Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 28 of 35
Found at i:4023586 original size:102 final size:102
Alignment explanation
Indices: 4023410--4023645 Score: 341
Period size: 102 Copynumber: 2.3 Consensus size: 102
4023400 TAAGTTTCTC
* * * *
4023410 AATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCAAAATC
1 AATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCAAAATC
*
4023475 GGGGATACTCAAACCCCGGTTTTATTTCTAAAACACT
66 GGGGATACTCAAACCCCGGTTTTAATTCTAAAACACT
* *
4023512 AATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTT-TCGAAACACCAATTTTCCATAAT
1 AATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCT-AAAACACCAATTTTCCAAAAT
* * *
4023576 CGGGGATACTCCAACCCCGGTTTTAATTCTAAAATATT
65 CGGGGATACTCAAACCCCGGTTTTAATTCTAAAACACT
*
4023614 GA-TTTCTCACAATCGGGGATACTCCAACTCCG
1 AATTTTC-CACAATCGGGGATACTCCAACTCCG
4023646 TTATTTCTGA
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
101 5 0.04
102 116 0.96
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (102 bp):
AATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCAAAATC
GGGGATACTCAAACCCCGGTTTTAATTCTAAAACACT
Found at i:4023719 original size:79 final size:79
Alignment explanation
Indices: 4023577--4023953 Score: 531
Period size: 79 Copynumber: 4.8 Consensus size: 79
4023567 TTCCATAATC
*
4023577 GGGGATACTCCAACCCCGGTTTTAATT-CTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTT-ATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
* *
4023641 CTCCGTTATTTCTGA
65 CCCCGTTATTTCCGA
* * *
4023656 GGGAATATTCTAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
*
4023721 CCCGTCATTTCCGA
66 CCCGTTATTTCCGA
* * *
4023735 GGGGATACTCCAACCTCGACTTTATTCCTAAAATATTGATTTCTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
* *
4023800 CTCGTTATTTCCAA
66 CCCGTTATTTCCGA
* *
4023814 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATAGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
*
4023879 CCCGTTATTTTCGA
66 CCCGTTATTTCCGA
* ** * *** *
4023893 GGGGATACTCTAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTC
4023954 TAACTCCGAT
Statistics
Matches: 266, Mismatches: 31, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 3 0.01
79 263 0.99
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:4023956 original size:51 final size:51
Alignment explanation
Indices: 4023893--4023991 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
4023883 TTATTTTCGA
* * *
4023893 GGGGATACTCTAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
*
4023944 GGGGATACTCTAACTCCGATTTTATTTCCAAAACACCAATTTCTCACA
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTCTCACA
4023992 CTCCCCAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:4030528 original size:20 final size:20
Alignment explanation
Indices: 4030459--4030528 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
4030449 CTATAATTTC
*
4030459 TATCGATACAATAAGTTAATG
1 TATCGATAC-ATAAGTGAATG
* *
4030480 TATCGATACGTAAGTGAATC
1 TATCGATACATAAGTGAATG
** *
4030500 TATAAATACATAAATGAATG
1 TATCGATACATAAGTGAATG
4030520 TATCGATAC
1 TATCGATAC
4030529 TAGACTATAT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 30 0.77
21 9 0.23
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (20 bp):
TATCGATACATAAGTGAATG
Found at i:4030596 original size:21 final size:21
Alignment explanation
Indices: 4030570--4030634 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
4030560 TAAAAAAATT
4030570 GTATCGATACATGCCTGCAAA
1 GTATCGATACATGCCTGCAAA
* *
4030591 GTATCGATACGAAG--T-CAAT
1 GTATCGATAC-ATGCCTGCAAA
*
4030610 GTATCAATACATGCCTGCAAA
1 GTATCGATACATGCCTGCAAA
4030631 GTAT
1 GTAT
4030635 TAATATATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 2 0.06
21 17 0.49
22 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (21 bp):
GTATCGATACATGCCTGCAAA
Found at i:4032839 original size:32 final size:32
Alignment explanation
Indices: 4032794--4032872 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
4032784 AATCTCATTT
* **
4032794 TCACTGTTCATCACTGTTGATGTATCGATACA
1 TCACTGTTCATCACTGTTCACATATCGATACA
*
4032826 TCATTGTTCATCACTGTTCACATATCGATACA
1 TCACTGTTCATCACTGTTCACATATCGATACA
*
4032858 TCACTGTTTATCACT
1 TCACTGTTCATCACT
4032873 ATACATTGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (32 bp):
TCACTGTTCATCACTGTTCACATATCGATACA
Found at i:4033349 original size:36 final size:35
Alignment explanation
Indices: 4033304--4033375 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
4033294 CTAAATGATT
*
4033304 GAGAGGTTCTATCTTAG-CCTTGGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCCGT-GAAAAA-ATAGGGA
4033340 GAGAGGTTCTATCTTAGCCCGTGAAAAAATAGGGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAATAGGGA
4033375 G
1 G
4033376 GTTTCTATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 8 0.24
36 23 0.68
37 3 0.09
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAATAGGGA
Found at i:4044553 original size:4 final size:4
Alignment explanation
Indices: 4044537--4044567 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
4044527 AAAACAAAAC
*
4044537 AAAT AAAT CAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4044568 CACCTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:4046730 original size:79 final size:79
Alignment explanation
Indices: 4046599--4046748 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 79
4046589 AGGTGATAAC
* * * * *
4046599 AACGGGGCTGGAGGATCCCTGATTATGAAAAATTTGTGTTCTGGAAATAAAATTGGGGTTGGAGT
1 AACGGGGCTGGAGGATCCCCGATTATGAAAAATTGGTGTTCTGAAAATAAAATCGGAGTTGGAGT
4046664 ATCCCCTTGGAAAT
66 ATCCCCTTGGAAAT
* * * *
4046678 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTGT-TGAAAATAAAATCGGAGTTGGAG
1 AACGGGGCTGGAGGATCCCCGATTATGAAAAATTGGTGT-TCTGAAAATAAAATCGGAGTTGGAG
4046742 TATCCCC
65 TATCCCC
4046749 GATTGCGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 60 0.98
80 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (79 bp):
AACGGGGCTGGAGGATCCCCGATTATGAAAAATTGGTGTTCTGAAAATAAAATCGGAGTTGGAGT
ATCCCCTTGGAAAT
Found at i:4046747 original size:51 final size:51
Alignment explanation
Indices: 4046682--4046796 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
4046672 GGAAATAACG
* * *
4046682 GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTGTTGA-AAATAAAATC-
1 GGGTTGGAGTATCCCCGATTGCGAAAAATTGGTAT-TTGAGAAATAAAATCA
*
4046732 GGAGTTGGAGTATCCCCGATTGCGAAAAATTGGTATTTTAGAAATAAAATCA
1 GG-GTTGGAGTATCCCCGATTGCGAAAAATTGGTATTTGAGAAATAAAATCA
4046784 GGGTTGGAGTATC
1 GGGTTGGAGTATC
4046797 GCCTCGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 5 0.09
51 51 0.88
52 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGCGAAAAATTGGTATTTGAGAAATAAAATCA
Found at i:4046818 original size:79 final size:79
Alignment explanation
Indices: 4046735--4047036 Score: 433
Period size: 79 Copynumber: 3.8 Consensus size: 79
4046725 TAAAATCGGA
* * *** * * *
4046735 GTTGGAGTATCCCCGATTGCGAAAAATTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCGCC
1 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
4046800 TCGAAAATAACGGG
66 TCGAAAATAACGGG
* * *
4046814 GTTGGAGTATCCCTGATTGTGAGAAATCTATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
4046879 TAGAAAATAATGGG
66 TCGAAAATAACGGG
* * *
4046893 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCTGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
4046958 TCGGAAATGACGGG
66 TCGAAAATAACGGG
*
4046972 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAATTAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
4047037 GATTGTGGAA
Statistics
Matches: 199, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 199 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:4046856 original size:130 final size:130
Alignment explanation
Indices: 4046642--4046878 Score: 334
Period size: 130 Copynumber: 1.8 Consensus size: 130
4046632 TTGTGTTCTG
** * *
4046642 GAAATAAAATTGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAG
1 GAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAG
* * *
4046707 AAATTGGTGTGTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGCGAAAAATTGGTATTTTA
66 AAATTGATATGTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTGCGAAAAATTGGTATTTTA
* *
4046772 GAAATAAAATCAGGGTTGGAGTATCGCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAG
1 GAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAG
* * *
4046837 AAATCT-ATAT-TTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
66 AAAT-TGATATGTTGA-AAATAAAACCGGAGTTGGAGTATCCCC
4046879 TAGAAAATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
129 3 0.03
130 89 0.96
131 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (130 bp):
GAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAG
AAATTGATATGTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTGCGAAAAATTGGTATTTTA
Found at i:4047068 original size:51 final size:51
Alignment explanation
Indices: 4046968--4047203 Score: 305
Period size: 51 Copynumber: 4.6 Consensus size: 51
4046958 TCGGAAATGA
* * * * *
4046968 CGGGGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTAGAATTAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTGAGAAATAAAAC
* *
4047019 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGA-AAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTT-GAGAAATAAAAC
* * *
4047070 CGGAGTTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTGAGAAATAAAAC
* * *
4047121 CGGGGTTTGAGTATCCCCGATTTTGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTGAGAAATAAAAC
* *
4047172 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATT
4047204 GAGAAACTTA
Statistics
Matches: 163, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.01
51 159 0.98
52 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTGAGAAATAAAAC
Found at i:4049580 original size:13 final size:13
Alignment explanation
Indices: 4049562--4049600 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
4049552 ACAAAGATCG
4049562 ATGTATCGATACA
1 ATGTATCGATACA
4049575 ATGTATCGATACA
1 ATGTATCGATACA
4049588 ATGTATCGATACA
1 ATGTATCGATACA
4049601 TTCTACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4049681 original size:19 final size:21
Alignment explanation
Indices: 4049653--4049704 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
4049643 AGCGATACGC
* *
4049653 TGTATTGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
*
4049672 TGTATCGATATATTTACTGAA
1 TGTATCGATACATTTACTGAA
4049693 TGTATCGATACA
1 TGTATCGATACA
4049705 AATTATTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.37
20 5 0.19
21 12 0.44
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:4052251 original size:89 final size:89
Alignment explanation
Indices: 4052100--4052265 Score: 282
Period size: 89 Copynumber: 1.9 Consensus size: 89
4052090 GGGAGCAATG
4052100 GGGTTGGAGTTTCCTCAAAGTTGAGAATTATGAAAATATTTAGGAACAAAGAGAAATTTTGATTT
1 GGGTTGGAGTTTCCTCAAAGTTGAGAATTATGAAAATATTTAGGAACAAAGAGAAATTTTGATTT
4052165 TTTATGAAGAACGGGGTGTAGTAT
66 TTTATGAAGAACGGGGTGTAGTAT
* *
4052189 GGGTTGGA-TTTTCTCTGAAGTTGAGAATTATGAAAATATTTAGGAACAAAGAGAGAA-TTTGAT
1 GGGTTGGAGTTTCCTC-AAAGTTGAGAATTATGAAAATATTTAGGAACAAAGAGA-AATTTTGAT
4052252 TTTTTATGAAGAAC
64 TTTTTATGAAGAAC
4052266 AAGGTCTCGT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
88 6 0.08
89 65 0.89
90 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (89 bp):
GGGTTGGAGTTTCCTCAAAGTTGAGAATTATGAAAATATTTAGGAACAAAGAGAAATTTTGATTT
TTTATGAAGAACGGGGTGTAGTAT
Found at i:4052508 original size:193 final size:194
Alignment explanation
Indices: 4052019--4052514 Score: 452
Period size: 193 Copynumber: 2.6 Consensus size: 194
4052009 CTGAAGATAA
* * * * * *
4052019 AATTATGAAAATATTTAGGAACAAAGAGAAAACTTAAGCTTTTAATGAAGGATGGGGTTGGAGTA
1 AATTATGAAAATATTTAGGAACAAAGAGAAAATTTAA-TTTTTTATGAAGAACGAGGTTGGAGTA
* * * * * ** **
4052084 TCCCCTGGGAGCAATGGGGTTGGAGTTTCCTCAAAGTTGAGAATTATGAAAATATTTAGGAACAA
65 TCCCCTCGGAGTAGTGGGGTTGGAGTTTCCCCGAAGTCAAGAATTATGAAAATATTTAAAAACAA
* * ** *
4052149 AGAGAAATTTTGATTTTTTATGAAGAACGGGGTGTAGTATGGGTTGGATTTTCTCTGAAGTTGAG
130 AGAGAAATTTTGATTTTTTATGAAGAACGGGGTGTAGTATCGGTTCGATAATCACTGAAGTTGAG
* * * *
4052214 AATTATGAAAATATTTAGGAACAAAGAGAGAATTTGATTTTTTATGAAGAACAAGGTCT--CGTA
1 AATTATGAAAATATTTAGGAACAAAGAGAAAATTTAATTTTTTATGAAGAACGAGGT-TGGAGTA
* * * **** ** *
4052277 TCCCTTCGAAATAGAAATGTTGGAGTTTTTCTGAAGTCAAGAATTAT-AACAATATTTAAAAACA
65 TCCCCTCGGAGTAGTGGGGTTGGAGTTTCCCCGAAGTCAAGAATTATGAA-AATATTTAAAAACA
* * **
4052341 AAGAG-AA-TTTGATTTTTTATGAAGAATGGGGT-TAGAGTATCGGTTCGA-AAT-AGTGGGGTT
129 AAGAGAAATTTTGATTTTTTATGAAGAACGGGGTGT--AGTATCGGTTCGATAATCACTGAAGTT
4052401 G-G
192 GAG
* * * ** *
4052403 AGTTTCCTTGAAAATATTTAAGAATGAAGAGAAAATTTTATTTTTTATGAAGAACGAGGTTGGAG
1 A-ATT--ATGAAAATATTTAGGAACAAAGAGAAAATTTAATTTTTTATGAAGAACGAGGTTGGAG
*
4052468 TATCCCCTCGGAGTAGTGGGGTTGGAGTTTCCCCGAAGTCATGAATT
