Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 141 of 172
Found at i:46428998 original size:35 final size:35
Alignment explanation
Indices: 46428954--46429022 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
46428944 TTTACGATAG
46428954 AAAAAATATAATTTCACTGTTTTAATAGACTATAA
1 AAAAAATATAATTTCACTGTTTTAATAGACTATAA
46428989 AAAAAATATAATTTCACTGTTTTAATAGACTATA
1 AAAAAATATAATTTCACTGTTTTAATAGACTATA
46429023 TATTCATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (35 bp):
AAAAAATATAATTTCACTGTTTTAATAGACTATAA
Found at i:46431220 original size:18 final size:19
Alignment explanation
Indices: 46431185--46431240 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
46431175 AAATATGAAA
*
46431185 TTTGGAATTTTTATAAATC
1 TTTGGAATTTTTAAAAATC
*
46431204 TTTGGAA-TTTTAAAAATTG
1 TTTGGAATTTTTAAAAA-TC
* *
46431223 TTTTGAATTTTTCAAAAT
1 TTTGGAATTTTTAAAAAT
46431241 TATTTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.26
19 15 0.48
20 8 0.26
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTGGAATTTTTAAAAATC
Found at i:46431234 original size:20 final size:20
Alignment explanation
Indices: 46431184--46431251 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
46431174 AAAATATGAA
* *
46431184 ATTTGGAATTTTTATAAA-T
1 ATTTTGAATTTTTAAAAATT
* *
46431203 CTTTGGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
* *
46431222 GTTTTGAATTTTTCAAAATT
1 ATTTTGAATTTTTAAAAATT
*
46431242 ATTTTAAATT
1 ATTTTGAATT
46431252 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 8 0.20
19 14 0.35
20 18 0.45
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:46442287 original size:20 final size:20
Alignment explanation
Indices: 46442262--46442303 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46442252 AAATGAATAC
46442262 TATAATAATT-ATAATATAAT
1 TATAAT-ATTAATAATATAAT
*
46442282 TATAATATTAATAATATTAT
1 TATAATATTAATAATATAAT
46442302 TA
1 TA
46442304 ACAATCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAATATTAATAATATAAT
Found at i:46447805 original size:17 final size:16
Alignment explanation
Indices: 46447764--46447807 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
46447754 TTTTTAACGT
*
46447764 AAATATGAAAGCAAAA
1 AAATATTAAAGCAAAA
46447780 AAATAATTAAAGCAAAA
1 AAAT-ATTAAAGCAAAA
*
46447797 AGTATATTAAA
1 A-AATATTAAA
46447808 AATTGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 18 0.75
18 2 0.08
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (16 bp):
AAATATTAAAGCAAAA
Found at i:46449141 original size:20 final size:20
Alignment explanation
Indices: 46449116--46449165 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
46449106 TGGCTTAAAA
46449116 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
46449136 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
46449153 GTGGTAGTGGATT
1 TTGGTAGTGGATT
46449166 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:46453780 original size:20 final size:20
Alignment explanation
Indices: 46453755--46453804 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
46453745 TGGCTTAAAA
46453755 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
46453775 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
46453792 GTGGTAGTGGATT
1 TTGGTAGTGGATT
46453805 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:46457351 original size:3 final size:3
Alignment explanation
Indices: 46457343--46457398 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
46457333 AAATAAAACA
*
46457343 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
*
46457389 AAC AAT AAT A
1 AAT AAT AAT A
46457399 CAAGGACAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:46457469 original size:3 final size:3
Alignment explanation
Indices: 46457463--46457489 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46457453 AATAGTAGTA
46457463 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
46457490 GTAAAGATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:46457750 original size:3 final size:3
Alignment explanation
Indices: 46457742--46458082 Score: 128
Period size: 3 Copynumber: 111.7 Consensus size: 3
46457732 GTTTAATAGT
* * *
46457742 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA CACTA ATA TATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA -ATA ATA
* * *
46457790 ACA ACAA ATA ATA AT- ATA A-A AAA ATA GGA-A ATA ATA ATA ACGTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA A--TA
* * * * * * *
46457834 CTA ATA AGA ACA ATA ATA GGTTA ATA ATA ATG ATA ATA GTA AAA ATA
1 ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * *
46457881 ATA ATA AGG ATA A-A ATGA AGA ATA ATA GTA ATA CATTA ATA ATA A-A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
** * * *
46457927 ATCA GGA ATA ATA ATA ACA ATA ATA AT- ATAA ATA ATA AT- GTA AAA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * * * * *
46457972 ATA GTA ATA GTA ATA ATA ATG ATA ACA GAAA ATA ATG GTT ATA GTGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA AT-A
* * * * *
46458019 A-A ATA ATA ATA ATA ATG ATA ATA GTA A-A A-A ATA CTA GTA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46458064 ATA ATA AT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
46458083 TAAAATAAAA
Statistics
Matches: 245, Mismatches: 66, Indels: 54
0.67 0.18 0.15
Matches are distributed among these distances:
2 20 0.08
3 200 0.82
4 16 0.07
5 9 0.04
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:46464937 original size:24 final size:24
Alignment explanation
Indices: 46464909--46464958 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
46464899 TTATGAAGTT
*
46464909 TTTCAAAAAATTATATAATTATAA
1 TTTCAAAAAAATATATAATTATAA
* *
46464933 TTTCAAAAAAATATTTTATTATAA
1 TTTCAAAAAAATATATAATTATAA
46464957 TT
1 TT
46464959 GTTGAAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTCAAAAAAATATATAATTATAA
Found at i:46466044 original size:22 final size:22
Alignment explanation
Indices: 46465947--46466046 Score: 69
Period size: 22 Copynumber: 4.4 Consensus size: 22
46465937 GAAAAATGAA
*
46465947 TTAAAATAATATA-CAAACAAT
1 TTAAAATAATATATAAAACAAT
*
46465968 TTAAGGTAAATAAAATATAAAACAAT
1 TT-A---AAATAATATATAAAACAAT
* * *
46465994 TTTAAATAAT-TTTAAAAAAAT
1 TTAAAATAATATATAAAACAAT
** *
46466015 CAACAAATAATATATAAAACAGT
1 TTA-AAATAATATATAAAACAAT
46466038 TTAAAATAA
1 TTAAAATAA
46466047 ATAATATATA
Statistics
Matches: 58, Mismatches: 14, Indels: 13
0.68 0.16 0.15
Matches are distributed among these distances:
21 11 0.19
22 20 0.34
23 9 0.16
25 9 0.16
26 9 0.16
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (22 bp):
TTAAAATAATATATAAAACAAT
Found at i:46466078 original size:26 final size:25
Alignment explanation
Indices: 46466019--46466071 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
46466009 AAAAATCAAC
*
46466019 AAATAATATATAAAACAGTTTAAAAT
1 AAATAATATATAAAACA-TTAAAAAT
46466045 AAATAATATATATAAAC-TTAAAAAT
1 AAATAATATATA-AAACATTAAAAAT
46466070 AA
1 AA
46466072 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 12 0.48
27 4 0.16
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAACATTAAAAAT
Found at i:46467720 original size:46 final size:46
Alignment explanation
Indices: 46467610--46467729 Score: 120
Period size: 46 Copynumber: 2.6 Consensus size: 46
46467600 GATCTACTCT
*
46467610 ACTGAAACTTCA-AGGAGATAAGGATTG-GTAATTTCAACCTATTCC
1 ACTGCAACTTCAGA-GAGATAAGGATTGTGTAATTTCAACCTATTCC
* * * * * * * *
46467655 ACTACAATTTCAG-GAAGATAAGGTTTGTGTATTTTTATCCTGTTCG
1 ACTGCAACTTCAGAG-AGATAAGGATTGTGTAATTTCAACCTATTCC
46467701 ACTGCAACTTCAGAGAGATAAGGATTGTG
1 ACTGCAACTTCAGAGAGATAAGGATTGTG
46467730 GCTTCGATCT
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
44 1 0.02
45 20 0.34
46 37 0.63
47 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (46 bp):
ACTGCAACTTCAGAGAGATAAGGATTGTGTAATTTCAACCTATTCC
Found at i:46468544 original size:46 final size:46
Alignment explanation
Indices: 46468494--46468629 Score: 182
Period size: 46 Copynumber: 3.0 Consensus size: 46
46468484 TTATCCATCT
* * *
46468494 CACTGTAACTCAGGGGTATAGGATTTGTACCATCTTCAATCAATCC
1 CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAATCC
* * *
46468540 CACTGCAACTCAGGGGTATAAGATTTGTATCTTCTTCAAACCATCC
1 CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAATCC
* * * *
46468586 CACTACAATTCAGGGGTATAGAATTTGTATCTTCTTCAGTCAAT
1 CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAAT
46468630 TTGCTCTGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAATCC
Found at i:46469139 original size:53 final size:53
Alignment explanation
Indices: 46469054--46469154 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
46469044 ATTGGGAGCA
*
46469054 TAACTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAAG
1 TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGGAAAG
* * * *
46469107 TAACTTGAAATGAATGAGTTAATCAAAAATAGCAAATGTAATAAGAAG
1 TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAG
46469155 AAAATTGATC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (53 bp):
TAACTCGAAATGAATAAATTAATCAAAAATAGCAAATGCAATAAGAAGGAAAG
Found at i:46470066 original size:8 final size:8
Alignment explanation
Indices: 46470054--46470100 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
46470044 CCCCATGATC
46470054 TTTTTTGCT
1 TTTTTTG-T
46470063 TTTTTTGT
1 TTTTTTGT
*
46470071 TTTTTTAT
1 TTTTTTGT
*
46470079 TTTTTTAT
1 TTTTTTGT
46470087 TTTTTTGT
1 TTTTTTGT
46470095 TTTTTT
1 TTTTTT
46470101 TTGCTGCCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 29 0.81
9 7 0.19
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.87
Consensus pattern (8 bp):
TTTTTTGT
Found at i:46470081 original size:24 final size:24
Alignment explanation
Indices: 46470054--46470100 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
46470044 CCCCATGATC
*
46470054 TTTTTTGCTTTTTTTGTTTTTTTA
1 TTTTTTGATTTTTTTGTTTTTTTA
