Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 158 of 207
Found at i:48584714 original size:14 final size:14
Alignment explanation
Indices: 48584695--48584740 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
48584685 TATTTAAAAT
48584695 ATAATAATAATTTA
1 ATAATAATAATTTA
*
48584709 ATAATACTAATTTA
1 ATAATAATAATTTA
48584723 ATAATAATAATTTA
1 ATAATAATAATTTA
48584737 ATAA
1 ATAA
48584741 CATTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:48590712 original size:23 final size:22
Alignment explanation
Indices: 48590645--48590718 Score: 100
Period size: 21 Copynumber: 3.5 Consensus size: 22
48590635 CCTGATCAGT
* *
48590645 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
48590666 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
48590686 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
48590708 TATACGACACA
1 -ATACGACACA
48590719 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.19
21 28 0.60
23 10 0.21
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:48590726 original size:23 final size:23
Alignment explanation
Indices: 48590644--48590731 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 23
48590634 ACCTGATCAG
*
48590644 TATACGACACA-TAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
*
48590666 -A-ACGACACACGAGGTGCCTG-
1 TATACGACACACGAAGTGCCTGA
*
48590686 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
**
48590708 TATACGACACATAAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
48590731 T
1 T
48590732 CGGCAAAGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.16
21 28 0.49
23 20 0.35
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
TATACGACACACGAAGTGCCTGA
Found at i:48590727 original size:44 final size:41
Alignment explanation
Indices: 48590645--48590731 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
48590635 CCTGATCAGT
* * *
48590645 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
48590686 ATACGACACACGAGGTGCCTGATATACGACACATAAAGTGCCTG
1 ATACGACACA-GAAGTGCCTGA-A-ACGACACACAAAGTGCCTG
48590730 AT
1 AT
48590732 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 10 0.26
42 9 0.24
43 1 0.03
44 18 0.47
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.17
Consensus pattern (41 bp):
ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:48591730 original size:3 final size:3
Alignment explanation
Indices: 48591722--48591762 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
48591712 TATTCCTAGT
48591722 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48591763 TATTTTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48592072 original size:23 final size:23
Alignment explanation
Indices: 48592046--48592090 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48592036 ATGTTTTGGA
* *
48592046 TGTAATATCCCGAACATTACTAC
1 TGTAATAACCCGAAAATTACTAC
48592069 TGTAATAACCCGAAAATTACTA
1 TGTAATAACCCGAAAATTACTA
48592091 AAGTGAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (23 bp):
TGTAATAACCCGAAAATTACTAC
Found at i:48595170 original size:50 final size:50
Alignment explanation
Indices: 48595103--48595441 Score: 414
Period size: 50 Copynumber: 6.8 Consensus size: 50
48595093 AGATTATAAA
*
48595103 AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
* *
48595153 AGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
48595203 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
*
48595253 AGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
** *** * *
48595303 AGGTCCCCCGTAA-ATCCATGTCTGGGACATGGCACGGGCACCAATATGAG
1 AGGTCCCATGTAAGA-CCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
** * ** * * * * *
48595353 AACTCCCATGTAAGACCATATCTGGGGTATGGCATTTGCA--GTACAGGAA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAG
** * *
48595402 ACATCCCATGTAAGACCATGTCTGGTACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
48595442 TGTTATTATT
Statistics
Matches: 250, Mismatches: 36, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
49 37 0.15
50 212 0.85
51 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
Found at i:48595238 original size:100 final size:100
Alignment explanation
Indices: 48595055--48595441 Score: 427
Period size: 100 Copynumber: 3.8 Consensus size: 100
48595045 TGTGAGCCAG
* *
48595055 TGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATAAAAGGTCCCATGTAAGACC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATGAAAGGTCCCATGTAAGACC
* *
48595120 ATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCTCA
60 ATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* *
48595161 TGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCCCATGTAAGACCATGTCT
48595226 GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
66 GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
** * * **
48595261 TGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCCCGTAA-ATCCATGTC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCCCATGTAAGA-CCATGTC
*** * * **
48595325 TGGGACATGGCACGGGCACCAATATGAGAACTCCCA
65 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* ** * * * * **
48595361 TGTAAGACCATATCTGGGGTATGGCATTTGCAGT-ACAGGAAACATCCCATGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCCCATGTAAGACCATGTCT
* *
48595425 GGTACATGGCTTTGGCA
66 GGGACATGGCGTTGGCA
48595442 TGTTATTATT
Statistics
Matches: 243, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
99 35 0.14
100 173 0.71
103 4 0.02
105 1 0.00
106 30 0.12
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (100 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCCCATGTAAGACCATGTCT
GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
Found at i:48596957 original size:23 final size:23
Alignment explanation
Indices: 48596925--48596968 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48596915 GGGAGAAATG
*
48596925 TAATATCCCGAAAATTACTACTA
1 TAATACCCCGAAAATTACTACTA
48596948 TAATACCCCGAAAATTACTAC
1 TAATACCCCGAAAATTACTAC
48596969 AGTAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (23 bp):
TAATACCCCGAAAATTACTACTA
Found at i:48601078 original size:45 final size:45
Alignment explanation
Indices: 48601024--48601116 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
48601014 TATGTGCTTT
48601024 CATTTTAAAATAGTATATTTGGTTATTTCGATTCTAGGAAGAGAC
1 CATTTTAAAATAGTATATTTGGTTATTTCGATTCTAGGAAGAGAC
48601069 CATTTTAAAATAGTATATTTGGTTATTTCGATTCTAGGAAGAGAC
1 CATTTTAAAATAGTATATTTGGTTATTTCGATTCTAGGAAGAGAC
48601114 CAT
1 CAT
48601117 ACTCTGTAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (45 bp):
CATTTTAAAATAGTATATTTGGTTATTTCGATTCTAGGAAGAGAC
Found at i:48608027 original size:24 final size:24
Alignment explanation
Indices: 48607975--48608048 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
48607965 TCTAGGCTTA
*
48607975 TTAACGGGAAGCTCACAAAAAGC-C
1 TTAACGGGAAGCTC-CGAAAAGCAC
* *
48607999 TTTAACGGGTAGCTCTGAAAAGCAC
1 -TTAACGGGAAGCTCCGAAAAGCAC
*
48608024 TTAACGGGAAGCTCCGAAGAGCAC
1 TTAACGGGAAGCTCCGAAAAGCAC
48608048 T
1 T
48608049 ATACCCGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 28 0.67
25 14 0.33
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (24 bp):
TTAACGGGAAGCTCCGAAAAGCAC
Found at i:48612866 original size:11 final size:11
Alignment explanation
Indices: 48612850--48612877 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
48612840 TTCCATGCAC
48612850 AAAAAAAAGAA
1 AAAAAAAAGAA
48612861 AAAAAAAAGAA
1 AAAAAAAAGAA
48612872 AAAAAA
1 AAAAAA
48612878 GATTAAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:48614988 original size:20 final size:20
Alignment explanation
Indices: 48614948--48614998 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
48614938 GTAACCCTTA
48614948 TTTTT-AAAATTTTCAATTTT
1 TTTTTCAAAATTTTC-ATTTT
48614968 TTTTTCAAAATTTTC-TGTTT
1 TTTTTCAAAATTTTCAT-TTT
*
48614988 TGTTTCAAAAT
1 TTTTTCAAAAT
48614999 GAACCCCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 9 0.32
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTTTCAAAATTTTCATTTT
Found at i:48616122 original size:6 final size:6
Alignment explanation
Indices: 48616106--48616162 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
48616096 TAATTGAATC
* * * * *
48616106 TTAACTA TTAATA TTAATA TTAATA ATAATA ATAATA ATATTA TTATTA
1 TTAA-TA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
48616155 TTATATA T
1 TTA-ATA T
48616163 AAACAAGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 38 0.84
7 7 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAATA
Found at i:48619408 original size:14 final size:14
Alignment explanation
Indices: 48619389--48619416 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48619379 TAGTTTTTAA
48619389 GTTTTTTCATTGTT
1 GTTTTTTCATTGTT
48619403 GTTTTTTCATTGTT
1 GTTTTTTCATTGTT
48619417 TCTTTGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.71
Consensus pattern (14 bp):
GTTTTTTCATTGTT
Found at i:48619615 original size:22 final size:21
Alignment explanation