63 TATCCCCTCGGAGTAGTGGGGTTGGAGTTTCCCCGAAGTCAAGAATT
4052515 TTTAATGTTT
Statistics
Matches: 234, Mismatches: 58, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
189 2 0.01
190 9 0.04
191 26 0.11
192 61 0.26
193 87 0.37
194 14 0.06
195 35 0.15
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.32
Consensus pattern (194 bp):
AATTATGAAAATATTTAGGAACAAAGAGAAAATTTAATTTTTTATGAAGAACGAGGTTGGAGTAT
CCCCTCGGAGTAGTGGGGTTGGAGTTTCCCCGAAGTCAAGAATTATGAAAATATTTAAAAACAAA
GAGAAATTTTGATTTTTTATGAAGAACGGGGTGTAGTATCGGTTCGATAATCACTGAAGTTGAG
Found at i:4053097 original size:20 final size:19
Alignment explanation
Indices: 4053053--4053107 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
4053043 TATTATGCTT
** *
4053053 TGTATCGATACATGTTCAT
1 TGTATCGATACATGAACAA
4053072 TGTATCGATACATGAACAAA
1 TGTATCGATACATGAAC-AA
*
4053092 TGTATCGACACATGAA
1 TGTATCGATACATGAA
4053108 ATTGGTAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATGAACAA
Found at i:4054834 original size:377 final size:381
Alignment explanation
Indices: 4054128--4054852 Score: 969
Period size: 377 Copynumber: 1.9 Consensus size: 381
4054118 GCAAAAAAAA
** ** *
4054128 AAAAAAACAAACCAAAATTTGGAAAATCATTTCGGGCTCATCTAGAATCATAAAATCATGAACCA
1 AAAAAAACAAACCAAAATTTAAAAAATCATTTCGAACTCATCTAGAACCATAAAATCATGAACCA
* *
4054193 TACCTTTTTGAAAAGGGAATTTCCGTAAACTTTTGAAGGAAAGTATTTAAAAGTTTTGGAAAAAT
66 TACCTTTTTGAAAAGGGAATTTCCG-AAACTTTTGAAGAAAAATATTTAAAAGTTTTGGAAAAAT
* * * *
4054258 CGTTTGATGAGCCCAAATGGCCTCAACAAAATATCACATGCTAGCTTTAGGGGTTCTGGGTAACA
130 CATTTGATGAGCCCAAATAGCCTAAACAAAATATCACATGCTAGCTCTAGGGGTTCTGGGTAACA
* ** * * * * * *
4054323 AAGGTTTGAAAAATCATAACTCTCTTATTCAGAATGATCCGATGGCGAACAAGACACCTTTGGAA
195 AAGATTCAAAAAATCATAACTCCCTCATCCAGAATAATCCGAAGGCAAACAAGACACCTTTGGAA
* ** * * *
4054388 AGGTATTTCGATGGCCTTTAAGGGAAAAATATCAAAAAAATCAAGGAAAATATTTTATGGTTTGA
260 AGGTATTTCAATGAACTTTAAGGAAAAAATATCAAAAAAATCAAGGAAAATATTCTATGGTTCGA
4054453 AAATGATTTTCCAACCTTAGGCCTCAATGTTGCCAGATACTAGCAGCATATGCAAGT
325 AAATGATTTTCCAACCTTAGGCCTCAATGTTGCCAGATACTAGCAGCATATGCAAGT
* * * * *
4054510 AAAAAAACAAATCAAATTTTAAAAAATCATTTTGAACTTATCTAGAACCATTAAATCATGAACCA
1 AAAAAAACAAACCAAAATTTAAAAAATCATTTCGAACTCATCTAGAACCATAAAATCATGAACCA
* * * *
4054575 TACGTTTTTGAAAAGGGAA-TTCC-ATACTTTTTATGAAAAATA-TTAAAAGTTTT-GAAAAATC
66 TACCTTTTTGAAAAGGGAATTTCCGAAACTTTTGAAGAAAAATATTTAAAAGTTTTGGAAAAATC
* * * *
4054636 ATTTGATGAGCCCAAATAGCCTAAACAGAATATCACATGCTAGGTCTAGGGGTTTTGGGTAGCAA
131 ATTTGATGAGCCCAAATAGCCTAAACAAAATATCACATGCTAGCTCTAGGGGTTCTGGGTAACAA
**
4054701 AGATTCAAAAAATCATAACTCCCTCATCC-GAAATAATCCGAAGGCAAATGAGACACCTTTGGAA
196 AGATTCAAAAAATCATAACTCCCTCATCCAG-AATAATCCGAAGGCAAACAAGACACCTTTGGAA
* *
4054765 AGGTATTTCAATGAACTTTAAGGAAACAAATA-CTAGAAAAGTCAA-GAAAATATTCTATGGTTC
260 AGGTATTTCAATGAACTTTAAGGAAA-AAATATC-AAAAAAATCAAGGAAAATATTCTATGGTTC
*
4054828 GAAAATGATTTTCTAACCTTAGGCC
323 GAAAATGATTTTCCAACCTTAGGCC
4054853 ATAATTCTAC
Statistics
Matches: 296, Mismatches: 44, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
376 1 0.00
377 179 0.60
378 25 0.08
379 14 0.05
381 4 0.01
382 73 0.25
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (381 bp):
AAAAAAACAAACCAAAATTTAAAAAATCATTTCGAACTCATCTAGAACCATAAAATCATGAACCA
TACCTTTTTGAAAAGGGAATTTCCGAAACTTTTGAAGAAAAATATTTAAAAGTTTTGGAAAAATC
ATTTGATGAGCCCAAATAGCCTAAACAAAATATCACATGCTAGCTCTAGGGGTTCTGGGTAACAA
AGATTCAAAAAATCATAACTCCCTCATCCAGAATAATCCGAAGGCAAACAAGACACCTTTGGAAA
GGTATTTCAATGAACTTTAAGGAAAAAATATCAAAAAAATCAAGGAAAATATTCTATGGTTCGAA
AATGATTTTCCAACCTTAGGCCTCAATGTTGCCAGATACTAGCAGCATATGCAAGT
Found at i:4056176 original size:21 final size:21
Alignment explanation
Indices: 4056152--4056204 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4056142 CTTAGAAAGA
*
4056152 TGTATTGATACTTCATGAACT
1 TGTATTGATACTTCATGAACG
* * *
4056173 TGTATTGACATTTCATGAGCG
1 TGTATTGATACTTCATGAACG
*
4056194 TATATTGATAC
1 TGTATTGATAC
4056205 AGAAGCTTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATTGATACTTCATGAACG
Found at i:4057636 original size:154 final size:156
Alignment explanation
Indices: 4057333--4057689 Score: 424
Period size: 154 Copynumber: 2.3 Consensus size: 156
4057323 TATGGTGGCC
* * *
4057333 TAAAATGATGAACCTAATCCTAAATGCACACCTTTGGCATAAAAGCAACCTGGTGACTAGCTAGG
1 TAAAAAGATGAACCTTATCCTAAATGCACACCTTTGGCATAAAAGCAACCTGGTGACTACCTAGG
* * *
4057398 TATCAATTCTAAGAAAATTACCAAAATACCCGTAAGGTATACCTTCGATGTGAAAGTATCTCGGT
66 TATCAATTCTAAGAAAATTACCAAAATACCCGTAAGGTATACCTTCGATATAAAAGTATCTCGGA
* *
4057463 TATCCTAAAAGACACAAAAA-GATTA
131 TAACCTAAAAGACACAAAAATGATCA
* * * * *
4057488 TAAAAAGATGAA-CTTATCCTAAATGTACATCTTTGGCATAAAAGTAACTTGGTGACTACCTTGG
1 TAAAAAGATGAACCTTATCCTAAATGCACACCTTTGGCATAAAAGCAACCTGGTGACTACCTAGG
* * *
4057552 -ATTCAGTTCTAAGAAAATTACCAAAATATCCC-TAA-GTATACCTTTGATATAAAAGTATC-CT
66 TA-TCAATTCTAAGAAAATTACCAAAATA-CCCGTAAGGTATACCTTCGATATAAAAGTATCTCG
*
4057613 GATAACCTTAAAAGACACTAAAAATGGTCA
129 GATAACC-TAAAAGACAC-AAAAATGATCA
** *
4057643 TAAATGGGAT-AAGCC-TATCCTAAATGCACAGCTTTGGCATAAAAGCA
1 TAAA-AAGATGAA-CCTTATCCTAAATGCACACCTTTGGCATAAAAGCA
4057690 TCTTAGTAAG
Statistics
Matches: 172, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
152 6 0.03
153 32 0.19
154 78 0.45
155 23 0.13
156 32 0.19
157 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (156 bp):
TAAAAAGATGAACCTTATCCTAAATGCACACCTTTGGCATAAAAGCAACCTGGTGACTACCTAGG
TATCAATTCTAAGAAAATTACCAAAATACCCGTAAGGTATACCTTCGATATAAAAGTATCTCGGA
TAACCTAAAAGACACAAAAATGATCA
Found at i:4059625 original size:22 final size:20
Alignment explanation
Indices: 4059597--4059652 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
4059587 GCCAAGAAAA
4059597 TGTATCGATACATGCTTAC-AAT
1 TGTATCGATACAT--TT-CTAAT
*
4059619 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTAAT
4059639 TGTATCGATACATT
1 TGTATCGATACATT
4059653 CTAGGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 18 0.56
22 13 0.41
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:4062151 original size:79 final size:78
Alignment explanation
Indices: 4062068--4062405 Score: 367
Period size: 79 Copynumber: 4.3 Consensus size: 78
4062058 TCGCCATTGG
* * * *
4062068 GGATACTCCAACCCCATTTTAATTTTCAAAATATTGATTTTTCACCATCGGGGATATTCCAACCC
1 GGATACTCCAACCCCATTTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACTCCAACCC
4062133 CATTATTTCAGAGA
66 CATTATTTC-GAGA
* * * * * *
4062147 GGATACTCCAACCCCGTTTTTATTTTCAAAATATCAAATTTTCACCATTAGGGATACTCTAACCT
1 GGATACTCCAACCCCATTTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACTCCAACCC
**
4062212 TGTTATTTCTGA-A
66 CATTATTTC-GAGA
* * *
4062225 GGGATACTCCAACCCCA-ATTTATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAACC
1 -GGATACTCCAACCCCATTTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACTCCAACC
4062289 CCATTATTTTCGAGA
65 CCATTA-TTTCGAGA
* ** * * * * *
4062304 AGATACTCCAA-CCTTTGTTTTATTTGCAAAATATTGATTTTTCACTATCACGGATACTCTAACC
1 GGATACTCCAACCCCAT-TTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACTCCAACC
*
4062368 CCATTATGTTCGAGG
65 CCATTAT-TTCGAGA
* *
4062383 GGATACTCTAGCCCCATTTTTAT
1 GGATACTCCAACCCCATTTTTAT
4062406 CTCTCAAATA
Statistics
Matches: 212, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
77 2 0.01
78 57 0.27
79 150 0.71
80 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (78 bp):
GGATACTCCAACCCCATTTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACTCCAACCC
CATTATTTCGAGA
Found at i:4062398 original size:157 final size:158
Alignment explanation
Indices: 4062066--4062390 Score: 433
Period size: 157 Copynumber: 2.1 Consensus size: 158
4062056 TTTCGCCATT
* * * *
4062066 GGGGATACTCCAACCCCATTTTAATTTTCAAAATATTGATTTTTCACCATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCCAATTTAATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
* * *
4062131 CCCATTATTTCAGAGAGGATACTCCAACCCCGTTTTTATTTTCAAAATATCAAATTTTCACCATT
66 CCCATTATTTCAGAGAAGATACTCCAACCCCGTTTTTATTTGCAAAATATCAAATTTTCACCATC
* ***
4062196 AGGGATACTCTAACCTTGTTATTTCTGA
131 ACGGATACTCTAACCCCATTATTTCTGA
*
4062224 AGGGATACTCCAACCCCAATTT-ATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAATTTAATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
** ** * *
4062288 CCCATTATTTTC-GAGAAGATACTCCAA-CCTTTGTTTTATTTGCAAAATATTGATTTTTCACTA
66 CCCATTA-TTTCAGAGAAGATACTCCAACCCCGT-TTTTATTTGCAAAATATCAAATTTTCACCA
4062351 TCACGGATACTCTAACCCCATTATGTTC-GA
129 TCACGGATACTCTAACCCCATTAT-TTCTGA
4062381 GGGGATACTC
1 GGGGATACTC
4062391 TAGCCCCATT
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
156 3 0.02
157 115 0.79
158 27 0.19
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (158 bp):
GGGGATACTCCAACCCCAATTTAATTTCCAAAATATCGATTTTTCACCATCGGGGATACTCCAAC
CCCATTATTTCAGAGAAGATACTCCAACCCCGTTTTTATTTGCAAAATATCAAATTTTCACCATC
ACGGATACTCTAACCCCATTATTTCTGA
Found at i:4066170 original size:80 final size:80
Alignment explanation
Indices: 4065887--4066199 Score: 294
Period size: 80 Copynumber: 3.9 Consensus size: 80
4065877 TCAAAATGGT
* * *
4065887 TACTCCAATCCCATTTTTAC-TTCTAAAACA-CTAAATATTTTCATCTTTGGGGATACTCCAACC
1 TACTCTAACCCCATTTTTACTTTC-AAAACATC-AAAT-TTTTCATCTCTGGGGATACTCCAACC
** **
4065950 CCGCCATCTTTGAGGGGA
63 CTACCATCTCCGAGGGGA
* * * * * * * * *
4065968 TACTATAACCCTC-TTTTCACTTTCAAAACATCTAATTTTTGAACTGTGAGGCTACTTCAACCCT
1 TACTCTAACCC-CATTTTTACTTTCAAAACATCAAATTTTTCATCTCTGGGGATACTCCAACCCT
*
4066032 ACCATCTCCGAAGGGA
65 ACCATCTCCGAGGGGA
* * ** *
4066048 TACTAC-AACCCTATTTTTACTTTTAAAACATTGAATTTTTCATCTCTAGGGATACTCCAATCCC
1 TACT-CTAACCCCATTTTTACTTTCAAAACATCAAATTTTTCATCTCTGGGGATACTCCAA-CCC
4066112 -ACCATCTCCGAGGGGA
64 TACCATCTCCGAGGGGA
* ** * *
4066128 TACTCTAACCCCATTTTTACTTTCATAATGTCAAATTCTTCATCTCTGGGGATACTCTAACCCTA
1 TACTCTAACCCCATTTTTACTTTCAAAACATCAAATTTTTCATCTCTGGGGATACTCCAACCCTA
4066193 CCATCTC
66 CCATCTC
4066200 ATTAGGATAT
Statistics
Matches: 184, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
79 4 0.02
80 149 0.81
81 26 0.14
82 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (80 bp):
TACTCTAACCCCATTTTTACTTTCAAAACATCAAATTTTTCATCTCTGGGGATACTCCAACCCTA
CCATCTCCGAGGGGA
Found at i:4066226 original size:160 final size:159
Alignment explanation
Indices: 4065887--4066243 Score: 375
Period size: 160 Copynumber: 2.2 Consensus size: 159
4065877 TCAAAATGGT
* * * *
4065887 TACTCCAATCCCATTTTTACTTCTAAAACACTAAATATTTTCATCTTTGGGGATACTCCAACCCC
1 TACTCCAA-CCCATTTTTACTTCTAAAACATTGAAT-TTTTCATCTCTAGGGATACTCCAACCCC
* ** * * * *
4065952 GCCATCTTTGAGGGGATACTATAACCCTCTTTTCACTTTCAAAACATCTAATTTTTGAACTGTGA
64 ACCATCTCCGAGGGGATACTATAACCCTCTTTTCACTTTCAAAACATCAAATTCTTCAACTCTGA
* *
4066017 GGCTACTTCAACCCTACCATCTCCGAAGGGA
129 GGATACTTCAACCCTACCATCTCAGAAGGGA
* * *
4066048 TACTACAACCCTATTTTTACTTTTAAAACATTGAATTTTTCATCTCTAGGGATACTCCAATCCCA
1 TACTCCAACCC-ATTTTTACTTCTAAAACATTGAATTTTTCATCTCTAGGGATACTCCAACCCCA
* * * ** * *
4066113 CCATCTCCGAGGGGATACTCTAACCC-CATTTTTACTTTCATAATGTCAAATTCTTCATCTCTGG
65 CCATCTCCGAGGGGATACTATAACCCTC-TTTTCACTTTCAAAACATCAAATTCTTCAACTCTGA
**
4066177 GGATAC-TCTAACCCTACCATCTCATTA-GGA
129 GGATACTTC-AACCCTACCATCTCAGAAGGGA
*
4066207 TATTCCAACCCCGATTTTTAC--CTAAAA-ATTGAATTTT
1 TACTCCAA-CCC-ATTTTTACTTCTAAAACATTGAATTTT
4066244 CACCTTTTTT
Statistics
Matches: 163, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
157 10 0.06
158 5 0.03
159 12 0.07
160 108 0.66
161 28 0.17
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (159 bp):
TACTCCAACCCATTTTTACTTCTAAAACATTGAATTTTTCATCTCTAGGGATACTCCAACCCCAC
CATCTCCGAGGGGATACTATAACCCTCTTTTCACTTTCAAAACATCAAATTCTTCAACTCTGAGG
ATACTTCAACCCTACCATCTCAGAAGGGA
Found at i:4069573 original size:27 final size:27
Alignment explanation
Indices: 4069512--4069573 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
4069502 AAAAAAGGGG
* * * * *
4069512 GTTAAAGTATCCCTTTGAAAGAATGGT
1 GTTAGAGTATCCCCTCGAAAGAATAGA
*
4069539 GTTGGAGTATCCCCTCGAAAGAATAGA
1 GTTAGAGTATCCCCTCGAAAGAATAGA
4069566 GTTAGAGT
1 GTTAGAGT
4069574 GTGCTCGTGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (27 bp):
GTTAGAGTATCCCCTCGAAAGAATAGA
Found at i:4071805 original size:20 final size:20
Alignment explanation
Indices: 4071776--4071813 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4071766 TGAAAAACCC
*
4071776 AGAATATATCGATACAATGA
1 AGAATATATCAATACAATGA
*
4071796 AGAATGTATCAATACAAT
1 AGAATATATCAATACAAT
4071814 TAGGTCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (20 bp):
AGAATATATCAATACAATGA
Found at i:4071808 original size:52 final size:51
Alignment explanation
Indices: 4071730--4071865 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 51
4071720 TAATTGGATG
* * * *
4071730 TATCGATATATTGAGGAATGTATCAATACATTTGGGTGAAAAACCCAGAATA
1 TATCGATACAATGAAGAATGTATCAATACATTTAGGT-AAAAACCCAGAATA
* * *
4071782 TATCGATACAATGAAGAATGTATCAATACAATTAGGTCAAAACCCAGAATG
