Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008296.1 Hibiscus syriacus cultivar Beakdansim tig00110963_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: 1205179
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:777088 original size:2 final size:2
Alignment explanation
Indices: 777081--777280 Score: 84
Period size: 2 Copynumber: 102.0 Consensus size: 2
777071 TAATGCATAC
* * *
777081 AT AT AT AT ACT AT AT -T A- AT AT AA AT -T AT A- AC AT AT AA ACT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
777121 AT AT AT -T TT AT AT AGT TT AT AC AT AT AT AGT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
777164 AT AT ACT AT AGT TT AC AT AA AT AT A- AT TT AT AT AT AT AGT TT
1 AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
777206 AT A- AT A- AT -T AT AT AGT TT AT A- AT AT AA AT AT AGT TT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
*
777246 AT A- AT -T TT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
777281 TATTTTTTTC
Statistics
Matches: 147, Mismatches: 29, Indels: 44
0.67 0.13 0.20
Matches are distributed among these distances:
1 13 0.09
2 123 0.84
3 11 0.07
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:777149 original size:15 final size:15
Alignment explanation
Indices: 777129--777164 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
777119 CTATATATTT
777129 TATATAGTTTATACA
1 TATATAGTTTATACA
*
777144 TATATAGTTTATATA
1 TATATAGTTTATACA
777159 TATATA
1 TATATA
777165 TATACTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:777243 original size:36 final size:38
Alignment explanation
Indices: 777192--777275 Score: 120
Period size: 36 Copynumber: 2.3 Consensus size: 38
777182 AAATATAATT
777192 TATATATATAGTTTATA-ATAATTATATAGTT-TATA-A
1 TATATATATAGTTTATATATAATTATATA-TTATATATA
* *
777228 TATAAATATAGTTTATATATAATTTTATATTATATATA
1 TATATATATAGTTTATATATAATTATATATTATATATA
777266 TATATATATA
1 TATATATATA
777276 TATATTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 18 0.43
37 14 0.33
38 10 0.24
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (38 bp):
TATATATATAGTTTATATATAATTATATATTATATATA
Found at i:782903 original size:12 final size:12
Alignment explanation
Indices: 782886--782919 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
782876 TAAAAGACTG
782886 GCCTGTTTAAAA
1 GCCTGTTTAAAA
*
782898 GCCTGTTTAAAG
1 GCCTGTTTAAAA
782910 GCCTGTTTAA
1 GCCTGTTTAA
782920 CAATAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (12 bp):
GCCTGTTTAAAA
Found at i:783969 original size:5 final size:5
Alignment explanation
Indices: 783961--783993 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
783951 TTTCAATTTG
783961 TTTAA TTT-A TTTCAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTT-AA TTTAA TTTAA TTTAA TTT
783994 TTTGTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:791100 original size:31 final size:31
Alignment explanation
Indices: 791065--791139 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
791055 ATTTGTATAC
* * **
791065 TTTTGGTCACTTGCGTTGTTGTTTTATTAAG
1 TTTTGGTCACTTGCATTATCATTTTATTAAG
* *
791096 TTTTGATCACTTACATTATCATTTTATTAAG
1 TTTTGGTCACTTGCATTATCATTTTATTAAG
791127 TTTTGGTCACTTG
1 TTTTGGTCACTTG
791140 GAAATTAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (31 bp):
TTTTGGTCACTTGCATTATCATTTTATTAAG
Found at i:797014 original size:31 final size:31
Alignment explanation
Indices: 796979--797046 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
796969 TTCAAAATAC
* *
796979 AAGTGTCCAAAACTTAATAAAATGATAACGT
1 AAGTGACCAAAACTTAATAAAATAATAACGT
797010 AAGTGACCAAAACTTAATAAAATAATAACGT
1 AAGTGACCAAAACTTAATAAAATAATAACGT
797041 AAGTGA
1 AAGTGA
797047 TTAAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.24
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAATAATAACGT
Found at i:807968 original size:31 final size:30
Alignment explanation
Indices: 807930--808027 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
807920 TTATAAAGAC
* *
807930 CAAAATAGAGAAAAACAAAAACTTTAAGGA
1 CAAAATAGAAAAAAATAAAAACTTTAAGGA
* * * *
807960 TCAAAATAG-CAAAAATAGAAAGTTAAAGGA
1 -CAAAATAGAAAAAAATAAAAACTTTAAGGA
807990 CTAAAATAGAAAAAAATAAAAAC-TTAAGGGA
1 C-AAAATAGAAAAAAATAAAAACTTTAA-GGA
808021 CTAAAAT
1 C-AAAAT
808028 GGCATTAACA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
29 1 0.02
30 26 0.47
31 28 0.51
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.16
Consensus pattern (30 bp):
CAAAATAGAAAAAAATAAAAACTTTAAGGA
Found at i:809246 original size:3 final size:3
Alignment explanation
Indices: 809228--809314 Score: 92
Period size: 3 Copynumber: 29.7 Consensus size: 3
809218 CTACAAAGTG
*
809228 TAA TATA TATA TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA TAA TAG
1 TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
809273 TAA TAA TAA TAA TAA TAC T-A TTA TAA TAA CAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
809315 TTTTTTAAGC
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
2 7 0.10
3 58 0.81
4 7 0.10
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:809753 original size:131 final size:131
Alignment explanation
Indices: 809509--809853 Score: 444
Period size: 131 Copynumber: 2.6 Consensus size: 131
809499 GGGTCGCACA
* *
809509 GTTCCTACGTGATGAGGACTATTAGTTATCTAAAGGATGACACGACTCCTACGTGATGAGGAGAT
1 GTTCCTACGTGATGAGGACAATTGGTTATCT-AAGGATGACACGACTCCTACGTGATGAGGAGAT
* * *
809574 CTCGTCG-GTGGATGACAATGTTCCTACATGATGAGAACGGCAGACCATCATTAAGG-ATGATAA
65 CTGGTCGAG-GGATGACAAGGTTCCTACATGATGAGAACGACAGACCATCATT-AGGTATGATAA
809637 CACG
128 CACG
* * * * *
809641 GTTCCTACGTGATGAGGACAACTGGTTATCTAAGGTTGACATGACTCCTACGAGATGAGGAGGTC
1 GTTCCTACGTGATGAGGACAATTGGTTATCTAAGGATGACACGACTCCTACGTGATGAGGAGATC
* * *
809706 TGGTCGAGGGATGACACGGTTCCTACATGATGAGGACGACATG-CCATCGTTAGGTATGATAACA
66 TGGTCGAGGGATGACAAGGTTCCTACATGATGAGAACGACA-GACCATCATTAGGTATGATAACA
809770 CG
130 CG
* ** * * *
809772 GTTCATACGTGATGAGGACGTTTGGTTATCTAAGGGTGACACAACTCTTACGTGATGAGGAGATC
1 GTTCCTACGTGATGAGGACAATTGGTTATCTAAGGATGACACGACTCCTACGTGATGAGGAGATC
* *
809837 TGGTCGATGGATTACAA
66 TGGTCGAGGGATGACAA
809854 TGTTTGTTGT
Statistics
Matches: 184, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
130 3 0.02
131 151 0.82
132 30 0.16
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (131 bp):
GTTCCTACGTGATGAGGACAATTGGTTATCTAAGGATGACACGACTCCTACGTGATGAGGAGATC
TGGTCGAGGGATGACAAGGTTCCTACATGATGAGAACGACAGACCATCATTAGGTATGATAACAC
G
Found at i:818356 original size:13 final size:13
Alignment explanation
Indices: 818338--818387 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
818328 TTCAGACATT
*
818338 TTTATTTAAATGA
1 TTTATTTAAATTA
*
818351 TTTATTTAATTTA
1 TTTATTTAAATTA
818364 TTGATATTTAAAATTA
1 TT--TATTT-AAATTA
818380 TTTATTTA
1 TTTATTTA
818388 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 14 0.45
14 5 0.16
15 5 0.16
16 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (13 bp):
TTTATTTAAATTA
Found at i:818372 original size:28 final size:28
Alignment explanation
Indices: 818340--818393 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
818330 CAGACATTTT
818340 TATTT-AAATGATTTATTTAATTTATTGA
1 TATTTAAAATGATTTATTT-ATTTATTGA
*
818368 TATTTAAAATTATTTATTTATTTATT
1 TATTTAAAATGATTTATTTATTTATT
818394 TTCATTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
TATTTAAAATGATTTATTTATTTATTGA
Found at i:818400 original size:28 final size:27
Alignment explanation
Indices: 818337--818400 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
818327 TTTCAGACAT
818337 TTTTATTTAAATGATTTATTTAATTTA
1 TTTTATTTAAATGATTTATTTAATTTA
* *
818364 TTGATATTTAAAATTATTTATTT-ATTTA
1 TT-TTATTT-AAATGATTTATTTAATTTA
818392 TTTTCATTT
1 TTTT-ATTT
818401 TGAAAAAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 16 0.52
29 12 0.39
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTATTTAAATGATTTATTTAATTTA
Found at i:820915 original size:22 final size:21
Alignment explanation
Indices: 820889--820937 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
820879 TACCAAATAT
820889 TTTTAATTAATTATCTTCAAA
1 TTTTAATTAATTATCTTCAAA
* * *
820910 TATTTAATTATTTATTTTTAAA
1 T-TTTAATTAATTATCTTCAAA
820932 TTTTAA
1 TTTTAA
820938 ATACATTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAATTAATTATCTTCAAA
Found at i:823752 original size:184 final size:184
Alignment explanation
Indices: 823443--823811 Score: 738
Period size: 184 Copynumber: 2.0 Consensus size: 184
823433 TGAAGCTTGT
823443 TCAACTTCATTCAAGAATTGAAGTCGGGGTTTCATTGGCGTATCGGTATTAATAGTAATGTCCCT
1 TCAACTTCATTCAAGAATTGAAGTCGGGGTTTCATTGGCGTATCGGTATTAATAGTAATGTCCCT
823508 ATGCATGGTGCTAATTGGGGTGGCCTTCATCCAGTTCAACTTGAATCTTCTTGTCTGGATAATTC
66 ATGCATGGTGCTAATTGGGGTGGCCTTCATCCAGTTCAACTTGAATCTTCTTGTCTGGATAATTC
823573 TGTGAAACCTATACTTTGCGGTGAGTTCATGTTACCGAACCTTGCTCGTTGGAA