Indices: 48619576--48619619 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
48619566 AACAATACAA
* *
48619576 AATTTATCATGATTAAATATT
1 AATTTATCATAATGAAATATT
48619597 AATTTATCATAAATGAAATATT
1 AATTTATCAT-AATGAAATATT
48619619 A
1 A
48619620 TTAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
AATTTATCATAATGAAATATT
Found at i:48623009 original size:11 final size:11
Alignment explanation
Indices: 48622993--48623023 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
48622983 AAAGCTAGTT
48622993 TTTTTGTTTTG
1 TTTTTGTTTTG
48623004 TTTTTGTTTTG
1 TTTTTGTTTTG
48623015 TTTTT-TTTT
1 TTTTTGTTTT
48623024 CCCTCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:48623013 original size:16 final size:15
Alignment explanation
Indices: 48622994--48623023 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48622984 AAGCTAGTTT
48622994 TTTTGTTTTGTTTTTG
1 TTTTGTTTT-TTTTTG
48623010 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTT
48623024 CCCTCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTGTTTTTTTTTG
Found at i:48627196 original size:19 final size:19
Alignment explanation
Indices: 48627154--48627199 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
48627144 ATTGTAACAT
*
48627154 TATTTATAATTTTAAATATC
1 TATTTA-AATTTTAAATATA
48627174 TATTTAAATTTT-AATAATA
1 TATTTAAATTTTAAAT-ATA
48627193 TATTTAA
1 TATTTAA
48627200 TTTGTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTAAATTTTAAATATA
Found at i:48627211 original size:19 final size:18
Alignment explanation
Indices: 48627160--48627211 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
48627150 ACATTATTTA
* *
48627160 TAATTTTAAATATCTATT
1 TAATTTTAAAAATATATT
*
48627178 TAAATTTTAATAATATATT
1 T-AATTTTAAAAATATATT
48627197 TAATTTGTAAAAATA
1 TAATTT-TAAAAATA
48627212 GCAATAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATTTTAAAAATATATT
Found at i:48628009 original size:11 final size:11
Alignment explanation
Indices: 48627976--48628014 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
48627966 AAATTATTTT
*
48627976 AAAAAATCATA
1 AAAAAATTATA
48627987 AACAAAATTTATA
1 AA-AAAA-TTATA
48628000 AAAAAATTATA
1 AAAAAATTATA
48628011 AAAA
1 AAAA
48628015 TTATAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 11 0.44
12 8 0.32
13 6 0.24
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:48628024 original size:16 final size:14
Alignment explanation
Indices: 48628003--48628037 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
48627993 ATTTATAAAA
48628003 AAATTATAAAAATTAT
1 AAATTAT-AAAA-TAT
48628019 AAATTATAAAATAT
1 AAATTATAAAATAT
48628033 AAATT
1 AAATT
48628038 TTTTATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 4 0.21
16 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTATAAAATAT
Found at i:48628167 original size:9 final size:9
Alignment explanation
Indices: 48628145--48628175 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
48628135 CATTTTTTAA
48628145 TAAAAATTT
1 TAAAAATTT
48628154 T-AAAATTT
1 TAAAAATTT
48628162 TAAAAATTT
1 TAAAAATTT
48628171 TAAAA
1 TAAAA
48628176 CCTTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAAATTT
Found at i:48628819 original size:9 final size:9
Alignment explanation
Indices: 48628805--48629011 Score: 73
Period size: 9 Copynumber: 22.4 Consensus size: 9
48628795 CTGCATTTAT
48628805 TAAAAATTA
1 TAAAAATTA
*
48628814 TAAAAAAT-
1 TAAAAATTA
**
48628822 TAAAAGCTA
1 TAAAAATTA
**
48628831 TAAAAGCTA
1 TAAAAATTA
*
48628840 TAAATATTA
1 TAAAAATTA
**
48628849 TTAAATTTTAA
1 -TAAAAATT-A
48628860 TAAAAATT-
1 TAAAAATTA
* *
48628868 CAAATATTA
1 TAAAAATTA
*
48628877 -AAAATTTA
1 TAAAAATTA
48628885 TTAAAAATTA
1 -TAAAAATTA
* *
48628895 GAAAAAATA
1 TAAAAATTA
**
48628904 TAAAAATCG
1 TAAAAATTA
*
48628913 TAAAATTTTA
1 TAAAA-ATTA
*
48628923 TAAAAATCA
1 TAAAAATTA
48628932 T-AAAATATA
1 TAAAAAT-TA
*
48628941 TAGAAATATA
1 TAAAAAT-TA
*
48628951 AAAAAATTA
1 TAAAAATTA
*
48628960 T-AAAATTT
1 TAAAAATTA
* *
48628968 TATAAAGTCA
1 TA-AAAATTA
48628978 TAAGAAAATTA
1 T-A-AAAATTA
*
48628989 TAAAAAATA
1 TAAAAATTA
*
48628998 TAAAGAAATA
1 TAAA-AATTA
48629008 TAAA
1 TAAA
48629012 TTTCGTAAAA
Statistics
Matches: 147, Mismatches: 38, Indels: 25
0.70 0.18 0.12
Matches are distributed among these distances:
8 30 0.20
9 56 0.38
10 53 0.36
11 8 0.05
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:48628927 original size:37 final size:38
Alignment explanation
Indices: 48628875--48628947 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
48628865 ATTCAAATAT
*
48628875 TAAAAATTTATTAAAAATTAGAAAAAATATAAAAATCG
1 TAAAAATTTATTAAAAATCAGAAAAAATATAAAAATCG
* * * *
48628913 TAAAATTTTA-TAAAAATCATAAAATATATAGAAAT
1 TAAAAATTTATTAAAAATCAGAAAAAATATAAAAAT
48628948 ATAAAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 21 0.70
38 9 0.30
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (38 bp):
TAAAAATTTATTAAAAATCAGAAAAAATATAAAAATCG
Found at i:48628955 original size:28 final size:28
Alignment explanation
Indices: 48628924--48629011 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 28
48628914 AAAATTTTAT
*
48628924 AAAAATCATAAAATATATAGAAATATAA
1 AAAAATTATAAAATATATAGAAATATAA
* *
48628952 AAAAATTATAAAATTTTATA-AAGTCATAA
1 AAAAATTATAAAA-TATATAGAAAT-ATAA
* *
48628981 GAAAATTATAAAAAATATAAAGAAATATAA
1 AAAAATTAT--AAAATATATAGAAATATAA
48629011 A
1 A
48629012 TTTCGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
28 15 0.32
29 17 0.36
30 8 0.17
31 7 0.15
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAATTATAAAATATATAGAAATATAA
Found at i:48629013 original size:47 final size:47
Alignment explanation
Indices: 48628887--48629036 Score: 134
Period size: 47 Copynumber: 3.2 Consensus size: 47
48628877 AAAATTTATT
* *
48628887 AAAAATTAGAAAAAATAT-AAAAATCGTAAAATTTTATAAAAATCATA
1 AAAAATTATAAAAAATATAAAAAAT-ATAAAATTTTATAAAAATCATA
* * *
48628934 AAATA-TAT-AGAAATATAAAAAAATTATAAAATTTTAT-AAAGTCATA
1 AAAAATTATAAAAAATAT-AAAAAA-TATAAAATTTTATAAAAATCATA
*
48628980 AGAAAATTATAAAAAATATAAAGAAATAT-AAATTTCGTAAAAAAAT-AT-
1 A-AAAATTATAAAAAATATAAA-AAATATAAAATTT--TATAAAAATCATA
48629028 AAAAATTAT
1 AAAAATTAT
48629037 CGTACCAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
45 7 0.08
46 11 0.13
47 37 0.44
48 11 0.13
49 14 0.17
50 4 0.05
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (47 bp):
AAAAATTATAAAAAATATAAAAAATATAAAATTTTATAAAAATCATA
Found at i:48629264 original size:18 final size:19
Alignment explanation
Indices: 48629241--48629293 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
48629231 TTAAATTTTA
48629241 AAAATTTTATATTTTAT-T
1 AAAATTTTATATTTTATCT
*
48629259 AAAATTTAATAATTTT-TCT
1 AAAATTTTAT-ATTTTATCT
48629278 AAAA-TTTAT-TTTTATC
1 AAAATTTTATATTTTATC
48629294 GCTTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 4 0.13
17 2 0.07
18 14 0.47
19 10 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
AAAATTTTATATTTTATCT
Found at i:48629273 original size:19 final size:18
Alignment explanation
Indices: 48629241--48629285 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
48629231 TTAAATTTTA
*
48629241 AAAATTTTATATTTTAT-T
1 AAAATTTAATATTTT-TCT
48629259 AAAATTTAATAATTTTTCT
1 AAAATTTAAT-ATTTTTCT
48629278 AAAATTTA
1 AAAATTTA
48629286 TTTTTATCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTTAATATTTTTCT
Found at i:48629275 original size:27 final size:27
Alignment explanation
Indices: 48629213--48629275 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
48629203 ATTTTTATAA
* *
48629213 AATAATTTCTAATTTTTATTAAATTTT
1 AATAATTTTTAATTTTTATTAAAATTT
*
48629240 AA-AAATTTT-ATATTTTATTAAAATTT
1 AATAATTTTTAAT-TTTTATTAAAATTT
48629266 AATAATTTTT
1 AATAATTTTT
48629276 CTAAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.67
27 8 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
AATAATTTTTAATTTTTATTAAAATTT
Found at i:48629760 original size:10 final size:10
Alignment explanation
Indices: 48629745--48629771 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
48629735 TCTCCTTTCT
48629745 CTTCTTCAAC
1 CTTCTTCAAC
48629755 CTTCTTCAAC
1 CTTCTTCAAC
48629765 CTTCTTC
1 CTTCTTC
48629772 TGTTATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTCTTCAAC
Found at i:48632593 original size:14 final size:14
Alignment explanation
Indices: 48632570--48632609 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48632560 ACAGAAAAGT
*
48632570 AAAATATTTTCCAG
1 AAAATATTTTACAG
* *
48632584 AAATTATTTTACGG
1 AAAATATTTTACAG
48632598 AAAATATTTTAC
1 AAAATATTTTAC
48632610 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (14 bp):
AAAATATTTTACAG
Found at i:48632601 original size:34 final size:35
Alignment explanation
Indices: 48632535--48632601 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
48632525 CAAACACCAG
48632535 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
48632570 AAAATATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
48632602 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:48633813 original size:18 final size:18