1 TATCGATACAATGAAGAATGTATCAATACATTTAGGTAAAAACCCAGAATA
* * * **
4071833 TATCAACACAATGAAAAATGTATTGATACATTT
1 TATCGATACAATGAAGAATGTATCAATACATTT
4071866 TCTTTCTAGA
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 39 0.55
52 32 0.45
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (51 bp):
TATCGATACAATGAAGAATGTATCAATACATTTAGGTAAAAACCCAGAATA
Found at i:4071929 original size:21 final size:21
Alignment explanation
Indices: 4071894--4071953 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
4071884 TCTGCTGCAT
* *
4071894 AGTCTTGTATTGATACATTTCA
1 AGTCATGTATCGATACATTT-A
*
4071916 AG-CATGTATCGATAC-TTTG
1 AGTCATGTATCGATACATTTA
*
4071935 AGTTATGTATCGATACATT
1 AGTCATGTATCGATACATT
4071954 ACCTTATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 15 0.47
21 13 0.41
22 2 0.06
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
AGTCATGTATCGATACATTTA
Found at i:4071960 original size:20 final size:20
Alignment explanation
Indices: 4071919--4071972 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
4071909 CATTTCAAGC
* *
4071919 ATGTATCGATACTTTGAGTT
1 ATGTATCGATACATTGACTT
4071939 ATGTATCGATACATT-ACCTT
1 ATGTATCGATACATTGA-CTT
*
4071959 ATTGTATTGATACA
1 A-TGTATCGATACA
4071973 AATTGCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 17 0.59
21 11 0.38
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTGACTT
Found at i:4073453 original size:21 final size:21
Alignment explanation
Indices: 4073429--4073491 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
4073419 TCATCAAAAA
4073429 CCTCTCCAAAAACCTACATTT
1 CCTCTCCAAAAACCTACATTT
* * *
4073450 CCTCCCCTAAAACCTATATTT
1 CCTCTCCAAAAACCTACATTT
* * * *
4073471 CCTTTTCAAAAGCCTGCATTT
1 CCTCTCCAAAAACCTACATTT
4073492 TCCGCTCCTA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.35, G:0.03, T:0.33
Consensus pattern (21 bp):
CCTCTCCAAAAACCTACATTT
Found at i:4075590 original size:20 final size:21
Alignment explanation
Indices: 4075545--4075599 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
4075535 CATAAGTAAA
4075545 TGTATCGATACATTTATTATT
1 TGTATCGATACATTTATTATT
*
4075566 TGTATCGGTACATTT-TTCA-T
1 TGTATCGATACATTTATT-ATT
4075586 TGTATCGATACATT
1 TGTATCGATACATT
4075600 CTGGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (21 bp):
TGTATCGATACATTTATTATT
Found at i:4078253 original size:79 final size:79
Alignment explanation
Indices: 4077942--4078253 Score: 301
Period size: 79 Copynumber: 3.9 Consensus size: 79
4077932 TTATTAATGT
* * * * *
4077942 TTTTAATTCTAAAATA-TCAATTTTCCACCATTAGGGATACTCCAACCCTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAATACT-AATTTTCCACCATCAGGGATACTCCAATCCTTTTATTTCCGAGGGG
*
4078006 ATACTCCAACTTCGA
65 ATACTCCAACCTCGA
* * * * * * *
4078021 TTTTATTTCTAAAATACTGATTTTTCACCATCGGGGACACTCTAA-CCTTGTTATTTTCGAGGGA
1 TTTTATTTCTAAAATACTAATTTTCCACCATCAGGGATACTCCAATCCTT-TTATTTCCGAGGGG
* *
4078085 ATACTCTAACC-CTA
65 ATACTCCAACCTCGA
* * * * ** *
4078099 GTTTTATTTCTAAAACACTGACTTTCCACCATC-GAGGATACTCTAATCCCATTATTTCCGAAGG
1 -TTTTATTTCTAAAATACTAATTTTCCACCATCAG-GGATACTCCAATCCTTTTATTTCCGAGGG
4078163 GATACTCCAACCTCGA
64 GATACTCCAACCTCGA
* * * * *
4078179 TTTTATTTCTAAAATA-TCAATTTTTCACCATCAGTGATACACCAATTCTTTTATTTCCTAGGGG
1 TTTTATTTCTAAAATACT-AATTTTCCACCATCAGGGATACTCCAATCCTTTTATTTCCGAGGGG
4078243 ATACTCCAACC
65 ATACTCCAACC
4078254 CCGTTATTTT
Statistics
Matches: 190, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
78 7 0.04
79 177 0.93
80 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAATACTAATTTTCCACCATCAGGGATACTCCAATCCTTTTATTTCCGAGGGGA
TACTCCAACCTCGA
Found at i:4078325 original size:107 final size:107
Alignment explanation
Indices: 4078134--4078330 Score: 229
Period size: 107 Copynumber: 1.8 Consensus size: 107
4078124 CCACCATCGA
* * * * *
4078134 GGATACTCTAATCCCATTATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCTAAAATATCAA
1 GGATACTCCAACCCCATTATTTCCGAAGGAATACTCCAACCTAGATTTTATTTCTAAAACATCAA
* *
4078199 TTTTTCACCATCAGTGATACACCAATTCTTTTATTTCCTAGG
66 TCTTCCACCATCAGTGATACACCAATTCTTTTATTTCCTAGG
* * * *
4078241 GGATACTCCAACCCCGTTATTTTCGAAGGAATATTCCAATCCTAG-TTTTATTTCTCAAACA-CT
1 GGATACTCCAACCCCATTATTTCCGAAGGAATACTCCAA-CCTAGATTTTATTTCTAAAACATC-
* *
4078304 GATCTTCCACCATCGAG-GATACTCCAA
64 AATCTTCCACCATC-AGTGATACACCAA
4078331 CCACGGTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
106 1 0.01
107 67 0.91
108 6 0.08
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (107 bp):
GGATACTCCAACCCCATTATTTCCGAAGGAATACTCCAACCTAGATTTTATTTCTAAAACATCAA
TCTTCCACCATCAGTGATACACCAATTCTTTTATTTCCTAGG
Found at i:4078422 original size:80 final size:79
Alignment explanation
Indices: 4078321--4078600 Score: 259
Period size: 80 Copynumber: 3.5 Consensus size: 79
4078311 CACCATCGAG
** *
4078321 GATACTCCAACCACGGTTTTATTTCTAAAATACT-AATTTTCCACCAATCGAGGATACTCTCACC
1 GATACTCCAACC-CATTTTTATTTCCAAAATACTAAATTTTCCACC-ATCGAGGATACTCTCACC
*
4078385 CTGTTATTTCCGAAGA
64 CTGTTATTTCTGAAGA
* * ** * **
4078401 GATATTCCAACCCTAATTTTATTTCC--AATACATCGAGTTTCCACCATTAAGGATACTC-CAAC
1 GATACTCCAACCC-ATTTTTATTTCCAAAATAC-TAAATTTTCCACCATCGAGGATACTCTC-AC
* *
4078463 CCTGTTATTTCTGAGGG
63 CCTGTTATTTCTGAAGA
* *
4078480 GATACTCCAACCTCGATTTTTATTTCCAAAATA-TCAAATTTT-CACCATCGAGAATACTCTAAC
1 GATACTCCAACC-C-ATTTTTATTTCCAAAATACT-AAATTTTCCACCATCGAGGATACTCTCAC
*
4078543 CCCGTTATTT-TGAAGAA
63 CCTGTTATTTCTGAAG-A
* *
4078560 GATACTCCAATCCCATTTTTATCTCCAAAATATTAAATTTT
1 GATACTCCAA-CCCATTTTTATTTCCAAAATACTAAATTTT
4078601 TCATCGGGGA
Statistics
Matches: 163, Mismatches: 25, Indels: 25
0.77 0.12 0.12
Matches are distributed among these distances:
78 6 0.04
79 68 0.42
80 79 0.48
81 6 0.04
82 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (79 bp):
GATACTCCAACCCATTTTTATTTCCAAAATACTAAATTTTCCACCATCGAGGATACTCTCACCCT
GTTATTTCTGAAGA
Found at i:4078485 original size:131 final size:130
Alignment explanation
Indices: 4078241--4078474 Score: 302
Period size: 131 Copynumber: 1.8 Consensus size: 130
4078231 ATTTCCTAGG
* * *
4078241 GGATACTCCAACCCCGTTATTTTCGAAGGAATATTCCAATCCTAGTTTTATTTCTCAAACACTGA
1 GGATACTCCAACCCCGTTATTTCCGAAGGAATATTCCAACCCTAATTTTATTTCTCAAACACTGA
* *
4078306 TCTTCCACCATCGAGGATACTCCAACCACGGTTTTATTTCTAAAATACTAATTTTCCACCAATCG
66 TCTTCCACCATCAAGGATACTCCAACCAC-GTGTTATTTCTAAAATACTAATTTTCCACCAATCG
4078371 A
130 A
*
4078372 GGATACTCTC-ACCCTGTTATTTCCGAA-GAGATATTCCAACCCTAATTTTATTTC-CAATACA-
1 GGATACTC-CAACCCCGTTATTTCCGAAGGA-ATATTCCAACCCTAATTTTATTTCTCAA-ACAC
*
4078433 TCGAGT-TTCCACCATTAAGGATACTCCAACC-C-TGTTATTTCT
63 T-GA-TCTTCCACCATCAAGGATACTCCAACCACGTGTTATTTCT
4078475 GAGGGGATAC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
128 9 0.10
130 7 0.08
131 73 0.80
132 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.34
Consensus pattern (130 bp):
GGATACTCCAACCCCGTTATTTCCGAAGGAATATTCCAACCCTAATTTTATTTCTCAAACACTGA
TCTTCCACCATCAAGGATACTCCAACCACGTGTTATTTCTAAAATACTAATTTTCCACCAATCGA
Found at i:4078618 original size:80 final size:80
Alignment explanation
Indices: 4078453--4078627 Score: 194
Period size: 80 Copynumber: 2.2 Consensus size: 80
4078443 ACCATTAAGG
* ** *
4078453 ATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCTCGATTTTTATTTCCAAAATATCAAA
1 ATACTCCAACCCCGTTATTTCTGAGAAGATACTCCAACCTCGATTTTTATCTCCAAAATATCAAA
*
4078518 TTTTCACCATCGAGA
66 TTTTCACCAGCGAGA
* *
4078533 ATACTCTAACCCCGTTATTT-TGAAGAAGATACTCCAATCC-C-ATTTTTATCTCCAAAATATTA
1 ATACTCCAACCCCGTTATTTCTG-AGAAGATACTCCAA-CCTCGATTTTTATCTCCAAAATATCA
* * * *
4078595 AATTTTTCATCGGGGAGT
64 AA-TTTTCACCAGCGAGA
*
4078613 GTACTCCAACCCCGT
1 ATACTCCAACCCCGT
4078628 ACTCGAGGGA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 23 0.29
80 54 0.68
81 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (80 bp):
ATACTCCAACCCCGTTATTTCTGAGAAGATACTCCAACCTCGATTTTTATCTCCAAAATATCAAA
TTTTCACCAGCGAGA
Found at i:4080000 original size:108 final size:107
Alignment explanation
Indices: 4079850--4080092 Score: 265
Period size: 108 Copynumber: 2.3 Consensus size: 107
4079840 TTCTTTGTAT
** * * * * * * *
4079850 AATTTTATTTTTGGGGAAGCTCTAACCCCATTACTGTAAGGGGTTACTCTAA-CTTCATTCTTCA
1 AATTTTAACTTTGGGGAAACTCTAACCCCACTACTCTAAGGGGATACTCCAATATTC-TACTTCA
*
4079914 -TAAAAAAACTCAAATTTTCTCTTTGCTCATAAATATTTTCAAA
65 TTAAAAAAACTCAAATCTTCTCTTTGCTCATAAATATTTTC-AA
* * * *
4079957 AATTTTCAACTTTGGGGAAACTCTAACGCCACTACTCTGAGGGGATATTCCAATATTCTACTTTA
1 AATTTT-AACTTTGGGGAAACTCTAACCCCACTACTCTAAGGGGATACTCCAATATTCTACTTCA
* * *
4080022 TTAAAAAAACTCAAATCTTCTCTTTGTTCTTAAATATTTTCAG
65 TTAAAAAAACTCAAATCTTCTCTTTGCTCATAAATATTTTCAA
* * *
4080065 AATTTTATCTTTGGGGATACTCCAACCC
1 AATTTTAACTTTGGGGAAACTCTAACCC
4080093 TACCTCTTCG
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
107 24 0.21
108 48 0.43
109 40 0.36
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (107 bp):
AATTTTAACTTTGGGGAAACTCTAACCCCACTACTCTAAGGGGATACTCCAATATTCTACTTCAT
TAAAAAAACTCAAATCTTCTCTTTGCTCATAAATATTTTCAA
Found at i:4080514 original size:39 final size:39
Alignment explanation
Indices: 4080466--4080542 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
4080456 ATACATTCCT
**
4080466 TTTTATAGTGATTATCGTGTATTCGTATTATAAAATTTG
1 TTTTATAGTGATTATCGTACATTCGTATTATAAAATTTG
*
4080505 TTTTCTAGTGATTATCGTACATTCGTATTATAAAATTT
1 TTTTATAGTGATTATCGTACATTCGTATTATAAAATTT
4080543 TTTCTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.51
Consensus pattern (39 bp):
TTTTATAGTGATTATCGTACATTCGTATTATAAAATTTG
Found at i:4084582 original size:13 final size:13
Alignment explanation
Indices: 4084564--4084588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4084554 TTACAAGCAT
4084564 GTATCGATACAAC
1 GTATCGATACAAC
4084577 GTATCGATACAA
1 GTATCGATACAA
4084589 TCCATCATGT
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAC
Found at i:4085558 original size:60 final size:60
Alignment explanation
Indices: 4085465--4086440 Score: 1294
Period size: 60 Copynumber: 16.0 Consensus size: 60
4085455 AAATAATATC
* *
4085465 AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
* *
4085525 AAGGTGCCACCAACATGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
* *
4085585 AAGGTGCCACGAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
* * * *
4085645 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGCATCCTACTCTTCGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCATCCTGCTCTTTGAGGACTA
*
4085707 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGG-AAAGGCATCCTGCTCTTTGAGGACTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCTCTTTGAGGACT-A
* *
4085768 AAGGTGCCACCAACTTGTGTTGGCTTTGCAAA-GAGAAA-GCATCCTGCTCTTTGAGGACTGGA
1 AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA-AAAGGCATCCTGCTCTTTGAGGACT--A
* * ** *
4085830 AA-ATGCCACCAACTTGTGTGGGGTTCGAAAGGAAAAGGCATCCTACTCTTTGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
* * * *
4085889 AAGGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAAGACGTCCTGCTCTTTGAGGACTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG---AAAAGGCATCCTGCTCTTTGAGGACT-A
* * *
4085953 AGGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTCAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
** * *
4086013 AAGGTGCCATGAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
* * **
4086073 AAGGTGTCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTATTCTTTGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
*
4086133 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGGCGTCCTGCTCTTTGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG--AAAAGGCATCCTGCTCTTTGAGGACTA
* * * * * *
4086195 GAGGGTGCCACCAACTTGTGTGGGCTTTATAAGGAAAAGTCATCCTACTTTTTGAGGACAAA
1 -AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGAC-TA
* *
4086257 AAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA
1 AA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
* * *
4086318 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTCGAGGACTA
1 AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCATCCTGCTCTTTGAGGACTA
* * **
4086380 AAGGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACT
1 AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCATCCTGCTCTTTGAGGACT
4086441 GGAAGGGCTA
Statistics
Matches: 813, Mismatches: 83, Indels: 38
0.87 0.09 0.04
Matches are distributed among these distances:
59 3 0.00
60 354 0.44
61 151 0.19
62 221 0.27
63 54 0.07
64 30 0.04
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (60 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTA
Found at i:4086357 original size:428 final size:425
Alignment explanation
Indices: 4085465--4086440 Score: 1426
Period size: 428 Copynumber: 2.3 Consensus size: 425
4085455 AAATAATATC
* * * *
4085465 AAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG-GAAAAGGCATCTTGCTCTTTGAGGACTAAAG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
*
