Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4657139
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 18
Found at i:4256061 original size:20 final size:20
Alignment explanation
Indices: 4255952--4256058 Score: 106
Period size: 20 Copynumber: 5.3 Consensus size: 20
4255942 GATTATGTAT
*
4255952 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
4255972 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
4255992 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* ** * *
4256012 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-TAGTCAG
*
4256033 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
4256053 TATCGC
1 TATCGC
4256059 ATTACGATTT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 58 0.82
21 13 0.18
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:4256067 original size:41 final size:41
Alignment explanation
Indices: 4255992--4256069 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
4255982 CGAAAGTCAG
* * * *
4255992 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTTTTAT
* *
4256033 TATCGCATTGCGATAGTCAGTATCGCATTACGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTT
4256070 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTTTTAT
Found at i:4256087 original size:21 final size:21
Alignment explanation
Indices: 4256063--4256130 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
4256053 TATCGCATTA
4256063 CGATTTTCCCAATTCGCGTTG
1 CGATTTTCCCAATTCGCGTTG
* ** *
4256084 CGA-TTTACTTATTCGCATTG
1 CGATTTTCCCAATTCGCGTTG
4256104 CGATTTTCCCAATTCGCGTTG
1 CGATTTTCCCAATTCGCGTTG
4256125 CGATTT
1 CGATTT
4256131 ACTTATTCGC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
CGATTTTCCCAATTCGCGTTG
Found at i:4256099 original size:20 final size:20
Alignment explanation
Indices: 4256074--4256147 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
4256064 GATTTTCCCA
*
4256074 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
4256094 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACTT
*
4256115 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
4256135 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4256148 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:4256144 original size:41 final size:41
Alignment explanation
Indices: 4256055--4256147 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
4256045 ATAGTCAGTA
*
4256055 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
4256096 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
4256137 TCGCATTGCGA
1 TCGCATTGCGA
4256148 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:4262811 original size:3 final size:3
Alignment explanation
Indices: 4262803--4262829 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4262793 TACCTTGTTA
4262803 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
4262830 GATATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4267005 original size:20 final size:21
Alignment explanation
Indices: 4266980--4267019 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4266970 ATTGCAAATT
*
4266980 ATATAAC-TTTTAGGTTAAAC
1 ATATAACATTTTAGATTAAAC
4267000 ATATAACATTTTAGATTAAA
1 ATATAACATTTTAGATTAAA
4267020 AACTATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
ATATAACATTTTAGATTAAAC
Found at i:4273562 original size:20 final size:20
Alignment explanation
Indices: 4273526--4273563 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4273516 GCTTAATAGG
*
4273526 AAAAAAAATCATAATAAACA
1 AAAAAAAATAATAATAAACA
4273546 AAAAAAAACTAAT-ATAAA
1 AAAAAAAA-TAATAATAAA
4273564 TTAGAGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAAATAATAATAAACA
Found at i:4275183 original size:19 final size:21
Alignment explanation
Indices: 4275142--4275183 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
4275132 GGTATTTTAG
*
4275142 GGTTTGTTTGATTATTGTGTT
1 GGTTTGTTTGATTATTGTATT
*
4275163 GGTTT-TTT-ATTTTTGTATT
1 GGTTTGTTTGATTATTGTATT
4275182 GG
1 GG
4275184 GTTTCAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.10, C:0.00, G:0.26, T:0.64
Consensus pattern (21 bp):
GGTTTGTTTGATTATTGTATT
Found at i:4276863 original size:2 final size:2
Alignment explanation
Indices: 4276856--4276885 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4276846 GTGAATATGC
4276856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4276886 TCCTTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4280376 original size:73 final size:75
Alignment explanation
Indices: 4280242--4280445 Score: 249
Period size: 73 Copynumber: 2.7 Consensus size: 75
4280232 TGCAGACGGT
* *
4280242 TTTTTGAAAATATGTATATAATATATAGTTTTTCTAAAACATTTTTGAAAACTATATAATATATA
1 TTTTAGAAAATA--TATATAATATATA-TTTTT-AAAAACATTTTTGAAAACTATATAATATATA
4280307 GTTTTT-AAAAT-A
62 GTTTTTGAAAATGA
4280319 TTTTAGAAAATATATATAATATATGATTTTTAAAAAGCATTTTT-AAAACT-TATAATATATAGT
1 TTTTAGAAAATATATATAATATAT-ATTTTTAAAAA-CATTTTTGAAAACTATATAATATATAGT
*
4280382 TTTTGAAAATGT
64 TTTTGAAAATGA
* * * *
4280394 TTTTA-AAACT-TATATAATATATAATTTTAAAAACATTTTTGGAAATTATATA
1 TTTTAGAAAATATATATAATATATATTTTTAAAAACATTTTTGAAAACTATATA
4280446 GTTTAAAAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
71 7 0.06
72 14 0.12
73 33 0.29
74 19 0.17
75 29 0.25
76 1 0.01
77 11 0.10
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (75 bp):
TTTTAGAAAATATATATAATATATATTTTTAAAAACATTTTTGAAAACTATATAATATATAGTTT
TTGAAAATGA
Found at i:4280494 original size:32 final size:31
Alignment explanation
Indices: 4280418--4280509 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 31
4280408 TAATATATAA
*
4280418 TTTTAAAAACATTTTTGGAAATTATATAGTT
1 TTTTAAAAACATTTTTGAAAATTATATAGTT
***
4280449 TAAAAAAAACATTTTTGAAAATTATATAGTTT
1 TTTTAAAAACATTTTTGAAAATTATATAG-TT
4280481 TTTTAAAAACATTTTTGAAAATTTATATA
1 TTTTAAAAACATTTTTGAAAA-TTATATA
4280510 TAATATATAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
31 25 0.48
32 20 0.38
33 7 0.13
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (31 bp):
TTTTAAAAACATTTTTGAAAATTATATAGTT
Found at i:4283372 original size:15 final size:15
Alignment explanation
Indices: 4283352--4283381 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4283342 CTCTATGCGA
4283352 CTCTTCGTCATCTTC
1 CTCTTCGTCATCTTC
*
4283367 CTCTTCTTCATCTTC
1 CTCTTCGTCATCTTC
4283382 TATCAACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.40, G:0.03, T:0.50
Consensus pattern (15 bp):
CTCTTCGTCATCTTC
Found at i:4294966 original size:26 final size:26
Alignment explanation
Indices: 4294936--4294998 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
4294926 ATACATATCA
*
4294936 TGTCATCACTTTGAACATATAAGATT
1 TGTCATCACTTTGAACATATAAGACT
4294962 TGTCATCACTTTGAACATATAAGACT
1 TGTCATCACTTTGAACATATAAGACT
4294988 TGTCATCACTT
1 TGTCATCACTT
4294999 ATGTACATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (26 bp):
TGTCATCACTTTGAACATATAAGACT
Found at i:4301846 original size:29 final size:29
Alignment explanation
Indices: 4301758--4301846 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
4301748 TGTTACTGAA
*
4301758 ATGATAACATTCATATCACCTAAAATGATG
1 ATGATAACATTCATGTCACC-AAAATGATG
* *** * * **
4301788 AT-ATAATA-T-ATGTCACGTCATTTAAA
1 ATGATAACATTCATGTCACCAAAATGATG
4301814 ATGATAACATTCATGTCACCAAAATGATG
1 ATGATAACATTCATGTCACCAAAATGATG
4301843 ATGA
1 ATGA
4301847 GACATTTACC
Statistics
Matches: 39, Mismatches: 17, Indels: 7
0.62 0.27 0.11
Matches are distributed among these distances:
26 5 0.13
27 11 0.28
28 2 0.05
29 19 0.49
30 2 0.05
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (29 bp):
ATGATAACATTCATGTCACCAAAATGATG
Found at i:4303664 original size:8 final size:8
Alignment explanation
Indices: 4303639--4303681 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
4303629 TTGCATGTCA
4303639 ATATACAT
1 ATATACAT
4303647 ATAT-CTAT
1 ATATAC-AT
*
4303655 ATATGCAT
1 ATATACAT
*
4303663 ATACACAT
1 ATATACAT
4303671 ATATACAT
1 ATATACAT
4303679 ATA
1 ATA
4303682 ATATGTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 1 0.03
8 28 0.93
9 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (8 bp):
ATATACAT
Found at i:4306427 original size:19 final size:19
Alignment explanation
Indices: 4306403--4306443 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4306393 GCCATACTGG
4306403 TTTTCCCT-TAATATCTTAA
1 TTTTCCCTATAATATC-TAA
*
4306422 TTTTCCCTATAATTTCTAA
1 TTTTCCCTATAATATCTAA
4306441 TTT
1 TTT
4306444 GTGCAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTCCCTATAATATCTAA
Found at i:4312519 original size:21 final size:22
Alignment explanation
Indices: 4312493--4312540 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
4312483 CAATAAAAAA
4312493 TTTTACCTAAAACATT-ATAAT