Alignment explanation
Indices: 48633777--48633811 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48633767 TTTACGATAA
48633777 CATTGATTTCTCATTTTT
1 CATTGATTTCTCATTTTT
*
48633795 CATTGA-TTCTTATTTTT
1 CATTGATTTCTCATTTTT
48633812 TCCATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (18 bp):
CATTGATTTCTCATTTTT
Found at i:48634635 original size:32 final size:35
Alignment explanation
Indices: 48634590--48634671 Score: 118
Period size: 32 Copynumber: 2.5 Consensus size: 35
48634580 GTTTTTTTTT
*
48634590 TAAATTAATTAAATTAGATTTT-TGGGTTTTAA-A
1 TAAATTAATTAAATTAGATTTTAGGGGTTTTAAGA
*
48634623 TAAA-TAATTAAATTAGGTTTTAGGGGTTTTAAGA
1 TAAATTAATTAAATTAGATTTTAGGGGTTTTAAGA
48634657 -AAATTAATTAAATTA
1 TAAATTAATTAAATTA
48634672 TGGTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
32 16 0.36
33 16 0.36
34 12 0.27
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (35 bp):
TAAATTAATTAAATTAGATTTTAGGGGTTTTAAGA
Found at i:48635208 original size:251 final size:250
Alignment explanation
Indices: 48634750--48635646 Score: 1309
Period size: 251 Copynumber: 3.6 Consensus size: 250
48634740 AAAAAATTGT
* ** *
48634750 TTTTTCTACAGTAGTTCCCGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAGGTAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
* * * *
48634815 ACGCTTCAAGTAAGATGCATTGTCAGCAAAATTATGTAAAAAAAGCTCCCACGTGGACGCTCTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA-CT-AAAAAAGCTCCCACGTGGACGCTCTTT
*
48634880 TTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACG
129 TTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACG
*
48634944 CTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCTCATGTGGACGCTA
194 CTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTC-CATGTGGACGCTC
*
48635002 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
* * * * *
48635067 ATGCTTCAAGCAGGATGCACTATCA-TAAAATTACTGAAAAAAGCTCCCACGCGAACGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTCTTTT
* *
48635131 TCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAATGTCAAAAACGC
130 TCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGC
48635196 TTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGGACGCTC
195 TTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCT-CCATGTGGACGCTC
* * *
48635253 TTTTTCTACAGTAGTTCCTGAGAAAATAATTTTGAGAAAACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
* * *
48635318 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCATGTGGACACTTTTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTCTTTTT
* * * * * *
48635383 CTACAGTAATTCTTGAAAAAATAATTTTGACAAGATGGTTCTGAACAAATAGTGTAAAAAATGCT
131 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCT
* * * * *
48635448 TCAAGCA-GATGCACTGTCAG-AAAATT-GCTAAAAAAAGCTCCTACGCGAATGCTC
196 TCAAGCAGGATGCACTGTCAGCAAAATTAG-TGAAAAAAGCTCC-ATGTGGACGCTC
* * * * *
48635502 TTTTCCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
* * *
48635567 ACACTTCAATCAGGATGCACTGTTAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTCTTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTCTTTTT
48635632 CTACAGTAGTTCTTG
131 CTACAGTAGTTCTTG
48635647 TTTGGCCTTA
Statistics
Matches: 583, Mismatches: 57, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
248 3 0.01
249 156 0.27
250 54 0.09
251 280 0.48
252 90 0.15
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (250 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTCTTTTT
CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCT
TCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCATGTGGACGCTC
Found at i:48635646 original size:125 final size:126
Alignment explanation
Indices: 48634750--48635643 Score: 1257
Period size: 125 Copynumber: 7.1 Consensus size: 126
48634740 AAAAAATTGT
* *
48634750 TTTTTCTACAGTAGTTCCCGAAAAAATAATTTTGAGAAGACGGTTCT-AA-AAAGGTAATGTCAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAA--TAGTGTCAA
* * *
48634813 AAACGCTTCAAGTAAGATGCATTGTCAGCAAAATTA-TGTAAAAAAAGCTCCCACGTGGACGCTC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG--AAAAAAGCTCCCACGTGGACGCTC
*
48634877 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * *
48634941 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCTCATGTGGACGCTA
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
48635002 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * * *
48635067 ATGCTTCAAGCAGGATGCACTATCA-TAAAATTACTGAAAAAAGCTCCCACGCGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
48635127 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* *
48635192 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
48635253 TTTTTCTACAGTAGTTCCTGAGAAAATAATTTTGAGAAAACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
48635318 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
48635378 TTTTTCTACAGTAATTCTTGAAAAAATAATTTTGACAAGATGGTTCTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * * * * *
48635443 ATGCTTCAAGCA-GATGCACTGTCAG-AAAATTGCTAAAAAAAGCTCCTACGCGAATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
48635502 TTTTCCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
48635567 ACACTTCAATCAGGATGCACTGTTAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
48635627 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
48635644 TTGTTTGGCC
Statistics
Matches: 681, Mismatches: 78, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
123 8 0.01
124 98 0.14
125 287 0.42
126 263 0.39
127 22 0.03
128 3 0.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:48647697 original size:22 final size:21
Alignment explanation
Indices: 48647667--48647710 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
48647657 TTTGATAAAC
48647667 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
48647689 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
48647710 T
1 T
48647711 CAACTTAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:48649279 original size:12 final size:11
Alignment explanation
Indices: 48649254--48649291 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
48649244 GAACATGAAG
48649254 AATTTTA-ATT
1 AATTTTATATT
48649264 AATTTTATAGTT
1 AATTTTATA-TT
48649276 AATTTT-TATT
1 AATTTTATATT
48649286 AATTTT
1 AATTTT
48649292 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:48650630 original size:14 final size:14
Alignment explanation
Indices: 48650613--48650640 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48650603 TTTTTTTTTA
48650613 CTTAGTTTTTAACC
1 CTTAGTTTTTAACC
48650627 CTTAGTTTTTAACC
1 CTTAGTTTTTAACC
48650641 ATCTTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
CTTAGTTTTTAACC
Found at i:48655212 original size:11 final size:11
Alignment explanation
Indices: 48655196--48655234 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
48655186 TATATAAATA
48655196 TATAAATTAAT
1 TATAAATTAAT
*
48655207 TATAAAGTATAT
1 TATAAATTA-AT
48655219 TATTAAATTAAT
1 TA-TAAATTAAT
48655231 TATA
1 TATA
48655235 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:48655246 original size:14 final size:17
Alignment explanation
Indices: 48655214--48655251 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
48655204 AATTATAAAG
48655214 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
48655231 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
48655245 TATATTA
1 TATATTA
48655252 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:48656281 original size:21 final size:22
Alignment explanation
Indices: 48656253--48656316 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
48656243 GCTTTGCCGA
48656253 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
* **
48656275 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTCGTAT
* *
48656295 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTCGTAT
48656317 ACTGCTTCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAGGCACTATATGTGTCGTAT
Found at i:48661704 original size:124 final size:125
Alignment explanation
Indices: 48661484--48661832 Score: 592
Period size: 124 Copynumber: 2.8 Consensus size: 125
48661474 CCCAAACATG
* *
48661484 CTACTGTAGCAAAAGCACGTCTACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
48661549 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * * * *
48661608 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCAATTTCATAAATTCTTCTTAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
48661673 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * *
48661733 CTACTGTAGCAAAAGCACGTTCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
48661798 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC
48661833 GATTTTATAC
Statistics
Matches: 208, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
124 107 0.51
125 101 0.49
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
Found at i:48661836 original size:28 final size:28
Alignment explanation
Indices: 48661804--48661860 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
48661794 CTGCTAGAAG
48661804 CGATTTTATACTATTTGCTCAGAAACGT