4085528 GTGCCACCAACATGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCC
66 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCC
4085593 ACGAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAA
131 ACGAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAA
*
4085658 CTTGTGTGGGCTTTAAAAAGAAAAAAAGCATCCTACTCTTCGAGGACTAAAGGTGCCACCAACTT
196 CTCGTGTGGGCTTTAAAAAGAAAAAAAGCATCCTACTCTTCGAGGACTAAAGGTGCCACCAACTT
*
4085723 GTGTGGGCTTTGAAAAGGAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGT
261 GTGTGGGCTTTGAAAAGGAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGT
* * * * * *
4085788 TGGCTTTGCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGG
326 GGGCTTTACAAAGAGAAAGCATCCTACTCTTTGAGGAC-GAAAAATGCCACCAACTCGTGTGGGC
*
4085853 TTCGAAAGGAAAAGGCATCCTACTCTTTGAGGACTA
390 TTCAAAAGGAAAAGGCATCCTACTCTTTGAGGACTA
* * * *
4085889 AAGGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAAGACGTCCTGCTCTTTGAGGACTGGA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAAAAGGCGTCCTGCTCTTTGAGGACT-AA
* * * *
4085954 GGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTCAGGACTAAAGGTG
64 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTG
* * *
4086019 CCATGAACTCGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGTCACC
129 CCACGAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACC
* * * *
4086084 AACTCGTGTGGGCTTT-AAAAG-GAAAAGGCATCCTATTCTTTGAGGACTAAAGGTGCCACCAAC
194 AACTCGTGTGGGCTTTAAAAAGAAAAAAAGCATCCTACTCTTCGAGGACTAAAGGTGCCACCAAC
* *
4086147 TTGTGTGGGCTTT-AAAAGGAAAAAAGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACT
259 TTGTGTGGGCTTTGAAAAGG---AAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACT
* * *
4086211 TGTGTGGGCTTTATAAGGA-AAAGTCATCCTACTTTTTGAGGAC-AAAAAGGGTGCCACCAACTC
321 TGTGTGGGCTTTACAAAGAGAAAG-CATCCTACTCTTTGAGGACGAAAAA---TGCCACCAACTC
* * *
4086274 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA
382 GTGTGGGCTTCAAAAGGAAAAGGCATCCTACTCTTTGAGGACTA
*
4086318 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTCGAGGACTAAAG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
* * *
4086383 GTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACT
66 GTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCGTCCTGCTCTTTGAGGACT
4086441 GGAAGGGCTA
Statistics
Matches: 490, Mismatches: 49, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
424 25 0.05
425 10 0.02
426 55 0.11
427 56 0.11
428 240 0.49
429 104 0.21
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (425 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCC
ACGAACTCGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAA
CTCGTGTGGGCTTTAAAAAGAAAAAAAGCATCCTACTCTTCGAGGACTAAAGGTGCCACCAACTT
GTGTGGGCTTTGAAAAGGAAAGGCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGT
GGGCTTTACAAAGAGAAAGCATCCTACTCTTTGAGGACGAAAAATGCCACCAACTCGTGTGGGCT
TCAAAAGGAAAAGGCATCCTACTCTTTGAGGACTA
Found at i:4092766 original size:43 final size:43
Alignment explanation
Indices: 4092718--4092803 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
4092708 GTATTTTGAA
*
4092718 AATAAAATCGGAGTTGGAGTATCCCCGATTATG-GAAAATTGGT
1 AATAAAATCGGAGTTGGAATATCCCCGATTATGAG-AAATTGGT
* * *
4092761 AATAAAGTCGGGGTTGGAATATCCCCGATTGTGAGAAATTGGT
1 AATAAAATCGGAGTTGGAATATCCCCGATTATGAGAAATTGGT
4092804 GTTTTGGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (43 bp):
AATAAAATCGGAGTTGGAATATCCCCGATTATGAGAAATTGGT
Found at i:4092842 original size:51 final size:51
Alignment explanation
Indices: 4092773--4092888 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
4092763 TAAAGTCGGG
** * *
4092773 GTTGGAATATCCCCGATTGT-GAGAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAATATCCCCGATTGTGGAG-AATTGGCATTTTAGAAATAAAACCAGA
* * *
4092824 GTTGGAATATCCCTGATTGTGGAGATTTGGCATTTTAGAAATAAAACCAGG
1 GTTGGAATATCCCCGATTGTGGAGAATTGGCATTTTAGAAATAAAACCAGA
*
4092875 GTTGGAGTATCCCC
1 GTTGGAATATCCCC
4092889 TCGAAAATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTGTGGAGAATTGGCATTTTAGAAATAAAACCAGA
Found at i:4092955 original size:79 final size:79
Alignment explanation
Indices: 4092856--4093122 Score: 396
Period size: 79 Copynumber: 3.4 Consensus size: 79
4092846 AGATTTGGCA
*
4092856 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATT
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
4092921 ATGAAAAATTGATG
66 ATGAAAAATTGATG
* *
4092935 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* * * *
4093000 GTGAGAAATTAATA
66 ATGAAAAATTGATG
** * *
4093014 TTTTAGAAATAAAGTCGGGGTTGGGGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG---
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
4093076 ATGAAAAATTGATG
66 ATGAAAAATTGATG
* *
4093090 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
4093123 GATTAAGAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
76 41 0.24
79 128 0.76
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
TTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
ATGAAAAATTGATG
Found at i:4093119 original size:48 final size:50
Alignment explanation
Indices: 4093057--4093175 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 50
4093047 TCGAAAATAA
**
4093057 CGGGGTTGGAGTATCCCCGA-T-GAAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAGAAAAATTGACATTTTAGAAATAAAAT
* **
4093105 CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGACATTTTGGAAATGGAAT
1 CGGGGTTGGAGTATCCCCGATT-AGAAAAATTGACATTTTAGAAATAAAAT
*
4093156 CGGGATTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
4093176 GATGAAGAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
48 20 0.32
49 1 0.02
51 41 0.66
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTAGAAAAATTGACATTTTAGAAATAAAAT
Found at i:4093583 original size:15 final size:14
Alignment explanation
Indices: 4093552--4093580 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4093542 CCTCGAACTT
4093552 ATTTGTTATCAAAA
1 ATTTGTTATCAAAA
4093566 ATTTGTTATCAAAA
1 ATTTGTTATCAAAA
4093580 A
1 A
4093581 ATTACAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
ATTTGTTATCAAAA
Found at i:4095553 original size:33 final size:33
Alignment explanation
Indices: 4095508--4095577 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4095498 TACATTGTAA
* *
4095508 AATGTATCGATACAATGAGCAATATATCGATAC
1 AATGTATAGATACAATGAGAAATATATCGATAC
* *
4095541 AATGTATAGATACAATGCGAAATGTATCGATAC
1 AATGTATAGATACAATGAGAAATATATCGATAC
4095574 AATG
1 AATG
4095578 AATAATGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (33 bp):
AATGTATAGATACAATGAGAAATATATCGATAC
Found at i:4095553 original size:53 final size:53
Alignment explanation
Indices: 4095489--4095595 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
4095479 AAATGCCTGT
* * * *
4095489 ATGTATCGATACATTGTAAAATGTATCGATACAATGAGCAATATATCGATACA
1 ATGTATAGATACAATGCAAAATGTATCGATACAATGAACAATATATCGATACA
* * *
4095542 ATGTATAGATACAATGCGAAATGTATCGATACAATGAATAATGTATCGATACA
1 ATGTATAGATACAATGCAAAATGTATCGATACAATGAACAATATATCGATACA
4095595 A
1 A
4095596 ATTGTGAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (53 bp):
ATGTATAGATACAATGCAAAATGTATCGATACAATGAACAATATATCGATACA
Found at i:4095603 original size:24 final size:20
Alignment explanation
Indices: 4095489--4095595 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
4095479 AAATGCCTGT
*
4095489 ATGTATCGATACATTGTAA-A
1 ATGTATCGATACAATG-AATA
**
4095509 ATGTATCGATACAATGAGCA
1 ATGTATCGATACAATGAATA
*
4095529 ATATATCGATACAATG--T-
1 ATGTATCGATACAATGAATA
*
4095546 A--TA--GATACAATGCGA-A
1 ATGTATCGATACAATG-AATA
4095562 ATGTATCGATACAATGAATA
1 ATGTATCGATACAATGAATA
4095582 ATGTATCGATACAA
1 ATGTATCGATACAA
4095596 ATTGTGAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
13 9 0.12
15 2 0.03
16 1 0.01
17 1 0.01
18 2 0.03
19 2 0.03
20 55 0.76
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACAATGAATA
Found at i:4100174 original size:13 final size:13
Alignment explanation
Indices: 4100156--4100181 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4100146 ATAATCACCC
4100156 TGTATCGATACAA
1 TGTATCGATACAA
4100169 TGTATCGATACAA
1 TGTATCGATACAA
4100182 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:4102278 original size:15 final size:16
Alignment explanation
Indices: 4102253--4102287 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4102243 ATCAATTTCG
*
4102253 TTTGCAGCTTCTTCAT
1 TTTGCAGCTTCCTCAT
4102269 TTTG-AGCTTCCTCAT
1 TTTGCAGCTTCCTCAT
4102284 TTTG
1 TTTG
4102288 GACATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.11, C:0.23, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTGCAGCTTCCTCAT
Found at i:4106042 original size:13 final size:13
Alignment explanation
Indices: 4106024--4106049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4106014 CAATTTTTGG
4106024 TGTATCGATACAT
1 TGTATCGATACAT
4106037 TGTATCGATACAT
1 TGTATCGATACAT
4106050 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4106061 original size:32 final size:33
Alignment explanation
Indices: 4106004--4106067 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
4105994 TACAAGCCAA
** *
4106004 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCAATACAT
4106037 TGTATCGATAC-ATACTTGGTGTATCAATACA
1 TGTATCGATACAATACTTGGTGTATCAATACA
4106068 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCAATACAT
Found at i:4114562 original size:85 final size:85
Alignment explanation
Indices: 4114463--4114875 Score: 458
Period size: 85 Copynumber: 4.9 Consensus size: 85
4114453 GACGAAGTTG
* * *
4114463 ACAAGTAAATAAAGGATAAAGATGTTGACTGAGATTAAACCGACAAGTCAACAAAGAATAAAAGG
1 ACAAGTAAACAAAGGATAAAGAAGTTGACTGAGATTGAACCGACAAGTCAACAAAGAATAAAAGG
*
4114528 ATTTACCCGGGATTGAGCCA
66 ATTTACCCGGGACTGAGCCA
* * * *
4114548 ACAA-TCAAACAAAGGATAAAGAAGTTGAC-CAGGATTGAATCGGCAAGTCAACAAAGGATAAAA
1 ACAAGT-AAACAAAGGATAAAGAAGTTGACTGA-GATTGAACCGACAAGTCAACAAAGAATAAAA
* * * *
4114611 GGATTTACTCAGGACTAAGCCT
64 GGATTTACCCGGGACTGAGCCA
* * * * * *
4114633 ACAAGTAAACAAAGGATAAAGAAATT-AATCAGGATTGAACCAACAAGTTAACAAAGGATAAAAG
1 ACAAGTAAACAAAGGATAAAGAAGTTGACTGA-GATTGAACCGACAAGTCAACAAAGAATAAAAG
* *
4114697 GATTTACCTGGGACTGAACCA
65 GATTTACCCGGGACTGAGCCA
* * * *
4114718 ATAGGTAAACAAAGGATAAAGAAGTTGACCGAGATTGAACCGACAAGTCAACAAA-AGATAAAAA
1 ACAAGTAAACAAAGGATAAAGAAGTTGACTGAGATTGAACCGACAAGTCAACAAAGA-ATAAAAG
* * *
4114782 GATTTACTCGGGACAGAGCCG
65 GATTTACCCGGGACTGAGCCA
* * * * *
4114803 ATAAGTAAACAATGGATAAAGAAGTTGA-TCGGGATTGAACCGATAAGTCAACAAAGAATAAAAA
1 ACAAGTAAACAAAGGATAAAGAAGTTGACT-GAGATTGAACCGACAAGTCAACAAAGAATAAAAG
4114867 GATTTACCC
65 GATTTACCC
4114876 AATAAGGTTA
Statistics
Matches: 275, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
84 3 0.01
85 268 0.97
86 4 0.01
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (85 bp):
ACAAGTAAACAAAGGATAAAGAAGTTGACTGAGATTGAACCGACAAGTCAACAAAGAATAAAAGG
ATTTACCCGGGACTGAGCCA
Found at i:4114644 original size:43 final size:43
Alignment explanation
Indices: 4114462--4114873 Score: 249
Period size: 42 Copynumber: 9.7 Consensus size: 43
4114452 GGACGAAGTT
* * *
4114462 GACAAGTAAATAAAGGAT-AAA-GATGTTGACTGA-GATTAAACC
1 GACAAGTAAACAAAGGATAAAAGGAT-TT-ACTCAGGATTGAACC
* * * * *
4114504 GACAAGTCAACAAAGAATAAAAGGATTTACCCGGGATTGAGCC
1 GACAAGTAAACAAAGGATAAAAGGATTTACTCAGGATTGAACC
* * * *
4114547 AACAA-TCAAACAAAGGAT-AAAGAAGTTGAC-CAGGATTGAATC
1 GACAAGT-AAACAAAGGATAAAAGGA-TTTACTCAGGATTGAACC
* * *
4114589 GGCAAGTCAACAAAGGATAAAAGGATTTACTCAGGACT-AAGCC
1 GACAAGTAAACAAAGGATAAAAGGATTTACTCAGGATTGAA-CC
* * * *
4114632 TACAAGTAAACAAAGGAT-AAAGAAATTAATCAGGATTGAACC
1 GACAAGTAAACAAAGGATAAAAGGATTTACTCAGGATTGAACC
* * * *
4114674 AACAAGTTAACAAAGGATAAAAGGATTTAC-CTGGGACTGAACC
1 GACAAGTAAACAAAGGATAAAAGGATTTACTC-AGGATTGAACC
* * * * *
4114717 AATAGGTAAACAAAGGAT-AAAGAAGTTGAC-C-GAGATTGAACC
1 GACAAGTAAACAAAGGATAAAAGGA-TTTACTCAG-GATTGAACC
* * * * ** *
4114759 GACAAGTCAACAAAAGATAAAAAGATTTACTCGGGACAGAGCC
1 GACAAGTAAACAAAGGATAAAAGGATTTACTCAGGATTGAACC
* * * * *
4114802 GATAAGTAAACAATGGAT-AAAGAAGTTGA-TCGGGATTGAACC
1 GACAAGTAAACAAAGGATAAAAGGA-TTTACTCAGGATTGAACC
* * * *
4114844 GATAAGTCAACAAAGAATAAAAAGATTTAC
1 GACAAGTAAACAAAGGATAAAAGGATTTAC
4114874 CCAATAAGGT
Statistics
Matches: 280, Mismatches: 70, Indels: 39
0.72 0.18 0.10
Matches are distributed among these distances:
41 1 0.00
42 147 0.52
43 128 0.46
44 4 0.01
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (43 bp):
GACAAGTAAACAAAGGATAAAAGGATTTACTCAGGATTGAACC
Found at i:4114730 original size:170 final size:170
Alignment explanation
Indices: 4114462--4114875 Score: 539
Period size: 170 Copynumber: 2.4 Consensus size: 170
4114452 GGACGAAGTT
* * * *
4114462 GACAAGTAAATAAAGGATAAAGATGTTGA-CTGAGATTAAACCGACAAGTCAACAAAGAATAAAA
1 GACAAGTAAACAAAGGATAAAGAAGTTGATCAG-GATTGAACCGACAAGTCAACAAAGAATAAAA
* * *
4114526 GGATTTACCCGGGATTGAGCCAACAATCAAACAAAGGATAAAGAAGTTGACC-AGGATTGAATCG