*
46470078 TTTTTTTATTTTTTTGTTTTTTT
1 TTTTTTGATTTTTTTGTTTTTTT
46470101 TTGCTGCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.87
Consensus pattern (24 bp):
TTTTTTGATTTTTTTGTTTTTTTA
Found at i:46474114 original size:29 final size:29
Alignment explanation
Indices: 46474042--46474149 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 29
46474032 TTCACATATC
* * * *
46474042 TGTATCTGGCCCATTAAG-CCTAATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * * * *
46474070 TTTGTATAGCCTATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
46474099 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
46474128 TTTATATGGCCCGTTAGACCCA
1 TGTATATGGCCCATTAGGCCCA
46474150 GTCATATTCA
Statistics
Matches: 62, Mismatches: 17, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
28 12 0.19
29 50 0.81
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:46475973 original size:28 final size:27
Alignment explanation
Indices: 46475929--46476012 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
46475919 TACCTGTATC
* *
46475929 TGGCCCATTAAGACCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCA-ATTCATA
**
46475957 TGGCCCATTAGGCCCAAATCACCT-ATA
1 TGGCCCATTAGGCCC-AATCAATTCATA
* * *
46475984 TGGCCCGTTAGGCCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCA-ATTCATA
46476012 T
1 T
46476013 TCATGCTCAC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
26 4 0.09
27 17 0.39
28 18 0.41
29 5 0.11
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
TGGCCCATTAGGCCCAATCAATTCATA
Found at i:46482943 original size:22 final size:22
Alignment explanation
Indices: 46482918--46482988 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
46482908 AATTTAAGGT
*
46482918 AAATAAAATATAAAACAGTTTA
1 AAATAAAATATAAAACAATTTA
* **
46482940 AAAT--AATTTAAAA-AATCAA
1 AAATAAAATATAAAACAATTTA
*
46482959 CAAATAATATATAAAACAATTTA
1 -AAATAAAATATAAAACAATTTA
46482982 AAATAAA
1 AAATAAA
46482989 TAATATATAT
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
22 17 0.47
23 4 0.11
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (22 bp):
AAATAAAATATAAAACAATTTA
Found at i:46483019 original size:26 final size:25
Alignment explanation
Indices: 46482960--46483012 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
46482950 AAAAATCAAC
*
46482960 AAATAATATATAAAACAATTTAAAAT
1 AAATAATATATAAAAC-ATTAAAAAT
46482986 AAATAATATATATAAAC-TTAAAAAT
1 AAATAATATATA-AAACATTAAAAAT
46483011 AA
1 AA
46483013 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 12 0.48
27 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAACATTAAAAAT
Found at i:46483154 original size:12 final size:12
Alignment explanation
Indices: 46483133--46483164 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
46483123 AAATGTTAAG
46483133 TAAATAAAATAT
1 TAAATAAAATAT
*
46483145 TAAATGAAATAT
1 TAAATAAAATAT
46483157 TAAATAAA
1 TAAATAAA
46483165 GCAGTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:46484841 original size:13 final size:13
Alignment explanation
Indices: 46484825--46484850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46484815 ATAAAATGTT
46484825 GCCATAGATTTTG
1 GCCATAGATTTTG
46484838 GCCATAGATTTTG
1 GCCATAGATTTTG
46484851 CAGGCTCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
GCCATAGATTTTG
Found at i:46485529 original size:47 final size:47
Alignment explanation
Indices: 46485475--46485568 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
46485465 CTTGATTTAA
46485475 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
1 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
*
46485522 CACCCATACCTCTATACATATGAAAACCCATAAACGTTAAGCATTTT
1 CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
46485569 GCCACCCACC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.28
Consensus pattern (47 bp):
CACCCATACCTCTATACATATGAAAACCCATAAACCTTAAGCATTTT
Found at i:46485552 original size:24 final size:24
Alignment explanation
Indices: 46485476--46485553 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
46485466 TTGATTTAAC
46485476 ACCCATACCTCTATACATATGAAA
1 ACCCATACCTCTATACATATGAAA
***
46485500 ACCCATAAACCT-TA-AGCAT-T-TTC
1 ACCCAT--ACCTCTATA-CATATGAAA
46485523 ACCCATACCTCTATACATATGAAA
1 ACCCATACCTCTATACATATGAAA
46485547 ACCCATA
1 ACCCATA
46485554 AACGTTAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 8 0.20
24 15 0.37
25 5 0.12
26 4 0.10
ACGTcount: A:0.40, C:0.31, G:0.04, T:0.26
Consensus pattern (24 bp):
ACCCATACCTCTATACATATGAAA
Found at i:46489863 original size:244 final size:244
Alignment explanation
Indices: 46489434--46489922 Score: 924
Period size: 244 Copynumber: 2.0 Consensus size: 244
46489424 GTTGGACCTC
46489434 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
1 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
46489499 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
66 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
*
46489564 TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTTAAGAGTTAATGCACAAAAACAAGAAAA
131 TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
46489629 AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
196 AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
*
46489678 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTTGT
1 ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
46489743 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
66 TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
* * *
46489808 TCCATGCACGTTCAGTTCGCATCTGAACTCGTTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
131 TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
*
46489873 AAGTTTGTTTCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
196 AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
46489922 A
1 A
46489923 AACTAGTACA
Statistics
Matches: 239, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
244 239 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (244 bp):
ATTCAGAACCTAGAAGCATCCACAAAAATAAATAAATAAATAAATTACATCATTCTATGTTTAGT
TGCTTTAAAAATAAATGATATCTCAACCCTTCCTGTTAAAACAAAGTTCATGAGAAAATATTTTA
TCCATGCACATTCAGTTCGCATCTGAACCCATTATCTCAAGAGTTAATGCACAAAAACAAGAAAA
AAGTTTGTTGCTTTTAACATTTGATGCATGGAAACCTGGATATTCTTTA
Found at i:46493110 original size:30 final size:31
Alignment explanation
Indices: 46493070--46493135 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
46493060 GATGTAACTT
*
46493070 ATTAAGCAAATGCCTCTAAAATAATAACAGA
1 ATTAAGCAAATGCCTCTAAAATAATAACAAA
46493101 ATTAA-CAAATGCCTCTAAAATAATAACAAA
1 ATTAAGCAAATGCCTCTAAAATAATAACAAA
46493131 ATTAA
1 ATTAA
46493136 TAATAAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (31 bp):
ATTAAGCAAATGCCTCTAAAATAATAACAAA
Found at i:46493508 original size:54 final size:54
Alignment explanation
Indices: 46493424--46493535 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
46493414 CTATAAATAG
*
46493424 GTCTACTTAGGAACCAACACCAATATCTAGCCGCTGCCTTAACTTCATATTTTA
1 GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
* *
46493478 GTCTATTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATGTTTTA
1 GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
46493532 GTCT
1 GTCT
46493536 TTATGTGCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (54 bp):
GTCTACTTAGGAACCAACACCAATAACTAGCCGCTGCCTTAACTTCATATTTTA
Found at i:46500183 original size:35 final size:37
Alignment explanation
Indices: 46500120--46500198 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
46500110 ATTACAAAAT
46500120 CATAT-AT-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
46500156 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
46500191 CATATCAT
1 CATATCAT
46500199 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 21 0.52
36 9 0.22
37 10 0.25
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:46500196 original size:14 final size:15
Alignment explanation
Indices: 46500141--46500196 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
46500131 AGATTGCATA
46500141 TCATATCTAAGATTG
1 TCATATCTAAGATTG
46500156 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
46500174 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
46500191 -CATATC
1 TCATATC
46500197 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:46500206 original size:17 final size:19
Alignment explanation
Indices: 46500127--46500198 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
46500117 AATCATATAT
46500127 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46500146 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
46500164 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
46500181 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
46500199 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46500825 original size:43 final size:42
Alignment explanation
Indices: 46500778--46500859 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
46500768 CCTGTTGATA
**
46500778 TCTTCGATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTT
1 TCTTCGATCTGCTCTCCAAC-AATACAGAGACGCCAAATCTTT
* * * *
46500821 TCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATC
46500860 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 18 0.55
43 15 0.45
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (42 bp):
TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATCTTT
Found at i:46500963 original size:260 final size:261
Alignment explanation
Indices: 46500483--46500964 Score: 752
Period size: 260 Copynumber: 1.9 Consensus size: 261
46500473 GTCCTCAATT
46500483 TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
1 TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
*
46500548 CGCCAAATCTGTTTCTTCAATTTGTTTTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
66 CGCCAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
* * * *