1 CGATTTTATACTATTTGCTCAGAAACGT
48661832 CGATTTTATACTATTTGCTCAGAAACGT
1 CGATTTTATACTATTTGCTCAGAAACGT
48661860 C
1 C
48661861 AACTCGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (28 bp):
CGATTTTATACTATTTGCTCAGAAACGT
Found at i:48661874 original size:28 final size:28
Alignment explanation
Indices: 48661813--48661875 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
48661803 GCGATTTTAT
* * ** *
48661813 ACTATTTGCTCAGAAACGTCGATTTTAT
1 ACTATTTGCTCAGAAACGTCAACTCGAA
48661841 ACTATTTGCTCAGAAACGTCAACTCGAA
1 ACTATTTGCTCAGAAACGTCAACTCGAA
*
48661869 ATTATTT
1 ACTATTT
48661876 TTTCAAGACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (28 bp):
ACTATTTGCTCAGAAACGTCAACTCGAA
Found at i:48664078 original size:9 final size:9
Alignment explanation
Indices: 48664061--48664097 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
48664051 TGAGTTTTCA
48664061 AATTCGAAT
1 AATTCGAAT
*
48664070 AACTCGAAT
1 AATTCGAAT
48664079 AATTCGAAT
1 AATTCGAAT
48664088 AATTCGAAT
1 AATTCGAAT
48664097 A
1 A
48664098 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:48664638 original size:9 final size:9
Alignment explanation
Indices: 48664624--48664652 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
48664614 AATTTCACAT
48664624 TTTATATTA
1 TTTATATTA
48664633 TTTATATTA
1 TTTATATTA
48664642 TTTATATTA
1 TTTATATTA
48664651 TT
1 TT
48664653 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:48665133 original size:5 final size:5
Alignment explanation
Indices: 48665123--48665148 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48665113 CTCGAAAATT
48665123 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
48665149 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:48665211 original size:7 final size:7
Alignment explanation
Indices: 48665184--48665224 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
48665174 CCCGAAAGTT
48665184 TAAAATAA
1 TAAAAT-A
* *
48665192 TATAATT
1 TAAAATA
48665199 TAAAATA
1 TAAAATA
48665206 TAAAATA
1 TAAAATA
48665213 TAAAATA
1 TAAAATA
48665220 TAAAA
1 TAAAA
48665225 GTAGTTTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TAAAATA
Found at i:48671042 original size:15 final size:15
Alignment explanation
Indices: 48671003--48671052 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
48670993 GTGATTTGAA
48671003 TTTTTTTCTTT-TTC
1 TTTTTTTCTTTGTTC
*
48671017 TTCGCTTTTCTTTGTTC
1 TT--TTTTTCTTTGTTC
48671034 TTTTTTTC-TTGTCTC
1 TTTTTTTCTTTGT-TC
48671049 TTTT
1 TTTT
48671053 GTTCATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.20
15 11 0.37
16 8 0.27
17 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTTTTCTTTGTTC
Found at i:48671952 original size:17 final size:18
Alignment explanation
Indices: 48671932--48671965 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48671922 TATATGAATA
*
48671932 TATTTTTTATA-ACATAC
1 TATTTTATATATACATAC
48671949 TATTTTATATATACATA
1 TATTTTATATATACATA
48671966 TATAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTTATATATACATAC
Found at i:48677813 original size:3 final size:3
Alignment explanation
Indices: 48677805--48677853 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
48677795 ATATATTGAT
48677805 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48677853 T
1 T
48677854 CATCTTGGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48678901 original size:20 final size:21
Alignment explanation
Indices: 48678876--48678914 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
48678866 AATTTGTTGA
48678876 TTAAATATTTATG-ATTATTT
1 TTAAATATTTATGAATTATTT
*
48678896 TTAAATTTTTATGAATTAT
1 TTAAATATTTATGAATTAT
48678915 ACATGGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTAAATATTTATGAATTATTT
Found at i:48682372 original size:30 final size:29
Alignment explanation
Indices: 48682319--48682375 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
48682309 TTGAAATATT
48682319 ATTTTTAAAATGATTTTACAAGTTTTTAA
1 ATTTTTAAAATGATTTTACAAGTTTTTAA
** *
48682348 ATTTTTAAATATTTTTTTATAAGTTTTT
1 ATTTTTAAA-ATGATTTTACAAGTTTTT
48682376 CTAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (29 bp):
ATTTTTAAAATGATTTTACAAGTTTTTAA
Found at i:48692519 original size:23 final size:23
Alignment explanation
Indices: 48692493--48692537 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
48692483 TGACCCTCCA
*
48692493 ATTTTAAAATATATGTTTTTTTT
1 ATTTTAAAATATATATTTTTTTT
* *
48692516 ATTTTTAAATTTATATTTTTTT
1 ATTTTAAAATATATATTTTTTT
48692538 ATCAAATCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
ATTTTAAAATATATATTTTTTTT
Found at i:48703425 original size:17 final size:16
Alignment explanation
Indices: 48703383--48703450 Score: 55
Period size: 16 Copynumber: 4.0 Consensus size: 16
48703373 CAGAAGAATA
*
48703383 TGCCAAACCACAAATCT
1 TGCCAAAACACAAAT-T
* *
48703400 CGCCAAAAACATAGAATT
1 TGCC-AAAACACA-AATT
48703418 TGCCAAAACACAAATT
1 TGCCAAAACACAAATT
* *
48703434 TGTCAAATCACATAATT
1 TGCCAAAACACA-AATT
48703451 CACCAATCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
16 14 0.34
17 14 0.34
18 10 0.24
19 3 0.07
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (16 bp):
TGCCAAAACACAAATT
Found at i:48704191 original size:15 final size:15
Alignment explanation
Indices: 48704171--48704202 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48704161 CATTTCACTA
*
48704171 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
48704186 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
48704201 TT
1 TT
48704203 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:48705861 original size:37 final size:36
Alignment explanation
Indices: 48705808--48705883 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
48705798 ATTCTAAAAA
*
48705808 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
48705844 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
48705881 TAA
1 TAA
48705884 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:48705883 original size:11 final size:11
Alignment explanation
Indices: 48705808--48705883 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
48705798 ATTCTAAAAA
*
48705808 TAATATTATTT
1 TAATATTAATT
48705819 TAATAGTTTAATAT
1 TAATA--TTAAT-T
48705833 TAA-ATTTAATT
1 TAATA-TTAATT
*
48705844 TAATATTTATCT
1 TAATATTAAT-T
*
48705856 TAATAGT-ATT
1 TAATATTAATT
48705866 T--TATTAATT
1 TAATATTAATT
48705875 TAATATTAA
1 TAATATTAA
48705884 AGTGATTAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:48713117 original size:46 final size:46
Alignment explanation
Indices: 48713048--48713136 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
48713038 GTCTACTATC
*
48713048 TTTAAACTCAATACAACAGGTGATTTAAGTCATATCACATCCTGGT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGGT
* * *
48713094 TTTAAACTCAATATAACAAGTGATTTAAGTCCTATCAGATCCT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCT
48713137 AATGTAGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (46 bp):
TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGGT
Found at i:48720727 original size:13 final size:13
Alignment explanation
Indices: 48720711--48720740 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48720701 ATTGTCATGT
*
48720711 AATTGTTTTTCTG
1 AATTGATTTTCTG
48720724 AATTGATTTTCTG
1 AATTGATTTTCTG
48720737 AATT
1 AATT
48720741 TAGCTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (13 bp):
AATTGATTTTCTG
Found at i:48721520 original size:18 final size:17
Alignment explanation
Indices: 48721492--48721526 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48721482 ATTATTAAGA
*
48721492 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48721509 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48721527 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48721783 original size:16 final size:16
Alignment explanation
Indices: 48721762--48721829 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
48721752 GATTTGCTAT
48721762 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
48721778 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
48721794 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
48721810 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
48721826 TACA
1 TACA
48721830 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48723451 original size:20 final size:20
Alignment explanation
Indices: 48723426--48723466 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
48723416 TTGCAGGGTT
48723426 TTGGAGTTAT-ATGATGTTAC
1 TTGGAGTTATAAT-ATGTTAC
*
48723446 TTGGAGTTTTAATATGTTAC
1 TTGGAGTTATAATATGTTAC
48723466 T
1 T
48723467 CTATGGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (20 bp):
TTGGAGTTATAATATGTTAC
Found at i:48727154 original size:26 final size:26
Alignment explanation
Indices: 48727102--48727154 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
48727092 ACCTTCACAC
* * * * *
48727102 TAATATTGCATCATAGCTGCTAGTAG
1 TAATAATGCAGCAGAGCTGCCAATAG
48727128 TAATAATGCAGCAGAGCTGCCAATAG