1 TTTTACCTAAAACATTAATAAT
* *
4312514 TTTTACCTAAAATATTAATATT
1 TTTTACCTAAAACATTAATAAT
4312536 TTTTA
1 TTTTA
4312541 AAAAATTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTACCTAAAACATTAATAAT
Found at i:4314630 original size:21 final size:21
Alignment explanation
Indices: 4314604--4314643 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4314594 TGGAGCGCAT
*
4314604 GGAGGAACCATCATCTCCACC
1 GGAGGAACCATCATATCCACC
4314625 GGAGGAACCATCATATCCA
1 GGAGGAACCATCATATCCA
4314644 TCAGAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.15
Consensus pattern (21 bp):
GGAGGAACCATCATATCCACC
Found at i:4314653 original size:21 final size:21
Alignment explanation
Indices: 4314608--4314655 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4314598 GCGCATGGAG
* * *
4314608 GAACCATCATCTCCACCGGAG
1 GAACCATCATATCCACCAGAA
*
4314629 GAACCATCATATCCATCAGAA
1 GAACCATCATATCCACCAGAA
4314650 GAACCA
1 GAACCA
4314656 CTTCGTGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.33, G:0.15, T:0.15
Consensus pattern (21 bp):
GAACCATCATATCCACCAGAA
Found at i:4317304 original size:18 final size:18
Alignment explanation
Indices: 4317281--4317319 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4317271 AAGGCGATGA
4317281 CGGCATCATAAATGGCTG
1 CGGCATCATAAATGGCTG
*
4317299 CGGCATTATAAATGGCTG
1 CGGCATCATAAATGGCTG
4317317 CGG
1 CGG
4317320 TGGCTGCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (18 bp):
CGGCATCATAAATGGCTG
Found at i:4326656 original size:4 final size:4
Alignment explanation
Indices: 4326647--4326702 Score: 51
Period size: 4 Copynumber: 14.0 Consensus size: 4
4326637 GTTAGACAAA
*** * *
4326647 AAAT AAAT AAAT AAAT AAAT GTTT AAAA AAAT ATAT AAAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
4326696 -AAT AAAT
1 AAAT AAAT
4326703 CAAGAGGAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
3 3 0.08
4 34 0.85
5 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:4328002 original size:18 final size:16
Alignment explanation
Indices: 4327979--4328018 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4327969 AAAAATGTAA
4327979 ATAATATATACATATTAT
1 ATAATATATAC--ATTAT
*
4327997 ATAATATATGCATTAT
1 ATAATATATACATTAT
4328013 ATAATA
1 ATAATA
4328019 AGGGCGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAATATATACATTAT
Found at i:4328731 original size:66 final size:65
Alignment explanation
Indices: 4328645--4328769 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 65
4328635 AGATATTTGT
* * *
4328645 TGTTTCATGAGAAACGGTCTCAAGGGAGACAAAATTTTGTTTTAAGAGAAACTGTCTCAATGTTT
1 TGTTTCAAGAGAAACGGTCTCAAGGGAGACAAAA-TTTATTTCAAGAGAAACTGTCTCAATGTTT
4328710 A
65 A
* *
4328711 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAACTGTCTCAA
1 TGTTTCAAGAGAAACGGTCTCAAGGGAGACAAAATTTATTTCAAGAGAAACTGTCTCAA
4328770 GAGAGACAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 22 0.41
66 32 0.59
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (65 bp):
TGTTTCAAGAGAAACGGTCTCAAGGGAGACAAAATTTATTTCAAGAGAAACTGTCTCAATGTTTA
Found at i:4329559 original size:106 final size:106
Alignment explanation
Indices: 4329153--4329777 Score: 742
Period size: 106 Copynumber: 6.0 Consensus size: 106
4329143 TCTTGCTCTA
* * * * * * * * * * * *
4329153 AGTCCAATATCCTCCACTGTGAAGTTGAAACTGGATTTGGAACTGGGAAATTATTTGTTGACAGC
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* * * * * *
4329218 CAGCTGCCCCTTCG-CTGTGAAGTTCAGCTTGTGCTT-TCTCG
66 CAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGCG-TTGTCTGG
* ** *
4329259 AATCCAATGCCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-------ATTGACAAC
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* *
4329317 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
4329358 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCGCTGAAATTGGGAA-------ATTGACAAC
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* *
4329416 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
4329457 AGTCCAATATCATTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
4329522 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
4329563 AGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAT
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
*
4329628 CAGCGGTCCCTTCGTCGTGAAGTTGAAATTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
4329669 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAAC
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
* *
4329734 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
4329775 AGT
1 AGT
4329778 GGCACGATAT
Statistics
Matches: 462, Mismatches: 48, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
98 2 0.00
99 172 0.37
100 1 0.00
106 287 0.62
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:4330632 original size:22 final size:22
Alignment explanation
Indices: 4330606--4330658 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
4330596 TTGTGTTTGG
4330606 TCAAAGGTTTGGAATTTGATGC
1 TCAAAGGTTTGGAATTTGATGC
* *
4330628 TCAAATGTTTGGCATTTGATGC
1 TCAAAGGTTTGGAATTTGATGC
4330650 TCAAAGGTT
1 TCAAAGGTT
4330659 GGATGGGTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGAATTTGATGC
Found at i:4331301 original size:24 final size:24
Alignment explanation
Indices: 4331290--4331335 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4331280 TCTTTCTTTT
4331290 TTCCTTTGTTTTCTTCTTTTTTGC
1 TTCCTTTGTTTTCTTCTTTTTTGC
*
4331314 TTCTTTTGTTTTTCTT-TTTTTT
1 TTCCTTTG-TTTTCTTCTTTTTT
4331336 CTTTTTGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (24 bp):
TTCCTTTGTTTTCTTCTTTTTTGC
Found at i:4331316 original size:11 final size:10
Alignment explanation
Indices: 4331283--4331341 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 10
4331273 ATTTTGTTCT
4331283 TTCTTTTTTCC
1 TTCTTTTTT-C
*
4331294 TT-TGTTTTC
1 TTCTTTTTTC
4331303 TTCTTTTTTGC
1 TTCTTTTTT-C
*
4331314 TTCTTTTGTTT
1 TTCTTTT-TTC
4331325 TTCTTTTTT-
1 TTCTTTTTTC
4331334 TTCTTTTT
1 TTCTTTTT
4331342 GTTCTGATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 11 0.26
10 12 0.29
11 17 0.40
12 2 0.05
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:4331337 original size:20 final size:20
Alignment explanation
Indices: 4331274--4331340 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
4331264 TTCTTTTTGA
4331274 TTTTGTTCTTTC--TTTTTTC
1 TTTTGTT-TTTCTTTTTTTTC
*
4331293 CTTTGTTTTCTTCTTTTTTGCTTC
1 TTTTG-TTT-TTCTTTTTT--TTC
4331317 TTTTGTTTTTCTTTTTTTTC
1 TTTTGTTTTTCTTTTTTTTC
4331337 TTTT
1 TTTT
4331341 TGTTCTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 5 0.12
20 12 0.30
22 13 0.32
23 3 0.08
24 7 0.17
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (20 bp):
TTTTGTTTTTCTTTTTTTTC
Found at i:4333709 original size:26 final size:26
Alignment explanation
Indices: 4333669--4333728 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
4333659 AAAATCGGTT
* * *
4333669 TTGACCGGTTTGACCGGTCACGACCCG
1 TTGACCCGTTTGACCCGACACGA-CCG
*
4333696 TTGACCCG-TTGACCCGACCCGACCG
1 TTGACCCGTTTGACCCGACACGACCG
4333721 TTGACCCG
1 TTGACCCG
4333729 ACCCGTTGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 11 0.38
26 11 0.38
27 7 0.24
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.20
Consensus pattern (26 bp):
TTGACCCGTTTGACCCGACACGACCG
Found at i:4333723 original size:17 final size:17
Alignment explanation
Indices: 4333701--4333733 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4333691 ACCCGTTGAC
4333701 CCGTTGACCCGACCCGA
1 CCGTTGACCCGACCCGA
4333718 CCGTTGACCCGACCCG
1 CCGTTGACCCGACCCG
4333734 TTGACCGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.48, G:0.24, T:0.12
Consensus pattern (17 bp):
CCGTTGACCCGACCCGA
Found at i:4333728 original size:12 final size:13
Alignment explanation
Indices: 4333711--4333739 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4333701 CCGTTGACCC
4333711 GACCCGA-CCGTT
1 GACCCGACCCGTT
4333723 GACCCGACCCGTT
1 GACCCGACCCGTT
4333736 GACC
1 GACC
4333740 GTTGACCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.17, C:0.45, G:0.24, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4333872 original size:29 final size:29
Alignment explanation
Indices: 4333840--4333911 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
4333830 AAAAATGTGA
*
4333840 TATTCTGGGAATTAATTC-AAAATTGGTGC
1 TATTCTGGGAATTAATTCGAAAA-GGGTGC
*
4333869 TATTGTGGGAATTAATTCGAAAAGGGTGC
1 TATTCTGGGAATTAATTCGAAAAGGGTGC
* *
4333898 TATTTTGGTAATTA
1 TATTCTGGGAATTA
4333912 TTAAAAAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (29 bp):
TATTCTGGGAATTAATTCGAAAAGGGTGC
Found at i:4336874 original size:191 final size:190
Alignment explanation
Indices: 4336549--4336929 Score: 712