65 GGATTTACCCGGGACTGAACCAACAATCAAACAAAGGATAAAGAAGTTGACCGA-GATTGAACCG
* * *
4114590 GCAAGTCAACAAAGGATAAAAGGATTTACTCAGGACTA-AGCC
129 ACAAGTCAACAAAAGATAAAAAGATTTACTCAGGAC-AGAGCC
* * * * * *
4114632 TACAAGTAAACAAAGGATAAAGAAATTAATCAGGATTGAACCAACAAGTTAACAAAGGATAAAAG
1 GACAAGTAAACAAAGGATAAAGAAGTTGATCAGGATTGAACCGACAAGTCAACAAAGAATAAAAG
* * *
4114697 GATTTACCTGGGACTGAACCAATAGGT-AAACAAAGGATAAAGAAGTTGACCGAGATTGAACCGA
66 GATTTACCCGGGACTGAACCAACA-ATCAAACAAAGGATAAAGAAGTTGACCGAGATTGAACCGA
*
4114761 CAAGTCAACAAAAGATAAAAAGATTTACTCGGGACAGAGCC
130 CAAGTCAACAAAAGATAAAAAGATTTACTCAGGACAGAGCC
* * * * *
4114802 GATAAGTAAACAATGGATAAAGAAGTTGATCGGGATTGAACCGATAAGTCAACAAAGAATAAAAA
1 GACAAGTAAACAAAGGATAAAGAAGTTGATCAGGATTGAACCGACAAGTCAACAAAGAATAAAAG
4114867 GATTTACCC
66 GATTTACCC
4114876 AATAAGGTTA
Statistics
Matches: 208, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
169 1 0.00
170 203 0.98
171 4 0.02
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (170 bp):
GACAAGTAAACAAAGGATAAAGAAGTTGATCAGGATTGAACCGACAAGTCAACAAAGAATAAAAG
GATTTACCCGGGACTGAACCAACAATCAAACAAAGGATAAAGAAGTTGACCGAGATTGAACCGAC
AAGTCAACAAAAGATAAAAAGATTTACTCAGGACAGAGCC
Found at i:4115044 original size:47 final size:46
Alignment explanation
Indices: 4114993--4115087 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 46
4114983 TTGCTTGACA
* * *
4114993 AGGTCTTAACAACAATACAGTCAAATGAGGGTGGAAAGAGTTTAACC
1 AGGTCCTAACAACAATACAATCAAACGA-GGTGGAAAGAGTTTAACC
** * *
4115040 AGGTCCTAACGCCAATACAATCAAACGAGGTGGAAAGTGTTTGACC
1 AGGTCCTAACAACAATACAATCAAACGAGGTGGAAAGAGTTTAACC
4115086 AG
1 AG
4115088 ATATAGACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 18 0.44
47 23 0.56
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (46 bp):
AGGTCCTAACAACAATACAATCAAACGAGGTGGAAAGAGTTTAACC
Found at i:4115117 original size:35 final size:35
Alignment explanation
Indices: 4115060--4115333 Score: 259
Period size: 35 Copynumber: 7.9 Consensus size: 35
4115050 GCCAATACAA
* *
4115060 TCAAACGA-GGTGGAAAGTGTTTGACCAGATATAG
1 TCAAACGATGATGGAAAGAGTTTGACCAGATATAG
* * * *
4115094 ACAAACAATGATGGAGAGCGTTTGACCAGATATAG
1 TCAAACGATGATGGAAAGAGTTTGACCAGATATAG
* * * * *
4115129 TCAAACAATAATGGAAAGAGTTTGACTAGATACAA
1 TCAAACGATGATGGAAAGAGTTTGACCAGATATAG
* * * * *
4115164 TC-AACTGATGATAGAGAGAGTTTGACTAGATACAA
1 TCAAAC-GATGATGGAAAGAGTTTGACCAGATATAG
*
4115199 TCAACCGATGATGG--AGAGTTTGACCAGATATAG
1 TCAAACGATGATGGAAAGAGTTTGACCAGATATAG
** *
4115232 TCAATTGATGATGAAAAGAGTTTGACCAGATATAG
1 TCAAACGATGATGGAAAGAGTTTGACCAGATATAG
* * * *
4115267 TGAAACGATGATGAAAAGAGTTTGATCAGATACAG
1 TCAAACGATGATGGAAAGAGTTTGACCAGATATAG
* ** *
4115302 TCAAACAATGATAAAAAGAGTTTGACCTGATA
1 TCAAACGATGATGGAAAGAGTTTGACCAGATA
4115334 CCGGCAAATG
Statistics
Matches: 201, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
33 27 0.13
34 9 0.04
35 163 0.81
36 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (35 bp):
TCAAACGATGATGGAAAGAGTTTGACCAGATATAG
Found at i:4115334 original size:35 final size:35
Alignment explanation
Indices: 4115054--4115359 Score: 253
Period size: 35 Copynumber: 8.8 Consensus size: 35
4115044 CCTAACGCCA
* * * *
4115054 ATACAATCAAACGA-GGTGGAAAGTGTTTGACCAG
1 ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
* * * * * *
4115088 ATATAGACAAACAATGATGGAGAGCGTTTGACCAG
1 ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
* * * * *
4115123 ATATAGTCAAACAATAATGGAAAGAGTTTGACTAG
1 ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
* * *
4115158 ATACAATC-AACTGATGAT-AGAGAGAGTTTGACTAG
1 ATACAGTCAAAC-GATGATGA-AAAGAGTTTGACCAG
* * *
4115193 ATACAATCAACCGATGATG--GAGAGTTTGACCAG
1 ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
* **
4115226 ATATAGTCAATTGATGATGAAAAGAGTTTGACCAG
1 ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
* * *
4115261 ATATAGTGAAACGATGATGAAAAGAGTTTGATCAG
1 ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
* * *
4115296 ATACAGTCAAACAATGATAAAAAGAGTTTGACCTG
1 ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
* * * *
4115331 ATACCGGCAAATGATGATTAAAAGAGTTT
1 ATACAGTCAAACGATGATGAAAAGAGTTT
4115360 AAGTAGATAC
Statistics
Matches: 225, Mismatches: 40, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
33 28 0.12
34 13 0.06
35 182 0.81
36 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (35 bp):
ATACAGTCAAACGATGATGAAAAGAGTTTGACCAG
Found at i:4115334 original size:138 final size:138
Alignment explanation
Indices: 4115078--4115327 Score: 333
Period size: 138 Copynumber: 1.8 Consensus size: 138
4115068 GGTGGAAAGT
* * * *
4115078 GTTTGACCAGATATAGACAAACAATGATGGAGAGCGTTTGACCAGATATAGTCAAACAATAATGG
1 GTTTGACCAGATATAGACAAACAATGATGAAAAGAGTTTGACCAGATATAGTCAAACAATAATGA
* * *
4115143 AAAGAGTTTGACTAGATACAATCAACTGATGATAGAGAGAGTTTGACTAGATACAATCAACCGAT
66 AAAGAGTTTGACTAGATACAATCAACTAATGATAAAAAGAGTTTGACTAGATACAATCAACCGAT
4115208 GATGGAGA
131 GATGGAGA
* *** * * *
4115216 GTTTGACCAGATATAGTCAATTGATGATGAAAAGAGTTTGACCAGATATAGTGAAACGATGATGA
1 GTTTGACCAGATATAGACAAACAATGATGAAAAGAGTTTGACCAGATATAGTCAAACAATAATGA
*
4115281 AAAGAGTTTGA-TCAGATACAGTCAAAC-AATGATAAAAAGAGTTTGAC
66 AAAGAGTTTGACT-AGATACAATC-AACTAATGATAAAAAGAGTTTGAC
4115328 CTGATACCGG
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
137 1 0.01
138 91 0.96
139 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (138 bp):
GTTTGACCAGATATAGACAAACAATGATGAAAAGAGTTTGACCAGATATAGTCAAACAATAATGA
AAAGAGTTTGACTAGATACAATCAACTAATGATAAAAAGAGTTTGACTAGATACAATCAACCGAT
GATGGAGA
Found at i:4116088 original size:88 final size:88
Alignment explanation
Indices: 4115842--4116094 Score: 355
Period size: 89 Copynumber: 2.9 Consensus size: 88
4115832 ATCTTTGCCC
*
4115842 CAAGGAAATTAGGTTTTGTTATGCATCAAATACCATCTAGTGGTTGAGTGAAGGGGATATGATTA
1 CAAGGAAATTAGGTTTTGTGATGCATC-AATACCATCTAGTGGTTGAGTGAAGGGGATATGATTA
4115907 GGAATGTGTAGGCTTCACCTTACCT
65 GGAATGTGT-GGCTTCACCTTACCT
* * * * *
4115932 CAAGGAAATCAAGCTTTATGATGCATCAATACCATCTAGTGGTTGAGTGAAGGGGATATGATTGG
1 CAAGGAAATTAGGTTTTGTGATGCATCAATACCATCTAGTGGTTGAGTGAAGGGGATATGATTAG
**
4115997 GAATGTGTGGCTTACACCTTGGCT
66 GAATGTGTGGCTT-CACCTTACCT
* * * * *
4116021 CATGGAAATTAGGTTTTGTGATGCATCAA-ACCATTTAGTGATTGGGTAAAGGGGATATGATTAG
1 CAAGGAAATTAGGTTTTGTGATGCATCAATACCATCTAGTGGTTGAGTGAAGGGGATATGATTAG
4116085 GAATGTGTGG
66 GAATGTGTGG
4116095 TTTCCACAAT
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 45 0.31
89 77 0.53
90 22 0.15
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (88 bp):
CAAGGAAATTAGGTTTTGTGATGCATCAATACCATCTAGTGGTTGAGTGAAGGGGATATGATTAG
GAATGTGTGGCTTCACCTTACCT
Found at i:4116908 original size:110 final size:111
Alignment explanation
Indices: 4116714--4117039 Score: 365
Period size: 110 Copynumber: 2.9 Consensus size: 111
4116704 TGGTGAGCCT
* * * *
4116714 AAAAATTTCAAAATTGATAGGGTAC-ATGCTCCT-TATTCCTAGGCACGAATGGATTGAAATGTA
1 AAAAATTTCAAAACTGATAAGGTACGA-GC-CCTATTTTTCTAGGCACGAATGGA-TGAAATGTA
* *
4116777 TAAAATATGAATTTCTCAAAAATCAAACAAATTTGATGTTGTT-GGATC
63 TAAAATATGAATTTTTCAAAAATAAAACAAATTTGATGTTGTTGGGATC
* *
4116825 -AAAATTTCAAAAGTGATAAGGTACGAGCCCTATTTTTCTAGGCACAAATGGATGAAATTGTATA
1 AAAAATTTCAAAACTGATAAGGTACGAGCCCTATTTTTCTAGGCACGAATGGATGAAA-TGTATA
* * * *
4116889 AAATATGAGTTTTTCAAAAATTAGACAAATTTGATGTTGTTGGGCTC
65 AAATATGAATTTTTCAAAAATAAAACAAATTTGATGTTGTTGGGATC
* * * * * * *
4116936 AAAAATTTCAAAACTCAT-AGGATATGTGCCCCATTTTTCTATGCACGAATGAATCACAATGTAT
1 AAAAATTTCAAAACTGATAAGG-TACGAGCCCTATTTTTCTAGGCACGAATGGATGA-AATGTAT
* *
4117000 AAAGTATGAATTTCTTAAAAAATAAAACAAATTTGATGTT
64 AAAATATGAATTT-TTCAAAAATAAAACAAATTTGATGTT
4117040 CTTCCAAGTT
Statistics
Matches: 183, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
109 8 0.04
110 84 0.46
111 8 0.04
112 58 0.32
113 25 0.14
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (111 bp):
AAAAATTTCAAAACTGATAAGGTACGAGCCCTATTTTTCTAGGCACGAATGGATGAAATGTATAA
AATATGAATTTTTCAAAAATAAAACAAATTTGATGTTGTTGGGATC
Found at i:4117008 original size:112 final size:109
Alignment explanation
Indices: 4116752--4117039 Score: 326
Period size: 112 Copynumber: 2.6 Consensus size: 109
4116742 CTCCTTATTC
* * * * *
4116752 CTAGGCACGAATGGATTGAAATGTATAAAATATGAATTTCTCAAAAATCAAACAAATTTGATGTT
1 CTAGGCACAAAT-GAATCAAATGTATAAAATATGAATTTTTCAAAAATAAAACAAATTTGATGTT
* * *
4116817 GTTGGATCAAAATTTCAAAAGTGATAAGGTACGAGCCCTATTTTT
65 GTTGGATCAAAATTTCAAAACTCATAAGGTACGAGCCCCATTTTT
* * * * *
4116862 CTAGGCACAAATGGATGAAATTGTATAAAATATGAGTTTTTCAAAAATTAGACAAATTTGATGTT
1 CTAGGCACAAATGAATCAAA-TGTATAAAATATGAATTTTTCAAAAATAAAACAAATTTGATGTT
* * *
4116927 GTTGGGCTCAAAAATTTCAAAACTCAT-AGGATATGTGCCCCATTTTT
65 GTT-GGATC-AAAATTTCAAAACTCATAAGG-TACGAGCCCCATTTTT
* * * *
4116974 CTATGCACGAATGAATCACAATGTATAAAGTATGAATTTCTTAAAAAATAAAACAAATTTGATGT
1 CTAGGCACAAATGAATCA-AATGTATAAAATATGAATTT-TTCAAAAATAAAACAAATTTGATGT
4117039 T
64 T
4117040 CTTCCAAGTT
Statistics
Matches: 150, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
109 6 0.04
110 54 0.36
111 7 0.05
112 58 0.39
113 25 0.17
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (109 bp):
CTAGGCACAAATGAATCAAATGTATAAAATATGAATTTTTCAAAAATAAAACAAATTTGATGTTG
TTGGATCAAAATTTCAAAACTCATAAGGTACGAGCCCCATTTTT
Found at i:4117324 original size:16 final size:16
Alignment explanation
Indices: 4117299--4117332 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4117289 AGCTTCATTC
4117299 TTTCCATTTTTCTCTT
1 TTTCCATTTTTCTCTT
* *
4117315 TTTCCTTTTTTTTCTT
1 TTTCCATTTTTCTCTT
4117331 TT
1 TT
4117333 CATCATGCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCCATTTTTCTCTT
Found at i:4117664 original size:14 final size:15
Alignment explanation
Indices: 4117641--4117673 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4117631 TTTCATGCTT
*
4117641 TTTTTCTTTCTTTTG
1 TTTTTCTTTCTTTTC
4117656 TTTTT-TTTCTTTTC
1 TTTTTCTTTCTTTTC
4117670 TTTT
1 TTTT
4117674 CTTGTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTCTTTTC
Found at i:4117681 original size:22 final size:23
Alignment explanation
Indices: 4117642--4117688 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4117632 TTCATGCTTT
* *
4117642 TTTTCTTTCTTTTGTTTTTTTTC
1 TTTTCTTTCTCTTGTTTTGTTTC
4117665 TTTTCTTT-TCTTGTTTTGTTTC
1 TTTTCTTTCTCTTGTTTTGTTTC
4117687 TT
1 TT
4117689 AGTTAGAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (23 bp):
TTTTCTTTCTCTTGTTTTGTTTC
Found at i:4121964 original size:153 final size:151
Alignment explanation
Indices: 4121567--4122040 Score: 467
Period size: 153 Copynumber: 3.1 Consensus size: 151
4121557 TCGATCCTAA
* * * * * * *
4121567 AAAAATTATGAAAATGCCCGTAGGGGGTACCTTCGACATAGAAGTACCAAGTAC-CCCTAAAGGA
1 AAAAATTATGAAAATGCCC-TAAGGAG-ACTTTCAACTTAGAAGTACC-CG-ACAACCTAAAGGA
* *
4121631 CTTAAAAAGATTATAGATAGGATGAACTTATCCTAAATACCCACCTTCGACATAAAAGCAA-ACC
62 CTTAAAAAGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAG-AAGACC
* * * *
4121695 TAGTGACAACTTATGACTCGATCTTG
126 TAGTGACAACTTAGGACTCAATTTTT
* * *
4121721 AAAAATTATAAAAATGCCCTTAGGGGACTTTCAACTTAGAAGTACCCGACAACCTTAAAGGACTT
1 AAAAATTATGAAAATGCCCTAAGGAGACTTTCAACTTAGAAGTACCCGACAACC-TAAAGGACTT
* * * *
4121786 GAAAAGATTGTAGATAGGATTAACCTATCCTAAATACCCA-CTATCGGCATAGAAG-AGACCTAG
65 AAAAAGATTATAGATAGGATGAACCTATCCTAAATACCCACCT-TCGGCATAAAAGAAGACCTAG
*
4121849 TGACAAATTAGGACTCAATTTTT
129 TGACAACTTAGGACTCAATTTTT
* * ** * *
4121872 TAAAATTATGAAAATGCCCCTAAGGAATACTTTTGACTTA-ATAGTGCCCGATAATCCTAAAGGA
1 AAAAATTATGAAAATG-CCCTAAGG-AGACTTTCAACTTAGA-AGTACCCGACAA-CCTAAAGGA
* * * * *
4121936 CTCT-AAAAGATTATATATGGGATGAACCTATCTTAAATACCCACCTTCGGTATAAAAGAAGACT
62 CT-TAAAAAGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGAAGACC
* * *
4122000 TGGTGACAACCTAGGACTCAA-TTCT
126 TAGTGACAACTTAGGACTCAATTTTT
4122025 AAAACATTATGAAAAT
1 AAAA-ATTATGAAAAT
4122041 TCTCCTAGGG
Statistics
Matches: 267, Mismatches: 41, Indels: 24
0.80 0.12 0.07
Matches are distributed among these distances:
150 3 0.01
151 43 0.16
152 81 0.30
153 84 0.31
154 56 0.21
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (151 bp):
AAAAATTATGAAAATGCCCTAAGGAGACTTTCAACTTAGAAGTACCCGACAACCTAAAGGACTTA
AAAAGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGAAGACCTAGTG
ACAACTTAGGACTCAATTTTT
Found at i:4123913 original size:14 final size:15
Alignment explanation
Indices: 4123890--4123922 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4123880 AAAAAAGGTT
4123890 AAATTGTAAAAATTA
1 AAATTGTAAAAATTA
4123905 AAATT-TAAAAATTA
1 AAATTGTAAAAATTA
4123919 AAAT
1 AAAT
4123923 AAAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATTGTAAAAATTA
Found at i:4125631 original size:20 final size:20
Alignment explanation
Indices: 4125591--4125644 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
4125581 TTCTATGATT
*
4125591 TGTATTGATACAATTAGTGAA
1 TGTATTGATAC-ATAAGTGAA
*
4125612 TGTATCGATACATAAGTGAA
1 TGTATTGATACATAAGTGAA
4125632 TGTATTGATACAT
1 TGTATTGATACAT