131 TGTGAAACCTATACTTTGCGGTGAGTTCATGTTACCGAACCTTGCTCGTTGGAA
823627 TCAACTTCATTCAAGAATTGAAGTCGGGGTTTCATTGGCGTATCGGTATTAATAGTAATGTCCCT
1 TCAACTTCATTCAAGAATTGAAGTCGGGGTTTCATTGGCGTATCGGTATTAATAGTAATGTCCCT
823692 ATGCATGGTGCTAATTGGGGTGGCCTTCATCCAGTTCAACTTGAATCTTCTTGTCTGGATAATTC
66 ATGCATGGTGCTAATTGGGGTGGCCTTCATCCAGTTCAACTTGAATCTTCTTGTCTGGATAATTC
823757 TGTGAAACCTATACTTTGCGGTGAGTTCATGTTACCGAACCTTGCTCGTTGGAA
131 TGTGAAACCTATACTTTGCGGTGAGTTCATGTTACCGAACCTTGCTCGTTGGAA
823811 T
1 T
823812 GTGTCGTTGC
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 185 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (184 bp):
TCAACTTCATTCAAGAATTGAAGTCGGGGTTTCATTGGCGTATCGGTATTAATAGTAATGTCCCT
ATGCATGGTGCTAATTGGGGTGGCCTTCATCCAGTTCAACTTGAATCTTCTTGTCTGGATAATTC
TGTGAAACCTATACTTTGCGGTGAGTTCATGTTACCGAACCTTGCTCGTTGGAA
Found at i:826660 original size:23 final size:23
Alignment explanation
Indices: 826634--826716 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
826624 GATCAGTGTA
*
826634 TTTGTGCACTCCTATATCAATGC
1 TTTGCGCACTCCTATATCAATGC
*
826657 TTTGCGTACTCCTATATCAATGC
1 TTTGCGCACTCCTATATCAATGC
* *
826680 TTTGCGTACTCATATATCAATGC
1 TTTGCGCACTCCTATATCAATGC
*
826703 TTTGTGCACTCCTA
1 TTTGCGCACTCCTA
826717 CATTAGTGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (23 bp):
TTTGCGCACTCCTATATCAATGC
Found at i:826758 original size:24 final size:25
Alignment explanation
Indices: 826731--826786 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
826721 AGTGCAATTT
826731 TGCACTCCTGAAT-TAGTACATTCA
1 TGCACTCCTGAATCTAGTACATTCA
* * *
826755 TGCACTCCTTATTCTAGTACTTTCA
1 TGCACTCCTGAATCTAGTACATTCA
*
826780 TGTACTC
1 TGCACTC
826787 ATGTGTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (25 bp):
TGCACTCCTGAATCTAGTACATTCA
Found at i:827140 original size:3 final size:3
Alignment explanation
Indices: 827134--827178 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
827124 ACAGTACATG
827134 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
827179 GTTTTACAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:827465 original size:15 final size:15
Alignment explanation
Indices: 827445--827478 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
827435 GTTGTGCTAA
827445 AATATGA-AATAATAT
1 AATATGAGAA-AATAT
827460 AATATGAGAAAATAT
1 AATATGAGAAAATAT
827475 AATA
1 AATA
827479 AAGAGGGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
AATATGAGAAAATAT
Found at i:830554 original size:65 final size:65
Alignment explanation
Indices: 830417--830576 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 65
830407 TGCACTAAGA
* *
830417 GTGCAACGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
** * * *
830481 GTATATCGATGCATCAAATGCATTCTATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
*
830543 TAT
64 T-G
*
830546 GTGCATCGATGCATGACATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
830577 CAATTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
64 26 0.33
65 50 0.63
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:830618 original size:65 final size:64
Alignment explanation
Indices: 830423--830624 Score: 182
Period size: 65 Copynumber: 3.1 Consensus size: 64
830413 AAGAGTGCAA
* * * *
830423 CGATGCATGAAATGCATTCGATGTTTCAAAATAGCCA-GAGTGCATCGATGCATGGCTGGTATAT
1 CGATGCATGAAATGCATTCGATGTTTC-AATTAACCATGAGTGCATCGATGCATGGTTGGTACAT
* * * * *
830487 CGATGCATCAAATGCATTCTATGTTTTC-ATAAAACTC-TGAGTGCATCGATGCATAGTAT-GTG
1 CGATGCATGAAATGCATTCGATG-TTTCAAT-TAAC-CATGAGTGCATCGATGCATGGT-TGGTA
830549 CAT
62 CAT
* *
830552 CGATGCATGACATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGATTGGTAC
1 CGATGCATGAAATGCATTCGATGTTTCAA-TTA-ACCATGAGTGCATCGATGCATGG-TTGGTAC
830615 AT
63 AT
*
830617 CGGTGCAT
1 CGATGCAT
830625 CACTTTGAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
63 4 0.04
64 42 0.38
65 63 0.57
66 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
CGATGCATGAAATGCATTCGATGTTTCAATTAACCATGAGTGCATCGATGCATGGTTGGTACAT
Found at i:839178 original size:65 final size:65
Alignment explanation
Indices: 839045--839203 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 65
839035 GCACTAAGAG
** **
839045 TGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGG
1 TGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCACAGCTCA
* * *
839109 TGCATCGATGCATCAAATGCATTCGTTGTTTTCATAAA-A-CTCTGAGTGCATCGATGCACCAGC
1 TGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCA-CAGC
839172 -CA
63 TCA
*
839174 TGCATCGATGCATGACATGCATTCGATGTT
1 TGCATCGATGCATGAAATGCATTCGATGTT
839204 CAATTTATTC
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 27 0.33
65 49 0.60
66 5 0.06
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCACAGCTCA
Found at i:845678 original size:21 final size:21
Alignment explanation
Indices: 845652--845692 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
845642 TCACAAATCC
845652 TTTATAGCTTGCATTGTGCCA
1 TTTATAGCTTGCATTGTGCCA
845673 TTTATAGCTTGCATTGTGCC
1 TTTATAGCTTGCATTGTGCC
845693 TAATAGCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (21 bp):
TTTATAGCTTGCATTGTGCCA
Found at i:845700 original size:19 final size:20
Alignment explanation
Indices: 845655--845700 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
845645 CAAATCCTTT
*
845655 ATAGCTTGCATTGTGCCATTT
1 ATAGCTTGCATTGTGCCA-TA
845676 ATAGCTTGCATTGTGCC-TA
1 ATAGCTTGCATTGTGCCATA
845695 ATAGCT
1 ATAGCT
845701 GCCTAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
21 17 0.71
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
ATAGCTTGCATTGTGCCATA
Found at i:847627 original size:57 final size:57
Alignment explanation
Indices: 847534--847644 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
847524 TACTCCTGAA
* *
847534 ACCAACCACCACCTCTACTCGGACAATCGGTGGTACAAAGAGGAAAAAGAAATGACG
1 ACCAACCACCACCGCTACTCAGACAATCGGTGGTACAAAGAGGAAAAAGAAATGACG
* *
847591 ACCAACCACCACCGCTACTCAGACGATCGGTTGTACAAAGAGGAAAAAGAAATG
1 ACCAACCACCACCGCTACTCAGACAATCGGTGGTACAAAGAGGAAAAAGAAATG
847645 GCAACGATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.41, C:0.26, G:0.21, T:0.13
Consensus pattern (57 bp):
ACCAACCACCACCGCTACTCAGACAATCGGTGGTACAAAGAGGAAAAAGAAATGACG
Found at i:851499 original size:3 final size:3
Alignment explanation
Indices: 851493--851547 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
851483 CTCCATTTTC
* *
851493 TAT TAT TAT T-T ATAT TAT TAT TAT TAT TAT T-T TAT TTT TAT TAA
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
851537 AAT TAT TAT TA
1 TAT TAT TAT TA
851548 CAAACGGGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 39 0.91
4 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:851997 original size:24 final size:25
Alignment explanation
Indices: 851956--852012 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
851946 CCCAACCTGC
*** *
851956 AAAGAAAAAAACGGCAACCAAC-AG
1 AAAGAAAAAAAAAACAACAAACAAG
851980 AAAGAAAAAAAAAACAACAAACAAG
1 AAAGAAAAAAAAAACAACAAACAAG
852005 AAA-AAAAA
1 AAAGAAAAA
852013 CGAGCAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.75, C:0.14, G:0.11, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAAAAAACAACAAACAAG
Found at i:853801 original size:30 final size:28
Alignment explanation
Indices: 853767--853824 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
853757 TAATTCTTTC
*
853767 TTTTCAAAATTTTTATATATATTTTTATTA
1 TTTTCAAAATATTTATAT-TA-TTTTATTA
*
853797 TTTTCATAATATTTATATTATTTTATTA
1 TTTTCAAAATATTTATATTATTTTATTA
853825 ATGATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 2 0.08
30 16 0.62
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTCAAAATATTTATATTATTTTATTA
Found at i:853808 original size:20 final size:21
Alignment explanation
Indices: 853775--853820 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
853765 TCTTTTCAAA
* *
853775 ATTTTTATATATATTTTTATT
1 ATTTTCATATATATTTATATT
853796 ATTTTCATA-ATATTTATATT
1 ATTTTCATATATATTTATATT
853816 ATTTT
1 ATTTT
853821 ATTAATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTCATATATATTTATATT
Found at i:853826 original size:20 final size:20
Alignment explanation
Indices: 853775--853843 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
853765 TCTTTTCAAA
* *
853775 ATTTTTATATATATTTTTATT
1 ATTTTCATA-ATATTTATATT
853796 ATTTTCATAATATTTATATT
1 ATTTTCATAATATTTATATT
*
853816 ATTTT-ATTAATGATTTATTTT
1 ATTTTCA-TAAT-ATTTATATT
*
853837 TTTTTCA
1 ATTTTCA
853844 AGTATTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.02
20 19 0.46
21 20 0.49
22 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (20 bp):
ATTTTCATAATATTTATATT
Found at i:853841 original size:21 final size:20
Alignment explanation
Indices: 853785--853833 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
853775 ATTTTTATAT
*
853785 ATATTTTTATTATTTTCA-TA
1 ATATTTATATTATTTT-ATTA
853805 ATATTTATATTATTTTATTA
1 ATATTTATATTATTTTATTA