Period size: 191 Copynumber: 2.0 Consensus size: 190
4336539 TTGGCACATG
4336549 TTTTAGATTGGTTCTAGTGACCATATTATAAGGGATTGCACAGTGTCAGTTTCTACAATTCAGAC
1 TTTTAGATTGGTTCTAGTGACCATATTATAAGGGATTGCACAGTGTCAGTTTCTACAATTCAGAC
*
4336614 ACCAGCTCGTACTCCCGCCGTACTCAGAGTACTGTTCAGACTCCTGCGGGTGGTCGTACTCATAG
66 ACCAGCTCGTACTCCCGCCGTACTCAGAGTACTGTTCAGACTCCTGCGGGTGGTCGTACTCAGAG
4336679 AGAGCACCTGGATCAGTTAATAGGGGCCGAGCATCTCAGAGTAGGGGTCAAGTCAGATCT
131 AGAGCACCTGGATCAGTTAATAGGGGCCGAGCATCTCAGAGTAGGGGTCAAGTCAGATCT
4336739 TTTTAGATGTGGTTCTAGTGACCATATTATAAGGGATTGCACAGTGTCAGTTTCTACAATTCAGA
1 TTTTAGAT-TGGTTCTAGTGACCATATTATAAGGGATTGCACAGTGTCAGTTTCTACAATTCAGA
4336804 CA-CAGCTCGTACT-CCGCTCGTACTCAGAGTACTGTTCAGACTCCTGCGGGTGGTCGTACTCAG
65 CACCAGCTCGTACTCCCGC-CGTACTCAGAGTACTGTTCAGACTCCTGCGGGTGGTCGTACTCA-
4336867 GAGAGAGCACCTGGATCAGTTAATAGGGGCCGAGCATCTCAGAGTAGGGGTCAAGTCAGATCT
128 GAGAGAGCACCTGGATCAGTTAATAGGGGCCGAGCATCTCAGAGTAGGGGTCAAGTCAGATCT
4336930 GAGGCCAGAC
Statistics
Matches: 187, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
189 4 0.02
190 63 0.34
191 120 0.64
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (190 bp):
TTTTAGATTGGTTCTAGTGACCATATTATAAGGGATTGCACAGTGTCAGTTTCTACAATTCAGAC
ACCAGCTCGTACTCCCGCCGTACTCAGAGTACTGTTCAGACTCCTGCGGGTGGTCGTACTCAGAG
AGAGCACCTGGATCAGTTAATAGGGGCCGAGCATCTCAGAGTAGGGGTCAAGTCAGATCT
Found at i:4340819 original size:27 final size:29
Alignment explanation
Indices: 4340736--4340853 Score: 107
Period size: 28 Copynumber: 4.2 Consensus size: 29
4340726 CTATACGGGC
* *
4340736 AATTAATTCGAAATGGGAGCTATTTT-GG
1 AATTAATTCGAAAAGGGTGCTATTTTGGG
* ** * * * *
4340764 TATTTTTTTGAAAAAGGTGATATTCTGGG
1 AATTAATTCGAAAAGGGTGCTATTTTGGG
**
4340793 AATTAATTC-AAATTGGTGC-ATTTTGGG
1 AATTAATTCGAAAAGGGTGCTATTTTGGG
*
4340820 AATTAATTCGAAAAGGGTGCTATTTTGGT
1 AATTAATTCGAAAAGGGTGCTATTTTGGG
4340849 AATTA
1 AATTA
4340854 TTAAAAAAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
27 16 0.24
28 32 0.48
29 19 0.28
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTAATTCGAAAAGGGTGCTATTTTGGG
Found at i:4340861 original size:28 final size:29
Alignment explanation
Indices: 4340774--4340872 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 29
4340764 TATTTTTTTG
* * *
4340774 AAAAAGGTGATATTCTGGGAATTAATT-C
1 AAAAAGGTGCTATTTTGGGAATTAATTAA
** **
4340802 AAATTGGTGC-ATTTTGGGAATTAATTCG
1 AAAAAGGTGCTATTTTGGGAATTAATTAA
* *
4340830 AAAAGGGTGCTATTTTGGTAATT-ATTAA
1 AAAAAGGTGCTATTTTGGGAATTAATTAA
*
4340858 AAAAAAGTGCTATTT
1 AAAAAGGTGCTATTT
4340873 GTGTAAAATG
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
27 15 0.26
28 31 0.54
29 11 0.19
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (29 bp):
AAAAAGGTGCTATTTTGGGAATTAATTAA
Found at i:4343829 original size:11 final size:11
Alignment explanation
Indices: 4343813--4343837 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4343803 AAAAAAATAA
4343813 AAAAATTAAAT
1 AAAAATTAAAT
4343824 AAAAATTAAAT
1 AAAAATTAAAT
4343835 AAA
1 AAA
4343838 TAATAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTAAAT
Found at i:4345088 original size:18 final size:16
Alignment explanation
Indices: 4345065--4345103 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
4345055 AAAATGTAAT
4345065 TAATATATACATATTATA
1 TAATATATAC--ATTATA
*
4345083 TAATATATGCATTATA
1 TAATATATACATTATA
4345099 TAATA
1 TAATA
4345104 AGGGAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (16 bp):
TAATATATACATTATA
Found at i:4360980 original size:24 final size:24
Alignment explanation
Indices: 4360944--4360993 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
4360934 AATAAATATT
* *
4360944 TTAATATTCTAAAATATTAAACAA
1 TTAATATTATAAAATATGAAACAA
* *
4360968 TTAATCTTATAAATTATGAAACAA
1 TTAATATTATAAAATATGAAACAA
4360992 TT
1 TT
4360994 TTTTATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAATATTATAAAATATGAAACAA
Found at i:4366503 original size:10 final size:10
Alignment explanation
Indices: 4366488--4366520 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
4366478 TAATTTTTAA
4366488 AAAATATTCT
1 AAAATATTCT
4366498 AAAATA-TCT
1 AAAATATTCT
4366507 AAAATATCTCT
1 AAAATAT-TCT
4366518 AAA
1 AAA
4366521 TCTATTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 6 0.29
11 6 0.29
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATTCT
Found at i:4370353 original size:36 final size:36
Alignment explanation
Indices: 4370306--4370376 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
4370296 ACTCATCTAC
4370306 TCTTTAATGTCTATAATCTATATGGTATTCTATACA
1 TCTTTAATGTCTATAATCTATATGGTATTCTATACA
4370342 TCTTTAATGTCTATAATCTATATGGTATTCTATAC
1 TCTTTAATGTCTATAATCTATATGGTATTCTATAC
4370377 TCATCTATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (36 bp):
TCTTTAATGTCTATAATCTATATGGTATTCTATACA
Found at i:4375601 original size:27 final size:30
Alignment explanation
Indices: 4375549--4375609 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
4375539 AAATACCATA
*
4375549 ATTTTTAAAGATGTAAATTATAAA-TTTATT
1 ATTTCTAAAGATGTAAA-TATAAATTTTATT
4375579 ATTTCTAAAGAT-TAAA-ATAAATTTTATT
1 ATTTCTAAAGATGTAAATATAAATTTTATT
4375607 ATT
1 ATT
4375610 GTATTAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.17
28 9 0.31
29 4 0.14
30 11 0.38
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (30 bp):
ATTTCTAAAGATGTAAATATAAATTTTATT
Found at i:4387697 original size:12 final size:12
Alignment explanation
Indices: 4387680--4387704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4387670 CTTTCGATAC
4387680 CCTCTCTCCCTG
1 CCTCTCTCCCTG
4387692 CCTCTCTCCCTG
1 CCTCTCTCCCTG
4387704 C
1 C
4387705 AAGCATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.60, G:0.08, T:0.32
Consensus pattern (12 bp):
CCTCTCTCCCTG
Found at i:4390652 original size:35 final size:36
Alignment explanation
Indices: 4390591--4390669 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 36
4390581 TATTTTTTTG
* *
4390591 GATTTTT-AAATTTATTCTTTAGATTATATAATTTA
1 GATTTTTAAAATCTATTATTTAGATTATATAATTTA
* *
4390626 GATTTTTAAAATCTA-TATTTATATTATGTAATTTA
1 GATTTTTAAAATCTATTATTTAGATTATATAATTTA
* *
4390661 AATTCTTAA
1 GATTTTTAA
4390670 GTTTTTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 31 0.84
36 6 0.16
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (36 bp):
GATTTTTAAAATCTATTATTTAGATTATATAATTTA
Found at i:4399343 original size:25 final size:26
Alignment explanation
Indices: 4399305--4399353 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
4399295 ACACTTTAAA
*
4399305 TAATTTTTAATTTATAAA-TAAAAACT
1 TAATTATTAATTTA-AAATTAAAAACT
4399331 TAATTATT-ATTTAAAATTAAAAA
1 TAATTATTAATTTAAAATTAAAAA
4399354 AATATTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 11 0.52
26 7 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TAATTATTAATTTAAAATTAAAAACT
Found at i:4399424 original size:53 final size:54
Alignment explanation
Indices: 4399366--4399482 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 54
4399356 TATTCAAGAA
*
4399366 CCAAATTGCATATCAAAATTAAAGTCAACGCCAAATTGCACT-AAAAA-AGGGAT
1 CCAAATTGCATATAAAAATTAAAGTCAACGCCAAATTGCACTAAAAAATAGGG-T
*** *
4399419 CCAAATTGCATATAAAAATTAAAGTCGGTGCCAAATTGCATTAAAAAATAGGGT
1 CCAAATTGCATATAAAAATTAAAGTCAACGCCAAATTGCACTAAAAAATAGGGT
4399473 CCAAATTGCA
1 CCAAATTGCA
4399483 AAGTTAGGAG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
53 37 0.65
54 16 0.28
55 4 0.07
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (54 bp):
CCAAATTGCATATAAAAATTAAAGTCAACGCCAAATTGCACTAAAAAATAGGGT
Found at i:4400025 original size:3 final size:3
Alignment explanation
Indices: 4400017--4400045 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4400007 ACAACAGGTA
4400017 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4400046 CTCAAATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:4407778 original size:75 final size:77
Alignment explanation
Indices: 4407627--4407780 Score: 224
Period size: 75 Copynumber: 2.0 Consensus size: 77
4407617 ATATATAGAA
**
4407627 AAAAGGATAATTTTAATTTTAAAATTTCTAATTTTTTTTATTAATTTGATTTTAAGTCTTTAAAA
1 AAAAGGATAATTTTAATTTTAAAATTTCTAATAATTTTTATTAATTTGATTTTAAGTCTTTAAAA
4407692 ATTGTACGAATC
66 ATTGTACGAATC
* * *
4407704 AAAAGGATAA-TTTAATTTTAAAATTT-TAA-AATTTTTATTTATTTTATTTTAAGTTTTTTAAA
1 AAAAGGATAATTTTAATTTTAAAATTTCTAATAATTTTTATTAATTTGATTTTAAG-TCTTTAAA
*
4407766 AATTGTATGAATC
65 AATTGTACGAATC
4407779 AA
1 AA
4407781 CTAATTTCAA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
74 20 0.29
75 24 0.34
76 16 0.23
77 10 0.14
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (77 bp):
AAAAGGATAATTTTAATTTTAAAATTTCTAATAATTTTTATTAATTTGATTTTAAGTCTTTAAAA
ATTGTACGAATC