1 TAATAATGCAGCAGAGCTGCCAATAG
48727154 T
1 T
48727155 TAGAATGGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (26 bp):
TAATAATGCAGCAGAGCTGCCAATAG
Found at i:48727332 original size:64 final size:66
Alignment explanation
Indices: 48727231--48727383 Score: 229
Period size: 64 Copynumber: 2.3 Consensus size: 66
48727221 TACAATAATG
* *
48727231 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAAC-G-GTAAC
1 TGATTGGCACAAAGCCATCAGTAGCAGTGATAAGATCGACACACAACCATCAGTAACAGTGAAAC
48727294 A
66 A
* * * *
48727295 TGATTGGCACAAAGCCATCAGTAGCAGTGATAAGATCGGCACACAGCTATCAGTAACAGTGAAAT
1 TGATTGGCACAAAGCCATCAGTAGCAGTGATAAGATCGACACACAACCATCAGTAACAGTGAAAC
48727360 A
66 A
*
48727361 TGATCGGCACAAAGCCATCAGTA
1 TGATTGGCACAAAGCCATCAGTA
48727384 ACGATACTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
64 53 0.66
65 1 0.01
66 26 0.32
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (66 bp):
TGATTGGCACAAAGCCATCAGTAGCAGTGATAAGATCGACACACAACCATCAGTAACAGTGAAAC
A
Found at i:48727371 original size:34 final size:32
Alignment explanation
Indices: 48727231--48727385 Score: 177
Period size: 32 Copynumber: 4.8 Consensus size: 32
48727221 TACAATAATG
* *
48727231 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * * *
48727263 TGATCGACACACAA-CCATCAGTAACGGTAACA
1 TGATCGGCACA-AAGCCATCAGTAACAGTGATA
* *
48727295 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * *
48727327 AGATCGGCACACAGCTATCAGTAACAGTGAAATA
1 TGATCGGCACAAAGCCATCAGTAACAGTG--ATA
48727361 TGATCGGCACAAAGCCATCAGTAAC
1 TGATCGGCACAAAGCCATCAGTAAC
48727386 GATACTATGA
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
31 2 0.02
32 70 0.71
33 2 0.02
34 25 0.25
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATA
Found at i:48727414 original size:21 final size:21
Alignment explanation
Indices: 48727388--48727427 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48727378 TCAGTAACGA
48727388 TACTATGAACGACACAAAGGG
1 TACTATGAACGACACAAAGGG
* *
48727409 TACTATGATCGGCACAAAG
1 TACTATGAACGACACAAAG
48727428 CCATCAGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (21 bp):
TACTATGAACGACACAAAGGG
Found at i:48727468 original size:26 final size:26
Alignment explanation
Indices: 48727439--48727492 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
48727429 CATCAGTAGC
*
48727439 ATCGCAGCAAAGTTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* * *
48727465 ATCGCAGCAGAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
48727491 AT
1 AT
48727493 ATGTGGCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:48729129 original size:20 final size:20
Alignment explanation
Indices: 48729104--48729141 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48729094 AAAGCATAAA
*
48729104 ATACCAAGTATCAACAAAAT
1 ATACCAAATATCAACAAAAT
48729124 ATACCAAATATCAACAAA
1 ATACCAAATATCAACAAA
48729142 GTGCATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.21, G:0.03, T:0.18
Consensus pattern (20 bp):
ATACCAAATATCAACAAAAT
Found at i:48731948 original size:28 final size:28
Alignment explanation
Indices: 48731892--48731949 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
48731882 AAAAATAATA
**
48731892 AAAATTAAATATTTTCATAATTTGAATG
1 AAAATTAAATATTTTCATAATTAAAATG
*
48731920 AAAATTAATTATTTT-ATAATTAAATATG
1 AAAATTAAATATTTTCATAATTAAA-ATG
48731948 AA
1 AA
48731950 TTTTGACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (28 bp):
AAAATTAAATATTTTCATAATTAAAATG
Found at i:48733033 original size:12 final size:12
Alignment explanation
Indices: 48733016--48733042 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48733006 TAATTTACAA
48733016 CCACGTGAGAAT
1 CCACGTGAGAAT
48733028 CCACGTGAGAAT
1 CCACGTGAGAAT
48733040 CCA
1 CCA
48733043 TTGTTCGACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (12 bp):
CCACGTGAGAAT
Found at i:48734423 original size:38 final size:39
Alignment explanation
Indices: 48734345--48734432 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 39
48734335 GTAGAAAACG
* * *
48734345 GTTGTACTTCGGTACTCCTGATCGCACTTACGTGCCCCT
1 GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
* * *
48734384 GTTGTACTT-AGTACCCCTCATCGTACTTATGTGCTCCT
1 GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
*
48734422 GTTGTATTTCA
1 GTTGTACTTCA
48734433 ATTCTCCTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 31 0.76
39 10 0.24
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.39
Consensus pattern (39 bp):
GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
Found at i:48740762 original size:22 final size:20
Alignment explanation
Indices: 48740709--48740765 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
48740699 TTATATACAT
*
48740709 ATATATACATACATTTTTATA
1 ATATATACATA-TTTTTTATA
48740730 ATATACGTACATATTTTTTATA
1 ATATA--TACATATTTTTTATA
48740752 ACTTATATACATAT
1 A--TATATACATAT
48740766 ATACATACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.16
22 16 0.52
23 6 0.19
24 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATATACATATTTTTTATA
Found at i:48740805 original size:47 final size:47
Alignment explanation
Indices: 48740745--48740914 Score: 122
Period size: 47 Copynumber: 3.6 Consensus size: 47
48740735 CGTACATATT
*
48740745 TTTTATAACTTATATACATATATACATACTTATATATATTTTTTATA
1 TTTTATAATTTATATACATATATACATACTTATATATATTTTTTATA
* * * *
48740792 TTTTATCATTTATAAACATATCTATATATA-TCTATAT-TCATATTCTTA-A
1 TTTTATAATTTATATACATA--TATACATACT-TATATAT-AT-TTTTTATA
*
48740841 TTTTCAT-A--TATAT--ATATATACATTCTTATATATATTTCTTATTATA
1 TTTT-ATAATTTATATACATATATACATACTTATATATA-TT-TT-TTATA
* * *
48740887 TCTTATAATTTATATATATATGTACATA
1 TTTTATAATTTATATACATATATACATA
48740915 TCTTTTTACA
Statistics
Matches: 94, Mismatches: 12, Indels: 31
0.69 0.09 0.23
Matches are distributed among these distances:
43 13 0.14
44 4 0.04
45 8 0.09
46 5 0.05
47 21 0.22
48 7 0.07
49 20 0.21
50 16 0.17
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (47 bp):
TTTTATAATTTATATACATATATACATACTTATATATATTTTTTATA
Found at i:48749569 original size:50 final size:50
Alignment explanation
Indices: 48749462--48749857 Score: 459
Period size: 50 Copynumber: 7.8 Consensus size: 50
48749452 ATTTGGGTAA
* **
48749462 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG---ATG
*
48749518 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
48749568 AGAGGTCTCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
48749618 ACAGGTACCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
48749668 AGAGGTCCCATTTAAGACCATGTTTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
48749718 GGAGGTCCTATGTAAGACCATGTCTCGGACATGACGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
48749768 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
48749818 AGAACTCTCATGTAAGACCATATCTGGGATATGACATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
48749858 TAGTACAAGA
Statistics
Matches: 292, Mismatches: 48, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
50 249 0.85
53 4 0.01
56 39 0.13
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:48749698 original size:150 final size:149
Alignment explanation
Indices: 48749469--48749908 Score: 499
Period size: 150 Copynumber: 2.9 Consensus size: 149
48749459 TAAAGAGATC
*
48749469 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTATGAGAGGTCCCATGTAAG
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGC---ATCGAG---ATGAGAGGTCCCATGTAAG
48749534 ACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCATGTAAGACCATGTCTGGGACA
60 ACCATGTTTGGGACATGGCATTGGCA-CGAGATGAGAGGTCTCATGTAAGACCATGTCTGGGACA
*
48749599 TAGCGTTGGCACCGAGATGACAGGTA
124 TAGCGTTGGCACCAAGATGACAGGTA
*
48749625 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATTTAAGACCATG
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATGTAAGACCATG
* * *
48749690 TTTGGGACATGGCGTTGGCACTGAGATGGGAGGTC-CTATGTAAGACCATGTCTCGGACAT-GAC
66 TTTGGGACATGGCATTGGCAC-GAGATGAGAGGTCTC-ATGTAAGACCATGTCTGGGACATAG-C
* *
48749753 GTTGGCACCAAGATGAGAGGTC
128 GTTGGCACCAAGATGACAGGTA
** * * * * ** * *
48749775 CCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCTATATGAGAACTCTCATGTAAGACCATA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATGTAAGACCATG
* * * * * * * ** * *
48749840 TCTGGGATATGACATTGGTA-GTACAAGAAACATCTCATGTAAGACTATGTCTGGGACATAGCTT
66 TTTGGGACATGGCATTGGCACG-AGATGAGAGGTCTCATGTAAGACCATGTCTGGGACATAGCGT
48749904 TGGCA
130 TGGCA
48749909 TGTTATATTC
Statistics
Matches: 245, Mismatches: 33, Indels: 19
0.82 0.11 0.06
Matches are distributed among these distances:
148 1 0.00
149 37 0.15
150 168 0.69
153 5 0.02
156 34 0.14
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (149 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCATGTAAGACCATG
TTTGGGACATGGCATTGGCACGAGATGAGAGGTCTCATGTAAGACCATGTCTGGGACATAGCGTT
GGCACCAAGATGACAGGTA
Found at i:48760653 original size:7 final size:7
Alignment explanation
Indices: 48760643--48760667 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48760633 AACAATTAAC