853825 ATGATTTAT
1 AT-ATTTAT
853834 TTTTTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 19 0.73
21 6 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATATTTATATTATTTTATTA
Found at i:864858 original size:19 final size:17
Alignment explanation
Indices: 864816--864864 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
864806 TATTTTCTTT
864816 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
864832 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
864850 AAAATTCAATTTATT
1 -AAATTCAATTTATT
864865 CTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 3 0.11
18 1 0.04
19 13 0.46
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:865357 original size:114 final size:114
Alignment explanation
Indices: 865157--865493 Score: 593
Period size: 114 Copynumber: 3.0 Consensus size: 114
865147 TACCACGTTA
865157 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
* *
865222 TTTGGTATGAACCCAAAAACCAATCATTGGATTTGAAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
865271 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
865336 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
* *
865385 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
* * * * *
865450 TTCGGTAGGAACCACAGAACCAATCATTAGAATTGAAAGATGAA
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
865494 CTGCATGATC
Statistics
Matches: 214, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 214 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (114 bp):
TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
Found at i:866720 original size:114 final size:110
Alignment explanation
Indices: 866459--866862 Score: 436
Period size: 114 Copynumber: 3.5 Consensus size: 110
866449 TTCCAGTTCG
866459 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-A-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * *
866524 AACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAG
64 AACCTTTTG-CTAAATCCATCACTTGATGGATCAACATTTCCAGAG-AA
*
866572 AGTTCATAATGAGAAGAAATCGTCATCTGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGT
1 AGTTCATAATGAGAAG-AA-C-TCATCTGAAG-AGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* *
866637 TCAACCTTTTGCTAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
62 TCAACCTTTTGCTAAATCCATCACTTGATGGATCAACATTTCCAGAGAA
* **
866686 AGTTCATAATGAGAAGAACTCATCTG-A-AGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
* * * * *
866749 CCTTTTGCATAATTCTATCACAGAAAGAGATAGATTAGCATCAACCTTTCCAGAGAA
66 CCTTTTGC-TAAATCCATCAC---------TTGA-T-GGATCAACATTTCCAGAGAA
866806 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AG-AAGAAGAAGTTCATAATGAGAAGA
866863 GCATATTCAA
Statistics
Matches: 251, Mismatches: 20, Indels: 29
0.84 0.07 0.10
Matches are distributed among these distances:
108 40 0.16
109 10 0.04
110 1 0.00
111 7 0.03
112 1 0.00
113 18 0.07
114 46 0.18
115 43 0.17
116 12 0.05
118 3 0.01
119 1 0.00
120 43 0.17
121 1 0.00
123 2 0.01
124 23 0.09
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (110 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
CCTTTTGCTAAATCCATCACTTGATGGATCAACATTTCCAGAGAA
Found at i:866894 original size:124 final size:124
Alignment explanation
Indices: 866675--866967 Score: 377
Period size: 124 Copynumber: 2.4 Consensus size: 124
866665 TGGATCAGCT
866675 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT---GAAG-AAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGA
* * ** * * * *
866736 AGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAAGAGATAGATTAGCATCAACC
66 AGAGCATATTCAACCTTTTAAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
*
866795 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGA
* * * *
866860 AGAGCATATTCAACCTTTTAAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC
66 AGAGCATATTCAACCTTTTAAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
* * *
866919 ---CCAGCGGAAAGTTCATAATAAGAAGAACTCATCTGAAGAA-AGAGAAGAA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
866968 TTTATTCAAC
Statistics
Matches: 152, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
120 36 0.24
121 12 0.08
122 33 0.22
123 4 0.03
124 67 0.44
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.23
Consensus pattern (124 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGA
AGAGCATATTCAACCTTTTAAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
Found at i:867115 original size:3 final size:3
Alignment explanation
Indices: 867109--867155 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
867099 CTCCATTTTC
* *
867109 TAT TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAA AAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
867154 TA
1 TA
867156 CAAACGGGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.95
4 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:867155 original size:12 final size:12
Alignment explanation
Indices: 867109--867155 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
867099 CTCCATTTTC
*
867109 TATTATTATTTA
1 TATTATTATTAA
*
867121 TATTATTATTAT
1 TATTATTATTAA
867133 TATTATTATTAA
1 TATTATTATTAA
*
867145 AATTATTATTA
1 TATTATTATTA
867156 CAAACGGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:867589 original size:19 final size:20
Alignment explanation
Indices: 867567--867604 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
867557 GGCAACCAAC
867567 AGAAAAAAAACAA-CAAACA
1 AGAAAAAAAACAAGCAAACA
867586 AGAAAAAAAACAAGCAAAC
1 AGAAAAAAAACAAGCAAAC
867605 CAGCAACCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.76, C:0.16, G:0.08, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAACAAGCAAACA
Found at i:868725 original size:26 final size:28
Alignment explanation
Indices: 868696--868753 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 28
868686 TAAAATTAAA
868696 TATTATAAAAAATTATAAT-TTAAT-TT
1 TATTATAAAAAATTATAATGTTAATATT
** *
868722 TATT-TAAATTATTATATTGTTAATATT
1 TATTATAAAAAATTATAATGTTAATATT
868749 TATTA
1 TATTA
868754 ATATCGAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 11 0.42
26 9 0.35
27 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
TATTATAAAAAATTATAATGTTAATATT
Found at i:871524 original size:32 final size:32
Alignment explanation
Indices: 871479--871552 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
871469 TCATTAATGT
* * * *
871479 CTCGAGTCGAGCTCTAATTTGTGTTGGGTCAA
1 CTCGAGTCAAGCTCGAATTTGAGTTGAGTCAA
* *
871511 CTCGAATCAAGCTCGAGTTTGAGTTGAGTCAA
1 CTCGAGTCAAGCTCGAATTTGAGTTGAGTCAA
871543 CTCGAGTCAA
1 CTCGAGTCAA
871553 TCTTTTATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (32 bp):
CTCGAGTCAAGCTCGAATTTGAGTTGAGTCAA
Found at i:877500 original size:16 final size:16
Alignment explanation
Indices: 877458--877502 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
877448 GGTATTACTC
* *
877458 GACCTGTTTTCAACCT
1 GACCTGTTTTTAAACT
*
877474 AACCTGTTTTTAAACT
1 GACCTGTTTTTAAACT
877490 GACCTGTTTTTAA
1 GACCTGTTTTTAA
877503 CGTGACTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (16 bp):
GACCTGTTTTTAAACT
Found at i:877508 original size:16 final size:15
Alignment explanation
Indices: 877458--877508 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
877448 GGTATTACTC
*
877458 GACCTGTTTTCAACCT
1 GACCTGTTTTTAA-CT
*
877474 AACCTGTTTTTAAACT
1 GACCTGTTTTT-AACT
877490 GACCTGTTTTTAACGT
1 GACCTGTTTTTAAC-T
877506 GAC
1 GAC
877509 TTGTAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 3 0.10
16 25 0.83
17 2 0.07
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (15 bp):
GACCTGTTTTTAACT
Found at i:877814 original size:23 final size:24
Alignment explanation
Indices: 877780--877829 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
877770 ATGAAAAGGA
877780 AAATTAATATAGTTTAAATTATAT
1 AAATTAATATAGTTTAAATTATAT
*
877804 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAAATTATAT
877827 AAA
1 AAA
877830 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTAATATAGTTTAAATTATAT
Found at i:878012 original size:7 final size:7
Alignment explanation
Indices: 877996--878047 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
877986 TACATTAGGC
877996 TTTATGG
1 TTTATGG
*
878003 TTTATTG
1 TTTATGG
878010 TTTACT-G
1 TTTA-TGG
878017 TTTATGG
1 TTTATGG
*
878024 TTTAAGG
1 TTTATGG
*
878031 TTTAGGG
1 TTTATGG
*
878038 TTTAAGG
1 TTTATGG
878045 TTT
1 TTT
878048 CTATAAACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 1 0.03
7 37 0.95
8 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.25, T:0.56
Consensus pattern (7 bp):
TTTATGG
Found at i:878033 original size:14 final size:14
Alignment explanation
Indices: 877996--878047 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
877986 TACATTAGGC
* *
877996 TTTATGGTTTATTG
1 TTTAAGGTTTATGG
**
878010 TTTACTGTTTATGG
1 TTTAAGGTTTATGG
*
878024 TTTAAGGTTTAGGG
1 TTTAAGGTTTATGG