Found at i:4408512 original size:14 final size:14
Alignment explanation
Indices: 4408475--4408519 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
4408465 TCATATCAAC
4408475 AAATGAATTTACA-
1 AAATGAATTTACAT
* *
4408488 CAATAAATTTACAT
1 AAATGAATTTACAT
4408502 AAATGAATTTACAT
1 AAATGAATTTACAT
4408516 AAAT
1 AAAT
4408520 ATTTTATTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (14 bp):
AAATGAATTTACAT
Found at i:4408699 original size:14 final size:14
Alignment explanation
Indices: 4408680--4408708 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4408670 TATATTTATT
4408680 CCTTCGATTAATAA
1 CCTTCGATTAATAA
4408694 CCTTCGATTAATAA
1 CCTTCGATTAATAA
4408708 C
1 C
4408709 AACATGAAGA
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:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (14 bp):
CCTTCGATTAATAA
Found at i:4420427 original size:24 final size:24
Alignment explanation
Indices: 4420364--4420432 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
4420354 ACCATATTTG
* *
4420364 TTCTACTAGCTTATGAATAA-CAA
1 TTCTACCAACTTATGAATAATCAA
*
4420387 TTCT-TCAACTTATGAATAATCAA
1 TTCTACCAACTTATGAATAATCAA
*
4420410 TTCTACCAACTTACGAATAATCA
1 TTCTACCAACTTATGAATAATCA
4420433 TCCTTATCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.31
23 11 0.28
24 16 0.41
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (24 bp):
TTCTACCAACTTATGAATAATCAA
Found at i:4421478 original size:3 final size:3
Alignment explanation
Indices: 4421470--4421632 Score: 199
Period size: 3 Copynumber: 54.7 Consensus size: 3
4421460 TTATTTTATA
4421470 AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT -AT AAT AAAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT
* * *
4421515 ACT AAT AA- AAT AAT AAT AAT AAT GA- AAT AAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** *
4421561 AAT AAT AAT GCT AAT AAT AAT ACT ATAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
4421607 AAT ATT ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4421633 AATGGATAAA
Statistics
Matches: 139, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
2 7 0.05
3 124 0.89
4 8 0.06
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:4422389 original size:113 final size:114
Alignment explanation
Indices: 4421919--4422698 Score: 1030
Period size: 113 Copynumber: 6.9 Consensus size: 114
4421909 GATATCAAAC
*
4421919 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT-TTCTTATT
** * * *
4421984 CATGAACT-TTCTT-TGGCCATG-TGATCCATCAAATGATGAATTTAAACA
65 -ATGAACTCTTCTTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCA
*
4422032 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC-TATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT-TTCTTATT
* * * * *
4422096 CATGAA-TTTTC-TCTGGAAAAGA-GATCCACCAAATGATGGATTCAGGTA
65 -ATGAACTCTTCTTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCA
4422144 AAAGGTTG-A-AA-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTCTTATTA
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTCTTATTA
* * *
4422206 TGAACT-TTC-TCTGG-AAAGATGATCCACCAAATGATGGATTCAGGCA
66 TGAACTCTTCTTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCA
*
4422252 AAAGGTTGAACAAGTTCTTATCATTATGAACTTCTTCTTCCTTCTTCAGATGAG-TTTCTTATTA
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTCTTATTA
* * *
4422316 TGAACTCTTCTTCTGGAAAAGAATGATCCATCAAGTG-TGGATTCAGGCA
66 TGAACTCTTCTTCTGGAAAAG-ATGATCCATCAAATGATGAATTCAAGCA
4422365 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT-TTCTTATT
*
4422429 ATGAACTCTTCTTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCA
65 ATGAACTCTTCTTCTGGAAAAG-ATGATCCATCAAATGATGAATTCAAGCA
* * **
4422480 AAAGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGATGAGTTCTTCAT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-GTTTTCTT-AT
* * *
4422545 TATGAACTC-T-TTCT-GAAATGTTGATCCATCAAGTGATGAATTCAAGCA
64 TATGAACTCTTCTTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCA
*
4422593 AAAGGTTTGAAC-AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAGG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT-TTCTTAT
* *
4422657 TATGAAC-CTTC-T-TGGTAATGATGATCCATCAAATGATGAATT
64 TATGAACTCTTCTTCTGGAAAAGATGATCCATCAAATGATGAATT
4422699 TGAATCTTTG
Statistics
Matches: 610, Mismatches: 33, Indels: 49
0.88 0.05 0.07
Matches are distributed among these distances:
107 5 0.01
108 49 0.08
109 48 0.08
110 20 0.03
111 47 0.08
112 99 0.16
113 190 0.31
114 70 0.11
115 53 0.09
116 17 0.03
117 12 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (114 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTCTTATTA
TGAACTCTTCTTCTGGAAAAGATGATCCATCAAATGATGAATTCAAGCA
Found at i:4423306 original size:52 final size:52
Alignment explanation
Indices: 4423239--4423891 Score: 1094
Period size: 52 Copynumber: 12.7 Consensus size: 52
4423229 CACTTCTTCG
* * *
4423239 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAACA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
*
4423291 GATCAGATAACTCAAAG-ACACTTCCAGAAGATGCTATGTTCTGT-CAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
4423341 GATCAGAT-ACTC-AA-AACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
4423390 GATCAGATAACTCAAAGAACACTTCC---AGATGCTATGTTATGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
4423439 GATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATGTTCTGT-CAATTCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAA-CCA
4423491 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
* *
4423543 GATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
4423595 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
4423647 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT-TCTAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
4423698 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
4423750 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
4423802 GATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
4423854 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
4423892 TGAGCACATA
Statistics
Matches: 572, Mismatches: 18, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
48 29 0.05
49 64 0.11
50 18 0.03
51 79 0.14
52 379 0.66
53 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (52 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:4423754 original size:259 final size:257
Alignment explanation
Indices: 4423239--4423891 Score: 1106
Period size: 259 Copynumber: 2.6 Consensus size: 257
4423229 CACTTCTTCG
* * *
4423239 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAACAGATCAGATAACT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCAGATCAGATAACT
4423303 CAAAG-ACACTTCCAGAAGATGCTATGTTCTGT-CAATCAGATCAGAT-ACTC-AA-AACACTTC
65 CAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTC
4423363 CAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGATGCTATGTT
130 CAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGATGCTATGTT
* *
4423428 ATGTCCAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATGTTCTGTCAATTCA
195 ATGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCAATCCA
4423491 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
*
4423556 AAAGAATACTTCCAGAAGATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCC
66 AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCC
*
4423621 AGAAGATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
131 AGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCC---AGATGCTATG
* *
4423686 TTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCTAA-CC
193 TTATGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTC-AATCC
4423749 A
257 A
4423750 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
* *
4423815 AAAGAACACTTCCAGAAAATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCC
66 AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCC
4423880 AGAAGATGCTAT
131 AGAAGATGCTAT
4423892 TGAGCACATA
Statistics
Matches: 379, Mismatches: 12, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
251 1 0.00
252 64 0.17
253 26 0.07
254 14 0.04
255 4 0.01
256 2 0.01
257 60 0.16
259 193 0.51
260 15 0.04
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (257 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTC
AAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCC
AGAAGATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGATGCTATGTTA
TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCAATCCA
Found at i:4424842 original size:15 final size:16
Alignment explanation
Indices: 4424821--4424895 Score: 68
Period size: 15 Copynumber: 4.8 Consensus size: 16
4424811 GACCCCTTTT
4424821 TTTTCTTCTTTTTCTC
1 TTTTCTTCTTTTTCTC
* *
4424837 -TTTCTTCTTTTCCCC