4125645 GTCTCAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:4126089 original size:20 final size:20
Alignment explanation
Indices: 4126049--4126102 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
4126039 TTCTATGATT
*
4126049 TGTATTGATACAATTAGTGAA
1 TGTATTGATAC-ATAAGTGAA
*
4126070 TGTATCGATACATAAGTGAA
1 TGTATTGATACATAAGTGAA
4126090 TGTATTGATACAT
1 TGTATTGATACAT
4126103 GTCTCAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:4126124 original size:458 final size:458
Alignment explanation
Indices: 4125294--4126233 Score: 1745
Period size: 458 Copynumber: 2.1 Consensus size: 458
4125284 ACATTACTCA
* * *
4125294 TTGTATCGATACAATCTGGGTTTTCCAAATGTATTGATATATTCTTTAATGTATCTATAGGCACA
1 TTGTATCCATACAATCTGGGTTTTCCAAATGTATCGATATATTCTTCAATGTATCTATAGGCACA
4125359 TCATTTTATCTAGGCTAATTTGGAGCGATCCGAGGAATGCTCAAAAGGTGGTGAGATCAAATATA
66 TCATTTTATCTAGGCTAATTTGGAGCGATCCGAGGAATGCTCAAAAGGTGGTGAGATCAAATATA
*
4125424 CATGAGAGATCGAAGATGTAGCGAGATGACGATTGTCCCTAGTTGAGATAAAGTGTTCGGGAGGC
131 CATGAGAGATCGAAGATGTAGCGAGATGACGATCGTCCCTAGTTGAGATAAAGTGTTCGGGAGGC
4125489 AAAAAGGGTGAAAAAGTCACATTTTTGTTTAAATGTATGGATACATTTCTTGAATATATCAATGC
196 AAAAAGGGTGAAAAAGTCACATTTTTGTTTAAATGTATGGATACATTTCTTGAATATATCAATGC
4125554 AAGGTCCAACGGTAAAAAATTTTAAATTTCTATGATTTGTATTGATACAATTAGTGAATGTATCG
261 AAGGTCCAACGGTAAAAAATTTTAAATTTCTATGATTTGTATTGATACAATTAGTGAATGTATCG
4125619 ATACATAAGTGAATGTATTGATACATGTCTCAAACATATCAATACAAAACCACATAACATTCTGA
326 ATACATAAGTGAATGTATTGATACATGTCTCAAACATATCAATACAAAACCACATAACATTCTGA
*
4125684 TTGAAAAATTGTATCGACACATAAGTAAATGTATCGATACATTTCTAAATGGTTGAATACAATTT
391 TTGAAAAATTGTATCGACACATAAGTAAATGTATCGATACATTTCCAAATGGTTGAATACAATTT
4125749 GCT
456 GCT
4125752 TTGTATCCATACAATCTGGGTTTTCCAAATGTATCGATATATTCTTCAATGTATCTATAGGCACA
1 TTGTATCCATACAATCTGGGTTTTCCAAATGTATCGATATATTCTTCAATGTATCTATAGGCACA
*
4125817 TCATTTTATCTAGGCTAATTTGGAGCGATCCGAGGCATGCTCAAAAGGTGGTGAGATCAAATATA
66 TCATTTTATCTAGGCTAATTTGGAGCGATCCGAGGAATGCTCAAAAGGTGGTGAGATCAAATATA
*
4125882 CATGAGAGATCGAAGATGTAGCGAGATGACGATCGTCCTTAGTTGAGATAAAGTGTTCGGGAGGC
131 CATGAGAGATCGAAGATGTAGCGAGATGACGATCGTCCCTAGTTGAGATAAAGTGTTCGGGAGGC
4125947 AAAAAGGGTGAAAAAGTCACATTTTTGTTTAAATGTATGGATACATTTCTTGAATATATCAATGC
196 AAAAAGGGTGAAAAAGTCACATTTTTGTTTAAATGTATGGATACATTTCTTGAATATATCAATGC
*
4126012 AAGGTCCAACGGTCAAAAATTTTAAATTTCTATGATTTGTATTGATACAATTAGTGAATGTATCG
261 AAGGTCCAACGGTAAAAAATTTTAAATTTCTATGATTTGTATTGATACAATTAGTGAATGTATCG
* *
4126077 ATACATAAGTGAATGTATTGATACATGTCTCAAACGTATCGATACAAAACCACATAACATTCTGA
326 ATACATAAGTGAATGTATTGATACATGTCTCAAACATATCAATACAAAACCACATAACATTCTGA
* *
4126142 TTGAAAAATTGTATCGACACATAAGTAAATGTATCGATACATTTCCAAATGTTTGGATACAATTT
391 TTGAAAAATTGTATCGACACATAAGTAAATGTATCGATACATTTCCAAATGGTTGAATACAATTT
4126207 GCT
456 GCT
* * *
4126210 TTGTGTCCATACATTCTGTGTTTT
1 TTGTATCCATACAATCTGGGTTTT
4126234 TGATCAAAAT
Statistics
Matches: 467, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
458 467 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (458 bp):
TTGTATCCATACAATCTGGGTTTTCCAAATGTATCGATATATTCTTCAATGTATCTATAGGCACA
TCATTTTATCTAGGCTAATTTGGAGCGATCCGAGGAATGCTCAAAAGGTGGTGAGATCAAATATA
CATGAGAGATCGAAGATGTAGCGAGATGACGATCGTCCCTAGTTGAGATAAAGTGTTCGGGAGGC
AAAAAGGGTGAAAAAGTCACATTTTTGTTTAAATGTATGGATACATTTCTTGAATATATCAATGC
AAGGTCCAACGGTAAAAAATTTTAAATTTCTATGATTTGTATTGATACAATTAGTGAATGTATCG
ATACATAAGTGAATGTATTGATACATGTCTCAAACATATCAATACAAAACCACATAACATTCTGA
TTGAAAAATTGTATCGACACATAAGTAAATGTATCGATACATTTCCAAATGGTTGAATACAATTT
GCT
Found at i:4135199 original size:20 final size:20
Alignment explanation
Indices: 4135152--4135226 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
4135142 GTATTGATAC
* **
4135152 ATTGTATCGATACATGTTC-
1 ATTGCATCGATACATGGACA
*
4135171 ATTGTATCGATACATGGACA
1 ATTGCATCGATACATGGACA
4135191 ATTGCATCGATACATGGACA
1 ATTGCATCGATACATGGACA
4135211 ATTGCATCGATACATG
1 ATTGCATCGATACATG
4135227 AAACTGGTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 17 0.33
20 35 0.67
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (20 bp):
ATTGCATCGATACATGGACA
Found at i:4137934 original size:97 final size:97
Alignment explanation
Indices: 4137765--4138035 Score: 323
Period size: 97 Copynumber: 2.8 Consensus size: 97
4137755 ATGAACATTT
* *
4137765 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGGGGACACTCCAACCCCATTCCTCC
1 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCATT-CT-T
4137830 T-AAGGGATACTGCAACCCCA-TTTTTAAA-CTCA
64 TGAAGGGATACTGCAACCCCATTTTTTAAACCT-A
* * * **
4137862 TCAAGATTTAAATTTTATTTTTACTTAAATTGTCATCGTCGAGGACACTCCAATGCCACTTCTTT
1 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCA-TTCTTT
* * ** ** *
4137927 GAGGGGATATTTTAACCTTATTTTTTAAACCTG
65 GAAGGGATACTGCAACCCCATTTTTTAAACCTA
* * *
4137960 TCAAGACTTAAATCTTATTTTTGCTTAAATTGTCATCATCAAGGACACACCAACCCCATTCTTCT
1 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCATTCTT-T
4138025 GAAGGGATACT
65 GAAGGGATACT
4138036 CCATCCTCGT
Statistics
Matches: 145, Mismatches: 24, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
96 1 0.01
97 72 0.50
98 70 0.48
99 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (97 bp):
TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCATTCTTTG
AAGGGATACTGCAACCCCATTTTTTAAACCTA
Found at i:4138049 original size:98 final size:98
Alignment explanation
Indices: 4137765--4138049 Score: 335
Period size: 98 Copynumber: 2.9 Consensus size: 98
4137755 ATGAACATTT
* *
4137765 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGGGGACACTCCAACCCCATTCCTCC
1 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCATT-CTTC
* *
4137830 T-AAGGGATACTGCAACCCCA-TTTTTAAACTCA
65 TGAAGGGATACTCCAACCTCATTTTTTAAACTCA
* * * **
4137862 TCAAGATTTAAATTTTATTTTTACTTAAATTGTCATCGTCGAGGACACTCCAATGCCACTTCTT-
1 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCA-TTCTTC
* * ** * *
4137926 TGAGGGGATATTTTAACCTTATTTTTTAAAC-CTG
65 TGAAGGGATACTCCAACCTCATTTTTTAAACTC-A
* * *
4137960 TCAAGACTTAAATCTTATTTTTGCTTAAATTGTCATCATCAAGGACACACCAACCCCATTCTTCT
1 TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCATTCTTCT
* *
4138025 GAAGGGATACTCCATCCTCGTTTTT
66 GAAGGGATACTCCAACCTCATTTTT
4138050 CAACCAAAAA
Statistics
Matches: 154, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
96 1 0.01
97 73 0.47
98 80 0.52
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (98 bp):
TCAAGATTTAAATCTTATTTTTGCTTAAATTGTCATCATCGAGGACACTCCAACCCCATTCTTCT
GAAGGGATACTCCAACCTCATTTTTTAAACTCA
Found at i:4139279 original size:20 final size:20
Alignment explanation
Indices: 4139254--4139308 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
4139244 AAAACCCTTA
4139254 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
4139274 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
4139294 AATGTATCGATACAT
1 AAAGTATCGATACAT
4139309 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:4139418 original size:33 final size:33
Alignment explanation
Indices: 4139361--4139425 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
4139351 TAGCCAAACT
* *
4139361 TGTATCGATACACCAAAGTATGTATCCATACAA
1 TGTATCGATACACAAAAATATGTATCCATACAA
*
4139394 TGTATCGATACACAAAAA-ATTGTATCGATACA
1 TGTATCGATACACAAAAATA-TGTATCCATACA
4139426 TTGGCCTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCCATACAA
Found at i:4144967 original size:20 final size:20
Alignment explanation
Indices: 4144941--4145020 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
4144931 AATGTCCAAA
4144941 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* * *
4144961 GTGTATCGATACATATGGAAATTCA
1 ATGTATCGATAC--AT-G--TTTCT
*
4144986 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
4145006 TTGTATCGATACATG
1 ATGTATCGATACATG
4145021 GTATCGATAC
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 27 0.59
22 2 0.04
23 3 0.07
25 14 0.30
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:4145026 original size:13 final size:13
Alignment explanation
Indices: 4145007--4145044 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
4144997 CATTTTTCTT
4145007 TGTATCGATACA-
1 TGTATCGATACAC
4145019 TGGTATCGATACAC
1 T-GTATCGATACAC
4145033 TGTATCGATACA
1 TGTATCGATACA
4145045 GGAGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4147508 original size:20 final size:20
Alignment explanation
Indices: 4147483--4147537 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
4147473 AAAACCCTTA
4147483 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
4147503 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
4147523 AATGTATCGATACAT
1 AAAGTATCGATACAT
4147538 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:4147647 original size:33 final size:33
Alignment explanation
Indices: 4147590--4147654 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
4147580 TAGCCAAACT
* *
4147590 TGTATCGATACACCAAAGTATGTATCCATACAA
1 TGTATCGATACACAAAAATATGTATCCATACAA
*
4147623 TGTATCGATACACAAAAA-ATTGTATCGATACA
1 TGTATCGATACACAAAAATA-TGTATCCATACA
4147655 TTGGCCTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCCATACAA
Found at i:4149693 original size:20 final size:21
Alignment explanation
Indices: 4149650--4149700 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
4149640 CTACAATTTA
* *
4149650 TATCAATACAATAAGTTAATG
1 TATCAATACAATAAGTGAAAG
4149671 TATCAATA-AATAAGTGAAAG
1 TATCAATACAATAAGTGAAAG
*
4149691 TATCGATACA
1 TATCAATACA
4149701 TGCTTGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (21 bp):
TATCAATACAATAAGTGAAAG
Found at i:4149825 original size:41 final size:41
Alignment explanation
Indices: 4149760--4149838 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
4149750 TTAGAAAATT
* * *
4149760 TGTATTGATACATTCACTTATGTATCAGTACATGCTGGCAA
1 TGTATCGATACATTCACTCATGTATCAATACATGCTGGCAA
*
4149801 TGTATCGATACA-TCACTCATTGTATCAATACATTCTGG
1 TGTATCGATACATTCACTCA-TGTATCAATACATGCTGG
4149839 GTTTTTGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (41 bp):
TGTATCGATACATTCACTCATGTATCAATACATGCTGGCAA
Found at i:4151502 original size:20 final size:20
Alignment explanation
Indices: 4151479--4151553 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
4151469 ACAATAAGGT
*
4151479 AATGTATCAATACATAAGTG
1 AATGTATCAATACATAAATG
4151499 AATGTATCAATACATAAATG
1 AATGTATCAATACATAAATG
** ***
4151519 AATGTATTGATACATGCTTG
1 AATGTATCAATACATAAATG
4151539 AAATGTATCAATACA
1 -AATGTATCAATACA
4151554 GGACCATGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
20 34 0.74
21 12 0.26
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCAATACATAAATG
Found at i:4153564 original size:109 final size:107
Alignment explanation
Indices: 4153298--4153633 Score: 343
Period size: 109 Copynumber: 3.1 Consensus size: 107
4153288 TTCCTCTCTA
*
4153298 GGGATACTCC-AACCTCATCAATTTCGAGGGGATACTCCAACCCCATTTTTA-TTTTCCAAAACA
1 GGGATACTCCAAACC-CATCAATTTCGAGGGGATACTCCAACCCTATTTTTACTTTT--AAAACA
** * * * * *
4153361 TCAAAATTTTCATTTCAAGGGATACTCCAACCCACCATTTCCGAG
63 TTGAATTTTTCATCTCTAGGGATACTCCAACCCATCATTTTCGAG
* * * * * * *** * * *
4153406 GGGATACTCTAATCTCGTCATTTTTGAAAAGATACTCCAAACCTGTTTTTACTTTTAAAATATTG
1 GGGATACTCCAAACCCATCAATTTCGAGGGGATACTCCAACCCTATTTTTACTTTTAAAACATTG
* * *
4153471 AATTTCTTCATCTCTAGGGATACTCGAACCCTATCGTTTTCAAG
66 AATTT-TTCATCTCTAGGGATACTCCAACCC-ATCATTTTCGAG
*
4153515 GGGATGCTCCAAACCCATCAATTTCGAGGGGATACTCCAACCCTATTTTTACTTTTAAAACATTG
1 GGGATACTCCAAACCCATCAATTTCGAGGGGATACTCCAACCCTATTTTTACTTTTAAAACATTG
* * *
4153580 AATTTTTTTCATCTTTGGGGATACTCCAACCCCATCATTTTTGAG
66 AA--TTTTTCATCTCTAGGGATACTCCAA-CCCATCATTTTCGAG
4153625 GGGATACTC
1 GGGATACTC
4153634 TAACCCCGTT
Statistics
Matches: 178, Mismatches: 43, Indels: 12
0.76 0.18 0.05
Matches are distributed among these distances:
107 10 0.06
108 58 0.33
109 68 0.38
110 36 0.20
111 6 0.03
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (107 bp):
GGGATACTCCAAACCCATCAATTTCGAGGGGATACTCCAACCCTATTTTTACTTTTAAAACATTG
AATTTTTCATCTCTAGGGATACTCCAACCCATCATTTTCGAG
Found at i:4153617 original size:26 final size:27
Alignment explanation
Indices: 4153588--4153640 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
4153578 TGAATTTTTT
4153588 TCATCTTT-GGGGATACTCCAACCCCA
1 TCATCTTTAGGGGATACTCCAACCCCA
* *
4153614 TCATTTTTGAGGGGATACTCTAACCCC
1 TCATCTTT-AGGGGATACTCCAACCCC
4153641 GTTTTTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
28 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (27 bp):
TCATCTTTAGGGGATACTCCAACCCCA
Found at i:4155173 original size:20 final size:20
Alignment explanation
Indices: 4155148--4155203 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
4155138 TAGTTTCATA
4155148 TATCGATACAATTATCCATG
1 TATCGATACAATTATCCATG
* *
4155168 TATCGATACAATGAT-GATG
1 TATCGATACAATTATCCATG
4155187 TATCGATACAATGTATC
1 TATCGATACAAT-TATC
4155204 GATACAAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