878038 TTTAAGGTTT
1 TTTAAGGTTT
878048 CTATAAACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.17, C:0.02, G:0.25, T:0.56
Consensus pattern (14 bp):
TTTAAGGTTTATGG
Found at i:878040 original size:21 final size:21
Alignment explanation
Indices: 877990--878047 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
877980 TCCATTTACA
* **
877990 TTAGGCTTTATGGTTTATTGT
1 TTAGGGTTTATGGTTTAAGGT
**
878011 TTACTGTTTATGGTTTAAGGT
1 TTAGGGTTTATGGTTTAAGGT
*
878032 TTAGGGTTTAAGGTTT
1 TTAGGGTTTATGGTTT
878048 CTATAAACTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAAGGT
Found at i:878553 original size:14 final size:13
Alignment explanation
Indices: 878509--878561 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
878499 TCCATTTATA
878509 TTAGGGTTTAGTAT
1 TTAGGGTTTAG-AT
* *
878523 TTATGGTTTAAAGT
1 TTAGGGTTTAGA-T
878537 TTAGGGTTTATGAT
1 TTAGGGTTTA-GAT
*
878551 TTAAGGTTTAG
1 TTAGGGTTTAG
878562 GGTTTCTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 2 0.06
14 29 0.91
15 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (13 bp):
TTAGGGTTTAGAT
Found at i:878563 original size:21 final size:21
Alignment explanation
Indices: 878513--878566 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
878503 TTTATATTAG
** *
878513 GGTTTAGTATTTATGGTTTAA
1 GGTTTAGGGTTTATGATTTAA
*
878534 AGTTTAGGGTTTATGATTTAA
1 GGTTTAGGGTTTATGATTTAA
878555 GGTTTAGGGTTT
1 GGTTTAGGGTTT
878567 CTATAAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (21 bp):
GGTTTAGGGTTTATGATTTAA
Found at i:878726 original size:7 final size:7
Alignment explanation
Indices: 878707--878757 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
878697 ACATATATAA
878707 TTTAGGG
1 TTTAGGG
878714 -TTAGGG
1 TTTAGGG
878720 TTTAGGG
1 TTTAGGG
878727 TTTAGGG
1 TTTAGGG
878734 TTTAGGG
1 TTTAGGG
* *
878741 TTAAAGG
1 TTTAGGG
878748 TTTAGGG
1 TTTAGGG
878755 TTT
1 TTT
878758 TATAAACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:879944 original size:7 final size:7
Alignment explanation
Indices: 879910--879943 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
879900 TATAGTTCAG
879910 GGTTTAA
1 GGTTTAA
879917 GGTTTAA
1 GGTTTAA
*
879924 GGTTAAA
1 GGTTTAA
*
879931 GGTTTAG
1 GGTTTAA
879938 GGTTTA
1 GGTTTA
879944 GTTTTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.41
Consensus pattern (7 bp):
GGTTTAA
Found at i:880122 original size:4 final size:4
Alignment explanation
Indices: 880113--880183 Score: 142
Period size: 4 Copynumber: 17.8 Consensus size: 4
880103 AGTTTATACA
880113 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
880161 CACG CACG CACG CACG CACG CAC
1 CACG CACG CACG CACG CACG CAC
880184 AAACACAAAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.25, C:0.51, G:0.24, T:0.00
Consensus pattern (4 bp):
CACG
Found at i:880199 original size:4 final size:4
Alignment explanation
Indices: 880192--880239 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
880182 ACAAACACAA
880192 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
880240 TTAAATTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:880445 original size:20 final size:20
Alignment explanation
Indices: 880398--880473 Score: 93
Period size: 19 Copynumber: 3.9 Consensus size: 20
880388 ATCTCAATTC
*
880398 TCAATTTCCCTCCAAATTTT
1 TCAATTTCCCTCTAAATTTT
* *
880418 TCTA-TTCCTTCTAAATTTT
1 TCAATTTCCCTCTAAATTTT
*
880437 TCAATTTCCCTCTAAA-TTC
1 TCAATTTCCCTCTAAATTTT
*
880456 TAAATTTCCCTCTAAATT
1 TCAATTTCCCTCTAAATT
880474 CCCAAATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 33 0.70
20 14 0.30
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (20 bp):
TCAATTTCCCTCTAAATTTT
Found at i:880781 original size:20 final size:20
Alignment explanation
Indices: 880768--880982 Score: 156
Period size: 20 Copynumber: 10.8 Consensus size: 20
880758 GCAACACATA
880768 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
880788 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* * *
880808 AGTCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACGCGAT
880828 AGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACGCGAT
* *
880848 AGTCAAATTCGTAATGCGAAT
1 AGTCAAATTCGCAACGCG-AT
* *
880869 CTGT-AAA-TCGCAATGCGAAT
1 -AGTCAAATTCGCAACGCG-AT
* * *
880889 CTGT-AAA-TCACAATGCGAATT
1 -AGTCAAATTCGCAACGCG-A-T
* * *
880910 TGT-AAA-TCGTAACACAGA-
1 AGTCAAATTCGCAACGC-GAT
*
880928 AGTCAAATTCGCAACGTGAT
1 AGTCAAATTCGCAACGCGAT
* * * *
880948 AGTCAAATTCGTAACACAAA
1 AGTCAAATTCGCAACGCGAT
880968 AGTCAAATTCGCAAC
1 AGTCAAATTCGCAAC
880983 TCAGAATTTC
Statistics
Matches: 163, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
18 2 0.01
19 5 0.03
20 147 0.90
21 7 0.04
22 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (20 bp):
AGTCAAATTCGCAACGCGAT
Found at i:880880 original size:60 final size:59
Alignment explanation
Indices: 880711--880881 Score: 220
Period size: 60 Copynumber: 2.8 Consensus size: 59
880701 AAATGACCAA
* * * *
880711 CAAATTCGCAACGCGA-ACTCCAATTTCGTAACGTGAATTTGTAAATCGCAACACATAAGT
1 CAAATTCGCAACGCGATAGT-CAAATTCGTAACGCGAA-TTGTAAATCGCAACACAAAAGT
* *
880771 CAAATTCGCAACGCGATAGTCAAATTCGCAACGCG-ATAGTCAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGTAACGCGAATTGT-AAA-TCGCAACACAAAAGT
*
880831 CAAATTCGCAACGCGATAGTCAAATTCGTAATGCGAATCTGTAAATCGCAA
1 CAAATTCGCAACGCGATAGTCAAATTCGTAACGCGAAT-TGTAAATCGCAA
880882 TGCGAATCTG
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
58 3 0.03
59 4 0.04
60 81 0.84
61 7 0.07
62 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (59 bp):
CAAATTCGCAACGCGATAGTCAAATTCGTAACGCGAATTGTAAATCGCAACACAAAAGT
Found at i:881010 original size:19 final size:19
Alignment explanation
Indices: 880970--881080 Score: 116
Period size: 19 Copynumber: 5.7 Consensus size: 19
880960 AACACAAAAG
880970 TCAAATTCGCAACTCAGAATT
1 TCAAATTCGCAACT--GAATT
880991 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
881010 TCAAATTCACAACTGAATT
1 TCAAATTCGCAACTGAATT
* *
881029 TCAAATTCGTAACTAGATTT
1 TCAAATTCGCAACT-GAATT
** *
881049 TTGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
881069 T-AATTTCGCAAC
1 TCAAATTCGCAAC
881081 AGGTTTTAGT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 44 0.57
20 19 0.25
21 14 0.18
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:881081 original size:19 final size:19
Alignment explanation
Indices: 881054--881100 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
881044 GATTTTTGAA
881054 TTCGCAACACGAATTTAAT
1 TTCGCAACACGAATTTAAT
** *
881073 TTCGCAACA-GGTTTTAGT
1 TTCGCAACACGAATTTAAT
881091 TTCGCAACAC
1 TTCGCAACAC
881101 AAATGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (19 bp):
TTCGCAACACGAATTTAAT
Found at i:881262 original size:16 final size:16
Alignment explanation
Indices: 881241--881274 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
881231 CATCTCTAAA
*
881241 TTGTTTTTACATAATT
1 TTGTTTCTACATAATT
*
881257 TTGTTTCTATATAATT
1 TTGTTTCTACATAATT
881273 TT
1 TT
881275 TCAATGATTT
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:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTGTTTCTACATAATT
Found at i:884720 original size:40 final size:39
Alignment explanation
Indices: 884676--884828 Score: 136
Period size: 40 Copynumber: 3.9 Consensus size: 39
884666 CAAACTGAAA
*
884676 ATCGCAACGCGAAATTGACTTTTGCGTTGCGAATTTGACT
1 ATCGCAACGCG-AATTGACTTTCGCGTTGCGAATTTGACT
884716 ATCGCAACGC---TT-A-TTTCGCGTTGCGAATTTGACT
1 ATCGCAACGCGAATTGACTTTCGCGTTGCGAATTTGACT
* * *** * *
884750 TTTGCATTACGAATTTGACTTTCGCATTGCGAATTTGACAAA
1 ATCGCAACGCGAA-TTGACTTTCGCGTTGCGAATTTGAC--T
* *
884792 ATCACAACGCGAATTTACCTTTCGCGTTGCGAATTTG
1 ATCGCAACGCGAATTGA-CTTTCGCGTTGCGAATTTG
884829 TACCTTCAAC
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
34 25 0.28
35 1 0.01
36 2 0.02
38 2 0.02
39 1 0.01
40 29 0.33
41 3 0.03
42 25 0.28
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (39 bp):
ATCGCAACGCGAATTGACTTTCGCGTTGCGAATTTGACT
Found at i:884764 original size:20 final size:20
Alignment explanation
Indices: 884729--884788 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
884719 GCAACGCTTA
* *
884729 TTTCGCGTTGCGAATTTGAC
1 TTTCGCATTACGAATTTGAC
*
884749 TTTTGCATTACGAATTTGAC
1 TTTCGCATTACGAATTTGAC
*
884769 TTTCGCATTGCGAATTTGAC
1 TTTCGCATTACGAATTTGAC
884789 AAAATCACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
TTTCGCATTACGAATTTGAC
Found at i:884964 original size:28 final size:28
Alignment explanation
Indices: 884932--884985 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
884922 ATAATTCTTA
*
884932 TTTACACATCAAATTAAACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
* **
884960 TTTACAAATCAACTTTTACAAATCAA
1 TTTACAAATCAAATTAAACAAATCAA
884986 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAATCAACT
Found at i:884964 original size:66 final size:70