1 TTTTCTTCTTTTTCTC
* *
4424852 TTTTTTTCTTTCTTTTC
1 TTTTCTTCTTT-TTCTC
4424869 TTTCTCTTC-TTTT-TC
1 TTT-TCTTCTTTTTCTC
4424884 TTTTCTT-TTTTT
1 TTTTCTTCTTTTT
4424896 TTTTTTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.17
15 18 0.38
16 11 0.23
17 7 0.15
18 4 0.08
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTTCTTTTTCTC
Found at i:4424861 original size:34 final size:35
Alignment explanation
Indices: 4424813--4424881 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 35
4424803 TTCACCTTGA
4424813 CCCCTTTTTTTTC-TTCTTTTTCTCTT-TCTTCTTTT
1 CCCCTTTTTTTTCTTTC-TTTTCT-TTCTCTTCTTTT
4424848 CCCC-TTTTTTTCTTTCTTTTCTTTCTCTTCTTTT
1 CCCCTTTTTTTTCTTTCTTTTCTTTCTCTTCTTTT
4424882 TCTTTTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 2 0.06
34 23 0.72
35 7 0.22
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (35 bp):
CCCCTTTTTTTTCTTTCTTTTCTTTCTCTTCTTTT
Found at i:4424870 original size:5 final size:5
Alignment explanation
Indices: 4424855--4424909 Score: 50
Period size: 4 Copynumber: 12.0 Consensus size: 5
4424845 TTTCCCCTTT
*
4424855 TTTTC -TTTC TTTTC -TTTC TCTTC TTTTTC TTTTC TTTT- TTTT- TTTT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC
4424901 TTTT- TTTTC
1 TTTTC TTTTC
4424910 AAGCATAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 24 0.55
5 16 0.36
6 4 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:4424896 original size:9 final size:9
Alignment explanation
Indices: 4424816--4424908 Score: 59
Period size: 9 Copynumber: 10.6 Consensus size: 9
4424806 ACCTTGACCC
4424816 CTTTTTTTT
1 CTTTTTTTT
*
4424825 CTTCTTTTT
1 CTTTTTTTT
* *
4424834 CTCTTTCTT
1 CTTTTTTTT
**
4424843 C--TTTTCC
1 CTTTTTTTT
*
4424850 CCTTTTTTT
1 CTTTTTTTT
*
4424859 CTTTCTTTT
1 CTTTTTTTT
* *
4424868 CTTTCTCTT
1 CTTTTTTTT
4424877 CTTTTTCTTTT
1 C-TTTT-TTTT
4424888 CTTTTTTTT
1 CTTTTTTTT
4424897 -TTTTTTTT
1 CTTTTTTTT
4424905 -TTTT
1 CTTTT
4424909 CAAGCATAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
7 4 0.06
8 12 0.18
9 39 0.59
10 7 0.11
11 4 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:4424896 original size:40 final size:38
Alignment explanation
Indices: 4424817--4424909 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 38
4424807 CCTTGACCCC
* *
4424817 TTTTTTTTCTTCTTTTTCTCTTTCTTCTTTTCCCCTTT
1 TTTTTTTTTTTCTTTCTCTCTTTCTTCTTTTCCCCTTT
**
4424855 TTTTCTTTCTTTTCTTTCTCTTCTTT-TTCTTTT-CTTTTT
1 TTTT-TTT-TTTTCTTTCTC-TCTTTCTTCTTTTCCCCTTT
*
4424894 TTTTTTTTTTTTTTTC
1 TTTTTTTTTTTCTTTC
4424910 AAGCATAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 8 0.17
38 7 0.15
39 11 0.23
40 16 0.34
41 5 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (38 bp):
TTTTTTTTTTTCTTTCTCTCTTTCTTCTTTTCCCCTTT
Found at i:4435272 original size:12 final size:14
Alignment explanation
Indices: 4435255--4435287 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
4435245 TTTTGACATA
4435255 AAATAAATAC-TG-
1 AAATAAATACTTGC
4435267 AAATAAATACTTGC
1 AAATAAATACTTGC
4435281 AAATAAA
1 AAATAAA
4435288 AATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 2 0.11
14 7 0.37
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (14 bp):
AAATAAATACTTGC
Found at i:4437312 original size:3 final size:3
Alignment explanation
Indices: 4437304--4437481 Score: 234
Period size: 3 Copynumber: 58.7 Consensus size: 3
4437294 TTATTTATTA
*
4437304 AAT AAT AAT AAT ATAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * *
4437351 AAAT ACT AAT AAT AAT AAT AAT AAT ATT AAT AAT GAT AAT AAT AATT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
**
4437398 AAT AAT AAT AAT AAT AA- AAT GCT AAT AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
4437444 AAT AAT AAT AAT ATT AAT ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4437482 AATGGATAAA
Statistics
Matches: 153, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
2 4 0.03
3 137 0.90
4 12 0.08
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:4438314 original size:24 final size:24
Alignment explanation
Indices: 4438278--4438348 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
4438268 ACCATATTTG
* *
4438278 TTCTACTAGCTTATGAATAATCAA
1 TTCTACCAACTTATGAATAATCAA
*
4438302 TTCTTCCAACTTATGAATAATCAA
1 TTCTACCAACTTATGAATAATCAA
*
4438326 TTCTACCAACTTACGAATAATCA
1 TTCTACCAACTTATGAATAATCA
4438349 TCCTTATCCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (24 bp):
TTCTACCAACTTATGAATAATCAA
Found at i:4448283 original size:43 final size:43
Alignment explanation
Indices: 4448218--4448397 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 43
4448208 TGTGAAAGAA
* * *
4448218 AAATGAAACTAGTCGGGCTCTAATTGGTCCAAATACTAATAAT
1 AAATGAAACGAGCCGGGTTCTAATTGGTCCAAATACTAATAAT
* *
4448261 AAATGAAACGAGCCGGGTTCTAATTGGTTCAAATACTAGTAAATCTT
1 AAATGAAACGAGCCGGGTTCTAATTGGTCCAAATACTAAT-AA---T
*** * * * **
4448308 CCTTTTCATATGTATGTCC-TTTTCTAATTGGTCCAAATACTAATAAT
1 --AAATGAAACG-A-G-CCGGGTTCTAATTGGTCCAAATACTAATAAT
*
4448355 AAATGAAACGAGCCGGGTTCTAATTGGTCCAAATACTAGTAAT
1 AAATGAAACGAGCCGGGTTCTAATTGGTCCAAATACTAATAAT
4448398 CTTCCTTTTC
Statistics
Matches: 103, Mismatches: 24, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
42 2 0.02
43 61 0.59
44 3 0.03
45 4 0.04
47 2 0.02
49 4 0.04
50 3 0.03
51 22 0.21
52 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (43 bp):
AAATGAAACGAGCCGGGTTCTAATTGGTCCAAATACTAATAAT
Found at i:4457677 original size:23 final size:23
Alignment explanation
Indices: 4457651--4457698 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4457641 TTATTTTTAA
* *
4457651 TATATATACTTTTTAATAAAATT
1 TATATAAAATTTTTAATAAAATT
*
4457674 TATATAAAATTTTTTATAAAATT
1 TATATAAAATTTTTAATAAAATT
4457697 TA
1 TA
4457699 AAAGATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATAAAATTTTTAATAAAATT
Found at i:4457693 original size:12 final size:12
Alignment explanation
Indices: 4457660--4457697 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4457650 ATATATATAC
*
4457660 TTTTTAATAAAA
1 TTTTTTATAAAA
*
4457672 -TTTATATAAAA
1 TTTTTTATAAAA
4457683 TTTTTTATAAAA
1 TTTTTTATAAAA
4457695 TTT
1 TTT
4457698 AAAAGATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTTTATAAAA
Found at i:4466947 original size:14 final size:14
Alignment explanation
Indices: 4466907--4466948 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
4466897 AAATGATAAA
*
4466907 AATATATTTTTATC
1 AATATATTTTAATC
4466921 AATATATGTTTAATC
1 AATATAT-TTTAATC
*
4466936 AATATATATTAAT
1 AATATATTTTAAT
4466949 AGAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (14 bp):
AATATATTTTAATC
Found at i:4473238 original size:54 final size:54
Alignment explanation
Indices: 4473156--4473260 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
4473146 CCGAGGCCGA
* *
4473156 GGGCGTGGAGGATACAATGGACCCCAGTTTGACAGGCTGCAAGATGATGGCCAT
1 GGGCGTGGAGGATACAATGGACCCCAGTTCGACAGGCAGCAAGATGATGGCCAT
* *
4473210 GGGCGTGGAGGATACAATGGATCCCAGTTCGATAGGCAGCAAGATGATGGC
1 GGGCGTGGAGGATACAATGGACCCCAGTTCGACAGGCAGCAAGATGATGGC
4473261 TACAATTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.36, T:0.18
Consensus pattern (54 bp):
GGGCGTGGAGGATACAATGGACCCCAGTTCGACAGGCAGCAAGATGATGGCCAT
Found at i:4489331 original size:7 final size:7
Alignment explanation
Indices: 4489319--4489347 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4489309 CAAGAGCAGA
4489319 AATTGCT
1 AATTGCT
4489326 AATTGCT
1 AATTGCT
4489333 AATTGCT
1 AATTGCT
4489340 AATTGCT
1 AATTGCT
4489347 A
1 A
4489348 GCTTGGATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (7 bp):
AATTGCT
Found at i:4498247 original size:18 final size:18
Alignment explanation
Indices: 4498220--4498255 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4498210 TATATTATTC
*
4498220 ATATAATTTTTAAGAATA
1 ATATAATTTTTAAAAATA
*
4498238 ATATATTTTTTAAAAATA
1 ATATAATTTTTAAAAATA
4498256 TTAGATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATATAATTTTTAAAAATA
Found at i:4498288 original size:21 final size:21
Alignment explanation
Indices: 4498263--4498307 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
4498253 ATATTAGATA
4498263 AAATTGATTCAGTTAGAATGT
1 AAATTGATTCAGTTAGAATGT
4498284 AAATTGATTCAGTTAGAATGT
1 AAATTGATTCAGTTAGAATGT
4498305 AAA
1 AAA
4498308 AGATTAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (21 bp):
AAATTGATTCAGTTAGAATGT
Found at i:4499652 original size:39 final size:39
Alignment explanation
Indices: 4499573--4499650 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
4499563 GTTGAAAATT
* * *
4499573 ATTTATATATATATTTTTTTAAAAATTTAAATTCATAAA
1 ATTTATATATATATTATTTTAAAAATTGAAAATCATAAA
4499612 ATTTATATATATA-TATTTTACAAAATTGAAAAT-ATAAA
1 ATTTATATATATATTATTTTA-AAAATTGAAAATCATAAA