48760643 ATATAAT
1 ATATAAT
48760650 ATATAAT
1 ATATAAT
48760657 ATATAAT
1 ATATAAT
48760664 ATAT
1 ATAT
48760668 GATAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATAAT
Found at i:48760791 original size:28 final size:28
Alignment explanation
Indices: 48760740--48760793 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
48760730 ACTGTTCTAA
*
48760740 AATATTTATAAAAAAGGCATCTAATTTT
1 AATATTTATAAAAAAGGCAACTAATTTT
*
48760768 AATATTTA-CAAAAAGGACAACTAATT
1 AATATTTATAAAAAAGG-CAACTAATT
48760794 ATTGAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (28 bp):
AATATTTATAAAAAAGGCAACTAATTTT
Found at i:48767984 original size:17 final size:17
Alignment explanation
Indices: 48767962--48767995 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48767952 AAAAAAGATT
48767962 GTTAAAACTACTTCTAA
1 GTTAAAACTACTTCTAA
48767979 GTTAAAACTACTTCTAA
1 GTTAAAACTACTTCTAA
48767996 AGAAAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
GTTAAAACTACTTCTAA
Found at i:48775202 original size:23 final size:22
Alignment explanation
Indices: 48775163--48775221 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
48775153 TTTTCTTTAG
*
48775163 TTTCTTT-TTTCTCCTTCGTTCCT
1 TTTCTTTCTTT-TCCTTC-TTCAT
*
48775186 TTTCTTTCTTTTTCTTCTTCAT
1 TTTCTTTCTTTTCCTTCTTCAT
*
48775208 TTGTTTTTCTTTTC
1 TT-TCTTTCTTTTC
48775222 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 6 0.20
23 21 0.70
24 3 0.10
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (22 bp):
TTTCTTTCTTTTCCTTCTTCAT
Found at i:48775990 original size:104 final size:104
Alignment explanation
Indices: 48775875--48776117 Score: 301
Period size: 104 Copynumber: 2.3 Consensus size: 104
48775865 AGTGTAGGGT
* * * * *
48775875 TCACACGGGCAAGGACACGGGCGTGTGTCTAGGCCGTGTAACTCACTATTTGTGACTT-AGAACC
1 TCACACGGGCAAGGACATGGGCGTGTGTCCAAGCCAT-TAACTCACTATTTATG-CTTGAGAACC
* * ** *
48775939 ACATGGTC-AGGGACATGGGTGTGTGTCCAGGCCATGTGAG
64 ACATGGGCAAAGGACATAAGTGTGTGTCCAAGCCATGTGAG
* *
48775979 TCACACGGGCAAGGACATGGGCGTGTGTCCAAGCCATTAACTCACTATTTATGTTTGAGAACCGC
1 TCACACGGGCAAGGACATGGGCGTGTGTCCAAGCCATTAACTCACTATTTATGCTTGAGAACCAC
*
48776044 ATGGGCAAAGGACATAAGTGTGTGTCCAAGCCGTGTGAG
66 ATGGGCAAAGGACATAAGTGTGTGTCCAAGCCATGTGAG
* * * *
48776083 CCACACGGGTAAGGACATGGGCGTCTGCCCAAGCC
1 TCACACGGGCAAGGACATGGGCGTGTGTCCAAGCC
48776118 GTGTGGCATA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
102 2 0.02
103 27 0.22
104 91 0.76
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (104 bp):
TCACACGGGCAAGGACATGGGCGTGTGTCCAAGCCATTAACTCACTATTTATGCTTGAGAACCAC
ATGGGCAAAGGACATAAGTGTGTGTCCAAGCCATGTGAG
Found at i:48781404 original size:21 final size:21
Alignment explanation
Indices: 48781375--48781415 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48781365 AAGCCCGAGG
* *
48781375 GCTACACAGAAGCACATAAGT
1 GCTAAACAGAAACACATAAGT
*
48781396 GCTAAACAGAAACCCATAAG
1 GCTAAACAGAAACACATAAG
48781416 GGTTGAACGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.12
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGT
Found at i:48781434 original size:21 final size:21
Alignment explanation
Indices: 48781404--48781507 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 21
48781394 GTGCTAAACA
48781404 GAAACCCATAAGGGTTGAACG
1 GAAACCCATAAGGGTTGAACG
** * * *
48781425 GAGGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAACG
* *
48781446 GAAACCCATAAGGGTTAAACA
1 GAAACCCATAAGGGTTGAACG
* * * * * * *
48781467 GAAGCTCAAAAGAGCTAAATG
1 GAAACCCATAAGGGTTGAACG
*
48781488 GAAACCCATTAGGGTTGAAC
1 GAAACCCATAAGGGTTGAAC
48781508 AAAAACTCAT
Statistics
Matches: 56, Mismatches: 27, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (21 bp):
GAAACCCATAAGGGTTGAACG
Found at i:48781436 original size:42 final size:42
Alignment explanation
Indices: 48781380--48781518 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 42
48781370 CGAGGGCTAC
* * *
48781380 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * * *
48781422 ACGGAGGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * *
48781464 ACAGAAGCTCAAAAGAGCTAAATGGAAACCCATTAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* *
48781506 ACAAAAACTCATA
1 ACAGAAGCTCATA
48781519 TGAGTTAACA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
Found at i:48782046 original size:38 final size:38
Alignment explanation
Indices: 48782003--48782076 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 38
48781993 ATTAATATTA
48782003 AAATAAGCTA-TTTTTCTCAATTAATATTTTAGTCTACC
1 AAATAAGCTATTTTTTCTCAATTAATATTTTA-TCTACC
48782041 AAATAAGCTATTTTTTCTCAATTAATATTTTATCTA
1 AAATAAGCTATTTTTTCTCAATTAATATTTTATCTA
48782077 AATACTCTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 14 0.40
39 21 0.60
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (38 bp):
AAATAAGCTATTTTTTCTCAATTAATATTTTATCTACC
Found at i:48782071 original size:17 final size:17
Alignment explanation
Indices: 48782013--48782071 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
48782003 AAATAAGCTA
48782013 TTTTTCTCAATTAATAT
1 TTTTTCTCAATTAATAT
* *
48782030 TTTAGTCTACCAAATAAGCTAT
1 TTT-TTCT--CAATTAA--TAT
48782052 TTTTTCTCAATTAATAT
1 TTTTTCTCAATTAATAT
48782069 TTT
1 TTT
48782072 ATCTAAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
17 9 0.27
18 3 0.09
19 6 0.18
20 6 0.18
21 3 0.09
22 6 0.18
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTTCTCAATTAATAT
Found at i:48788990 original size:21 final size:21
Alignment explanation
Indices: 48788939--48789032 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 21
48788929 AGGCTACACA
** **
48788939 GAAGCTCATAAATGTTAAATA
1 GAAGCTCATAAGGGTTAAACG
* * *
48788960 GAAACCCATAAGGGTTGAACG
1 GAAGCTCATAAGGGTTAAACG
* *
48788981 GAAGCTCATAAGAGCTAAACG
1 GAAGCTCATAAGGGTTAAACG
* * * *
48789002 GAAACCCATAAAGGTTAAACA
1 GAAGCTCATAAGGGTTAAACG
48789023 GAAGCTCATA
1 GAAGCTCATA
48789033 TGAGTTAATA
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (21 bp):
GAAGCTCATAAGGGTTAAACG
Found at i:48789039 original size:21 final size:20
Alignment explanation
Indices: 48788936--48789062 Score: 58
Period size: 21 Copynumber: 6.1 Consensus size: 20
48788926 CAAAGGCTAC
*
48788936 ACAGAAGCTCATAAATGTTAA
1 ACAGAAGCTCATAGA-GTTAA
* * * * *
48788957 ATAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCAT-AGAGTTAA
* *
48788978 ACGGAAGCTCATAAGAGCTAA
1 ACAGAAGCTCAT-AGAGTTAA
* * * *
48788999 ACGGAAACCCATAAAGGTTAA
1 ACAGAAGCTCATAGA-GTTAA
48789020 ACAGAAGCTCATATGAGTT-A
1 ACAGAAGCTCATA-GAGTTAA
* * *
48789040 ATAGAAGCTTATGAGAGCTAA
1 ACAGAAGCTCAT-AGAGTTAA
48789061 AC
1 AC
48789063 GGAAAGTAAA
Statistics
Matches: 76, Mismatches: 25, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
20 17 0.22
21 57 0.75
22 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (20 bp):
ACAGAAGCTCATAGAGTTAA
Found at i:48791303 original size:24 final size:26
Alignment explanation
Indices: 48791266--48791320 Score: 96
Period size: 24 Copynumber: 2.2 Consensus size: 26
48791256 TTCATCATTT
48791266 AATGGTAAGAACACCTAGCATTCATC
1 AATGGTAAGAACACCTAGCATTCATC
48791292 AATGG-AA-AACACCTAGCATTCATC
1 AATGGTAAGAACACCTAGCATTCATC
48791316 AATGG
1 AATGG
48791321 CAAGTTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 22 0.76
25 2 0.07
26 5 0.17
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (26 bp):
AATGGTAAGAACACCTAGCATTCATC
Found at i:48798239 original size:31 final size:31
Alignment explanation
Indices: 48798201--48798281 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
48798191 CAAACCTTTC
48798201 AAAGTGCTCAAATAAGGGCCAAAAGTTTTTG
1 AAAGTGCTCAAATAAGGGCCAAAAGTTTTTG
** **
48798232 AAAGTGCTCAAATAAAAGCCAAACTTTTTTG
1 AAAGTGCTCAAATAAGGGCCAAAAGTTTTTG
*
48798263 AAAGTACTCAAATAAGGGC
1 AAAGTGCTCAAATAAGGGC
48798282 TTCTCATATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTGCTCAAATAAGGGCCAAAAGTTTTTG
Found at i:48798666 original size:17 final size:18
Alignment explanation
Indices: 48798644--48798677 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48798634 ATAATTGTAA
48798644 TTTAAAT-TGTAATTATT
1 TTTAAATATGTAATTATT
48798661 TTTAAATATGTAATTAT
1 TTTAAATATGTAATTAT
48798678 CATAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATATGTAATTATT
Found at i:48809333 original size:13 final size:13
Alignment explanation
Indices: 48809317--48809348 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
48809307 TTTTTTAATA
48809317 CTCATTTTTTCTT
1 CTCATTTTTTCTT
48809330 CTCA-TTTTTCTT
1 CTCATTTTTTCTT
48809342 CTC-TTTT
1 CTCATTTT
48809349 CTCCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (13 bp):
CTCATTTTTTCTT
Found at i:48810498 original size:19 final size:20
Alignment explanation
Indices: 48810467--48810506 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
48810457 TGGGTAGGAC
48810467 TGTTTTCACAAAATCTGCAT
1 TGTTTTCACAAAATCTGCAT
*
48810487 TGTTTT-ACAAAATGTGCAT
1 TGTTTTCACAAAATCTGCAT
48810506 T
1 T
48810507 AACATGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTTTTCACAAAATCTGCAT
Found at i:48822779 original size:19 final size:19
Alignment explanation
Indices: 48822755--48822796 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
48822745 ACATATATAT
48822755 TACACATTTATTACATGTA
1 TACACATTTATTACATGTA
48822774 TACACATTTATTACATGTA
1 TACACATTTATTACATGTA
48822793 TACA
1 TACA
48822797 ATTGCACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (19 bp):
TACACATTTATTACATGTA
Found at i:48848894 original size:20 final size:20
Alignment explanation
Indices: 48848869--48848909 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
48848859 CAATTACATT
48848869 CAAAATTAAAATATTTATAA
1 CAAAATTAAAATATTTATAA
48848889 CAAAATTAAAATATTTATAA
1 CAAAATTAAAATATTTATAA
48848909 C
1 C
48848910 TTATAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
CAAAATTAAAATATTTATAA
Found at i:48854911 original size:15 final size:15
Alignment explanation
Indices: 48854891--48854921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48854881 GTTATGTAAG
48854891 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
48854906 TGAAAGGTTAAGAGT
1 TGAAAGGTCAAGAGT
48854921 T
1 T
48854922 ATGTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:48861584 original size:51 final size:49
Alignment explanation
Indices: 48861451--48861636 Score: 228
Period size: 51 Copynumber: 3.7 Consensus size: 49
48861441 GTGAAAGTGA
* * *
48861451 TGGTCACTTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * * *
48861501 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * *
48861551 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
*
48861601 GATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
48861637 TGTGAACCAG
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 43 0.37
51 71 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
Found at i:48861909 original size:37 final size:38
Alignment explanation
Indices: 48861840--48861912 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
48861830 ATGTGTGGAA
* * **
48861840 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTAAATAGTGACTTGAAAATGAAAAAGTGAATT
*
48861878 TTGAATTAAATAGTGA-TTGAAATTGAAAAAGTGAA
1 TTGAATTAAATAGTGACTTGAAAATGAAAAAGTGAA
48861913 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (38 bp):
TTGAATTAAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:48865098 original size:178 final size:179
Alignment explanation
Indices: 48864799--48865137 Score: 617
Period size: 178 Copynumber: 1.9 Consensus size: 179
48864789 TGATTTCATC
*
48864799 AAAACTTGAAGGTGGATTATGGCATTTTTTAGAGAAAATGGAGAATATGCAAGAGAAAATGAAAA
1 AAAACTTGAAGGTGGATTATGGCATTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGAAAA
*
48864864 AAGAAGAATATAGAGGCCATGGGGGAGCTGGCCAACTAGTTCTTAGCTGAATGGTGAG-GGGGGT
66 AAGAAGAACATAGAGGCCATGGGGGAGCTGGCCAACTAGTTCTTAGCTGAATGGTGAGCGGGGGT
*
48864928 TCCCCATTCTTCATTTTAAATACAACAAAAATGAATATAGAGAAAATGG
131 TCCCCATTCTTCATTTTAAATACAAAAAAAATGAATATAGAGAAAATGG
*
48864977 AAAACTTGAAGGTGGATTATGGCATTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAAA
1 AAAACTTGAAGGTGGATTATGGCATTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGAAAA
* *
48865042 AAGAAGAACATAGAGGCCATGGGGGAGCTGGCCAACTAGTTCTTAGTTGAATGGTGAGCGGGGTT
66 AAGAAGAACATAGAGGCCATGGGGGAGCTGGCCAACTAGTTCTTAGCTGAATGGTGAGCGGGGGT
48865107 TCCCCATTCTTCATTTTAAATACAAAAAAAA
131 TCCCCATTCTTCATTTTAAATACAAAAAAAA
48865138 ATAGGCTCAA
Statistics
Matches: 154, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
178 119 0.77
179 35 0.23
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.24
Consensus pattern (179 bp):
AAAACTTGAAGGTGGATTATGGCATTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGAAAA
AAGAAGAACATAGAGGCCATGGGGGAGCTGGCCAACTAGTTCTTAGCTGAATGGTGAGCGGGGGT
TCCCCATTCTTCATTTTAAATACAAAAAAAATGAATATAGAGAAAATGG
Found at i:48869687 original size:45 final size:45
Alignment explanation
Indices: 48869638--48869756 Score: 229
Period size: 45 Copynumber: 2.6 Consensus size: 45
48869628 TTTCAGCCAC
48869638 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
*
48869683 GGTCTTTTTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
48869728 GGTCTTATTTATTTTCGACATTATGCCAT
1 GGTCTTATTTATTTTCGACATTATGCCAT
48869757 TTCCATCATG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (45 bp):
GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
Found at i:48881861 original size:22 final size:22
Alignment explanation
Indices: 48881823--48881866 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
48881813 GTGGATGTCA
48881823 TGACTTTGGTGGCCCAATGTTG
1 TGACTTTGGTGGCCCAATGTTG
*
48881845 TGACTTTGG-GTCTCCAATGTTG
1 TGACTTTGGTGGC-CCAATGTTG
48881867 CAACTTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.14, C:0.18, G:0.30, T:0.39
Consensus pattern (22 bp):
TGACTTTGGTGGCCCAATGTTG
Found at i:48883188 original size:6 final size:6
Alignment explanation
Indices: 48883177--48883212 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
48883167 GGTTTTCTCC
*
48883177 AAAATG AAAATG AAAGTG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
48883213 GGGAAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:48883237 original size:75 final size:76
Alignment explanation
Indices: 48883131--48883285 Score: 233
Period size: 75 Copynumber: 2.0 Consensus size: 76
48883121 CATAAATGGT
* *
48883131 AAAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAGTGA
1 AAAATGGAGAAATA-GAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAATGA
48883196 AAATG-AAAATG
65 AAATGAAAAATG
* **
48883207 AAAATGGGGAAAT-GAAATCATTTGGAAATGAATATGGTTTTCTGTAAAATGAAAATGAAAATGA
1 AAAATGGAGAAATAGAAA-CATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAATGA
48883271 AAATGAAAAATG
65 AAATGAAAAATG
48883283 AAA
1 AAA
48883286 TTGACCTGGA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
74 4 0.06
75 47 0.65
76 21 0.29
ACGTcount: A:0.50, C:0.04, G:0.21, T:0.25
Consensus pattern (76 bp):
AAAATGGAGAAATAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAATGAA
AATGAAAAATG
Found at i:48883263 original size:6 final size:6
Alignment explanation
Indices: 48883252--48883285 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
48883242 GGTTTTCTGT
48883252 AAAATG AAAATG AAAATG AAAATG AAAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG -AAAATG AAA
48883286 TTGACCTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:48889627 original size:6 final size:6
Alignment explanation
Indices: 48889616--48889643 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48889606 AGAAAAATTT
48889616 CCCTTC CCCTTC CCCTTC CCCTTC CCCT
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCT
48889644 ATCCTTGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTTC
Found at i:48903794 original size:24 final size:24
Alignment explanation
Indices: 48903742--48903833 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
48903732 TCATGTACAT
*
48903742 GTATGCTCAT-ACGAGCTATGAATTG
1 GTATGCTC-TCACGAGCTGT-AATTG
48903767 GTATGCTCTCACGAGCTGTAATTG
1 GTATGCTCTCACGAGCTGTAATTG
* *
48903791 GTATGCTCCCACGAGCTGTAATCG
1 GTATGCTCTCACGAGCTGTAATTG
* *
48903815 GTCTACTCTCACGAGCTGT
1 GTATGCTCTCACGAGCTGT
48903834 GGGTTGGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
24 44 0.73
25 16 0.27
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (24 bp):
GTATGCTCTCACGAGCTGTAATTG
Found at i:48914268 original size:19 final size:21
Alignment explanation
Indices: 48914228--48914268 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48914218 TGATAATAAC
*
48914228 TAGTATATAATTATATTTTTA
1 TAGTATATAATTATATTATTA
48914249 TAGTATAT-ATTA-ATTATTA
1 TAGTATATAATTATATTATTA
48914268 T
1 T
48914269 CAACTTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TAGTATATAATTATATTATTA
Found at i:48914851 original size:8 final size:8
Alignment explanation
Indices: 48914838--48914863 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48914828 AATTTCAATT
48914838 TTATTTAA
1 TTATTTAA
48914846 TTATTTAA
1 TTATTTAA
48914854 TTATTTAA
1 TTATTTAA
48914862 TT
1 TT
48914864 TATTGAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:48915725 original size:3 final size:3
Alignment explanation
Indices: 48915717--48915757 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
48915707 CAAAGATCCC
48915717 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
48915758 TCCCACAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:48918576 original size:19 final size:19
Alignment explanation
Indices: 48918545--48918659 Score: 149
Period size: 19 Copynumber: 5.8 Consensus size: 19
48918535 AATCTTCAAG
*
48918545 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
48918564 GATTTGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
48918583 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
48918602 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
48918621 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
48918643 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