46500613 TTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCATTGTGAACACAAGGA
131 TTCAGCGTAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTGAACACAAGGA
* *
46500678 TGCCAAATCATCTTGGATTTGCTTCAGCAAAATCATCTGAAGGTCAGATCTACTATGTCTTTAAT
196 TGCCAAACCATCTTGGATCTGCTTCAGCAAAATCATCTGAAGGTCAGATCTACTATGTCTTTAAT
46500743 C
261 C
* * * * * *
46500744 TGCTTATTGTAAACTTATGACTGTCCTGTTGATATCTTCGATCTGCTCTCCGTCGAATACAGAGA
1 TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
* * * *
46500809 CGCCAAATCT-TTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGC
66 CGCCAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
** * *
46500873 TTCAGCGTAAGTACGCGAAAACCAAATCAGCTATGTCTTTGATTTGTTCATTGT-AAGCACAAGG
131 TTCAGCGTAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTGAA-CACAAGG
46500937 ATGCCAAACCATCTTGGATCTGCTTCAG
195 ATGCCAAACCATCTTGGATCTGCTTCAG
46500965 TCATCTGAAG
Statistics
Matches: 199, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
259 2 0.01
260 128 0.64
261 69 0.35
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (261 bp):
TGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGA
CGCCAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATCTAC
TTCAGCGTAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTGAACACAAGGA
TGCCAAACCATCTTGGATCTGCTTCAGCAAAATCATCTGAAGGTCAGATCTACTATGTCTTTAAT
C
Found at i:46501026 original size:207 final size:209
Alignment explanation
Indices: 46500784--46501407 Score: 987
Period size: 207 Copynumber: 3.0 Consensus size: 209
46500774 GATATCTTCG
46500784 ATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTTTCTTCGATTTGTTCTCTAACAATACAGA
1 ATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTTTCTTCGATTTGTTCTCTAACAATACAGA
* * * *
46500849 GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGTACGCGAAAACCAAATCAGCTATGTCTTTG
66 GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCG
*
46500914 ATTTGTTCATTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAG-T-CATCTGAAGGT
131 ATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGATACATCTGAAGGT
46500977 TAGATCTGCTATGT
196 TAGATCTGCTATGT
46500991 ATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTTTCTTCGATTTGTTCTCTAACAATACAGA
1 ATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTTTCTTCGATTTGTTCTCTAACAATACAGA
* *
46501056 GATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTTAAAGCCAAATCAGCTATGTCTTCG
66 GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCG
* *
46501121 ACTTGTTCCTTGTAAGCACAATGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAA
131 ATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAG-AT--ACATCTGAA
46501186 GGTTAGATCTGCTATGT
193 GGTTAGATCTGCTATGT
* ** * * * *
46501203 ATCTGCTCTTCGTCGAA-ATGGAGATGCCAGA------CTTCAATTTGTTCTCTGACAATACAGA
1 ATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTTTCTTCGATTTGTTCTCTAACAATACAGA
46501261 GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCG
66 GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCG
46501326 ATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAA
131 ATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAG-AT--ACATCTGAA
46501391 GGTTAGATCTGCTATGT
193 GGTTAGATCTGCTATGT
46501408 GTCTAGGAGA
Statistics
Matches: 392, Mismatches: 20, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
205 168 0.43
207 172 0.44
209 1 0.00
211 10 0.03
212 41 0.10
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (209 bp):
ATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTTTTCTTCGATTTGTTCTCTAACAATACAGA
GATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCG
ATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGATACATCTGAAGGT
TAGATCTGCTATGT
Found at i:46501300 original size:205 final size:204
Alignment explanation
Indices: 46500822--46501517 Score: 989
Period size: 205 Copynumber: 3.5 Consensus size: 204
46500812 CAAATCTTTT
*
46500822 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGTAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
46500887 GCGAAAACCAAATCAGCTATGTCTTTGATTTGTTCATTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
46500952 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAATACA
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCGAA-A-G
*
46501012 GAGACGCCAAA
194 GAGATGCCAAA
*
46501023 TCTTTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGT
1 ------CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGT
* * *
46501088 AAGCACGTTAAAGCCAAATCAGCTATGTCTTCGACTTGTTCCTTGTAAGCACAATGATGCCAAAC
60 AAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAC
46501153 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCG
125 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCG
*
46501218 AAATGGAGATGCCAGA
190 AAA-GGAGATGCCAAA
* *
46501234 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
46501299 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
46501364 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG----TG----TC-T----AGGA
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCGAAAGGA
46501416 GATGCCAAA
196 GATGCCAAA
* * * * * *
46501425 CTTTGATTTGTTCTCTGACAATAAAGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
46501490 -TGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
46501518 CTGCTCTCCG
Statistics
Matches: 457, Mismatches: 27, Indels: 27
0.89 0.05 0.05
Matches are distributed among these distances:
190 28 0.06
191 70 0.15
192 1 0.00
196 1 0.00
197 2 0.00
201 2 0.00
205 167 0.37
207 134 0.29
209 1 0.00
211 10 0.02
212 41 0.09
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (204 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCGAAAGGA
GATGCCAAA
Found at i:46501630 original size:44 final size:44
Alignment explanation
Indices: 46501577--46501854 Score: 235
Period size: 44 Copynumber: 6.3 Consensus size: 44
46501567 CTCTGACAAT
* *
46501577 ACAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * * *
46501621 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTTAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * *
46501665 AC-TGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
46501709 ACAGGGATGCCAAATCTGCTATATTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* * ** * * *
46501753 ACAGGGATGACATA-CTGAAATCTTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
46501797 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
46501841 ACAGGGATGCCAAA
1 ACAGGGATGCCAAA
46501855 CCTTGTTTCT
Statistics
Matches: 179, Mismatches: 44, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.01
43 25 0.14
44 118 0.66
45 32 0.18
46 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:46501718 original size:132 final size:132
Alignment explanation
Indices: 46501577--46501854 Score: 475
Period size: 132 Copynumber: 2.1 Consensus size: 132
46501567 CTCTGACAAT
* * * *
46501577 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
* * * *
46501642 CCTCGATCTGCTTCGCTGTTAGCACTGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
46501707 AC
131 AC
46501709 ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
1 ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
*
46501774 CTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
46501839 AC
131 AC
46501841 ACAGGGATGCCAAA
1 ACAGGGATGCCAAA
46501855 CCTTGTTTCT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 137 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGACATACTGAAAT
CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
AC
Found at i:46502366 original size:6 final size:6
Alignment explanation
Indices: 46502355--46502392 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
46502345 GGCCTCTTCA
46502355 TTTTTC TTTTTC TTTTTC TTTTT- TTTTTC TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
46502393 AAATAGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.29
6 22 0.71
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (6 bp):
TTTTTC
Found at i:46502372 original size:12 final size:11
Alignment explanation
Indices: 46502355--46502392 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
46502345 GGCCTCTTCA
46502355 TTTTTCTTTTT
1 TTTTTCTTTTT
46502366 CTTTTTCTTTTT
1 -TTTTTCTTTTT
46502378 TTTTTCTTTTT
1 TTTTTCTTTTT
46502389 TTTT
1 TTTT
46502393 AAATAGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:46504939 original size:12 final size:12
Alignment explanation
Indices: 46504907--46504940 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
46504897 CATGACCCTC
*
46504907 TTCTCTTTCTCT
1 TTCTCTTTTTCT
*
46504919 CTCTCTTTTTCT
1 TTCTCTTTTTCT
46504931 TTCTCTTTTT
1 TTCTCTTTTT
46504941 AATAACTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTCTTTTTCT
Found at i:46508046 original size:22 final size:21
Alignment explanation
Indices: 46508011--46508086 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
46508001 AAAAGGTATC
* *
46508011 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
46508032 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
46508055 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
46508074 TGC-AATCATATCT
1 TACAAATCATATCT
46508087 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:46508103 original size:35 final size:37
Alignment explanation
Indices: 46508040--46508118 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
46508030 ATTACAAAAT
46508040 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
46508076 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
46508111 CATATCAT
1 CATATCAT
46508119 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:46508116 original size:14 final size:15
Alignment explanation
Indices: 46508061--46508116 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
46508051 AGATTGCATA
46508061 TCATATCTAAGATTG
1 TCATATCTAAGATTG
46508076 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
46508094 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