4499650 A
1 A
4499651 ATATTTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 12 0.34
39 23 0.66
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (39 bp):
ATTTATATATATATTATTTTAAAAATTGAAAATCATAAA
Found at i:4499657 original size:41 final size:40
Alignment explanation
Indices: 4499567--4499657 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 40
4499557 TAATAAGTTG
* * *
4499567 AAAATTATTTATATATATATTTTTTTAAAAATTTAAATTC
1 AAAAATATTTATATATATATTATTTTAAAAATTAAAATTC
*
4499607 ATAAA-ATTTATATATATA-TATTTTACAAAATTGAAAATAT-
1 AAAAATATTTATATATATATTATTTTA-AAAATT-AAAAT-TC
4499647 AAAAATATTTA
1 AAAAATATTTA
4499658 ATAAAAGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
38 6 0.14
39 19 0.45
40 11 0.26
41 6 0.14
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (40 bp):
AAAAATATTTATATATATATTATTTTAAAAATTAAAATTC
Found at i:4506737 original size:32 final size:33
Alignment explanation
Indices: 4506696--4506773 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
4506686 TTTAAATAGT
* *
4506696 TATTATTTTTTA-TATTAAT-ATATTTATGTAAA
1 TATTATTTTTTATTA-AAATAATATTTATATAAA
*
4506728 TATTATTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATTAAAATAATATTTATATAAA
4506761 TATTATTTATTTA
1 TATTATTT-TTTA
4506774 GAATTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.38
33 21 0.52
34 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TATTATTTTTTATTAAAATAATATTTATATAAA
Found at i:4508523 original size:21 final size:21
Alignment explanation
Indices: 4508493--4508540 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4508483 GCAGGGGTAC
* *
4508493 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
4508514 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
4508535 ATGCCA
1 ATGCCA
4508541 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:4508570 original size:21 final size:21
Alignment explanation
Indices: 4508544--4508637 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
4508534 TATGCCATCT
* *
4508544 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
4508565 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
4508586 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
4508607 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
4508628 CCGCAGGGTT
1 CCGCAGGGTT
4508638 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:4509219 original size:33 final size:34
Alignment explanation
Indices: 4509160--4509256 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
4509150 AAATGTTTTT
*
4509160 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
4509194 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
4509227 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
4509257 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:4509263 original size:34 final size:33
Alignment explanation
Indices: 4509158--4509263 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
4509148 ATAAATGTTT
*
4509158 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
4509192 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
4509224 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
4509259 TTAAA
1 TTAAA
4509264 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:4509869 original size:126 final size:126
Alignment explanation
Indices: 4509644--4509983 Score: 671
Period size: 126 Copynumber: 2.7 Consensus size: 126
4509634 TTTAAGTTAT
4509644 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
4509709 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
4509770 TCCCCGAGGGACATGAGTGACATAATAGGACAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
4509835 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
4509896 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
4509961 GCGCCCCCGGGAACGCGCCTTCA
66 GCGCCCCCGGGAACGCGCCTTCA
4509984 CAATCTCTTA
Statistics
Matches: 212, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 212 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:4512647 original size:13 final size:12
Alignment explanation
Indices: 4512628--4512663 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
4512618 ATTCATAAAT
4512628 ATATTTAATATA
1 ATATTTAATATA
*
4512640 TGTATTTAATATA
1 -ATATTTAATATA
4512653 ATATTTAATAT
1 ATATTTAATAT
4512664 TATTAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
ATATTTAATATA
Found at i:4516825 original size:81 final size:81
Alignment explanation
Indices: 4516680--4516829 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
4516670 AAGATTCATG
* * * * ** **
4516680 TTATGTTGCTTCTGTGCCTCAACGGGAACTGCATCATGATGTTGGATGGAAGGAGCATTCTCCCT
1 TTATGTTGCTTCTGTGCCTCAACAGAAACTGCAGCATGATGTTGAATGGAAGGAAAAAGCTCCCT
4516745 CTTCAAAACCAAGTTA
66 CTTCAAAACCAAGTTA
** *
4516761 TTATGTTG-TTCCTGTGCCTCAACAGAAACTGTGGCATGATGTTGAATGGAAGGAAAAAGGTCCC
1 TTATGTTGCTT-CTGTGCCTCAACAGAAACTGCAGCATGATGTTGAATGGAAGGAAAAAGCTCCC
4516825 TCTTC
65 TCTTC
4516830 TTCTAGAACA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 2 0.04
81 55 0.96
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (81 bp):
TTATGTTGCTTCTGTGCCTCAACAGAAACTGCAGCATGATGTTGAATGGAAGGAAAAAGCTCCCT
CTTCAAAACCAAGTTA
Found at i:4524333 original size:17 final size:17
Alignment explanation
Indices: 4524307--4524340 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4524297 ATAATTATAT
*
4524307 AAATATTATTTTAATAA
1 AAATAATATTTTAATAA
*
4524324 AAATAATATTTTTATAA
1 AAATAATATTTTAATAA
4524341 TTATATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATAATATTTTAATAA
Found at i:4524350 original size:20 final size:21
Alignment explanation
Indices: 4524297--4524352 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
4524287 TAAATAAATA
*
4524297 ATAATTATATAAATATTATTT
1 ATAATTATATTAATATTATTT
* * *
4524318 -TAATAAAAATAATATT-TTT
1 ATAATTATATTAATATTATTT
4524337 ATAATTATATTAATAT
1 ATAATTATATTAATAT
4524353 AAAATATAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTATATTAATATTATTT
Found at i:4524967 original size:207 final size:209
Alignment explanation
Indices: 4524595--4525006 Score: 524
Period size: 207 Copynumber: 2.0 Consensus size: 209
4524585 GCGTGACAAT
* * * *
4524595 TGAATCAACAAAATAAAGGTAAAGCGTGTCTCCGGGGATGCTCTTTTCACACGTGGCATCCAACT
1 TGAATCAACAAAATAAAGGTAAAGCGCGTCTCCGGAGATGCGCCTTTCACACGTGGCATCCAACT
* * * * * * * *
4524660 CAGTGTAAAACCAGGTAAAGCGCGTCTCCGGGGATGTGCCTTTCGTCACCTCAGCCGAAAAGGTG
66 CAGCGTAAAACCAGATAAAACGCGTCTCAGGAGATGCGCCTTTCGCCACCTCAGCCGAAAAGATG
* * * * ** * *
4524725 TCACTTCGGGAAATATAGAAAAAACGATACTAAAAAGGGAGATATTCGGTTAAAGGGTGTCAGTT
131 CCACTTCGAGAAATATAGAAAAAACGATACTAAAAAGAGAGAGATTCAATTAAAGGATATCAGTT
*
4524790 TGGTCAAATCGCCC
196 TGATCAAATCGCCC
* * *
4524804 TGAATCAGCAAAATAAATGTAAAGCGCGTCT-C-GAGATGCGCCTTTCACATGTGGCATCCAACT
1 TGAATCAACAAAATAAAGGTAAAGCGCGTCTCCGGAGATGCGCCTTTCACACGTGGCATCCAACT
* * * *
4524867 CAGCGTAAAATCAGATAAAACGCGTCTCAGGAGATGCGTCTTTCGCCATCTCAGCCGAAATGATG
66 CAGCGTAAAACCAGATAAAACGCGTCTCAGGAGATGCGCCTTTCGCCACCTCAGCCGAAAAGATG
* *
4524932 CCACTTCGAGAAATATA-AAACAAACGGTGCTAAAAAGAGAGAGATTCAATTAAAGGATATCAGT
131 CCACTTCGAGAAATATAGAAA-AAACGATACTAAAAAGAGAGAGATTCAATTAAAGGATATCAGT
4524996 TTGATCAAATC
195 TTGATCAAATC
4525007 ACCATAATTC
Statistics
Matches: 172, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
206 3 0.02
207 140 0.81
208 1 0.01
209 28 0.16
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (209 bp):
TGAATCAACAAAATAAAGGTAAAGCGCGTCTCCGGAGATGCGCCTTTCACACGTGGCATCCAACT
CAGCGTAAAACCAGATAAAACGCGTCTCAGGAGATGCGCCTTTCGCCACCTCAGCCGAAAAGATG
CCACTTCGAGAAATATAGAAAAAACGATACTAAAAAGAGAGAGATTCAATTAAAGGATATCAGTT
TGATCAAATCGCCC
Found at i:4529660 original size:2 final size:2
Alignment explanation
Indices: 4529614--4529643 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4529604 TAATTATAAA
4529614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4529644 GAACATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4545662 original size:55 final size:55
Alignment explanation
Indices: 4545578--4545698 Score: 215
Period size: 55 Copynumber: 2.2 Consensus size: 55
4545568 TGAGTTGGGT
4545578 TGACTCAGAGACGGTTTAGGATATTAAATAATAGCTTATCCATTATATCAAATGC
1 TGACTCAGAGACGGTTTAGGATATTAAATAATAGCTTATCCATTATATCAAATGC
* * *
4545633 TGACTCGGAGATGGTTTAGGATATTAAATAATAGCTTGTCCATTATATCAAATGC
1 TGACTCAGAGACGGTTTAGGATATTAAATAATAGCTTATCCATTATATCAAATGC
4545688 TGACTCAGAGA
1 TGACTCAGAGA
4545699 ATCGTCGGCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (55 bp):
TGACTCAGAGACGGTTTAGGATATTAAATAATAGCTTATCCATTATATCAAATGC
Found at i:4545979 original size:22 final size:22
Alignment explanation
Indices: 4545954--4545995 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4545944 ATTATCATCA
