Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 252 of 378
Found at i:75393247 original size:2 final size:2
Alignment explanation
Indices: 75393240--75393266 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
75393230 GAGACTAGTC
75393240 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
75393267 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75394524 original size:63 final size:64
Alignment explanation
Indices: 75394344--75394526 Score: 203
Period size: 63 Copynumber: 2.8 Consensus size: 64
75394334 ATATAGTTCG
* * * *
75394344 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACA-TATATCCCGT
75394406 A
64 A
* * * *
75394407 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCG
75394472 TA
63 TA
* *
75394474 GCTCTCTT-TCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT
75394527 CATAATGTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 46 0.46
66 34 0.34
67 17 0.17
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:75415003 original size:15 final size:15
Alignment explanation
Indices: 75414980--75415009 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
75414970 ATTTTGGCTA
75414980 TTAAGCCAACCCAAT
1 TTAAGCCAACCCAAT
*
75414995 TTAATCCAACCCAAT
1 TTAAGCCAACCCAAT
75415010 AAGCAAGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.23
Consensus pattern (15 bp):
TTAAGCCAACCCAAT
Found at i:75430242 original size:42 final size:42
Alignment explanation
Indices: 75430125--75430272 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 42
75430115 ACACTAATGT
* * * *
75430125 CATATCCCAGATATGGTCTTACATG-AGATCTCGTGTCGATTC
1 CATATCCCAGATATGGTCTTACACGAAG-TCTCATATCGATGC
* * * *
75430167 CAATAGCCCAGCTATGGTCTTACACAAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGC
* *
75430210 CATATCCCAGATATGGTTTTACGCGAAGTCTCATAAT-GATGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCAT-ATCGATGC
75430252 CATATCCCAGATATGGTCTTA
1 CATATCCCAGATATGGTCTTA
75430273 GACATAGTCT
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
42 53 0.60
43 34 0.39
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGC
Found at i:75437646 original size:42 final size:42
Alignment explanation
Indices: 75437538--75437686 Score: 151
Period size: 42 Copynumber: 3.5 Consensus size: 42
75437528 CACACCAATG
* ** * * *
75437538 CCATATCCCA-TATATGGTCTTACATGGGATCTCGTGTCGATG
1 CCATATCCCAGT-TATGGTCTTACACGAAATCTCATATCGATT
* *
75437580 CCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCGATT
1 CC-ATATCCCAGTTATGGTCTTACACGAAATCTCATATCGATT
*
75437623 CCATATCCCAGTTATGGTCTTACACGAAGTCTCATAAT-GATGT
1 CCATATCCCAGTTATGGTCTTACACGAAATCTCAT-ATCGAT-T
*
75437666 -CATATCCCAGATATGGTCTTA
1 CCATATCCCAGTTATGGTCTTA
75437687 GACATAGTCT
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 55 0.60
43 36 0.40
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGTTATGGTCTTACACGAAATCTCATATCGATT
Found at i:75441708 original size:15 final size:15
Alignment explanation
Indices: 75441688--75441718 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75441678 GGGTATGTTA
75441688 GTTACTAACCAGTTG
1 GTTACTAACCAGTTG
*
75441703 GTTACTAACTAGTTG
1 GTTACTAACCAGTTG
75441718 G
1 G
75441719 AAAAAGTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (15 bp):
GTTACTAACCAGTTG
Found at i:75442001 original size:48 final size:48
Alignment explanation
Indices: 75441921--75442065 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 48
75441911 AAGGAAGGAT
* * * * *
75441921 TTGAAAAGATTAAGTT-ATTATGACTCTATATGTGATATATGTTATGTA
1 TTGAAAAGAGTAAGTTGA-TGTGAATCTGTATGTGCTATATGTTATGTA
75441969 TTGAAAAGAGTAAGTTGATGTGAATCTGTATGTGCTATATGTTATGTA
1 TTGAAAAGAGTAAGTTGATGTGAATCTGTATGTGCTATATGTTATGTA
75442017 TTGAAAAGAGTAAGTTGATGTGAATCTGTATGTGCTATATGTTATGTA
1 TTGAAAAGAGTAAGTTGATGTGAATCTGTATGTGCTATATGTTATGTA
75442065 T
1 T
75442066 AGTGGCTGAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
48 90 0.99
49 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.41
Consensus pattern (48 bp):
TTGAAAAGAGTAAGTTGATGTGAATCTGTATGTGCTATATGTTATGTA
Found at i:75449986 original size:47 final size:46
Alignment explanation
Indices: 75449822--75450083 Score: 164
Period size: 47 Copynumber: 5.6 Consensus size: 46
75449812 GATAAATTGT
* * *
75449822 CGATGCCATGTCACAGACATGGTCTTACACTAGC-TCTCATATATGCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTC--ATAT-CGCGC
* * * * **
75449872 TGATGCATGTCCCAAACATATCTTACACT---ATCACA-ACTCTTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATA-TC-GCGC
* * *
75449916 CGATGCGTGTCCCAAACACGTCTTACACTGGCTATCTC-TATCGACGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCATATCG-CGC
* * *
75449963 CGATGCATGTCCCAGACATGTCTTACTCTGGCA-CTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATATC-GCGC