Alignment explanation
Indices: 884882--885038 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 70
884872 AATTTAAAAC
884882 AACAAATCAACTTTTACAAATCAA-TT-AAA-C-AAACAA-AAAAATAATTCTTATTTACACATC
1 AACAAATCAACTTTTACAAATCAATTTAAAATCAAAACAACAAAAATAATTCTTATTTACACATC
884942 AAATTA
66 -AATTA
884948 AACAAATCAACTTTTACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAATAATTCTTATTT
1 AACAAATCAACTTTTACAAATCAA--TTTA-AAATC-A--AAACAA-CAAAAATAATTCTTATTT
* *
885013 CCTCATCAATTA
59 ACACATCAATTA
885025 AACAAATCAACTTT
1 AACAAATCAACTTT
885039 CAATGTAAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
66 24 0.31
69 2 0.03
71 3 0.04
72 1 0.01
76 6 0.08
77 19 0.25
78 22 0.29
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (70 bp):
AACAAATCAACTTTTACAAATCAATTTAAAATCAAAACAACAAAAATAATTCTTATTTACACATC
AATTA
Found at i:884966 original size:14 final size:14
Alignment explanation
Indices: 884949--884985 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
884939 ATCAAATTAA
884949 ACAAATCAACTTTT
1 ACAAATCAACTTTT
884963 ACAAATCAACTTTT
1 ACAAATCAACTTTT
884977 ACAAATCAA
1 ACAAATCAA
884986 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:886496 original size:21 final size:21
Alignment explanation
Indices: 886449--886496 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
886439 CTTGAACGAC
**
886449 AGGAGGGGCCTCTTCGATAAT
1 AGGAGGGGCCTCTTAAATAAT
886470 -GAGAGGGGCCTCTTAAATAAT
1 AG-GAGGGGCCTCTTAAATAAT
886491 AGGAGG
1 AGGAGG
886497 CACCTCTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.21
Consensus pattern (21 bp):
AGGAGGGGCCTCTTAAATAAT
Found at i:888689 original size:14 final size:14
Alignment explanation
Indices: 888670--888696 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
888660 ACGCGAAAAT
888670 GAAAATCGCAACGA
1 GAAAATCGCAACGA
888684 GAAAATCGCAACG
1 GAAAATCGCAACG
888697 CGATACTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.07
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:889127 original size:22 final size:22
Alignment explanation
Indices: 889101--889148 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
889091 AGAGATAGAA
*
889101 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCGCCGGAGATCGGGAC
*
889123 GGATTTCGTCGGAGATCGGGAC
1 GGATTTCGCCGGAGATCGGGAC
889145 GGAT
1 GGAT
889149 GTCACGTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.44, T:0.21
Consensus pattern (22 bp):
GGATTTCGCCGGAGATCGGGAC
Found at i:889306 original size:20 final size:20
Alignment explanation
Indices: 889283--889327 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
889273 TGACTTTTGT
*
889283 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCAC
*
889303 GTTGCGATTTACAGATTCAC
1 GTTGCGATTTACAAATTCAC
889323 GTTGC
1 GTTGC
889328 AAATATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:889368 original size:20 final size:20
Alignment explanation
Indices: 889285--889370 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
889275 ACTTTTGTGT
*
889285 TGCGATTTACAAATTCGCGT
1 TGCGATTTACAAATTCGCGA
* * *
889305 TGCGATTTACAGATTCACGT
1 TGCGATTTACAAATTCGCGA
* * ** * *
889325 TGCAAATATGGAAAATCGCAA
1 TGC-GATTTACAAATTCGCGA
*
889346 TGCGATTTACATATTCGCGA
1 TGCGATTTACAAATTCGCGA
889366 TGCGA
1 TGCGA
889371 AATTGGAAAC
Statistics
Matches: 47, Mismatches: 18, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
20 36 0.77
21 11 0.23
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (20 bp):
TGCGATTTACAAATTCGCGA
Found at i:889589 original size:13 final size:13
Alignment explanation
Indices: 889568--889631 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
889558 TAGTTTCTAA
*
889568 TATAAATATATTT
1 TATATATATATTT
*
889581 TATATATATAGTT
1 TATATATATATTT
**
889594 TATATATA-AACT
1 TATATATATATTT
*
889606 TATAT-TATA-TA
1 TATATATATATTT
889617 TATATATTATATTT
1 TATATA-TATATTT
889631 T
1 T
889632 TTCAAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
11 7 0.17
12 8 0.20
13 23 0.57
14 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TATATATATATTT
Found at i:889603 original size:30 final size:32
Alignment explanation
Indices: 889547--889622 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
889537 TATATATAAC
*
889547 TTATA-ATATTATAGTTTCTAATATAAA-TATA
1 TTATATATA-TATAGTTTATAATATAAACTATA
*
889578 TTTTATATATATAGTTTAT-ATATAAACTTATA
1 TTATATATATATAGTTTATAATATAAAC-TATA
889610 TTATATATATATA
1 TTATATATATATA
889623 TTATATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.18
31 13 0.33
32 19 0.49
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (32 bp):
TTATATATATATAGTTTATAATATAAACTATA
Found at i:889627 original size:30 final size:30
Alignment explanation
Indices: 889536--889628 Score: 83
Period size: 32 Copynumber: 3.2 Consensus size: 30
889526 TAAACATAAT
889536 TTATATAT-AACTTATA--ATAT-TATAGT-
1 TTATATATAAACTTATATTATATATATA-TA
* *
889562 TTCTAATATAAA--TATATTTTATATATATA
1 TTAT-ATATAAACTTATATTATATATATATA
889591 GTTTATATATAAACTTATATTATATATATATA
1 --TTATATATAAACTTATATTATATATATATA
889623 TTATAT
1 TTATAT
889629 TTTTTCAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
26 7 0.13
27 4 0.08
28 6 0.11
29 4 0.08
30 13 0.25
31 3 0.06
32 16 0.30
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (30 bp):
TTATATATAAACTTATATTATATATATATA
Found at i:890155 original size:22 final size:22
Alignment explanation
Indices: 890130--890180 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
890120 GATGGAGATA
*
890130 GACGGATTTCGTCGAAGATGGG
1 GACGGATTTCGTCGAAGATCGG
*
890152 GACGGATTTCGTCGGAGATCGG
1 GACGGATTTCGTCGAAGATCGG
890174 GACGGAT
1 GACGGAT
890181 GTCGCCGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGTCGAAGATCGG
Found at i:890319 original size:20 final size:20
Alignment explanation
Indices: 890294--890447 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
890284 ATTGTATTTA
890294 GCGTTGCGAATTTGACTTTC
1 GCGTTGCGAATTTGACTTTC
*
890314 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTTTC
*
890334 GCGTTGCGAATTTGACTTTT
1 GCGTTGCGAATTTGACTTTC
* *
890354 GTGTTGCGAATTTGACTTTT
1 GCGTTGCGAATTTGACTTTC
* * *
890374 GTGTTGAGAATTTGACTATC
1 GCGTTGCGAATTTGACTTTC
* * *
890394 GCATTACGAATTTTACTTAT-
1 GCGTTGCGAATTTGACTT-TC
* * *
890414 GTGTTGCGAAATTGGA-GTTC
1 GCGTTGCG-AATTTGACTTTC
890434 GCGTTGCGAATTTG
1 GCGTTGCGAATTTG
890448 TTGGTCATTT
Statistics
Matches: 110, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
19 6 0.05
20 98 0.89
21 6 0.05
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.41
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTC
Found at i:890364 original size:60 final size:60
Alignment explanation
Indices: 890296--890447 Score: 207
Period size: 60 Copynumber: 2.5 Consensus size: 60
890286 TGTATTTAGC
* * *
890296 GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCATTACGAATTTGACTTATGT
* * * *
890356 GTTGCGAATTTGACTTTTGTGTTGAGAATTTGACTATCGCATTACGAATTTTACTTATGT
1 GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCATTACGAATTTGACTTATGT
* *
890416 GTTGCGAAATTGGA-GTTCGCGTTGCGAATTTG
1 GTTGCG-AATTTGACTTTCGCGTTGCGAATTTG
890448 TTGGTCATTT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 73 0.92
61 6 0.08
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (60 bp):
GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCATTACGAATTTGACTTATGT
Found at i:890551 original size:13 final size:13
Alignment explanation
Indices: 890533--890580 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
890523 TTTCTCTTAC
890533 ATATATAGTTTAT
1 ATATATAGTTTAT
*
890546 ATATATAGTTCAT
1 ATATATAGTTTAT
* *
890559 ATAAGCATAATTTAT
1 AT-A-TATAGTTTAT
890574 ATATATA
1 ATATATA
890581 ACTTATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 17 0.61
14 2 0.07
15 9 0.32
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (13 bp):
ATATATAGTTTAT
Found at i:890628 original size:17 final size:17
Alignment explanation
Indices: 890606--890652 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
890596 ATAGTTTCTA
890606 ATATAAATATATTTTAT
1 ATATAAATATATTTTAT
*
890623 ATATAAACT-TATATTAT
1 ATATAAA-TATATTTTAT
*
890640 ATATATATATATT
1 ATATAAATATATT
890653 ATATTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 23 0.92
18 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATAAATATATTTTAT
Found at i:892108 original size:17 final size:16
Alignment explanation
Indices: 892086--892129 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
892076 TAAACTACAC
892086 TTTTAATTATTAAATTA
1 TTTTAA-TATTAAATTA
*
892103 TTTTAA-AATAAATTA
1 TTTTAATATTAAATTA
892118 TATTTAATATTA
1 T-TTTAATATTA
892130 CGTTGAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.39
16 5 0.22
17 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAATATTAAATTA
Found at i:896073 original size:7 final size:7
Alignment explanation
Indices: 896065--896106 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