*
4545954 AACATTTATTAATTTATTAAAT
1 AACATTTAATAATTTATTAAAT
*
4545976 AACATTTAATAGTTTATTAA
1 AACATTTAATAATTTATTAA
4545996 TGAATAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AACATTTAATAATTTATTAAAT
Found at i:4549198 original size:42 final size:42
Alignment explanation
Indices: 4549125--4549221 Score: 119
Period size: 41 Copynumber: 2.3 Consensus size: 42
4549115 TATAATCTAT
4549125 AATAATATA-TTTATAATTGTTTATTATATTTTAAATTAATAA
1 AATAATATATTTTATAATTGTTTATTATATTTTAAA-TAATAA
* *
4549167 AATAATATATTTTATAATAT-TTTATTA-ATTTTTAATAATTA
1 AATAATATATTTTATAAT-TGTTTATTATATTTTAAATAATAA
* *
4549208 AATAACAAATTTTA
1 AATAATATATTTTA
4549222 ACATTATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 17 0.35
42 16 0.33
43 15 0.31
44 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (42 bp):
AATAATATATTTTATAATTGTTTATTATATTTTAAATAATAA
Found at i:4553952 original size:5 final size:5
Alignment explanation
Indices: 4553942--4553966 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4553932 CAATATGGGT
4553942 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
4553967 TGATCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:4563328 original size:28 final size:28
Alignment explanation
Indices: 4563287--4563378 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 28
4563277 GTTGAGCTAT
* * * *
4563287 TGTTTAAAATATTATGTCATCGAACCAG
1 TGTTTGAAACATTATGTCATCGAACAAA
* * *
4563315 TGTTTGAAGCATTATATCATC-AAGAAA
1 TGTTTGAAACATTATGTCATCGAACAAA
* *
4563342 TGTTTGAAACATTATGTCCTCGAGTC-AA
1 TGTTTGAAACATTATGTCATCGA-ACAAA
4563370 TGTTTGAAA
1 TGTTTGAAA
4563379 TCAATAACAT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 21 0.42
28 29 0.58
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (28 bp):
TGTTTGAAACATTATGTCATCGAACAAA
Found at i:4582880 original size:23 final size:22
Alignment explanation
Indices: 4582836--4582880 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4582826 AATGTCATGG
*
4582836 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
4582858 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
4582881 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:4584108 original size:103 final size:103
Alignment explanation
Indices: 4583883--4584100 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
4583873 GTCGAGGGTC
4583883 TATGTGGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
4583948 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
4583986 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
4584051 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
4584089 TATGTGGTCCTT
1 TATGTGGTCCTT
4584101 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATAGGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:4584167 original size:23 final size:23
Alignment explanation
Indices: 4584116--4584176 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
4584106 CATTATTATA
*
4584116 TGGCACTACGGTGCAATTCTACG
1 TGGCACTATGGTGCAATTCTACG
** *
4584139 CAGCACTATGGTGCAATTCTATG
1 TGGCACTATGGTGCAATTCTACG
4584162 TGGCACT-TCGGTGCA
1 TGGCACTAT-GGTGCA
4584177 TTTATATGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 1 0.03
23 30 0.97
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTATGGTGCAATTCTACG
Found at i:4588127 original size:2 final size:2
Alignment explanation
Indices: 4588122--4588155 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4588112 TATGACACAC
4588122 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4588156 CATAAATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4589283 original size:16 final size:16
Alignment explanation
Indices: 4589262--4589298 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4589252 AGCCTCTGAG
*
4589262 TCATTCAGCATTTGAA
1 TCATTCAACATTTGAA
*
4589278 TCATTCAATATTTGAA
1 TCATTCAACATTTGAA
4589294 TCATT
1 TCATT
4589299 TAGCGCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (16 bp):
TCATTCAACATTTGAA
Found at i:4600967 original size:3 final size:3
Alignment explanation
Indices: 4600961--4600990 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
4600951 CAATAACAAC
4600961 AAT AAT AAT AAT AAT AATT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA
4600991 AACAACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4606409 original size:16 final size:15
Alignment explanation
Indices: 4606369--4606409 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
4606359 TTAAAGCATT
4606369 TATTTAAGTTTTCGGA
1 TATTTAA-TTTTCGGA
4606385 TATTATAATTTTCGGA
1 TATT-TAATTTTCGGA
4606401 TACTTTAAT
1 TA-TTTAAT
4606410 ACATGATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.51
Consensus pattern (15 bp):
TATTTAATTTTCGGA
Found at i:4607326 original size:20 final size:21
Alignment explanation
Indices: 4607301--4607352 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4607291 TTTTCCCAAT
*
4607301 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4607321 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4607342 TCGCAATGCGA
1 TCGCAATGCGA
4607353 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4607366 original size:20 final size:20
Alignment explanation
Indices: 4607341--4607475 Score: 94
Period size: 20 Copynumber: 6.7 Consensus size: 20
4607331 AATTGGGAAA
4607341 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
4607361 ATCGCAATGCAATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* * *
4607382 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
4607402 TTCGCAATGTGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
4607422 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
4607442 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
4607462 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
4607476 TTTCAAAGCG
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.04
20 62 0.68
21 23 0.25
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:4607476 original size:41 final size:41
Alignment explanation
Indices: 4607340--4607475 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
4607330 GAATTGGGAA
* * * *
4607340 AATCGCAATGCGATACTGACTATCGCAATGCAATAATACAA
1 AATCGCAACGCGATACTGACTTTCGCAATGCGATAATACAT
* * * *
4607381 AATCGCAACGAGATACTTACTTTCGCAATGTGATACTGAC-T
1 AATCGCAACGCGATACTGACTTTCGCAATGCGATAAT-ACAT
* * *
4607422 -TTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACAT
1 AATCGCAACGCGATACTGACTTTCGCAATGCGATAATACAT
*
4607462 AATCGCAATGCGAT
1 AATCGCAACGCGAT
4607476 TTTCAAAGCG
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.40
41 41 0.55
42 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
AATCGCAACGCGATACTGACTTTCGCAATGCGATAATACAT
Found at i:4607980 original size:19 final size:20
Alignment explanation
Indices: 4607924--4607972 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4607914 GCGATTCTCT
**
4607924 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
4607944 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
4607964 TGTTGCGAT
1 CGTTGCGAT
4607973 TTCATTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:4609311 original size:18 final size:18
Alignment explanation
Indices: 4609290--4609334 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4609280 TCCACTTCGG
*
4609290 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
4609308 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4609326 GAGCCATCA
1 GAGCCATCA
4609335 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4609870 original size:19 final size:20
Alignment explanation
Indices: 4609827--4609882 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4609817 TGCAACACGA
4609827 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
4609847 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
4609866 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
4609883 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:4609890 original size:14 final size:14
Alignment explanation
Indices: 4609871--4609928 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4609861 ATGCGAAATG
4609871 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4609885 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
4609901 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4609917 AAAATCGCAACG
1 AAAATCGCAACG
4609929 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4609913 original size:32 final size:33
Alignment explanation
Indices: 4609855--4609945 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
4609845 GGAAATGGCT
4609855 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
4609888 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
4609920 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