48918660 GATTTAATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
19 64 0.76
20 3 0.04
22 8 0.10
23 9 0.11
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:48918589 original size:38 final size:38
Alignment explanation
Indices: 48918545--48918659 Score: 185
Period size: 38 Copynumber: 2.9 Consensus size: 38
48918535 AATCTTCAAG
48918545 GATATGCAATCTTAGATATGATTTGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATTTGTAATCTTAGATAT
*
48918583 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATTTGTAATCTTAGATAT
48918621 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TTTGTAATCTTAGA
48918660 GATTTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 50 0.70
41 8 0.11
42 13 0.18
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.40
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATTTGTAATCTTAGATAT
Found at i:48919066 original size:15 final size:16
Alignment explanation
Indices: 48919048--48919079 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
48919038 TAATCCTCTA
48919048 TTTTTTATT-TTAAAT
1 TTTTTTATTATTAAAT
48919063 TTTTTTATTATTAAAT
1 TTTTTTATTATTAAAT
48919079 T
1 T
48919080 AATTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTATTATTAAAT
Found at i:48924251 original size:22 final size:23
Alignment explanation
Indices: 48924226--48924270 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
48924216 CCAAGATATA
48924226 AAAAAAAGAAA-AAAATAGAGAG
1 AAAAAAAGAAAGAAAATAGAGAG
* *
48924248 AAAAGAAGAAAGAAAATGGAGAG
1 AAAAAAAGAAAGAAAATAGAGAG
48924271 GCCAAGGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAAAGAAAATAGAGAG
Found at i:48925860 original size:88 final size:88
Alignment explanation
Indices: 48925467--48925851 Score: 520
Period size: 88 Copynumber: 4.4 Consensus size: 88
48925457 TTCCTTCTTG
* * * *
48925467 CACCGACAGCGAAGCAAATCGAAGACACCAACCTTGCCTCCCTGGGTTGTAGCGGAGCAGGCTAA
1 CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGAAGCAGGTTAA
* *
48925532 AAATAGAAGATCTTGTCTTCCTA
66 AAATAGCAGATCTTGCCTTCCTA
* * * * * *
48925555 CACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGTAGGTTAA
1 CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGAAGCAGGTTAA
* *
48925620 AAATAGCAGATCTTGCCTTCTTG
66 AAATAGCAGATCTTGCCTTCCTA
*
48925643 CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGATTGTAGC-AGAGCAGGTTA
1 CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGA-AGCAGGTTA
* *
48925707 AAAATAGCAAATCTTACCTTCCTA
65 AAAATAGCAGATCTTGCCTTCCTA
* * * * * *
48925731 TACCAACAACGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTGGGTTATAGTGAAGCAGGTTAA
1 CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGAAGCAGGTTAA
48925796 AAATAGCAGATCTTGCCTTCCTA
66 AAATAGCAGATCTTGCCTTCCTA
* * *
48925819 CACCGATAGCGAAGCAGATCGATGACCCCAGCC
1 CACCGACAGCGAAGCAGATCGAAGACACCAGCC
48925852 CTATCTCCCA
Statistics
Matches: 256, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
88 255 1.00
89 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (88 bp):
CACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGAAGCAGGTTAA
AAATAGCAGATCTTGCCTTCCTA
Found at i:48925968 original size:44 final size:44
Alignment explanation
Indices: 48925869--48925972 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
48925859 CCATGACAGT
*
48925869 AGTGGAATAGGTTGAAGATTATAAGTCCTATCTCCCTGGTCAGC
1 AGTGGAATAGGTTGAAGATTATAAGTCCTATCTCCCTGGTCAAC
* * *
48925913 AATGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCTTGAG-CAAC
1 AGTGGAATAGGTTGAAGATTAT-AAGTCCTATCTCCCTG-GTCAAC
*
48925957 AGTGGAGTAGGTTGAA
1 AGTGGAATAGGTTGAA
48925973 AATAGCAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 49 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
AGTGGAATAGGTTGAAGATTATAAGTCCTATCTCCCTGGTCAAC
Found at i:48926585 original size:45 final size:44
Alignment explanation
Indices: 48926336--48926842 Score: 225
Period size: 44 Copynumber: 11.7 Consensus size: 44
48926326 AAAGATAACG
* * *
48926336 AATCTTATCTCCCTGAAGTTACAGTGGAACAGA-T-TA-AAGCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGCC
* * * * * * *
48926377 AATAATCATATCTCCCTAAAGTCGTAGTGGAGCGGA-TTAA-AATCAC
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGC-C
* * * * *
48926423 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TC--GCATCT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGCC
* *
48926464 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGTAAG-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAGCC
* * * * *
48926507 AAGCCTTATC-CTCCTGAAATTGTAGT-GAGGCAGACTGAAGATGCC
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTCAAGAAGCC
* *
48926552 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-T-TA-AAGCC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGCC
* * ** * *
48926594 AATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGA-TTAA-AATCAC
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGC-C
* ** * *
48926640 ATATCTTATCTCTCTGAAGTTGCA-AAGAGCAGA-TC--GCA-TC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGCC
* *
48926680 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAGCC
* **
48926726 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGCC
* * * * * * *
48926770 AAGTCTTATC-CCCTAAAATTGCAGTGGGGCAGACTAAATAAACA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGCC
** * *
48926814 AATCCCATCTCCCTAAAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
48926843 TGGATTAGAA
Statistics
Matches: 352, Mismatches: 80, Indels: 62
0.71 0.16 0.13
Matches are distributed among these distances:
40 43 0.12
41 15 0.04
42 10 0.03
43 26 0.07
44 172 0.49
45 78 0.22
46 8 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAGCC
Found at i:48926709 original size:217 final size:218
Alignment explanation
Indices: 48926321--48926854 Score: 697
Period size: 217 Copynumber: 2.5 Consensus size: 218
48926311 GCAATTTAAA
* * * * *
48926321 AGACTAAAGATAA-CGAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCAATAATCA
1 AGACTCAAGA-AACCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC
* * *
48926385 TATCTCCCTAAAGTCGTAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
65 TATCTCCCTAAAGTTGTAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAG
* * *
48926450 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAGTAAGCAAGCCTT
130 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTT
*
48926514 ATC-CTCCTGAAATTGTAGT-GAGGC
195 ATCTC-CCTGAAATTGCAGTGGA-GC
* **
48926538 AGACTGAAGATGCCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTCAAGAAACCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* *
48926603 ATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCACATATCTTATCTCTCTGAAGTTGCAAAGA
66 ATCTCCCTAAAGTTGTAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
* *
48926668 GCAGATCGCATC-AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCGAGTCTT
131 GCAGATCGCATCTAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTT
*
48926732 ATCTCCCTGAAGTTGCAGTGGAGC
195 ATCTCCCTGAAATTGCAGTGGAGC
* * * * ** *
48926756 AGACTCAAGAAATC-AAGTCTTATC-CCCTAAAATTGCAGTGGGGCAGACTAAA-TAAACAAATC
1 AGACTCAAGAAACCGAA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAATC
* *
48926818 CCATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATC
64 CTATCTCCCTAAAGTTGTAGTGGAGTGGATTAAAATC
48926855 TCTCTAAAAT
Statistics
Matches: 278, Mismatches: 32, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
216 4 0.01
217 224 0.81
218 47 0.17
219 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (218 bp):
AGACTCAAGAAACCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTAAAGTTGTAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
TCTCCCTGAAATTGCAGTGGAGC
Found at i:48926804 original size:44 final size:45
Alignment explanation
Indices: 48926464--48926842 Score: 229
Period size: 44 Copynumber: 8.6 Consensus size: 45
48926454 GATCGCATCT
* *
48926464 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * * * *
48926508 AGCCTTATC-CTCCTGAAATTGTAGT-GAGGCAGACTGAAG-ATGCCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTCAAGAAAG-C-A
* * * * *
48926554 A-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCA
* * ** *
48926598 A-TCCTATCTCCCTGAAGTTGTAGTGGAGTGGA-TTAA-AATCA-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAA--AGCA
* ** * *
48926641 TA-TCTTATCTCTCTGAAGTTGCA-AAGAGCAGA-TC--G-CATC-
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* *
48926680 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
*
48926726 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * * * *
48926771 AGTCTTATC-CCCTAAAATTGCAGTGGGGCAGACTAAATAAA-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* ** * *
48926814 AATCCCATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
48926843 TGGATTAGAA
Statistics
Matches: 264, Mismatches: 48, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 21 0.08
41 8 0.03
42 1 0.00
43 22 0.08
44 121 0.46
45 81 0.31
46 7 0.03
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
Done.