGGGA
1 AAAGATGCCACGGAGTTGTGGACTTAAAGGAA
* * *
3896655 AGAGATGCCACTGAGTCGTGGACTT
1 AAAGATGCCACGGAGTTGTGGACTT
3896680 TGAGAAGAGA
Statistics
Matches: 123, Mismatches: 16, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
27 16 0.13
28 7 0.06
30 25 0.20
32 3 0.02
33 28 0.23
34 37 0.30
35 7 0.06
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (32 bp):
AAAGATGCCACGGAGTTGTGGACTTAAAGGAA
Found at i:3896698 original size:31 final size:30
Alignment explanation
Indices: 3896627--3896917 Score: 217
Period size: 28 Copynumber: 10.0 Consensus size: 30
3896617 GAAAAGAAAA
* * *
3896627 AGATGCCACAGAGTCGTGGACTTTGGGAAG
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
*
3896657 AGATGCCACTGAGTCGTGGACTTTGAGAAG
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
* *
3896687 AGATTGCCACTGACTCATGGACTTTGAAGAAA
1 AGA-TGCCACTGACTCGTGGACTTTG-AGAAG
* *
3896719 AGATGCCACTGACTTGTGGACTTT-TGAAG
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
* * * *
3896748 -GTTGCCACTAACTTGTGGGCTTTGA-AA-
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
* * * *
3896775 AGAAGCCACTGACTTGTGGGCTTT-TGAAG
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
* * * *
3896804 -GTTGCCACTGACTTGTGGGCTTTTAGAA-
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
* * * *
3896832 AGATACCACTGACTTGTGGGCTTT-TGAAG
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
* * * *
3896861 -GTTGCCACTGACTTGTGGGCTTTGA-AAA
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
* *
3896889 AGATGCCACTGACTTGTGGGCTTTG-GAAG
1 AGATGCCACTGACTCGTGGACTTTGAGAAG
3896918 GTGAGGAATG
Statistics
Matches: 220, Mismatches: 29, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
28 91 0.41
29 52 0.24
30 31 0.14
31 39 0.18
32 7 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (30 bp):
AGATGCCACTGACTCGTGGACTTTGAGAAG
Found at i:3896762 original size:28 final size:28
Alignment explanation
Indices: 3896722--3896919 Score: 247
Period size: 28 Copynumber: 7.0 Consensus size: 28
3896712 GAAGAAAAGA
*
3896722 TGCCACTGACTTGTGGACTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
* * *
3896750 TGCCACTAACTTGTGGGC-TTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG-AAGGT
*
3896778 AGCCACTGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
* *
3896806 TGCCACTGACTTGTGGGCTTTTAGAAAGA
1 TGCCACTGACTTGTGGGCTTTT-GAAGGT
*
3896835 TACCACTGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
* *
3896863 TGCCACTGACTTGTGGGC-TTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG--AAGGT
*
3896892 TGCCACTGACTTGTGGGCTTTGGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
3896920 GAGGAATGTC
Statistics
Matches: 144, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.06
28 83 0.58
29 50 0.35
30 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTTGAAGGT
Found at i:3896861 original size:57 final size:57
Alignment explanation
Indices: 3896690--3896919 Score: 329
Period size: 57 Copynumber: 4.0 Consensus size: 57
3896680 TGAGAAGAGA
** * * *
3896690 TTGCCACTGACTCATGGACTTTGAAGAAAAGATGCCACTGACTTGTGGACTTTTGAAGG
1 TTGCCACTGACTTGTGGGCTTTG-AG-AAAGATACCACTGACTTGTGGGCTTTTGAAGG
*
3896749 TTGCCACTAACTTGTGGGCTTTGA-AAAGA-AGCCACTGACTTGTGGGCTTTTGAAGG
1 TTGCCACTGACTTGTGGGCTTTGAGAAAGATA-CCACTGACTTGTGGGCTTTTGAAGG
*
3896805 TTGCCACTGACTTGTGGGCTTTTAGAAAGATACCACTGACTTGTGGGCTTTTGAAGG