TATCGATACAATTATCCATG
Found at i:4155189 original size:19 final size:20
Alignment explanation
Indices: 4155148--4155199 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4155138 TAGTTTCATA
*
4155148 TATCGATACAATTATCCATG
1 TATCGATACAATGATCCATG
*
4155168 TATCGATACAATGAT-GATG
1 TATCGATACAATGATCCATG
4155187 TATCGATACAATG
1 TATCGATACAATG
4155200 TATCGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCGATACAATGATCCATG
Found at i:4155202 original size:13 final size:13
Alignment explanation
Indices: 4155184--4155210 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4155174 TACAATGATG
4155184 ATGTATCGATACA
1 ATGTATCGATACA
4155197 ATGTATCGATACA
1 ATGTATCGATACA
4155210 A
1 A
4155211 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4155206 original size:32 final size:33
Alignment explanation
Indices: 4155165--4155229 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
4155155 ACAATTATCC
* *
4155165 ATGTATCGATACAATG-ATGATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
*
4155197 ATGTATCGATACAAAGCATAATGTATTGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
4155230 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:4155645 original size:18 final size:18
Alignment explanation
Indices: 4155622--4155658 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4155612 GGGTAGCATT
4155622 TATAAACTTACCAATTTG
1 TATAAACTTACCAATTTG
*
4155640 TATAAACTTACCGATTTG
1 TATAAACTTACCAATTTG
4155658 T
1 T
4155659 TCAGGCTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (18 bp):
TATAAACTTACCAATTTG
Found at i:4163950 original size:20 final size:20
Alignment explanation
Indices: 4163925--4163978 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
4163915 GTTACAAGCA
4163925 ATGTATCGATACAAT-TCAT
1 ATGTATCGATACAATGTCAT
*
4163944 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAATGTCAT
4163965 ATGTATCGATACAA
1 ATGTATCGATACAA
4163979 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTCAT
Found at i:4164051 original size:19 final size:18
Alignment explanation
Indices: 4164006--4164063 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
4163996 ACTGCCAGTT
4164006 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
4164025 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
4164044 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
4164063 T
1 T
4164064 ATCGATACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:4164065 original size:13 final size:13
Alignment explanation
Indices: 4164047--4164071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4164037 TACAATGATC
4164047 ATGTATCGATACA
1 ATGTATCGATACA
4164060 ATGTATCGATAC
1 ATGTATCGATAC
4164072 GAAGTGTAAT
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:4170930 original size:32 final size:33
Alignment explanation
Indices: 4170894--4171103 Score: 230
Period size: 32 Copynumber: 6.7 Consensus size: 33
4170884 GGGTTCCTAT
* *
4170894 CGACTTGTGCGGGCTTTGAAA-GAGGTTTCCAC
1 CGACTTGTGTGGGCTTTGAAATGAGGTTGCCAC
*
4170926 CGACTTGTGTGGGCTTTGAAAAG-GGTTGCCAC
1 CGACTTGTGTGGGCTTTGAAATGAGGTTGCCAC
*
4170958 CGACTTGTGTGGGCTTTAAAATG-GGTTGCCAC
1 CGACTTGTGTGGGCTTTGAAATGAGGTTGCCAC
* * *
4170990 CGACTTGTGTAGGCTTTAAAATG-GGTTGCCAT
1 CGACTTGTGTGGGCTTTGAAATGAGGTTGCCAC
4171022 CGACTTGTGTGGGCTTTGAAATGA-GTTGCCAC
1 CGACTTGTGTGGGCTTTGAAATGAGGTTGCCAC
* * *
4171054 CAAC-T-TGTAGGCTTTGAAAT-A--ATGCCA-
1 CGACTTGTGTGGGCTTTGAAATGAGGTTGCCAC
4171081 CGAAC-T-TGTGGGCTTTGAAATGA
1 CG-ACTTGTGTGGGCTTTGAAATGA
4171104 TTCCATTGAA
Statistics
Matches: 160, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.01
28 22 0.14
29 2 0.01
30 14 0.09
31 1 0.01
32 119 0.74
33 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (33 bp):
CGACTTGTGTGGGCTTTGAAATGAGGTTGCCAC
Found at i:4170962 original size:64 final size:64
Alignment explanation
Indices: 4170857--4171061 Score: 274
Period size: 64 Copynumber: 3.2 Consensus size: 64
4170847 TGGGAAACGA
* * *
4170857 TGCCACCAACTTATGTGGGATTTAAAAGGGTT-CCTATCGACTTGTGCGGGCTTTGAAA-GAGGT
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGGTTGCC-ATCGACTTGTGTGGGCTTTGAAATGAGGT
* * * *
4170920 TTCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAATG-GGT
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGGGTTGCCATCGACTTGTGTGGGCTTTGAAATGAGGT
* *
4170984 TGCCACCGACTTGTGTAGGCTTTAAAATGGGTTGCCATCGACTTGTGTGGGCTTTGAAATGA-GT
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GGGTTGCCATCGACTTGTGTGGGCTTTGAAATGAGGT
4171048 TGCCACCAACTTGT
1 TGCCACCAACTTGT
4171062 AGGCTTTGAA
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
63 23 0.18
64 99 0.79
65 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (64 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGGTTGCCATCGACTTGTGTGGGCTTTGAAATGAGGT
Found at i:4171005 original size:96 final size:95
Alignment explanation
Indices: 4170857--4171061 Score: 270
Period size: 96 Copynumber: 2.1 Consensus size: 95
4170847 TGGGAAACGA
* * * *
4170857 TGCCACCAACTTATGTGGGATTTAAAAGGGTTCCTATCGACTTGTGCGGGCTTTGAAA-GAGGTT
1 TGCCACCAACTTGTGTGGGATTTAAAAGGGTTCCTACCGACTTGTGCAGGCTTTAAAATG-GGTT
* *
4170921 TCCACCGACTTGTGTGGGCTTTGAAAAGGGT
65 GCCACCGACTTGTGTGGGCTTTGAAAAGAGT
* * *
4170952 TGCCACCGACTTGTGTGGGCTTTAAAATGGGTTGCC-ACCGACTTGTGTAGGCTTTAAAATGGGT
1 TGCCACCAACTTGTGTGGGATTTAAAA-GGGTT-CCTACCGACTTGTGCAGGCTTTAAAATGGGT
* *
4171016 TGCCATCGACTTGTGTGGGCTTTGAAATGAGT
64 TGCCACCGACTTGTGTGGGCTTTGAAAAGAGT
4171048 TGCCACCAACTTGT
1 TGCCACCAACTTGT
4171062 AGGCTTTGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
95 24 0.25
96 68 0.72
97 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (95 bp):
TGCCACCAACTTGTGTGGGATTTAAAAGGGTTCCTACCGACTTGTGCAGGCTTTAAAATGGGTTG
CCACCGACTTGTGTGGGCTTTGAAAAGAGT
Found at i:4171087 original size:28 final size:27
Alignment explanation
Indices: 4170933--4171362 Score: 304
Period size: 28 Copynumber: 14.9 Consensus size: 27
4170923 CACCGACTTG
* *
4170933 TGTGGGCTTTGAAAAGGGTTGCCACCGACTT
1 TGTGGGCTTTG-AAA-TGATGCCA-CGAC-T
* *
4170964 GTGTGGGCTTTAAAATGGGTTGCCACCGACT
1 -TGTGGGCTTTGAAAT--GATGCCA-CGACT
* *
4170995 TGTGTAGGCTTTAAAATGGGTTGCCATCGACTT
1 TGTG--GGCTTTGAAAT--GATGCCA-CGAC-T
*
4171028 GTGTGGGCTTTGAAATGAGTTGCCACCAACT
1 -TGTGGGCTTTGAAATGA--TGCCA-CGACT
* *
4171059 TGTAGGCTTTGAAATAATGCCACGAACT
1 TGTGGGCTTTGAAATGATGCCACG-ACT
* * *
4171087 TGTGGGCTTTGAAATGATTCCATTGAAT
1 TGTGGGCTTTGAAATGATGCCA-CGACT
* * *
4171115 TATGGCCTTTGAAATGATGCCATTGACT
1 TGTGGGCTTTGAAATGATGCCA-CGACT
* * *
4171143 TGTGAGCTTTGAAATGGTTCCACTGACT
1 TGTGGGCTTTGAAATGATGCCAC-GACT
* * *
4171171 TGTGGTCTTTGAAGTGATGCCATTGACT
1 TGTGGGCTTTGAAATGATGCCA-CGACT
* *
4171199 TGTGGGCATTGAAATGGTGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCAC-GACT
* *
4171227 TGTAGGCTTTGAAATGGTGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCAC-GACT
**
4171255 TGTGGGCTTTGAAATGATGAAACAGACT
1 TGTGGGCTTTGAAATGATGCCAC-GACT
* *
4171283 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCAC-GACT
*
4171311 TGTGGGCTTTCAAATGATGCCACGGACT
1 TGTGGGCTTTGAAATGATGCCAC-GACT
* * *
4171339 TGTGGACTTT-AAAGGGTGCCACGA
1 TGTGGGCTTTGAAATGATGCCACGA
4171363 AGTTGTGGAC
Statistics
Matches: 330, Mismatches: 55, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.01
27 11 0.03
28 222 0.67
29 1 0.00
30 20 0.06
31 5 0.02
32 64 0.19
33 1 0.00
34 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (27 bp):
TGTGGGCTTTGAAATGATGCCACGACT
Found at i:4171152 original size:84 final size:84
Alignment explanation
Indices: 4171031--4171348 Score: 370
Period size: 84 Copynumber: 3.8 Consensus size: 84
4171021 TCGACTTGTG
** *
4171031 TGGGCTTTGAAATGAGTTGCCACCAACTTGTAGGCTTTGAAATAATGCCAC-GAACTTGTGGGCT
1 TGGGCTTTGAAATGA--TGCCACTGACTTGTAGGCTTTGAAATGATGCCACTG-ACTTGTGGGCT
* *
4171095 TTGAAATGATTCCATTGAATTA
63 TTGAAATGATGCCATTGACTTA
* * * * *
4171117 TGGCCTTTGAAATGATGCCATTGACTTGT-GAGCTTTGAAATGGTTCCACTGACTTGTGGTCTTT
1 TGGGCTTTGAAATGATGCCACTGACTTGTAG-GCTTTGAAATGATGCCACTGACTTGTGGGCTTT
* *
4171181 GAAGTGATGCCATTGACTTG
65 GAAATGATGCCATTGACTTA
* * *
4171201 TGGGCATTGAAATGGTGCCACTGACTTGTAGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
1 TGGGCTTTGAAATGATGCCACTGACTTGTAGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
** **
4171266 AAATGATGAAACAGACTTA
66 AAATGATGCCATTGACTTA
* * * * *
4171285 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTCAAATGATGCCACGGACTTGTGGACTTT
1 TGGGCTTTGAAATGATGCCACTGACTTGTAGGCTTTGAAATGATGCCACTGACTTGTGGGCTTT
4171349 AAAGGGTGCC
Statistics
Matches: 197, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
83 1 0.01
84 180 0.91
85 2 0.01
86 14 0.07
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (84 bp):
TGGGCTTTGAAATGATGCCACTGACTTGTAGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTG
AAATGATGCCATTGACTTA
Found at i:4171368 original size:27 final size:27
Alignment explanation
Indices: 4171289--4171794 Score: 472
Period size: 27 Copynumber: 18.3 Consensus size: 27
4171279 GACTTATGGG
* * * *
4171289 CTTTGAAAGGATGCCACTGACTTGTGGG
1 CTTT-AAAGGGTGCCACGGAGTTGTGGA
* * *
4171317 CTTTCAAATGATGCCACGGACTTGTGGA
1 CTTT-AAAGGGTGCCACGGAGTTGTGGA
*
4171345 CTTTAAAGGGTGCCACGAAGTTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* * *
4171372 CTTAAAAGGGTGCCACGGAGTTATGGG
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* *
4171399 CTTAAAAGGGTGCCACAGAGTTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* * *
4171426 CTTAAAAGGGTGCCACGGAGTTATGGG
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* * *
4171453 CTTAAAAGGATGCCACGAAGTTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* * *
4171480 CTTTAAAAAGATGCCACAGAGTTGTGGA
1 CTTT-AAAGGGTGCCACGGAGTTGTGGA
* * * * *
4171508 ATTAAAAGGGTACCACAGAATTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
*
4171535 CTTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* *
4171562 CTTTAAAAGGATGCCACAGAGTTGTGGA
1 CTTT-AAAGGGTGCCACGGAGTTGTGGA
* *
4171590 CTTAAAAGGGTGCCACCGAGTTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* * *
4171617 CTTAAAAGGATGCCACCGAGTTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
** *
4171644 CTTTAAAAGATTGCCATGGAGTTGTGGA
1 CTTT-AAAGGGTGCCACGGAGTTGTGGA
* *
4171672 CTTTAAAAGGTTGCCACGGAGTTATGGA
1 CTTT-AAAGGGTGCCACGGAGTTGTGGA
* *
4171700 TTTTAAAGGGTACCACGGAGTTGTGGA
1 CTTTAAAGGGTGCCACGGAGTTGTGGA
* * ** *
4171727 CTTTAAAAAGGCGCCACAAAGTTATGGA
1 CTTT-AAAGGGTGCCACGGAGTTGTGGA
4171755 CTTTAAAAGAAAAGGTTGCCACGGAGTTGTGGA
1 CTTT-AAAG----GG-TGCCACGGAGTTGTGGA
4171788 CTTTAAA
1 CTTTAAA
4171795 AGAAAAAGGT
Statistics
Matches: 402, Mismatches: 67, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
27 234 0.58
28 146 0.36
32 5 0.01
33 17 0.04
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
CTTTAAAGGGTGCCACGGAGTTGTGGA
Found at i:4171513 original size:55 final size:55
Alignment explanation
Indices: 4171294--4171796 Score: 515
Period size: 55 Copynumber: 9.1 Consensus size: 55
4171284 ATGGGCTTTG
* * * * * * *
4171294 AAAGGATGCCACTG-ACTTGTGGGCTTTCAAATGATGCCACGGACTTGTGGACTTT
1 AAAGGATGCCAC-GAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * *
4171349 AAAGGGTGCCACGAAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTATGGGCTTA
1 AAAGGATGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * *
4171403 AAAGGGTGCCAC-AGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTATGGGCTTA
1 AAAGGATGCCACGA-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
4171457 AAAGGATGCCACGAAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGAATTA
1 AAAGGATGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* *
4171512 AAAGGGTACCACAGAA-TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGATGCCAC-GAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
*
4171567 AAAGGATGCCAC-AGAGTTGTGGAC-TTAAAAGGGTGCCACCGAGTTGTGGACTTA
1 AAAGGATGCCACGA-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
** *
4171621 AAAGGATGCCACCG-AGTTGTGGACTTTAAAAGATTGCCATGGAGTTGTGGACTTTA
1 AAAGGATGCCA-CGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
* * * * *
4171677 AAAGGTTGCCACGGAGTTATGGA-TTTTAAAGGGTACCACGGAGTTGTGGACTTTAA
1 AAAGGATGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-A
* * *
4171733 AAAGG-CGCCACAAAGTTATGGACTTTAAAAGAAAAGGTTGCCACGGAGTTGTGGACTTTA
1 AAAGGATGCCACGAAGTTGTGGACTTTAAAAG----GG-TGCCACGGAGTTGTGGAC-TTA
4171793 AAAG
1 AAAG
4171797 AAAAAGGTTG
Statistics
Matches: 386, Mismatches: 42, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
53 2 0.01
54 145 0.38
55 175 0.45
56 37 0.10
60 7 0.02
61 20 0.05
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (55 bp):
AAAGGATGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:4171514 original size:82 final size:82
Alignment explanation
Indices: 4171294--4171796 Score: 560
Period size: 82 Copynumber: 6.0 Consensus size: 82
4171284 ATGGGCTTTG