46508111 -CATATC
1 TCATATC
46508117 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:46508126 original size:17 final size:19
Alignment explanation
Indices: 46508047--46508118 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
46508037 AATCATATCT
46508047 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46508066 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
46508084 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
46508101 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
46508119 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46510691 original size:27 final size:27
Alignment explanation
Indices: 46510661--46510713 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46510651 AATCAAAATT
*
46510661 AAATATATTTAATTTTATC-TTATTTTA
1 AAATATAATTAATTTT-TCATTATTTTA
*
46510688 AAATGTAATTAATTTTTCATTATTTT
1 AAATATAATTAATTTTTCATTATTTT
46510714 GTAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (27 bp):
AAATATAATTAATTTTTCATTATTTTA
Found at i:46510868 original size:56 final size:56
Alignment explanation
Indices: 46510802--46510911 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
46510792 CTTTTGAAAC
* * *
46510802 ATTGCTATGAGTAGTATTGGTTGCATCATTGCGATAAAACTAAGATAAACACAACA
1 ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAACA
*
46510858 ATTGCTATGAGCAGTATTGGTTGTATCATTACGATAAAACAAAGATAAACACAA
1 ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAA
46510912 TAAATTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (56 bp):
ATTGCTATGAGCAGTATTGGTTGCATCATTACGATAAAACAAAGATAAACACAACA
Found at i:46515542 original size:21 final size:21
Alignment explanation
Indices: 46515494--46515545 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
46515484 TTTTATGACC
*
46515494 TATGTGTGAACATCTATATGT
1 TATGTGTGAACATCTATATGG
*
46515515 TAAGTGTGAACATGCT-TATGG
1 TATGTGTGAACAT-CTATATGG
*
46515536 TGTGTGTGAA
1 TATGTGTGAA
46515546 TACAATAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (21 bp):
TATGTGTGAACATCTATATGG
Found at i:46519956 original size:15 final size:14
Alignment explanation
Indices: 46519936--46519983 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
46519926 TTTTAATCCC
46519936 TAAAACTCTAAATCT
1 TAAAACT-TAAATCT
46519951 TAAAACTTAAATCCT
1 TAAAACTTAAAT-CT
*
46519966 AATAAACCTTAAATCT
1 --TAAAACTTAAATCT
46519982 TA
1 TA
46519984 TTTTACCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.24
15 9 0.31
16 2 0.07
17 11 0.38
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAACTTAAATCT
Found at i:46521652 original size:13 final size:13
Alignment explanation
Indices: 46521636--46521660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46521626 AGTTATTACT
46521636 TTATTTATTTTAG
1 TTATTTATTTTAG
46521649 TTATTTATTTTA
1 TTATTTATTTTA
46521661 ATTGTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTATTTTAG
Found at i:46525344 original size:79 final size:79
Alignment explanation
Indices: 46525200--46525349 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
46525190 CTCAAAATAT
* * *
46525200 GTATAAATTTAAAGATGTTCTTTTTAGCGTAGTTGTCATACTTATAAAACCAACTAGTTACTTAA
1 GTATAAATTTAAAGATGTTCTTTTTAACGTAGTTATCATACTTATAAAACCAACTAATTACTTAA
46525265 AAAAAAATAAGTAA
66 AAAAAAATAAGTAA
* *
46525279 GTATAAATTTAGAGATGTTCTTTTTTAAC-TGAGTTATCATATTTATAATAA-CAACTAATTA-T
1 GTATAAATTTAAAGATGTTC-TTTTTAACGT-AGTTATCATACTTATAA-AACCAACTAATTACT
46525341 TAAAAAAAA
63 TAAAAAAAA
46525350 TTTATTATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
79 30 0.48
80 31 0.49
81 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (79 bp):
GTATAAATTTAAAGATGTTCTTTTTAACGTAGTTATCATACTTATAAAACCAACTAATTACTTAA
AAAAAAATAAGTAA
Found at i:46527421 original size:32 final size:31
Alignment explanation
Indices: 46527376--46527454 Score: 140
Period size: 32 Copynumber: 2.5 Consensus size: 31
46527366 CAAGTTCAGA
46527376 TACTTTTGGACAAGTTTTGATACTAAATAGG
1 TACTTTTGGACAAGTTTTGATACTAAATAGG
*
46527407 TACTTTTTGAACAAGTTTTGATACTAAATAGG
1 TAC-TTTTGGACAAGTTTTGATACTAAATAGG
46527439 TACTTTTGGACAAGTT
1 TACTTTTGGACAAGTT
46527455 CAAAGGGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 15 0.33
32 30 0.67
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (31 bp):
TACTTTTGGACAAGTTTTGATACTAAATAGG
Found at i:46529686 original size:14 final size:15
Alignment explanation
Indices: 46529667--46529695 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46529657 ATTCTTGGTG
46529667 ATAAATAT-TTATAA
1 ATAAATATATTATAA
46529681 ATAAATATATTATAA
1 ATAAATATATTATAA
46529696 CACTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATATATTATAA
Found at i:46530991 original size:20 final size:22
Alignment explanation
Indices: 46530968--46531012 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
46530958 ATATATTCTA
46530968 ATAT-TTAAA-AATATTAAAAT
1 ATATATTAAATAATATTAAAAT
* *
46530988 ATATATTAAATAATTTTTAAAT
1 ATATATTAAATAATATTAAAAT
46531010 ATA
1 ATA
46531013 AATAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
22 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATATTAAATAATATTAAAAT
Found at i:46531031 original size:20 final size:18
Alignment explanation
Indices: 46530988--46531034 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 18
46530978 ATATTAAAAT
46530988 ATATATTAAATAATTTTTA
1 ATATA-TAAATAATTTTTA
46531007 A-ATATAAATAATTTATTA
1 ATATATAAATAATTT-TTA
46531025 ATTATATAAA
1 A-TATATAAA
46531035 ATACTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 1 0.04
20 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATAAATAATTTTTA
Found at i:46531892 original size:91 final size:90
Alignment explanation
Indices: 46531737--46532012 Score: 331
Period size: 91 Copynumber: 3.0 Consensus size: 90
46531727 ATAATGTCAC
* * * * *
46531737 ATTTGGTACATATACTTTTATAAAATGT-TCAATGTGGTATTTGTACTTTAAAAAAGTTTAATGT
1 ATTTGGTACATATACTTTCATAAAATGTCT-AATGTGGTACTTGTATTTTAAAATA-TTCAATGT
*
46531801 GATACTTGAACTATCAAATTGTGTATT
64 GGTACTTGAACTATCAAATTGTGTATT
*
46531828 ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTAGTTTTAAAATATCCAATGTG
1 ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTA-TTTTAAAATATTCAATGTG
*
46531893 GTACTTGAACTATCAATTTGTGTATT
65 GTACTTGAACTATCAAATTGTGTATT
* * * * * * *
46531919 GTTTGGTACCTATACTTTCATAAAATATCCAATGTGATACTTATACTTTGAAAATATTCAATGTG
1 ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTA-TTTTAAAATATTCAATGTG
* * *
46531984 GCACCTGAACTATCAAGA-TGTATATT
65 GTACTTGAACTATCAA-ATTGTGTATT
46532010 ATT
1 ATT
46532013 ATAGTATCTA
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
91 151 0.94
92 9 0.06
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (90 bp):
ATTTGGTACATATACTTTCATAAAATGTCTAATGTGGTACTTGTATTTTAAAATATTCAATGTGG
TACTTGAACTATCAAATTGTGTATT
Found at i:46532482 original size:69 final size:69
Alignment explanation
Indices: 46532403--46532540 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
46532393 TCAGTGAAGG
*
46532403 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTCCTTAAAAGAAAATTCTTTTATAC
1 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
46532468 ACTA
66 ACTA
46532472 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
1 CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
46532537 ACTA
66 ACTA
46532541 AACAAATATC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (69 bp):
CTTAACATATTATCAGAGGAGACCTAATACTTTGGCCATGTACTTAAAAGAAAATTCTTTTATAC
ACTA
Found at i:46539258 original size:30 final size:30
Alignment explanation
Indices: 46539141--46539245 Score: 210
Period size: 30 Copynumber: 3.5 Consensus size: 30
46539131 CATGGCCATG
46539141 ACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCTGTGTGTC
46539171 ACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCTGTGTGTC
46539201 ACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCTGTGTGTC
46539231 ACACACGGGCGTGTG
1 ACACACGGGCGTGTG
46539246 AATCACCCGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.14, C:0.27, G:0.34, T:0.25
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCTGTGTGTC
Found at i:46539258 original size:60 final size:60
Alignment explanation
Indices: 46539141--46539258 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
46539131 CATGGCCATG
* *
46539141 ACACACGGGCGTGTGGTCTACCTGTGTGTCACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCTGTGTGTCACACACGGGCGTGTGATCTACCCGTGTGTC
46539201 ACACACGGGCGTGTGGTCTACCTGTGTGTCACACACGGGCGTGTGAATC-ACCCGTGTG
1 ACACACGGGCGTGTGGTCTACCTGTGTGTCACACACGGGCGTGTG-ATCTACCCGTGTG
46539259 AAAGTGCCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 53 0.96
61 2 0.04
ACGTcount: A:0.15, C:0.27, G:0.33, T:0.25
Consensus pattern (60 bp):
ACACACGGGCGTGTGGTCTACCTGTGTGTCACACACGGGCGTGTGATCTACCCGTGTGTC
Found at i:46539806 original size:12 final size:13
Alignment explanation
Indices: 46539781--46539809 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46539771 TGTGATGTGC
46539781 ATATATGTATTGA
1 ATATATGTATTGA
46539794 ATATATG-ATTGA
1 ATATATGTATTGA
46539806 ATAT
1 ATAT
46539810 TCCTTATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
ATATATGTATTGA
Found at i:46540937 original size:54 final size:54
Alignment explanation
Indices: 46540869--46540976 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
46540859 AATATTGAGA
*
46540869 TACGGGCGAGGCTCGGATGGTATTGAGTGTGTTTGTTTTCATATTTGGCTTCAT
1 TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
46540923 TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
1 TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
46540977 CTTTCTTGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.16, C:0.13, G:0.31, T:0.41
Consensus pattern (54 bp):
TACGGGCGAGGCTCGGATGGTATTAAGTGTGTTTGTTTTCATATTTGGCTTCAT
Found at i:46543982 original size:26 final size:26
Alignment explanation