1 TTGCCACTGACTTGTGGGCTTTGAGAAAGATACCACTGACTTGTGGGCTTTTGAAGG
* * *
3896862 TTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGGAAGG
1 TTGCCACTGACTTGTGGGCTTTGAGAAAGATACCACTGACTTGTGGGCTTTTGAAGG
3896919 T
1 T
3896920 GAGGAATGTC
Statistics
Matches: 156, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
56 51 0.33
57 84 0.54
58 2 0.01
59 19 0.12
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (57 bp):
TTGCCACTGACTTGTGGGCTTTGAGAAAGATACCACTGACTTGTGGGCTTTTGAAGG
Found at i:3898390 original size:18 final size:18
Alignment explanation
Indices: 3898350--3898395 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
3898340 ATCCGGACCC
*
3898350 TTTTTGTTTCTTTTTCTT
1 TTTTTTTTTCTTTTTCTT
* *
3898368 CTTTTTTTTCTTTTTGTT
1 TTTTTTTTTCTTTTTCTT
3898386 TTTTTGTTTT
1 TTTTT-TTTT
3898396 TGTTTTTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTCTT
Found at i:3913566 original size:48 final size:48
Alignment explanation
Indices: 3913511--3913606 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
3913501 AATCCCGAAT
3913511 CAGCAAGGGAAACATGAGAAAATGGTCCAATAAGATTCAGCCATGCAC
1 CAGCAAGGGAAACATGAGAAAATGGTCCAATAAGATTCAGCCATGCAC
*
3913559 CAGCAAGGGAAACATGAGAAAATGGTCCAGTAAGATTCAGCCATGCAC
1 CAGCAAGGGAAACATGAGAAAATGGTCCAATAAGATTCAGCCATGCAC
3913607 AAAATTTCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.15
Consensus pattern (48 bp):
CAGCAAGGGAAACATGAGAAAATGGTCCAATAAGATTCAGCCATGCAC
Found at i:3914211 original size:21 final size:21
Alignment explanation
Indices: 3914187--3914233 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3914177 TGTATTTTAA
3914187 TTTTCTCTATATTTT-CTTCTC
1 TTTT-TCTATATTTTCCTTCTC
* *
3914208 TTTTTCTTTCTTTTCCTTCTC
1 TTTTTCTATATTTTCCTTCTC
3914229 TTTTT
1 TTTTT
3914234 TCTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTCTATATTTTCCTTCTC
Found at i:3914212 original size:11 final size:11
Alignment explanation
Indices: 3914198--3914247 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
3914188 TTTCTCTATA
3914198 TTTTCTTCTCT
1 TTTTCTTCTCT
3914209 TTTTCTT-TCT
1 TTTTCTTCTCT
*
3914219 TTTCCTTCTCT
1 TTTTCTTCTCT
3914230 TTTT-TCTCTCT
1 TTTTCT-TCTCT
3914241 TCTTTCT
1 T-TTTCT
3914248 CAGCTGATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 10 0.30
11 19 0.58
12 3 0.09
13 1 0.03
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTCTTCTCT
Found at i:3914247 original size:20 final size:21
Alignment explanation
Indices: 3914202--3914248 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
3914192 TCTATATTTT
* *
3914202 CTTCTCTTTTTCTTTCTTTTC
1 CTTCTCTTTTTCTCTCTCTTC
3914223 CTTCTCTTTTT-TCTCTCTTC
1 CTTCTCTTTTTCTCTCTCTTC
*
3914243 TTTCTC
1 CTTCTC
3914249 AGCTGATCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
CTTCTCTTTTTCTCTCTCTTC
Found at i:3914248 original size:11 final size:10
Alignment explanation
Indices: 3914187--3914248 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
3914177 TGTATTTTAA
*
3914187 TTTTCTCTAT
1 TTTTCTCTCT
3914197 ATTTTCTTCTCT
1 -TTTTC-TCTCT
*
3914209 TTTTCTTTCT
1 TTTTCTCTCT
*
3914219 TTTCCTTCTCTT
1 TTTTC-TCTC-T
3914231 TTTTCTCTCT
1 TTTTCTCTCT
3914241 TCTTTCTC
1 T-TTTCTC
3914249 AGCTGATCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 10 0.24
11 23 0.55
12 9 0.21
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCTCTCT
Done.