896055 TTCTTAATTT
*
896065 CTCATTT
1 CTCATTC
896072 CTCATTC
1 CTCATTC
896079 CTCATTC
1 CTCATTC
896086 CTCATTC
1 CTCATTC
896093 CTCATTC
1 CTCATTC
896100 CTCATTC
1 CTCATTC
896107 AACCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.45
Consensus pattern (7 bp):
CTCATTC
Found at i:898807 original size:18 final size:18
Alignment explanation
Indices: 898786--898822 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
898776 TTAATTGGAG
898786 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
898804 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
898822 T
1 T
898823 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:898829 original size:24 final size:24
Alignment explanation
Indices: 898778--898830 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
898768 TTTCATTTTT
* * *
898778 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
898802 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
898826 AATTT
1 AATTT
898831 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:900232 original size:23 final size:23
Alignment explanation
Indices: 900206--900283 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
900196 TTTGAAATGG
900206 TTCGAAATACTTTGTAAAATTAT
1 TTCGAAATACTTTGTAAAATTAT
* * * **
900229 TTCGAAATTATTTTATTGAAA-TGG
1 TTCGAAA-TACTTT-GTAAAATTAT
*
900253 TTAGAAATACTTTGTAAAATTAT
1 TTCGAAATACTTTGTAAAATTAT
*
900276 TTTGAAAT
1 TTCGAAAT
900284 TATTTTAAGA
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
22 4 0.10
23 20 0.50
24 12 0.30
25 4 0.10
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (23 bp):
TTCGAAATACTTTGTAAAATTAT
Found at i:900266 original size:47 final size:47
Alignment explanation
Indices: 900197--900290 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
900187 TTGTTTGGTT
*
900197 TTGAAATGGTTCGAAATACTTTGTAAAATTATTTCGAAATTATTTTA
1 TTGAAATGGTTAGAAATACTTTGTAAAATTATTTCGAAATTATTTTA
*
900244 TTGAAATGGTTAGAAATACTTTGTAAAATTATTTTGAAATTATTTTA
1 TTGAAATGGTTAGAAATACTTTGTAAAATTATTTCGAAATTATTTTA
900291 AGATTAAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (47 bp):
TTGAAATGGTTAGAAATACTTTGTAAAATTATTTCGAAATTATTTTA
Found at i:900665 original size:2 final size:2
Alignment explanation
Indices: 900658--900710 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
900648 GCCAATTGAT
900658 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
900700 TA TA TA TA TA T
1 TA TA TA TA TA T
900711 CTTAAGCTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:900891 original size:15 final size:16
Alignment explanation
Indices: 900868--900900 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
900858 ATAGAAATAT
*
900868 AAGTTCAAAC-ATCCA
1 AAGTACAAACAATCCA
900883 AAGTACAAACAATCCA
1 AAGTACAAACAATCCA
900899 AA
1 AA
900901 AATATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.15
Consensus pattern (16 bp):
AAGTACAAACAATCCA
Found at i:910604 original size:20 final size:21
Alignment explanation
Indices: 910565--910605 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
910555 TTTATATAAA
*
910565 GTATCGCTACTTTTTGTATAT
1 GTATCGATACTTTTTGTATAT
910586 GTATCGATACTTTTT-TATAT
1 GTATCGATACTTTTTGTATAT
910606 CGATAAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (21 bp):
GTATCGATACTTTTTGTATAT
Found at i:911605 original size:34 final size:34
Alignment explanation
Indices: 911549--911713 Score: 127
Period size: 34 Copynumber: 4.6 Consensus size: 34
911539 AAAATACGTA
911549 TATAATATATA-GTTTCTAAAAACATTTTAAAAATG
1 TATAATATATAGGTTT-T-AAAACATTTTAAAAATG
* * **
911584 TAT-ATATATATGGTTTTAAAACACTTGAAAACGG
1 TATAATATATA-GGTTTTAAAACATTTTAAAAATG
* * *
911618 TATAATATATAGTTTTTAAAATATTTTAGGAAAATA
1 TATAATATATAGGTTTTAAAACATTTTA--AAAATG
* * *
911654 TATAATATATAGTTTTTAAAATCATTTTTGGAAAACTTA
1 TATAATATATAGGTTTTAAAA-CA-TTTT--AAAA-ATG
*
911693 TATAATATATAGTTTTTAAAA
1 TATAATATATAGGTTTTAAAA
911714 AACATTTTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
34 36 0.34
35 11 0.10
36 28 0.26
37 1 0.01
38 7 0.07
39 23 0.21
40 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (34 bp):
TATAATATATAGGTTTTAAAACATTTTAAAAATG
Found at i:911723 original size:41 final size:38
Alignment explanation
Indices: 911547--911807 Score: 240
Period size: 39 Copynumber: 6.9 Consensus size: 38
911537 TGAAAATACG
* *
911547 TATATAATATATAGTTTCTAAAAACA-TTTT-AAAAAT
1 TATATAATATATAGTTTTTAAAAACATTTTTGAAAACT
* *
911583 GTATAT-ATATAT-GGTTTT-AAAACA--CTTGAAAAC-
1 -TATATAATATATAGTTTTTAAAAACATTTTTGAAAACT
** * *
911616 GGTATAATATATAGTTTTT-AAAATATTTTAGGAAAA--
1 TATATAATATATAGTTTTTAAAAACATTTT-TGAAAACT
*
911652 TATATAATATATAGTTTTTAAAATCATTTTTGGAAAACT
1 TATATAATATATAGTTTTTAAAAACATTTTT-GAAAACT
*
911691 TATATAATATATAGTTTTTAAAAAACATTTTTTG-AAATT
1 TATATAATATATAGTTTTT-AAAAACA-TTTTTGAAAACT
911730 TATATAATATATAGTTTTTAAAAAAAACATTTTTGAAAACT
1 TATATAATATATAGTTTTT---AAAAACATTTTTGAAAACT
* * *
911771 TATATAATATTTAATTTTTGAAAACATTTTTTGAAAA
1 TATATAATATATAGTTTTTAAAAACA-TTTTTGAAAA
911808 TCATATAGTT
Statistics
Matches: 187, Mismatches: 21, Indels: 30
0.79 0.09 0.13
Matches are distributed among these distances:
32 3 0.02
33 8 0.04
34 20 0.11
35 4 0.02
36 24 0.13
37 23 0.12
38 6 0.03
39 52 0.28
40 13 0.07
41 34 0.18
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (38 bp):
TATATAATATATAGTTTTTAAAAACATTTTTGAAAACT
Found at i:911833 original size:33 final size:33
Alignment explanation
Indices: 911786--911871 Score: 106
Period size: 32 Copynumber: 2.7 Consensus size: 33
911776 AATATTTAAT
* *
911786 TTTTGAAAA-CATTTTTTGAAAATCATATAGTT
1 TTTTAAAAATCATTTTTTGAAAATCATATAGTC
*
911818 TTTTAAAAAGT-A-TTTTTGAAAATTATATAGTC
1 TTTTAAAAA-TCATTTTTTGAAAATCATATAGTC
*
911850 TTTTAAAAATCATTTTTGGAAA
1 TTTTAAAAATCATTTTTTGAAA
911872 TTTATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 1 0.02
32 36 0.78
33 9 0.20
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (33 bp):
TTTTAAAAATCATTTTTTGAAAATCATATAGTC
Found at i:911873 original size:32 final size:32
Alignment explanation
Indices: 911798--911879 Score: 112
Period size: 32 Copynumber: 2.5 Consensus size: 32
911788 TTGAAAACAT
* *
911798 TTTTTGAAAATCATATAGTTTTTTAAAAAGTA
1 TTTTTGAAAATTATATAGTCTTTTAAAAAGTA
911830 TTTTTGAAAATTATATAGTCTTTTAAAAA-TCA
1 TTTTTGAAAATTATATAGTCTTTTAAAAAGT-A
*
911862 TTTTTGGAAATTTATATA
1 TTTTT-GAAAATTATATA
911880 TAATATGTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.02
32 33 0.73
33 11 0.24
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (32 bp):
TTTTTGAAAATTATATAGTCTTTTAAAAAGTA
Found at i:911960 original size:4 final size:4
Alignment explanation
Indices: 911951--912015 Score: 59
Period size: 4 Copynumber: 16.8 Consensus size: 4
911941 TTAAATAATG
*
911951 ATTT ATTT A-TT A-TT ATTT ATTT ATTT ATTAT TTTT ATTT A-TT A-TT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATTT
911996 ATTT A-TT ACTATT ATTT ATT
1 ATTT ATTT A-T-TT ATTT ATT
912016 ATTATTTCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 15 0.28
4 31 0.58
5 4 0.08
6 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:911965 original size:3 final size:3
Alignment explanation
Indices: 911957--912021 Score: 58
Period size: 3 Copynumber: 19.7 Consensus size: 3
911947 AATGATTTAT
*
911957 TTA TTA TTA TTTA TTTA TTTA TTA TTT TTA TTTA TTA TTA TTTA TTA
1 TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA -TTA TTA
*
912004 CTA TTA TTTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TT
912022 TCTTATCCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
3 34 0.63
4 20 0.37
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:911968 original size:10 final size:10
Alignment explanation
Indices: 911953--912027 Score: 80
Period size: 10 Copynumber: 7.1 Consensus size: 10
911943 AAATAATGAT
911953 TTATTTATTA
1 TTATTTATTA
911963 TTATTTATTTA
1 TTATTTA-TTA
*
911974 TT-TATTATTT
1 TTAT-TTATTA
911984 TTATTTATTA
1 TTATTTATTA
911994 TTATTTATTACTA
1 TTATTTA-T--TA
912007 TTATTTATTA
1 TTATTTATTA
*
912017 TTATTTCTTA
1 TTATTTATTA
912027 T
1 T
912028 CCATTTATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
10 36 0.64
11 10 0.18
12 1 0.02
13 9 0.16
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTTATTA
Found at i:911988 original size:13 final size:13
Alignment explanation
Indices: 911953--912021 Score: 95
Period size: 13 Copynumber: 5.2 Consensus size: 13
911943 AAATAATGAT
911953 TTATTTATTATTA
1 TTATTTATTATTA
911966 TTTATTTATTTATTA
1 -TTATTTA-TTATTA
911981 TT-TTTATTTATTA
1 TTATTTA-TTATTA
*
911994 TTATTTATTACTA
1 TTATTTATTATTA
912007 TTATTTATTATTA
1 TTATTTATTATTA
912020 TT
1 TT
912022 TCTTATCCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
13 32 0.63
14 13 0.25
15 6 0.12
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:914418 original size:117 final size:117
Alignment explanation
Indices: 914205--914465 Score: 317