Indices: 46543946--46544029 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
46543936 CATGAAATTC
46543946 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
46543972 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
46543998 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
46544024 TTATCA
1 TTATCA
46544030 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:46545721 original size:19 final size:19
Alignment explanation
Indices: 46545697--46545775 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
46545687 AATCTTTAAG
46545697 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46545716 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46545735 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46545752 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
46545773 GAT
1 GAT
46545776 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46545727 original size:36 final size:36
Alignment explanation
Indices: 46545687--46545774 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
46545677 ATGGAAATAT
46545687 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
46545723 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
46545759 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
46545775 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:46550368 original size:99 final size:99
Alignment explanation
Indices: 46550197--46550394 Score: 360
Period size: 99 Copynumber: 2.0 Consensus size: 99
46550187 TGGGTGCATT
* *
46550197 GTTTGGCTTTCCTGAGCAGTCTGATGTGCCGTCAATAGCTGCGATGGTTAGCTCCAGGCGGTGGC
1 GTTTGGCTTTCCTGAGCAGTCTGATATGCCGTCAACAGCTGCGATGGTTAGCTCCAGGCGGTGGC
46550262 CATTGATTTCCAGCTATGGGGCATCAGGCCGTAC
66 CATTGATTTCCAGCTATGGGGCATCAGGCCGTAC
* *
46550296 GTTTGGCTTTCTTGAGCAGTCTGATATGTCGTCAACAGCTGCGATGGTTAGCTCCAGGCGGTGGC
1 GTTTGGCTTTCCTGAGCAGTCTGATATGCCGTCAACAGCTGCGATGGTTAGCTCCAGGCGGTGGC
46550361 CATTGATTTCCAGCTATGGGGCATCAGGCCGTAC
66 CATTGATTTCCAGCTATGGGGCATCAGGCCGTAC
46550395 ACAGTCCCTG
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.29
Consensus pattern (99 bp):
GTTTGGCTTTCCTGAGCAGTCTGATATGCCGTCAACAGCTGCGATGGTTAGCTCCAGGCGGTGGC
CATTGATTTCCAGCTATGGGGCATCAGGCCGTAC
Found at i:46551583 original size:24 final size:24
Alignment explanation
Indices: 46551548--46551607 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
46551538 CTTCTATTTC
*
46551548 AAAAAAAAAAAAGGAAA-AAAGAA-
1 AAAAAAATAAAAGGAAATAAA-AAG
*
46551571 AAGAAAAATAAAATGAAATAAAAAG
1 AA-AAAAATAAAAGGAAATAAAAAG
46551596 AAAAAAATAAAA
1 AAAAAAATAAAA
46551608 AAAAATAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 25 0.78
25 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (24 bp):
AAAAAAATAAAAGGAAATAAAAAG
Found at i:46551605 original size:14 final size:13
Alignment explanation
Indices: 46551548--46551612 Score: 58
Period size: 13 Copynumber: 4.7 Consensus size: 13
46551538 CTTCTATTTC
*
46551548 AAAAAAAAAAAAG
1 AAAAAAAAAAAAT
* * *
46551561 GAAAAAAGAAAAG
1 AAAAAAAAAAAAT
46551574 AAAAATAAAATGAAAT
1 AAAAA-AAAA--AAAT
46551590 AAAAAGAAAAAAAT
1 AAAAA-AAAAAAAT
46551604 AAAAAAAAA
1 AAAAAAAAA
46551613 TAGAGAGGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
13 19 0.44
14 12 0.28
16 12 0.28
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAAAT
Found at i:46552821 original size:27 final size:29
Alignment explanation
Indices: 46552764--46552826 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
46552754 ACTAAAAGGG
*
46552764 TATACATATATGTATAATGATATTAGAAA
1 TATACATATATATATAATGATATTAGAAA
46552793 TATACTATATATATATAAT-AT-TT-GAAA
1 TATAC-ATATATATATAATGATATTAGAAA
46552820 TATACAT
1 TATACAT
46552827 GAAGTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 2 0.06
27 9 0.28
28 2 0.06
29 7 0.22
30 12 0.38
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (29 bp):
TATACATATATATATAATGATATTAGAAA
Found at i:46553152 original size:21 final size:21
Alignment explanation
Indices: 46553122--46553161 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46553112 ATTAATAATA
46553122 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
46553143 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
46553162 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:46554480 original size:89 final size:89
Alignment explanation
Indices: 46554326--46554549 Score: 235
Period size: 89 Copynumber: 2.5 Consensus size: 89
46554316 GTGATCCTGA
* * * *
46554326 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAG-ACATTTAGAAACAGAAATTG
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAACATTTAGAAACAGAAATTG
* * *
46554390 AAAATAGCTC-AGCACGTGAGCT-AAG
65 AAAATACCTCGA-CATGT-AACTCAAG
* *
46554415 GCTCAACTCACTTCTCGCAATATGAGCTGATTTTTGAAAACAGAAC-TTGATA-AAACA-AATTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAACATT--TAGAAACAGAA-AT
*
46554477 TGAAAATACCTCGACATGTAACTCGAG
63 TGAAAATACCTCGACATGTAACTCAAG
* *
46554504 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAA
46554550 GTTAAAAGGC
Statistics
Matches: 115, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
88 18 0.16
89 85 0.74
90 12 0.10
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (89 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAACATTTAGAAACAGAAATTGA
AAATACCTCGACATGTAACTCAAG
Found at i:46554617 original size:55 final size:55
Alignment explanation
Indices: 46554502--46554723 Score: 360
Period size: 55 Copynumber: 4.1 Consensus size: 55
46554492 ATGTAACTCG
* * *
46554502 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAAAACAGAAGTTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAA
*
46554556 AGGCTCAATTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAA
46554611 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAA
* *
46554666 AGGCTCAACTCACTTCTCGCAATATGAGTTGAT-TGTTGAGAAAG-AGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTGA-AAAGCAGAAATTAAA
46554720 AGGC
1 AGGC
46554724 GGAATTTGAA
Statistics
Matches: 159, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
54 50 0.31
55 109 0.69
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAA
Found at i:46554815 original size:54 final size:54
Alignment explanation
Indices: 46554753--46554864 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
46554743 GCATGTCCTG
* *
46554753 AGGCTCAACTCACCTCTCGCAATATGTGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTGTTGAAAAACAGAAATTAAA
* * *
46554807 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTGTTGAGAAAGAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTGTTGAAAAACAGAAATTAAA
46554861 AGGC
1 AGGC
46554865 GGAATTTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTGTTGAAAAACAGAAATTAAA
Found at i:46554866 original size:141 final size:141
Alignment explanation
Indices: 46554611--46554929 Score: 611
Period size: 141 Copynumber: 2.3 Consensus size: 141
46554601 AGAAATTAAA
*
46554611 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTGAAAAGCAGAAATTAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAAAACAGAAATTAAAAGGCTCAACT
46554676 CACTTCTCGCAATATGAGTTGATTGTTGAGAAAGAGAAATTAAAAGGCGGAATTTGAAAATACCT
65 CACTTCTCGCAATATGAGTTGATTGTTGAGAAAGAGAAATTAAAAGGCGGAATTTGAAAATACCT
46554741 CAGCATGTCCTG
130 CAGCATGTCCTG
*
46554753 AGGCTCAACTCACCTCTCGCAATATGTGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
46554818 ACTTCTCGCAATATGAGTTGATTGTTGAGAAAGAGAAATTAAAAGGCGGAATTTGAAAATACCTC
66 ACTTCTCGCAATATGAGTTGATTGTTGAGAAAGAGAAATTAAAAGGCGGAATTTGAAAATACCTC
46554883 AGCATGTCCTG
131 AGCATGTCCTG
46554894 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46554930 CCTGAAAAGC
Statistics
Matches: 174, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
141 142 0.82
142 32 0.18
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (141 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTC
ACTTCTCGCAATATGAGTTGATTGTTGAGAAAGAGAAATTAAAAGGCGGAATTTGAAAATACCTC
AGCATGTCCTG
Found at i:46554951 original size:14 final size:14
Alignment explanation
Indices: 46554932--46554965 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
46554922 TTGATTTTCC
46554932 TGAAAAGCA-AAATT
1 TGAAAAGCAGAAA-T
46554946 TGAAAAGCAGAAAT
1 TGAAAAGCAGAAAT
46554960 TGAAAA
1 TGAAAA
46554966 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TGAAAAGCAGAAAT
Found at i:46555000 original size:91 final size:87
Alignment explanation
Indices: 46554807--46555039 Score: 310
Period size: 91 Copynumber: 2.6 Consensus size: 87
46554797 AGAAATTAAA
* * * *
46554807 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTGTTGAGAAAGAGAAATTAAAAGGCGGAATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAAGAGAAATTAAAAGGCAGAAATT
*
46554872 GAAAATACCTCAGCATGTCCTG
66 GAAAATACCTCAGCATGACCTG
46554894 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCCTGA-AAAGCA-AAATTTGAAAA-GCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TGAGAAAG-AGAAA-TT-AAAAGGCAG
*
46554956 AAATTGAAAATACCTCAGCGTGCGACCTG
61 AAATTGAAAATACCTCAGCAT--GACCTG
* *
46554985 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAAGAGAAATTAAAA
46555040 ATACCTCAGC
Statistics
Matches: 130, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
87 34 0.26
88 11 0.08
89 34 0.26
90 10 0.08
91 41 0.32
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGAAAGAGAAATTAAAAGGCAGAAATT
GAAAATACCTCAGCATGACCTG
Found at i:46555091 original size:73 final size:74
Alignment explanation
Indices: 46554944--46555115 Score: 256
Period size: 73 Copynumber: 2.3 Consensus size: 74
46554934 AAAAGCAAAA
* * * *
46554944 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGC-ACCCGAGGCTCAACTCACCTCTCGCAACA
46555009 TGAGTTGATT
65 TGAGTTGATT
*
46555019 TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGC-CCCGAGGCTCAACTCGCCTCTCGCAACAT
1 TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGCACCCGAGGCTCAACTCACCTCTCGCAACAT
46555083 GAGTTGATT
66 GAGTTGATT
*