* * * * * * * *
4171294 AAAGGATGCCACTGACTTGTGGGCTTTCAAATGATGCCACGGACTTGTGGACTTTAAAGGGTGCC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
* *
4171359 ACGAAGTTGTGGACTTA
66 ACGGAGTTATGGACTTA
* * * * *
4171376 AAAGGGTGCCACGGAGTTATGGGC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
*
4171440 ACGGAGTTATGGGCTTA
66 ACGGAGTTATGGACTTA
* * *
4171457 AAAGGATGCCACGAAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGAATTAAAAGGGTACC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
* * *
4171522 ACAGAATTGTGGACTTA
66 ACGGAGTTATGGACTTA
* *
4171539 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
* *
4171604 ACCGAGTTGTGGACTTA
66 ACGGAGTTATGGACTTA
* ** *
4171621 AAAGGATGCCACCGAGTTGTGGACTTT-AAAAGATTGCCATGGAGTTGTGGACTTTAAAAGGTTG
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGA-TGCCACAGAGTTGTGGAC-TTAAAAGGGTG
* *
4171685 CCACGGAGTTATGGATTTT
64 CCACGGAGTTATGGACTTA
* * ** * *
4171704 AAAGGGTACCACGGAGTTGTGGACTTTAAAAAGGCGCCACAAAGTTATGGACTTTAAAAGAAAAG
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGAC-TTAAAAG----G
*
4171769 GTTGCCACGGAGTTGTGGACTTTA
61 G-TGCCACGGAGTTATGGAC-TTA
4171793 AAAG
1 AAAG
4171797 AAAAAGGTTG
Statistics
Matches: 356, Mismatches: 55, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
81 73 0.21
82 185 0.52
83 70 0.20
84 5 0.01
87 1 0.00
88 16 0.04
89 6 0.02
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (82 bp):
AAAGGATGCCACGGAGTTGTGGACTTTAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
ACGGAGTTATGGACTTA
Found at i:4171807 original size:34 final size:34
Alignment explanation
Indices: 4171746--4171868 Score: 203
Period size: 34 Copynumber: 3.6 Consensus size: 34
4171736 GGCGCCACAA
4171746 AGTTATGGACTTTAAAAG-AAAAGGTTGCCACGG
1 AGTTATGGACTTTAAAAGAAAAAGGTTGCCACGG
* *
4171779 AGTTGTGGACTTTAAAAGAAAAAGGTTGCTACGG
1 AGTTATGGACTTTAAAAGAAAAAGGTTGCCACGG
4171813 AGTTATGGACTTTAAAAGAAAAAGGTTGCCACGG
1 AGTTATGGACTTTAAAAGAAAAAGGTTGCCACGG
*
4171847 AGTTGTGGACTTTGAAAAGAAA
1 AGTTATGGACTTT-AAAAGAAA
4171869 TGCCACTAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
33 17 0.20
34 58 0.70
35 8 0.10
ACGTcount: A:0.37, C:0.10, G:0.28, T:0.25
Consensus pattern (34 bp):
AGTTATGGACTTTAAAAGAAAAAGGTTGCCACGG
Found at i:4175669 original size:19 final size:19
Alignment explanation
Indices: 4175645--4175712 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4175635 AATTCAACAA
4175645 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4175664 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4175679 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4175696 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4175713 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4175684 original size:13 final size:13
Alignment explanation
Indices: 4175666--4175690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4175656 ACATAAGTTT
4175666 TGTATCGATACAA
1 TGTATCGATACAA
4175679 TGTATCGATACA
1 TGTATCGATACA
4175691 TAAGTATTGT
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:4175684 original size:32 final size:32
Alignment explanation
Indices: 4175647--4175709 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4175637 TTCAACAATT
*
4175647 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4175679 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4175710 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4177703 original size:12 final size:12
Alignment explanation
Indices: 4177686--4177714 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4177676 GATTTTTTTG
4177686 ATTTTTTCCAAA
1 ATTTTTTCCAAA
4177698 ATTTTTTCCAAA
1 ATTTTTTCCAAA
4177710 ATTTT
1 ATTTT
4177715 CATGAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTTTCCAAA
Found at i:4178227 original size:27 final size:28
Alignment explanation
Indices: 4178197--4178272 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
4178187 AATTTTCACG
4178197 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
4178224 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
4178252 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
4178273 ACTTTATTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:4178435 original size:53 final size:53
Alignment explanation
Indices: 4178255--4178476 Score: 229
Period size: 52 Copynumber: 4.3 Consensus size: 53
4178245 TTATTTCCGA
* * * ***
4178255 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTTCCATAATC
** * * * *
4178306 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTTCCATAATC
* *
4178358 GGGGATACTCCAACCCCAATTTTATTTTC-AAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTTCC-ATAATC
* * * *
4178411 AGGGATACTCCAACTCCAATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTTCCATAATC
*
4178463 GAGGATACTCCAAC
1 GGGGATACTCCAAC
4178477 TTCGTTATTT
Statistics
Matches: 145, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
50 3 0.02
51 34 0.23
52 60 0.41
53 34 0.23
54 14 0.10
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (53 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTTCCATAATC
Found at i:4178469 original size:105 final size:103
Alignment explanation
Indices: 4178257--4178476 Score: 253
Period size: 105 Copynumber: 2.1 Consensus size: 103
4178247 ATTTCCGAGG
* * *** *
4178257 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCC
** * * * *
4178322 CGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGG
66 CAATTTTATTCCAAAAACACCAATTTTTCCACAATCGA
* * *
4178360 GGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTTCCTTTAATCAGGGATACTCCAAC
1 GGATACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTT-C-ATAATCAGGGATACTCCAAC
* *
4178425 TCCAATTTTATTTCCAAAAATACCAATTTTT-CACAATCGA
64 CCCAATTTTA-TTCCAAAAACACCAATTTTTCCACAATCGA
4178465 GGATACTCCAAC
1 GGATACTCCAAC
4178477 TTCGTTATTT
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
103 35 0.36
104 1 0.01
105 45 0.46
106 16 0.16
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.33
Consensus pattern (103 bp):
GGATACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCC
CAATTTTATTCCAAAAACACCAATTTTTCCACAATCGA
Found at i:4178496 original size:28 final size:28
Alignment explanation
Indices: 4178460--4178536 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
4178450 ATTTTTCACA
* ** *
4178460 ATCGAGGATACTCCAACTTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
4178488 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
4178516 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
4178537 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:4178669 original size:81 final size:79
Alignment explanation
Indices: 4178490--4178696 Score: 225
Period size: 81 Copynumber: 2.6 Consensus size: 79
4178480 GTTATTTCAT
* *
4178490 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATAT
* * *
4178555 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** * ** **
4178569 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTTTCTAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-GCTTTATTCCTAAAAT-
4178634 ATCGATTTCTCACAAC
64 ATCGATTTCTCACAAC
* * * * *
4178650 CGGGAATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
4178697 TTATTATCTC
Statistics
Matches: 105, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 43 0.41
80 9 0.09
81 53 0.50
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATAT
CGATTTCTCACAAC
Found at i:4187300 original size:50 final size:50
Alignment explanation
Indices: 4187195--4187288 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
4187185 GAGTCTTGGC
* *
4187195 AAAAAAAA--TTGGTGAGACACAAGCTTCGAGACTCACCTAATCTTAGTA
1 AAAAAAAACCTTGGTGAGACACAAGCTTCGAGACTCACCCAATCCTAGTA
*
4187243 AAAAAAAACCTTGGTGAGACATAAGCTTCGAGACTCACCCAATCCT
1 AAAAAAAACCTTGGTGAGACACAAGCTTCGAGACTCACCCAATCCT
4187289 GGTCATGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 8 0.20
50 33 0.80
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (50 bp):
AAAAAAAACCTTGGTGAGACACAAGCTTCGAGACTCACCCAATCCTAGTA
Found at i:4188505 original size:29 final size:29
Alignment explanation
Indices: 4188460--4188604 Score: 99
Period size: 27 Copynumber: 5.1 Consensus size: 29
4188450 AATGGTACCA
*
4188460 TTTTAAAGTCTATAACTTCGTGG-AACCCT
1 TTTTAAAGTCCATAACTTCGTGGCAA-CCT
* *
4188489 TTTTAAAGTCCACAAC-TCTATGGCAA-CT
1 TTTTAAAGTCCATAACTTC-GTGGCAACCT
* *
4188517 TTTT-AAGTCCATGAC-TCAGTGGCATCCCT
1 TTTTAAAGTCCATAACTTC-GTGGCA-ACCT
* * *
4188546 TTTCAAAGTCCATAATTTCGTGG-TACCT
1 TTTTAAAGTCCATAACTTCGTGGCAACCT
* * *
4188574 TTTT-AAGTCCACAACTCCGTGAC-ACCT
1 TTTTAAAGTCCATAACTTCGTGGCAACCT
4188601 TTTT
1 TTTT
4188605 TTCTCTTTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
27 38 0.42
28 14 0.15
29 22 0.24
30 15 0.16
31 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
TTTTAAAGTCCATAACTTCGTGGCAACCT
Found at i:4188521 original size:57 final size:57
Alignment explanation
Indices: 4188428--4188557 Score: 138
Period size: 57 Copynumber: 2.3 Consensus size: 57
4188418 TCAATAGCTT
* * * * *
4188428 CCCTTCTTAAAGTCCACGACTCAATGGTACCATTTTAAAGTCTATAACTTC-GTGG-AA
1 CCCTTTTTAAAGTCCACAACTCAATGGCAACATTTT-AAGTCCATAAC-TCAGTGGCAA
* * * *
4188485 CCCTTTTTAAAGTCCACAACTCTATGGCAACTTTTTAAGTCCATGACTCAGTGGCAT
1 CCCTTTTTAAAGTCCACAACTCAATGGCAACATTTTAAGTCCATAACTCAGTGGCAA
*
4188542 CCCTTTTCAAAGTCCA
1 CCCTTTTTAAAGTCCA
4188558 TAATTTCGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
55 2 0.03
56 13 0.21
57 46 0.75
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (57 bp):
CCCTTTTTAAAGTCCACAACTCAATGGCAACATTTTAAGTCCATAACTCAGTGGCAA
Found at i:4188557 original size:30 final size:28
Alignment explanation
Indices: 4188406--4188558 Score: 103
Period size: 29 Copynumber: 5.3 Consensus size: 28
4188396 TAACCTTCTC
* *
4188406 AAAGTCCATGACTCAATAGCTTCCCTTCTT
1 AAAGTCCATGACTCAATGGC-ACCCTT-TT
* * *
4188436 AAAGTCCACGACTCAATGGTACCATTTT
1 AAAGTCCATGACTCAATGGCACCCTTTT
* * * *
4188464 AAAGTCTATAACTTC-GTGGAACCCTTTTT
1 AAAGTCCATGAC-TCAATGGCACCC-TTTT
** * *
4188493 AAAGTCCACAACTCTATGGCA-ACTTTT
1 AAAGTCCATGACTCAATGGCACCCTTTT
* *
4188520 TAAGTCCATGACTCAGTGGCATCCCTTTT
1 AAAGTCCATGACTCAATGGCA-CCCTTTT
4188549 CAAAGTCCAT
1 -AAAGTCCAT
4188559 AATTTCGTGG
Statistics
Matches: 94, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
27 20 0.21
28 20 0.21
29 29 0.31
30 25 0.27
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (28 bp):
AAAGTCCATGACTCAATGGCACCCTTTT
Found at i:4188582 original size:84 final size:84
Alignment explanation
Indices: 4188437--4188590 Score: 213
Period size: 84 Copynumber: 1.8 Consensus size: 84
4188427 TCCCTTCTTA
* *
4188437 AAGTCCACGACTCAATGGTACCATTTTAAAGTCTATAACTTCGTGGAACCCTTTTTAAAGTCCAC
1 AAGTCCACGACTCAATGGCACCATTTTAAAGTCCATAACTTCGTGGAACCCTTTTTAAAGTCCAC
4188502 AACTCTATGGCAACTTTTT
66 AACTCTATGGCAACTTTTT
* * * * *
4188521 AAGTCCATGACTCAGTGGCATCCCTTTTCAAAGTCCATAATTTCGTGGTA-CCTTTTT-AAGTCC
1 AAGTCCACGACTCAATGGCA-CCATTTT-AAAGTCCATAACTTCGTGGAACCCTTTTTAAAGTCC
4188584 ACAACTC
64 ACAACTC
4188591 CGTGACACCT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
84 30 0.49
85 13 0.21
86 18 0.30
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (84 bp):
AAGTCCACGACTCAATGGCACCATTTTAAAGTCCATAACTTCGTGGAACCCTTTTTAAAGTCCAC
AACTCTATGGCAACTTTTT
Found at i:4188594 original size:27 final size:27
Alignment explanation
Indices: 4188437--4188604 Score: 84
Period size: 27 Copynumber: 6.0 Consensus size: 27
4188427 TCCCTTCTTA
* ** *
4188437 AAGTCCACGACTCAATGGTACCATTTTA
1 AAGTCCACAACTCCGTGGTACC-TTTTT
* * * *
4188465 AAGTCTATAACTTCGTGGAACCCTTTTT
1 AAGTCCACAACTCCGTGGTA-CCTTTTT
** * *
4188493 AAAGTCCACAACTCTATGGCAACTTTTT
1 -AAGTCCACAACTCCGTGGTACCTTTTT
** * * *
4188521 AAGTCCATGACTCAGTGGCATCCCTTTTCA
1 AAGTCCACAACTCCGTGG--TACCTTTT-T
* * *
4188551 AAGTCCATAATTTCGTGGTACCTTTTT
1 AAGTCCACAACTCCGTGGTACCTTTTT
**
4188578 AAGTCCACAACTCCGTGACACCTTTTT
1 AAGTCCACAACTCCGTGGTACCTTTTT
4188605 TTCTCTTTTT
Statistics
Matches: 101, Mismatches: 34, Indels: 11
0.69 0.23 0.08
Matches are distributed among these distances:
27 36 0.36
28 30 0.30
29 21 0.21
30 14 0.14
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGTACCTTTTT
Found at i:4188665 original size:45 final size:46
Alignment explanation
Indices: 4188601--4188714 Score: 151
Period size: 45 Copynumber: 2.5 Consensus size: 46
4188591 CGTGACACCT
* *
4188601 TTTTTTCTCTTTTT-TAGCCCACACAAGTTGATGGCACCCCTTTC-G
1 TTTTTTC-CTTTTTAAAGCCCACACAAGTTGATGGCACCCATTTCTG
* * *
4188646 TTTTTTCCTTTTTAAAGCCCATACAAGTTGGTGGCACCCATTTCTT
1 TTTTTTCCTTTTTAAAGCCCACACAAGTTGATGGCACCCATTTCTG
*
4188692 TTTTTTCCTTTTCAAAGCCCACA
1 TTTTTTCCTTTTTAAAGCCCACA
4188715 TGAATTGGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 6 0.10
45 33 0.55
46 21 0.35
ACGTcount: A:0.18, C:0.27, G:0.11, T:0.43
Consensus pattern (46 bp):
TTTTTTCCTTTTTAAAGCCCACACAAGTTGATGGCACCCATTTCTG
Done.