Period size: 117 Copynumber: 2.2 Consensus size: 117
914195 ATGACAAATC
** * *
914205 CAATAATTAACCTATTTTGTTATCGTCGAATTTCCAAAACCCCATCAGCTTAAAAAAGTGCTACC
1 CAATAATTAACCGGTTATGTTATCGTCGAATTTCCAAAACCCCATCAGCTTAAAAAAGCGCTACC
*
914270 TATTACGTTATATAAGCGCTACCTAAAATGTTATTATGCTTGATAATATTTA
66 TATTACGTTATATAAACGCTACCTAAAATGTTATTATGCTTGATAATATTTA
* * ** * * * * * * *
914322 TAGTAATTAATTGGTTATGTTATCGTCGGATTTTCAAAGCTCCATTAGCTTTAACAAGACGCTAC
1 CAATAATTAACCGGTTATGTTATCGTCGAATTTCCAAAACCCCATCAGCTTAAAAAAG-CGCTAC
* * * * *
914387 TTATTACGTTATATAAACGCTACC-AATATGTTATTGTGCTTGATAATGTTTC
65 CTATTACGTTATATAAACGCTACCTAAAATGTTATTATGCTTGATAATATTTA
914439 CAATAATTAACCGGTTATGTTATCGTC
1 CAATAATTAACCGGTTATGTTATCGTC
914466 TATATATTTT
Statistics
Matches: 118, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
117 91 0.77
118 27 0.23
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (117 bp):
CAATAATTAACCGGTTATGTTATCGTCGAATTTCCAAAACCCCATCAGCTTAAAAAAGCGCTACC
TATTACGTTATATAAACGCTACCTAAAATGTTATTATGCTTGATAATATTTA
Found at i:915702 original size:60 final size:62
Alignment explanation
Indices: 915598--915778 Score: 160
Period size: 60 Copynumber: 3.0 Consensus size: 62
915588 ATACATTTAG
* * * ***
915598 TTTGGAATGAAATTAGAATGTTCAAATAATTTTAGGGACCAATTTAGAATGAAT-GTCATTGT
1 TTTGGGATGAAATTAGAATGTTCAAATAAATTTAGGGACCAATTTAAAAT-AATAGTCATACC
* *
915660 TTTGGGATGAAATTA-AAGTGTT-AAA-AAATTTGGGGACTAATTTAAAATAATAGTCATACC
1 TTTGGGATGAAATTAGAA-TGTTCAAATAAATTTAGGGACCAATTTAAAATAATAGTCATACC
* * * * * *
915720 TTAGGGATGAAATTAGAATATT-TAA-AAGTTTAAGGACTAATTTAAAATAAT-GTTCATAC
1 TTTGGGATGAAATTAGAATGTTCAAATAAATTTAGGGACCAATTTAAAATAATAG-TCATAC
915779 TTTAAGGACA
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
59 4 0.04
60 72 0.71
61 7 0.07
62 18 0.18
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (62 bp):
TTTGGGATGAAATTAGAATGTTCAAATAAATTTAGGGACCAATTTAAAATAATAGTCATACC
Found at i:915783 original size:31 final size:31
Alignment explanation
Indices: 915693--915787 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 31
915683 AAAAATTTGG
* *
915693 GGACTAATTTAAAATAATAG-TCATACCTTAG
1 GGACTAATTTAAAATAAT-GTTCATACTTTAA
* * * * *
915724 GGA-TGAAATTAGAAT-AT-TTAAAAGTTTAA
1 GGACT-AATTTAAAATAATGTTCATACTTTAA
915753 GGACTAATTTAAAATAATGTTCATACTTTAA
1 GGACTAATTTAAAATAATGTTCATACTTTAA
915784 GGAC
1 GGAC
915788 ATGTGATGCA
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
29 17 0.36
30 6 0.13
31 24 0.51
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (31 bp):
GGACTAATTTAAAATAATGTTCATACTTTAA
Found at i:916076 original size:17 final size:17
Alignment explanation
Indices: 916046--916087 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
916036 ACATTTTAAT
916046 TATAATATATTAAAAAG
1 TATAATATATTAAAAAG
916063 TATAACTATA-TAAAAA-
1 TATAA-TATATTAAAAAG
*
916079 TAAAATATA
1 TATAATATA
916088 AATTATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 11 0.48
18 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
TATAATATATTAAAAAG
Found at i:917682 original size:17 final size:17
Alignment explanation
Indices: 917658--917696 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
917648 AAAACATTAT
917658 ATTA-TATTATTATTTA
1 ATTATTATTATTATTTA
*
917674 TTTATTATTATTATTTA
1 ATTATTATTATTATTTA
917691 ATTATT
1 ATTATT
917697 TAATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTATTATTATTTA
Found at i:917711 original size:24 final size:25
Alignment explanation
Indices: 917669--917717 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
917659 TTATATTATT
*
917669 ATTTATTTATTATTATTATTTAATT
1 ATTTAATTATTATTATTATTTAATT
*
917694 ATTTAATT-TTATTTTTATTTAATT
1 ATTTAATTATTATTATTATTTAATT
917718 TTTTTTACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTAATTATTATTATTATTTAATT
Found at i:918754 original size:21 final size:20
Alignment explanation
Indices: 918730--918785 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
918720 AACCCACGTG
918730 TATTTACTTTTTTTTTAATTT
1 TATTTA-TTTTTTTTTAATTT
* *
918751 TATTTTATTGTTTTATTATTTT
1 TA-TTTATT-TTTTTTTAATTT
918773 TA-TTATTTTTTTT
1 TATTTATTTTTTTT
918786 CTTTTTTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.17
20 5 0.17
21 4 0.13
22 16 0.53
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (20 bp):
TATTTATTTTTTTTTAATTT
Found at i:918843 original size:20 final size:22
Alignment explanation
Indices: 918803--918851 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
918793 TACTAACTTT
918803 TATTTATCTTTGTTATATATTA
1 TATTTATCTTTGTTATATATTA
918825 TATTTAT-TTTGTTATTATTATTA
1 TATTTATCTTTGTTA-TA-TATTA
918848 TATT
1 TATT
918852 AATAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 9 0.36
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TATTTATCTTTGTTATATATTA
Found at i:928795 original size:14 final size:14
Alignment explanation
Indices: 928759--928785 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
928749 ATTTATTTTT
928759 TAATTATATTTATA
1 TAATTATATTTATA
928773 TAATTATATTTAT
1 TAATTATATTTAT
928786 TATTTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATATTTATA
Found at i:933086 original size:13 final size:13
Alignment explanation
Indices: 933068--933106 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
933058 ACATAGTTGA
933068 ACAGTCTTCATAT
1 ACAGTCTTCATAT
933081 ACAGTCTTCATAT
1 ACAGTCTTCATAT
933094 ACAGTCTTCATAT
1 ACAGTCTTCATAT
933107 GTGCGTTTGT
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:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ACAGTCTTCATAT
Found at i:935037 original size:33 final size:30
Alignment explanation
Indices: 934977--935056 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 30
934967 CTTTTGCAAT
* *
934977 TCGGGTCGGATTTTTTTTTAAATTTCGGGA
1 TCGGGTCGGATTTTTTTTAAAAATTCGGGA
*
935007 TCGGGTCGGATTTTTTTTAAAAAAAATTCGGGG
1 TCGGGTCGGATTTTTTTT---AAAAATTCGGGA
935040 TCGGGTCTGG-TTTTTTT
1 TCGGGTC-GGATTTTTTT
935057 AAGTGTGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.42
33 23 0.53
34 2 0.05
ACGTcount: A:0.17, C:0.10, G:0.28, T:0.45
Consensus pattern (30 bp):
TCGGGTCGGATTTTTTTTAAAAATTCGGGA
Found at i:935074 original size:33 final size:33
Alignment explanation
Indices: 935032--935116 Score: 143
Period size: 33 Copynumber: 2.5 Consensus size: 33
935022 TTTAAAAAAA
*
935032 ATTCGGGGTCGGGTCTGGTTTTTTTAAGTGTGAT
1 ATTC-GGGTCGGGTCGGGTTTTTTTAAGTGTGAT
935066 ATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGAT
1 ATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGAT
935099 ATTCGGGTCGGGTTCGGG
1 ATTCGGGTCGGG-TCGGG
935117 GTTAGGGTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 40 0.82
34 9 0.18
ACGTcount: A:0.11, C:0.11, G:0.39, T:0.40
Consensus pattern (33 bp):
ATTCGGGTCGGGTCGGGTTTTTTTAAGTGTGAT
Found at i:935707 original size:16 final size:18
Alignment explanation
Indices: 935686--935726 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
935676 ATTCAAATTA
935686 CAATTCC-T-ACAGATTC
1 CAATTCCTTCACAGATTC
935702 CAATTCCTTCACAGATTC
1 CAATTCCTTCACAGATTC
*
935720 TAATTCC
1 CAATTCC
935727 CTCAGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 14 0.64
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (18 bp):
CAATTCCTTCACAGATTC
Found at i:942009 original size:24 final size:24
Alignment explanation
Indices: 941980--942027 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
941970 GTCGATATCA
941980 ATGCCGTTGACAGAATAAGTAATC
1 ATGCCGTTGACAGAATAAGTAATC
942004 ATGCCGTTGACAGAATAAGTAATC
1 ATGCCGTTGACAGAATAAGTAATC
942028 GTAGGCGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (24 bp):
ATGCCGTTGACAGAATAAGTAATC
Found at i:945702 original size:3 final size:3
Alignment explanation
Indices: 945694--945758 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
945684 AAAATATGTA
* *
945694 AAT AAT AAT GAT AAT GAAT -AT AAT AAT AAT AAAT AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
*
945740 AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
945759 TATATAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:945722 original size:15 final size:14
Alignment explanation
Indices: 945698--945758 Score: 65
Period size: 13 Copynumber: 4.4 Consensus size: 14
945688 TATGTAAATA
*
945698 ATAATGATAATGAAT
1 ATAATAATAAT-AAT
945713 ATAATAATAATAA-
1 ATAATAATAATAAT
945726 ATAATAATAATAA-
1 ATAATAATAATAAT
*
945739 A-AATAATGATAAT
1 ATAATAATAATAAT
945752 AATAATA
1 -ATAATA
945759 TATATAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
12 10 0.24
13 14 0.34
14 3 0.07
15 14 0.34
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:945727 original size:31 final size:28
Alignment explanation
Indices: 945692--945768 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 28
945682 ACAAAATATG
*
945692 TAAATAATAATGATAATGAATATAATAATAA
1 TAAATAATAATAATAA--AA-ATAATAATAA
*
945723 TAAATAATAATAATAAAAATAATGATAA