46555092 TTCGAAACAACAGAAATTGAAAAA
1 TTTGAAA-AACAGAAATT-AAAAA
46555116 CGGAAATTGA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
73 41 0.46
74 10 0.11
75 38 0.43
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (74 bp):
TTTGAAAAACAGAAATTAAAAATACCTCAGCGTGCACCCGAGGCTCAACTCACCTCTCGCAACAT
GAGTTGATT
Found at i:46555252 original size:86 final size:83
Alignment explanation
Indices: 46555025--46555368 Score: 395
Period size: 86 Copynumber: 4.1 Consensus size: 83
46555015 GATTTTTGAA
* * *
46555025 AAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCGCCTCTCGCAACATGAGTTGA
1 AAACAGGAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
46555090 TTTTCGAAACAACAGAAATT
66 TTTT-GAAA-AAAATAAATT
* * * *
46555110 GAAAAACGGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCTACTCACCTTTCGCAATATGAGT
1 -AAACA-GG-AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
**
46555175 TGACTTTTGAAAAGTATAAATT
63 TGA-TTTTGAAAAAAATAAATT
* ** *
46555197 AAACAGGAATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGCAATATGAGTT
1 AAACAGGAATTAAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
46555262 GATTTTTAAAAAAATAAATT
64 GATTTTGAAAAAAATAAATT
* * * *
46555282 AAATAGGAATTTAAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTATCGCAATATGAGTTG
1 AAACAGGAA-TTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
46555347 A-TTT-AAAAACATAAATA
65 ATTTTGAAAAAAATAAATT
46555364 AAACA
1 AAACA
46555369 TCAAAATACC
Statistics
Matches: 221, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
82 15 0.07
83 3 0.01
84 51 0.23
85 25 0.11
86 58 0.26
87 8 0.04
88 57 0.26
89 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (83 bp):
AAACAGGAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTGAAAAAAATAAATT
Found at i:46555349 original size:84 final size:83
Alignment explanation
Indices: 46555032--46555366 Score: 397
Period size: 88 Copynumber: 4.0 Consensus size: 83
46555022 GAAAAACAGA
* *
46555032 AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCGCCTCTCGCAACATGAGTTGATTTTCGA
1 AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GA
*
46555097 AACAACAGAAATTGAAAAACGG
65 AA-AACATAAATT-AAAAA-GG
* * *
46555119 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCTACTCACCTTTCGCAATATGAGTTGACTTTTG
1 -AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
** *
46555184 AAAAGTATAAATTAAACAGG
64 AAAAACATAAATTAAAAAGG
* ** * *
46555204 AATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT
1 AATTAAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
* *
46555269 AAAAAAATAAATTAAATAGG
64 AAAAACATAAATTAAAAAGG
* * *
46555289 AATTTAAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTT-A
1 AA-TTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
46555352 AAAACATAAA-TAAAA
65 AAAACATAAATTAAAA
46555367 CATCAAAATA
Statistics
Matches: 215, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
81 4 0.02
82 10 0.05
83 3 0.01
84 51 0.24
85 25 0.12
86 54 0.25
87 7 0.03
88 57 0.27
89 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (83 bp):
AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAA
AAACATAAATTAAAAAGG
Found at i:46561341 original size:9 final size:9
Alignment explanation
Indices: 46561325--46561403 Score: 122
Period size: 9 Copynumber: 8.8 Consensus size: 9
46561315 GGTATTTTTC
46561325 GGTAATTCG
1 GGTAATTCG
*
46561334 GTTAATTCG
1 GGTAATTCG
*
46561343 GTTAATTCG
1 GGTAATTCG
*
46561352 GTTAATTCG
1 GGTAATTCG
*
46561361 GTTAATTCG
1 GGTAATTCG
46561370 GGTAATTCG
1 GGTAATTCG
46561379 GGTAATTCG
1 GGTAATTCG
46561388 GGTAATTCG
1 GGTAATTCG
46561397 GGTAATT
1 GGTAATT
46561404 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 68 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:46568078 original size:27 final size:29
Alignment explanation
Indices: 46568021--46568083 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
46568011 ACTAAAAGGG
*
46568021 TATACATATATGTATAATGATATTAGAAA
1 TATACATATATATATAATGATATTAGAAA
46568050 TATACTATATATATATAAT-AT-TT-GAAA
1 TATAC-ATATATATATAATGATATTAGAAA
46568077 TATACAT
1 TATACAT
46568084 GAAGTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 2 0.06
27 9 0.28
28 2 0.06
29 7 0.22
30 12 0.38
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (29 bp):
TATACATATATATATAATGATATTAGAAA
Found at i:46568419 original size:21 final size:21
Alignment explanation
Indices: 46568389--46568428 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46568379 ATTAATAATA
46568389 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
46568410 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
46568429 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:46568501 original size:3 final size:3
Alignment explanation
Indices: 46568487--46568593 Score: 80
Period size: 3 Copynumber: 35.7 Consensus size: 3
46568477 TACATAACAT
*
46568487 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA -ATA
* * * **
46568533 ACA A-A ACA TATA CT- ATA ATA ATA ATA ATA ATA ATA ATA ATA AGG
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46568577 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
46568594 GTAAAAAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
2 9 0.11
3 61 0.73
4 14 0.17
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:46570323 original size:44 final size:43
Alignment explanation
Indices: 46570055--46570617 Score: 388
Period size: 44 Copynumber: 12.8 Consensus size: 43
46570045 GAAACAAGAT
* * *
46570055 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAAAAAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * * **
46570098 TCTGACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAATATTTCAGCA
1 T-TGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
* ** **
46570144 -TGGCATCCTTGTGTTTATAGGGAACAAGTTAAAGATTTCAGCA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAG-A
* * * *
46570187 -TGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGTAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * ** ** ***
46570229 TCTGACATTCCTGTGCTTACAGCAAAGTAGATCGAAGATTTTAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAG-A
*
46570275 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
*
46570317 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
** * * * * **
46570361 TCTGATATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
*
46570407 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* *
46570449 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * * **
46570493 TCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
*
46570539 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * *
46570581 TTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGA
46570618 CATAGCTGAT
Statistics
Matches: 399, Mismatches: 94, Indels: 53
0.73 0.17 0.10
Matches are distributed among these distances:
42 4 0.01
43 82 0.21
44 265 0.66
45 44 0.11
46 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
Found at i:46570382 original size:132 final size:132
Alignment explanation
Indices: 46570051--46570617 Score: 940
Period size: 132 Copynumber: 4.3 Consensus size: 132
46570041 CAGAGAAACA
* * *
46570051 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAAAAAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* * * *
46570116 ACAGCGAAGCAGATCGAATATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTAAAGATT
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
46570181 TC
131 GC
* * *
46570183 AGCA--TGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGTAGATCTGACATTCCTGTGCT
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCT
* * *
46570246 TACAGCAAAGTAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
46570311 AGC
130 AGC
*
46570314 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGATATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
46570379 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
46570444 GC
131 GC
*
46570446 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGAAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
46570511 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
46570576 GC
131 GC
* * *
46570578 AGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
46570618 CATAGCTGAT
Statistics
Matches: 406, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
130 1 0.00
131 115 0.28
132 289 0.71
133 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:46570940 original size:206 final size:206
Alignment explanation
Indices: 46570579--46571105 Score: 824
Period size: 206 Copynumber: 2.6 Consensus size: 206
46570569 GAAGATAGCA
* *
46570579 GATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCA--TGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
46570642 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCAAAGTTTGG
* * ** * * *
46570707 CGTCTCTATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
* *
46570772 AGATCTAAGGT
196 AGATCCAAGAT
46570783 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
46570848 TACGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCAAAGTTTGG
*
46570913 CGTCTCCATATTCAACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
46570978 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * *
46570989 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
46571054 TATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
46571106 GATCGAAGAT
Statistics
Matches: 296, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
204 58 0.20
206 238 0.80
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCAAAGTTTGG
CGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
AGATCCAAGAT
Found at i:46571529 original size:19 final size:19
Alignment explanation
Indices: 46571505--46571602 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
46571495 AATCTTTAAG
*