4609946 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:4609939 original size:19 final size:19
Alignment explanation
Indices: 4609855--4609950 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
4609845 GGAAATGGCT
4609855 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4609874 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
4609888 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
4609906 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
4609920 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4609939 ATCGCAATGCGA
1 ATCGCAATGCGA
4609951 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.33
15 1 0.02
16 6 0.10
17 2 0.03
18 11 0.18
19 21 0.34
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4609981 original size:14 final size:14
Alignment explanation
Indices: 4609962--4610019 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4609952 TTGTGTTTCG
4609962 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
4609976 CGTTGCGATTTTATTT
1 CGTTGCGA-TTT-TGT
4609992 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
4610008 CGTTGCGATTTT
1 CGTTGCGATTTT
4610020 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 20 0.53
15 3 0.08
16 4 0.11
17 3 0.08
18 8 0.21
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4609996 original size:32 final size:33
Alignment explanation
Indices: 4609957--4610144 Score: 211
Period size: 32 Copynumber: 5.4 Consensus size: 33
4609947 GCGATTTGTG
*
4609957 TTTCGCGTTGCGATTTTGTCGTTGCGATTTT-A
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
4609989 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
4610022 TTTCGCATTGCGATAGCCATTTCCG-CGTTGCGATACGATTTTCA
1 TTTCGCATTGCGAT-----TTT--GTCGTT--G---CGATTTTCA
* *
4610066 TTTCACTTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
4610098 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
4610131 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
4610145 AGCCATTTCC
Statistics
Matches: 136, Mismatches: 5, Indels: 29
0.80 0.03 0.17
Matches are distributed among these distances:
32 61 0.45
33 36 0.26
36 1 0.01
37 1 0.01
38 7 0.05
39 7 0.05
40 1 0.01
41 1 0.01
44 21 0.15
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:4610092 original size:14 final size:14
Alignment explanation
Indices: 4610073--4610128 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
4610063 TCATTTCACT
4610073 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
4610087 TTGCGATTTCATTTCG
1 TTGCGATTT--TGTCG
4610103 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
4610119 TTGCGATTTT
1 TTGCGATTTT
4610129 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:4610139 original size:109 final size:109
Alignment explanation
Indices: 4609964--4610165 Score: 377
Period size: 109 Copynumber: 1.9 Consensus size: 109
4609954 GTGTTTCGCG
* *
4609964 TTGCGATTTTGTCGTTGCGATTTTATTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
*
4610029 TTGCGATAGCCATTTCCGCGTTGCGATACGATTTTCATTTCACT
66 TTGCGATAGCCATTTCCGCATTGCGATACGATTTTCATTTCACT
4610073 TTGCGATTTTGTCGTTGCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
4610138 TTGCGATAGCCATTTCCGCATTGCGATA
66 TTGCGATAGCCATTTCCGCATTGCGATA
4610166 GTCATTTTCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 90 1.00
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.44
Consensus pattern (109 bp):
TTGCGATTTTGTCGTTGCGATTTCATTTCGCATTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
TTGCGATAGCCATTTCCGCATTGCGATACGATTTTCATTTCACT
Found at i:4610159 original size:20 final size:19
Alignment explanation
Indices: 4610129--4610184 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
4610119 TTGCGATTTT
4610129 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
4610148 CATTTCCGCATTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
4610168 CATTTTCGCGTTGCGAT
1 CA-TTTCGCATTGCGAT
4610185 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:4612070 original size:14 final size:14
Alignment explanation
Indices: 4612051--4612086 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4612041 ATTGTTTAAT
4612051 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4612065 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4612079 TGATTTGT
1 TGATTTGT
4612087 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4612225 original size:19 final size:19
Alignment explanation
Indices: 4612203--4612289 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
4612193 ATCGCAACGA
*
4612203 GAAAATAGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4612222 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4612241 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4612260 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4612274 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4612290 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 48 0.75
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4612254 original size:38 final size:33
Alignment explanation
Indices: 4612174--4612289 Score: 142
Period size: 33 Copynumber: 3.4 Consensus size: 33
4612164 AAAACAGATT
* ***
4612174 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
4612207 ATAGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAA
4612245 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
4612278 ATCGCAATGCGA
1 ATCGCAATGCGA
4612290 TTTTCATTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
33 37 0.51
34 1 0.01
35 2 0.03
36 2 0.03
37 1 0.01
38 29 0.40
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:4612340 original size:20 final size:20
Alignment explanation
Indices: 4612308--4612385 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
4612298 TCGCATTGCG
*
4612308 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
4612328 ATCTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4612348 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4612368 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
4612386 TCAAATGAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.36
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:4613469 original size:24 final size:24
Alignment explanation
Indices: 4613442--4613495 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4613432 GTATTCGAAA
* *
4613442 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
4613466 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
4613490 TTTGAT
1 TTTGAT
4613496 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:4613687 original size:12 final size:12
Alignment explanation
Indices: 4613670--4613694 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4613660 ATATAATCCT
4613670 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4613682 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4613694 G
1 G
4613695 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4616026 original size:33 final size:33
Alignment explanation
Indices: 4615979--4616105 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
4615969 GGAAATTACT
4615979 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
4616012 ATCGCAATGTGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
4616044 TTTCACAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4616078 ATCGCAATGTGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4616106 CGAATTTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
32 1 0.01
33 78 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4616065 original size:66 final size:66
Alignment explanation
Indices: 4615983--4616112 Score: 242
Period size: 66 Copynumber: 2.0 Consensus size: 66
4615973 ATTACTATCG
*
4615983 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGTGAAATGAAAATCGCAACGCTAATTTC
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGTGAAATGAAAATCGCAACGCGAATTTC
4616048 A
66 A
*
4616049 CAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGTGAAATGAAAATCGCAACGCGAATTT
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGTGAAATGAAAATCGCAACGCGAATTT
4616113 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.18
Consensus pattern (66 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGTGAAATGAAAATCGCAACGCGAATTTC
A
Found at i:4616156 original size:33 final size:33
Alignment explanation
Indices: 4616105--4616194 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
4616095 AAATCGCAAC
* *
4616105 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
4616138 GCGATTTTCATTTCGCGTTGTGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
* * *
4616171 GCTATTTTCATTTTGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
4616195 AGTACTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Done.