1 TAAATAATAATAATAAAAATAATAATAA
945751 T-AATAAT-ATATATAAAAA
1 TAAATAATAATA-ATAAAAA
945769 AAACCCGGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 3 0.07
27 13 0.30
28 10 0.23
29 2 0.05
31 15 0.35
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (28 bp):
TAAATAATAATAATAAAAATAATAATAA
Found at i:946138 original size:40 final size:40
Alignment explanation
Indices: 945962--946275 Score: 206
Period size: 40 Copynumber: 7.4 Consensus size: 40
945952 TTAACGCGGT
* *
945962 TCCTACGTGATGAGGAAATCTGG-TCGGGGAATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGATCTGGG-ATGACACGGC
* * * * *
946002 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGG--ATCT---GG-GATGACACGGC
* * *
946048 TCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGG--ATCT-GGGATGACACGGC
946091 TCCTACGTGATGAGGAGATCTGG-TCTGGGAATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGATCTGGG-ATGACACGGC
* * * * *
946131 TCATACGTGATGAAGAGTTCTGGCCATCTGAAGGTGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGG--ATCT---GG-GATGACACGGC
* * *
946177 TCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGG--ATCT-GGGATGACACGGC
*
946220 TCCTACGTGATGAGGAGATCTGG-TCTGGGGATGACACGGT
1 TCCTACGTGATGAGGAGATCTGGATCT-GGGATGACACGGC
*
946260 TCCTACATGATGAGGA
1 TCCTACGTGATGAGGA
946276 CGGCTGGCCA
Statistics
Matches: 216, Mismatches: 39, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
39 2 0.01
40 79 0.37
42 2 0.01
43 61 0.28
44 4 0.02
46 64 0.30
47 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (40 bp):
TCCTACGTGATGAGGAGATCTGGATCTGGGATGACACGGC
Found at i:946192 original size:129 final size:129
Alignment explanation
Indices: 945962--946272 Score: 559
Period size: 129 Copynumber: 2.4 Consensus size: 129
945952 TTAACGCGGT
* *
945962 TCCTACGTGATGAGGAAATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
946027 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
946091 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
*
946156 ATCTGAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
* * * *
946220 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGA
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGA
946273 GGACGGCTGG
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 175 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (129 bp):
TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
Found at i:946279 original size:83 final size:86
Alignment explanation
Indices: 946122--946282 Score: 229
Period size: 83 Copynumber: 1.9 Consensus size: 86
946112 GGTCTGGGAA
* *
946122 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTGAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGG-C-TCTG-AGGTGATAACACGGTTCCTACATGA
946187 TGAGGACGGCTGGTTATCTATGGT
63 TGAGGACGGCTGGTTATCTATGGT
* * *
946211 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTG-GG-GATGACACGGTTCCTACATGATGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGCTCTGAGGTGATAACACGGTTCCTACATGATGA
946273 GGACGGCTGG
66 GGACGGCTGG
946283 CCATCTTTAG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 32 0.48
84 2 0.03
86 4 0.06
89 29 0.43
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (86 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGCTCTGAGGTGATAACACGGTTCCTACATGATGA
GGACGGCTGGTTATCTATGGT
Found at i:946341 original size:28 final size:28
Alignment explanation
Indices: 946301--946397 Score: 83
Period size: 28 Copynumber: 3.4 Consensus size: 28
946291 AGGAGTTATG
* *
946301 GTTTCAAGAGAAACCA-AATTAAAGATTT
1 GTTTCAAAAGAAA-CAGAATCAAAGATTT
*
946329 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGAATCAAAGATTT
*
946357 GTTTCAAGAA-AAACA-AGCTCAAAGATAATGT
1 GTTTCAA-AAGAAACAGA-ATCAAAGAT--T-T
946388 GTTTCAAAAG
1 GTTTCAAAAG
946398 CAACTGTCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
27 3 0.05
28 43 0.73
29 2 0.03
30 3 0.05
31 8 0.14
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.26
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGAATCAAAGATTT
Found at i:946394 original size:31 final size:28
Alignment explanation
Indices: 946321--946397 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 28
946311 AAACCAAATT
946321 AAAGATTTGTTTCAAAAGAAACAGACTC
1 AAAGATTTGTTTCAAAAGAAACAGACTC
946349 AAAGATTTGTTTCAAGAA-AAACA-AGCTC
1 AAAGATTTGTTTCAA-AAGAAACAGA-CTC
946377 AAAGATAATGTGTTTCAAAAG
1 AAAGAT--T-TGTTTCAAAAG
946398 CAACTGTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
27 1 0.02
28 29 0.67
29 2 0.05
30 3 0.07
31 8 0.19
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAGACTC
Found at i:946588 original size:66 final size:64
Alignment explanation
Indices: 946399--946588 Score: 168
Period size: 66 Copynumber: 2.9 Consensus size: 64
946389 TTTCAAAAGC
** * *
946399 AACTGTCTCGAAAGAGACAAAATTCATTTCAAATGAAAC-AACTCAAAAGATG-ACGTTTAAAGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATCTC-AAAGATGTATGTTTAAAGG
946462 G
64 G
* * ** * * * * * * *
946463 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAATATCTGTGTTTCATGG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTTAAAGG
946528 G
64 G
*
946529 AAACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTTTGTTT
1 -AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTT
946589 TGTTTCAAGG
Statistics
Matches: 96, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
63 2 0.02
64 17 0.18
65 17 0.18
66 41 0.43
67 19 0.20
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (64 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTTAAAGGG
Found at i:947431 original size:37 final size:37
Alignment explanation
Indices: 947380--947501 Score: 105
Period size: 37 Copynumber: 3.5 Consensus size: 37
947370 TTCAAAGATT
*
947380 TTTTTTTTCAAAAGAAAATATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAA
* * ** **
947417 TTTTGTTTCCAAAGAAACAGA-C-CCA-A-AG---ATT
1 TTTTGTTTCAAAAGAAA-ATATCTTAAGAGAGACAAAA
*
947448 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAA
*
947485 TTTTGTTTCCAAAGAAA
1 TTTTGTTTCAAAAGAAA
947502 CAGACTCAAC
Statistics
Matches: 62, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
30 1 0.02
31 18 0.29
32 1 0.02
33 1 0.02
34 4 0.06
35 1 0.02
36 1 0.02
37 33 0.53
38 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (37 bp):
TTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAA
Found at i:947457 original size:68 final size:68
Alignment explanation
Indices: 947361--947531 Score: 290
Period size: 68 Copynumber: 2.5 Consensus size: 68
947351 TCATTTTAAG
* *
947361 AGAAACAGATTCAAAGATTTTTTTTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTC
1 AGAAACAGACTCAAAGATTTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTC
947426 CAA
66 CAA
* *
947429 AGAAACAGACCCAAAGATTTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTC
1 AGAAACAGACTCAAAGATTTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTC
947494 CAA
66 CAA
*
947497 AGAAACAGACTCAACGA-TTTTTGTTTCAAAAGAAA
1 AGAAACAGACTCAAAGATTTTTTGTTTCAAAAGAAA
947532 CAATCTCAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 18 0.19
68 79 0.81
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (68 bp):
AGAAACAGACTCAAAGATTTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTC
CAA
Found at i:947555 original size:31 final size:30
Alignment explanation
Indices: 947485--947548 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
947475 AGAGACAAAA
* *
947485 TTTTGTTTCCAAAGAAACAGACTCAACGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
947515 TTTTGTTTCAAAAGAAACA-ATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGA-CTCAAAGAT
947545 TTTT
1 TTTT
947549 TTTTTCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:947625 original size:148 final size:143
Alignment explanation
Indices: 947461--947731 Score: 452
Period size: 148 Copynumber: 1.9 Consensus size: 143
947451 TGTTTCAAAA
* * *
947461 GAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAACGATTTTTGTTTCAA
1 GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGA-TTTT-TTTCAA
947526 AAGAAACAATCTCAAAGATTTTTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
64 AAGAAACAATCTCAAAGA---TTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
947591 GACTCAAAGATTTTTCAC
126 GACTCAAAGATTTTTCAC
* *
947609 GAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATTTTTTTCAAAA
1 GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTTTCAAAA
947674 GAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTT
66 GAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTT
947732 TAAAAGATTC
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
143 42 0.36
146 24 0.20
147 4 0.03
148 48 0.41
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (143 bp):
GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTTTCAAAA
GAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTC
AAAGATTTTTCAC
Done.