46571505 GATATGCATTCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46571524 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
46571543 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46571560 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46571579 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
46571600 GAT
1 GAT
46571603 CTTGTAATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
17 16 0.23
19 45 0.64
21 9 0.13
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46571555 original size:36 final size:37
Alignment explanation
Indices: 46571505--46571602 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 37
46571495 AATCTTTAAG
*
46571505 GATATGCATTCTTAGATATGATATGCAATATTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATATTAGATAT
* *
46571543 GATA-CAATCTTAGATATGATATGTAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATATTAGATAT
46571579 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
46571603 CTTGTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
36 33 0.62
38 11 0.21
40 9 0.17
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATATTAGATAT
Found at i:46575121 original size:11 final size:12
Alignment explanation
Indices: 46575094--46575122 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46575084 GCCACACGCT
46575094 CGTGTGCTAGAC
1 CGTGTGCTAGAC
46575106 CGTGTGCTAG-C
1 CGTGTGCTAGAC
46575117 CGTGTG
1 CGTGTG
46575123 TCTCACACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.28
Consensus pattern (12 bp):
CGTGTGCTAGAC
Found at i:46578977 original size:17 final size:18
Alignment explanation
Indices: 46578957--46578997 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46578947 CTAGCTTTGG
46578957 CCTTTCTCCTTT-TCTTT
1 CCTTTCTCCTTTCTCTTT
* *
46578974 CCTTT-TTCTTTCTTTTT
1 CCTTTCTCCTTTCTCTTT
46578991 CCTTTCT
1 CCTTTCT
46578998 GTTTCGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CCTTTCTCCTTTCTCTTT
Found at i:46578997 original size:11 final size:10
Alignment explanation
Indices: 46578966--46579039 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 10
46578956 GCCTTTCTCC
46578966 TTTTCTTTCCT
1 TTTTCTTT-CT
46578977 TTTTCTTTCT
1 TTTTCTTTCT
46578987 TTTTCCTTTCT
1 TTTT-CTTTCT
*
46578998 GTTTCGTTTCT
1 TTTTC-TTTCT
* *
46579009 ATCTTGTTTCT
1 -TTTTCTTTCT
*
46579020 TTTACTATTTCT
1 TTT--TCTTTCT
46579032 TTTTCTTT
1 TTTTCTTT
46579040 TATTTAATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 13 0.25
11 27 0.53
12 11 0.22
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:46581133 original size:131 final size:130
Alignment explanation
Indices: 46580901--46581180 Score: 284
Period size: 131 Copynumber: 2.2 Consensus size: 130
46580891 TTTATATACA
* * *
46580901 TATTTTTATAATTTTCCTTTTTTTAGAAATAATTTTAATTTTTTCCATTAAAAGAGAAAAATCTG
1 TATTTTTTTAATTTTCCTTTTTTTAGAAATAATTTTAATTTTTTCCAGTAAAAGAGAAAAAGCTG
* * * * * *
46580966 GGGTTTTACAATAAATTATCTAAGCTTTTATAAAAAAACTTG-GGCTTTTACGGGAAAAACTCAA
66 GGGTTTTACAAGAAACTATCCAAGCTTTTATAAAAAAAATTGAGG-ATTTACAGGAAAAA-TCAA
46581030 TT
129 TT
* * * **
46581032 TATTTTTTTAATTTTTC-TTTTTTAGAATTACTTTTAATTTTTTTTGAGTAAAAGAG-AAAAGCA
1 TATTTTTTTAATTTTCCTTTTTTTAGAAATAATTTTAA-TTTTTTCCAGTAAAAGAGAAAAAGC-
* * *
46581095 TGGGG-TTTACAAGGAACTA-CCAGGGTTTTATAAGAAAAAAATTGAGGATTTACAGGAAAAATC
64 TGGGGTTTTACAAGAAACTATCCAAGCTTTTAT-A-AAAAAAATTGAGGATTTACAGGAAAAATC
*
46581158 ATTT
127 AATT
* *
46581162 TATCTTTTTAA-CTTCCTTT
1 TATTTTTTTAATTTTCCTTT
46581181 AATTTTGTCC
Statistics
Matches: 122, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
129 12 0.10
130 52 0.43
131 56 0.46
132 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (130 bp):
TATTTTTTTAATTTTCCTTTTTTTAGAAATAATTTTAATTTTTTCCAGTAAAAGAGAAAAAGCTG
GGGTTTTACAAGAAACTATCCAAGCTTTTATAAAAAAAATTGAGGATTTACAGGAAAAATCAATT
Found at i:46582253 original size:44 final size:44
Alignment explanation
Indices: 46582203--46582295 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
46582193 TACCAACAAG
46582203 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
1 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
*
46582247 TATCTCAACTCACTTTTACAACATTAGTTCCAACATTAATAGGA
1 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
46582291 TATCT
1 TATCT
46582296 GTCTTCAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (44 bp):
TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
Found at i:46586039 original size:20 final size:19
Alignment explanation
Indices: 46585999--46586043 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
46585989 GTTTTAATCT
*
46585999 TAGTACATATATTTTATTA
1 TAGTATATATATTTTATTA
46586018 TACGTATATATATATTTA-TA
1 TA-GTATATATAT-TTTATTA
46586038 TAGTAT
1 TAGTAT
46586044 TATTTTCGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (19 bp):
TAGTATATATATTTTATTA
Found at i:46586548 original size:20 final size:20
Alignment explanation
Indices: 46586523--46586561 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46586513 ATTAATCTTA
*
46586523 GTATATGTAT-TTTATTATAC
1 GTATATATATATTT-TTATAC
46586543 GTATATATATATTTTTATA
1 GTATATATATATTTTTATA
46586562 AATAGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (20 bp):
GTATATATATATTTTTATAC
Found at i:46586647 original size:20 final size:22
Alignment explanation
Indices: 46586606--46586654 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
46586596 TACTTATTAT
*
46586606 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATAATATTATGTA
46586628 TTTATTTTAA-AATA-TATGTA
1 TTTATTTTAATAATATTATGTA
*
46586648 TATATTT
1 TTTATTT
46586655 GTGTAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
21 3 0.12
22 10 0.40
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATTTTAATAATATTATGTA
Found at i:46586653 original size:24 final size:22
Alignment explanation
Indices: 46586606--46586654 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
46586596 TACTTATTAT
* *
46586606 TTTATTTTAATATTATTATGTA
1 TTTATTTTAAAATTATTATATA
46586628 TTTATTTTAAAATATATGTATATA
1 TTTATTTTAAAAT-TAT-TATATA
46586652 TTT
1 TTT
46586655 GTGTAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATTTTAAAATTATTATATA
Found at i:46590668 original size:8 final size:7
Alignment explanation
Indices: 46590639--46590704 Score: 50
Period size: 6 Copynumber: 9.4 Consensus size: 7
46590629 AAATAGTACT
46590639 ATATATAA
1 ATATAT-A
*
46590647 ATGTATGA
1 ATATAT-A
46590655 ATATATA
1 ATATATA
46590662 CATATATA
1 -ATATATA
*
46590670 ATATA-C
1 ATATATA
46590676 ATATATTA
1 ATATA-TA
46590684 ATA-ATA
1 ATATATA
46590690 ATA-ATA
1 ATATATA
46590696 ATA-ATA
1 ATATATA
46590702 ATA
1 ATA
46590705 ATTTGTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
6 22 0.44
7 7 0.14
8 21 0.42
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (7 bp):
ATATATA
Found at i:46590690 original size:3 final size:3
Alignment explanation
Indices: 46590682--46590831 Score: 73
Period size: 3 Copynumber: 50.7 Consensus size: 3
46590672 ATACATATAT
** * * **
46590682 TAA TAA TAA TAA TAA TAA TAA TAA TTTG TAA TAA TAA TAC T-T TTT
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* ** *
46590727 TAA AAA TAA TTAA T-A TGT TAA TAA -AA TAA CAA TAA TGAA -AA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *
46590771 TAA TAA CT-G TAA TAA TAA -ACA TAA TAA TAGA -AA TAA -AA TAA TAG
1 TAA TAA -TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
*
46590815 TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TA
46590832 TGTAAATTTT
Statistics
Matches: 112, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
2 12 0.11
3 91 0.81
4 9 0.08
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:46604939 original size:13 final size:14
Alignment explanation
Indices: 46604921--46604951 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
46604911 ATGTACAAAT
46604921 ATATACATATA-TA
1 ATATACATATATTA
46604934 ATATACATATATTA
1 ATATACATATATTA
46604948 ATAT
1 ATAT
46604952 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:46605047 original size:3 final size:3
Alignment explanation
Indices: 46605006--46605092 Score: 51
Period size: 3 Copynumber: 29.7 Consensus size: 3
46604996 ATTAATATGT
* * *
46605006 TAA TAA -AA TAA CAA TAA TGAA -AA TAA TAA CAA CT-G TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA -TAA TAA TAA TAA
* *
46605050 -AGA TAA TAA TAGA -AA TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
46605093 TGTAAAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 9 0.14
3 51 0.80
4 4 0.06
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:46605700 original size:9 final size:8
Alignment explanation
Indices: 46605679--46605708 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
46605669 AATTTGATTT
46605679 TTTTTATA
1 TTTTTATA
46605687 TTTTTATA
1 TTTTTATA
46605695 TGTTTTATA
1 T-TTTTATA
46605704 TTTTT
1 TTTTT
46605709 GCACTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:46606994 original size:6 final size:6
Alignment explanation
Indices: 46606983--46607008 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46606973 ATACTTATTA
46606983 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
46607009 ACAAGTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:46610639 original size:46 final size:46
Alignment explanation
Indices: 46610589--46610680 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
46610579 GTGTTTAGAG
46610589 AAAACTTTATCTTTTGAAAACTGAGTTTTCCTACGTCTAGCAATTA
1 AAAACTTTATCTTTTGAAAACTGAGTTTTCCTACGTCTAGCAATTA
46610635 AAAACTTTATCTTTTGAAAACTGAGTTTTCCTACGTCTAGCAATTA
1 AAAACTTTATCTTTTGAAAACTGAGTTTTCCTACGTCTAGCAATTA
46610681 TAAATCTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (46 bp):
AAAACTTTATCTTTTGAAAACTGAGTTTTCCTACGTCTAGCAATTA
Found at i:46615800 original size:15 final size:15
Alignment explanation
Indices: 46615780--46615812 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46615770 CCATACTGGC
*
46615780 TTTTCTTTTATAGCT
1 TTTTCTTTCATAGCT
46615795 TTTTCTTTCATAGCT
1 TTTTCTTTCATAGCT
46615810 TTT
1 TTT
46615813 ATAATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCATAGCT
Found at i:46620507 original size:300 final size:300
Alignment explanation
Indices: 46619965--46620565 Score: 1202
Period size: 300 Copynumber: 2.0 Consensus size: 300
46619955 GGTAATTTTA
46619965 TTATCTACTCCGAAAAGTTAGGTTACAGATTGAACTATTCTTTCAATGACTTTTGAAGCCTATAC
1 TTATCTACTCCGAAAAGTTAGGTTACAGATTGAACTATTCTTTCAATGACTTTTGAAGCCTATAC
46620030 TTAAGGTACGTATACGTTGTTGCTATCGTTAATATTGACGTTGAAAATATGCCCATTTTACTGAA
66 TTAAGGTACGTATACGTTGTTGCTATCGTTAATATTGACGTTGAAAATATGCCCATTTTACTGAA
46620095 TTATGGTAATGGGAATATTATTTGGCAAACCCAATTGGACATGTCCTAAGTTTTAGAAAACATTG
131 TTATGGTAATGGGAATATTATTTGGCAAACCCAATTGGACATGTCCTAAGTTTTAGAAAACATTG
46620160 GATTAGGTTTGAGAGTATAGATAATCACAATCTAGTAAGCTTCTTTGAAGTATAGGATAAATAAG
196 GATTAGGTTTGAGAGTATAGATAATCACAATCTAGTAAGCTTCTTTGAAGTATAGGATAAATAAG
46620225 AAATGATGTTGGGTTGGTCCAAATAGAAACCAGAATCAGC
261 AAATGATGTTGGGTTGGTCCAAATAGAAACCAGAATCAGC
46620265 TTATCTACTCCGAAAAGTTAGGTTACAGATTGAACTATTCTTTCAATGACTTTTGAAGCCTATAC
1 TTATCTACTCCGAAAAGTTAGGTTACAGATTGAACTATTCTTTCAATGACTTTTGAAGCCTATAC
46620330 TTAAGGTACGTATACGTTGTTGCTATCGTTAATATTGACGTTGAAAATATGCCCATTTTACTGAA
66 TTAAGGTACGTATACGTTGTTGCTATCGTTAATATTGACGTTGAAAATATGCCCATTTTACTGAA
46620395 TTATGGTAATGGGAATATTATTTGGCAAACCCAATTGGACATGTCCTAAGTTTTAGAAAACATTG
131 TTATGGTAATGGGAATATTATTTGGCAAACCCAATTGGACATGTCCTAAGTTTTAGAAAACATTG
46620460 GATTAGGTTTGAGAGTATAGATAATCACAATCTAGTAAGCTTCTTTGAAGTATAGGATAAATAAG
196 GATTAGGTTTGAGAGTATAGATAATCACAATCTAGTAAGCTTCTTTGAAGTATAGGATAAATAAG
46620525 AAATGATGTTGGGTTGGTCCAAATAGAAACCAGAATCAGC
261 AAATGATGTTGGGTTGGTCCAAATAGAAACCAGAATCAGC
46620565 T
1 T
46620566 ACTGCTGCTG
Statistics
Matches: 301, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 301 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (300 bp):
TTATCTACTCCGAAAAGTTAGGTTACAGATTGAACTATTCTTTCAATGACTTTTGAAGCCTATAC
TTAAGGTACGTATACGTTGTTGCTATCGTTAATATTGACGTTGAAAATATGCCCATTTTACTGAA
TTATGGTAATGGGAATATTATTTGGCAAACCCAATTGGACATGTCCTAAGTTTTAGAAAACATTG
GATTAGGTTTGAGAGTATAGATAATCACAATCTAGTAAGCTTCTTTGAAGTATAGGATAAATAAG
AAATGATGTTGGGTTGGTCCAAATAGAAACCAGAATCAGC
Found at i:46647332 original size:49 final size:49
Alignment explanation
Indices: 46647275--46647371 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
46647265 AACCTGTAAC
*
46647275 TGCATAACCACCGCCAA-TTGGAGGCCCGAGTTATACTTGAACCCATGAT
1 TGCATAACCACCGCCAACTAGGA-GCCCGAGTTATACTTGAACCCATGAT
* * *
46647324 TGCATAACCACCGTCAACTAGGAGCCCTAGTTATACTTGAACTCATGA
1 TGCATAACCACCGCCAACTAGGAGCCCGAGTTATACTTGAACCCATGA
46647372 CTATATAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 39 0.91
50 4 0.09
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
TGCATAACCACCGCCAACTAGGAGCCCGAGTTATACTTGAACCCATGAT
Found at i:46647380 original size:49 final size:49
Alignment explanation
Indices: 46647277--46647383 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 49
46647267 CCTGTAACTG
* * *
46647277 CATAACCACCGCCAATTGGAGGCCCGAGTTATACTTGAACCCATGATTG
1 CATAACCACCGCCAATAGGAGGCCCGAGTTATACTTGAACCCATGACTA
* * *
46647326 CATAACCACCGTCAACTAGGA-GCCCTAGTTATACTTGAACTCATGACTA
1 CATAACCACCGCCAA-TAGGAGGCCCGAGTTATACTTGAACCCATGACTA
*
46647375 TATAACCAC
1 CATAACCAC
46647384 TGTGAACTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 46 0.92
50 4 0.08
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (49 bp):
CATAACCACCGCCAATAGGAGGCCCGAGTTATACTTGAACCCATGACTA
Found at i:46652930 original size:25 final size:26
Alignment explanation
Indices: 46652879--46652930 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
46652869 TAAATGTTAA
* * * *
46652879 TTAAAAATATTTGTATTCATTAGATT
1 TTAAAAATATTTGCATTAATCACATT
46652905 TTAAAAAT-TTTGCATTAATCACATT
1 TTAAAAATATTTGCATTAATCACATT
46652930 T
1 T
46652931 GTTATCACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (26 bp):
TTAAAAATATTTGCATTAATCACATT
Found at i:46655491 original size:45 final size:46
Alignment explanation
Indices: 46655441--46655548 Score: 155
Period size: 45 Copynumber: 2.3 Consensus size: 46
46655431 TTTGTATGTG
* * *
46655441 TATTTGAAATAATTATTTGAAATATTTCACATAT-AATCATAATGA
1 TATTTGAAATAATTAATTGAAACATTTCACATATAAATAATAATGA
*
46655486 TATTTGAAATAATTAATTGAAACATTTTACATATAAAAATAATAATGA
1 TATTTGAAATAATTAATTGAAACATTTCACATAT--AAATAATAATGA
46655534 TATTTGAAATAATTA
1 TATTTGAAATAATTA
46655549 CTTAATTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 31 0.55
48 25 0.45
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (46 bp):
TATTTGAAATAATTAATTGAAACATTTCACATATAAATAATAATGA
Found at i:46659584 original size:17 final size:17
Alignment explanation
Indices: 46659562--46659597 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
46659552 AGTTGTGGGA
46659562 TTTTTATGATAATTAAG
1 TTTTTATGATAATTAAG
*
46659579 TTTTTATGATAATTTAG
1 TTTTTATGATAATTAAG
46659596 TT
1 TT
46659598 ATGTGTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (17 bp):
TTTTTATGATAATTAAG
Found at i:46660892 original size:15 final size:15
Alignment explanation
Indices: 46660872--46660937 Score: 100
Period size: 15 Copynumber: 4.5 Consensus size: 15
46660862 GGACTAAAAT
46660872 CATAAATATTAATTA
1 CATAAATATTAATTA
46660887 CATAAATATTAATTA
1 CATAAATATTAATTA
*
46660902 CA-AACT-TATAATTA
1 CATAAATAT-TAATTA
46660916 CATAAATATTAATTA
1 CATAAATATTAATTA
46660931 CATAAAT
1 CATAAAT
46660938 GGAATTAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.02
14 11 0.24
15 33 0.72
16 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
CATAAATATTAATTA
Found at i:46661479 original size:13 final size:13
Alignment explanation
Indices: 46661406--46661466 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
46661396 CTCAAAATTT
*
46661406 TCAAAAGCACCTC
1 TCAAAAGCACTTC
*
46661419 TTAAAAGCACTTC
1 TCAAAAGCACTTC
* * *
46661432 TAAAAAGCATTTT
1 TCAAAAGCACTTC
* *
46661445 TCCACAGCACTTC
1 TCAAAAGCACTTC
46661458 TCAAAAGCA
1 TCAAAAGCA
46661467 TTTTTTAAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:46661479 original size:26 final size:26
Alignment explanation
Indices: 46661419--46661479 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
46661409 AAAGCACCTC
46661419 TTAAAAGCACTTCTAAAAAGCATTTT
1 TTAAAAGCACTTCTAAAAAGCATTTT
** * *
46661445 TCCACAGCACTTCTCAAAAGCATTTT
1 TTAAAAGCACTTCTAAAAAGCATTTT
46661471 TTAAAAGCA
1 TTAAAAGCA
46661480 ATGAAGAACT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
TTAAAAGCACTTCTAAAAAGCATTTT
Found at i:46661596 original size:21 final size:23
Alignment explanation
Indices: 46661572--46661624 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
46661562 ATCGTCCTCC
*
46661572 CTCTTTCATTCT-TTTTT-TTTT
1 CTCTTTCATTCTCTTTTTCCTTT
46661593 CTCTTTTC-TTCTCTTTTTCCTTT
1 CTC-TTTCATTCTCTTTTTCCTTT
46661616 C-CTTTCATT
1 CTCTTTCATT
46661625 TCCTTTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 11 0.41
22 12 0.44
23 4 0.15
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (23 bp):
CTCTTTCATTCTCTTTTTCCTTT
Found at i:46668791 original size:21 final size:21
Alignment explanation
Indices: 46668767--46668808 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46668757 CTTCATATAT
*
46668767 TTTTTAGAATTTTTTTGAAAA
1 TTTTTAGAATTTTTTTAAAAA
*
46668788 TTTTTATAATTTTTTTAAAAA
1 TTTTTAGAATTTTTTTAAAAA
46668809 ATACATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTTAGAATTTTTTTAAAAA
Found at i:46668848 original size:18 final size:19
Alignment explanation
Indices: 46668819--46668854 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46668809 ATACATAAAA
*
46668819 TTTGGAATTTTTATAAATC
1 TTTGGAATTTTTAAAAATC
46668838 TTTGGAA-TTTTAAAAAT
1 TTTGGAATTTTTAAAAAT
46668855 TATTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (19 bp):
TTTGGAATTTTTAAAAATC
Found at i:46668873 original size:20 final size:20
Alignment explanation
Indices: 46668845--46668885 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
46668835 ATCTTTGGAA
46668845 TTTTAAAAATTATTTTAAAT
1 TTTTAAAAATTATTTTAAAT
* *
46668865 TTTTGAAAATTATTTTGAAT
1 TTTTAAAAATTATTTTAAAT
46668885 T
1 T
46668886 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTAAAAATTATTTTAAAT
Found at i:46670392 original size:41 final size:40
Alignment explanation
Indices: 46670347--46670448 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 40
46670337 TGATTCAGTA
46670347 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* *
46670388 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
46670429 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
46670449 AGCGCTATGC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 2 0.04
41 52 0.93
42 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:46676558 original size:41 final size:40
Alignment explanation
Indices: 46676513--46676614 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 40
46676503 TGATTCAGTA
46676513 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
46676554 CACCGGCATTAAGCTTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
46676595 CACTC-GCAATAAGCCTGCTA
1 CAC-CGGC-ATTAGCCTGCTA
46676615 AGCGCTATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 2 0.04
41 48 0.91
42 3 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:46684098 original size:41 final size:41
Alignment explanation
Indices: 46684053--46684154 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
46684043 TGATTCAGTA
46684053 CACCGGCACCT-AGCCTGCTAGACAAATAGTCTGAAATATTT
1 CACCGGCA-CTAAGCCTGCTAGACAAATAGTCTGAAATATTT
* * * *
46684094 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCACTAAGCCTGCTAGACAAATAGTCTGAAATATTT
*
46684135 CACCGGCAATAAGCCTGCTA
1 CACCGGCACTAAGCCTGCTA
46684155 AGCGCTATGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CACCGGCACTAAGCCTGCTAGACAAATAGTCTGAAATATTT
Done.