* * *
75450009 CAATGCCATGTCCCAGACATGGTTTTACACTGGC-TCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTCAT-ATCG-CGC
*
75450057 CGAAGCATGTCCCAGACATGTCTTACA
1 CGATGCATGTCCCAGACATGTCTTACA
75450084 TTGGTGCACA
Statistics
Matches: 168, Mismatches: 28, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
43 2 0.01
44 29 0.17
45 3 0.02
46 20 0.12
47 62 0.37
48 35 0.21
49 13 0.08
50 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATATCGCGC
Found at i:75450067 original size:94 final size:92
Alignment explanation
Indices: 75449824--75450083 Score: 251
Period size: 94 Copynumber: 2.8 Consensus size: 92
75449814 TAAATTGTCG
* * * * *
75449824 ATGCCATGTCACAGACATGGTCTTACACTAGCTCTCATATATGCGTGCTGATGCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGATGCATGTCCCAGAC
* * *
75449889 ATATCTTACACTATCACAACTCTTAGCCG
64 ATGTCTTACACTAGCACAACTCTTAGCCA
* * * *
75449918 ATG-CGTGTCCCAAACA-CGTCTTACACTGGCTATCTC-T-ATCGACGCCGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GAGGCCGATGCATGTCCCAGA
* * *
75449979 CATGTCTTACTCTGGCACTCATCTCTGT-GCCA
63 CATGTCTTACACTAGCA--CAACTCT-TAGCCA
* * *
75450011 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACAT
75450076 GTCTTACA
66 GTCTTACA
75450084 TTGGTGCACA
Statistics
Matches: 133, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
91 31 0.23
92 13 0.10
93 27 0.20
94 48 0.36
95 14 0.11
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACAACTCTTAGCCA
Found at i:75457350 original size:40 final size:40
Alignment explanation
Indices: 75457284--75457376 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
75457274 TCGGTATCAT
* * * *
75457284 ACACTTAGTGCCTCAGATAGCTGAAGCTATTTTGAATTGC
1 ACACTTAGTGCCTCAAATAACCGAAGCTATTTTGAATCGC
*
75457324 ACACTTAATGCCTCAAATAACCGAAGCTATTTTGAATCGC
1 ACACTTAGTGCCTCAAATAACCGAAGCTATTTTGAATCGC
75457364 ACACTTAGTGCCT
1 ACACTTAGTGCCT
75457377 AATACCATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (40 bp):
ACACTTAGTGCCTCAAATAACCGAAGCTATTTTGAATCGC
Found at i:75462845 original size:112 final size:112
Alignment explanation
Indices: 75462647--75462864 Score: 400
Period size: 112 Copynumber: 1.9 Consensus size: 112
75462637 GAGACACATC
75462647 GCCGTGTCTCTGCCCGTGTGACCCTTACCATGCATTCTGACTTGAAATTTCTAGGTGCAGGGGAT
1 GCCGTGTCTCTGCCCGTGTGACCCTTACCATGCATTCTGACTTGAAATTTCTAGGTGCAGGGGAT
* *
75462712 GCACGGCCTTCTCACATGCCCAAAGGGCTGACCGTGTGTCACACGCG
66 GCACGGCCTTCTCACACGCCCAAAGGGCTGACCATGTGTCACACGCG
*
75462759 GCCGTGTCTCTGCCCGTGTGACCCTTACCATGCGTTCTGACTTGAAATTTCTAGGTGCAGGGGAT
1 GCCGTGTCTCTGCCCGTGTGACCCTTACCATGCATTCTGACTTGAAATTTCTAGGTGCAGGGGAT
*
75462824 GCACGGCCTTCTCACACGCCCATAGGGCTGACCATGTGTCA
66 GCACGGCCTTCTCACACGCCCAAAGGGCTGACCATGTGTCA
75462865 TACATGGCCT
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 102 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.26
Consensus pattern (112 bp):
GCCGTGTCTCTGCCCGTGTGACCCTTACCATGCATTCTGACTTGAAATTTCTAGGTGCAGGGGAT
GCACGGCCTTCTCACACGCCCAAAGGGCTGACCATGTGTCACACGCG
Found at i:75467792 original size:40 final size:40
Alignment explanation
Indices: 75467733--75467874 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
75467723 AAATTGAATG
* * *
75467733 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
75467773 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
75467813 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
75467853 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
75467875 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:75467875 original size:40 final size:39
Alignment explanation
Indices: 75467772--75467900 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
75467762 TGCTGGAAAT
* * *
75467772 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
75467812 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
75467852 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
75467892 TATATCCGG
1 TATATCCGG
75467901 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:75472050 original size:40 final size:40
Alignment explanation
Indices: 75471984--75472150 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
75471974 AAATTGAATG
* * *
75471984 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
75472023 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
75472063 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
75472103 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
75472143 ATATCCGG
1 ATATCCGG
75472151 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:75474028 original size:55 final size:55
Alignment explanation
Indices: 75473940--75474080 Score: 183
Period size: 55 Copynumber: 2.6 Consensus size: 55
75473930 AACACACAAC
* * ** **
75473940 CGTGTGCTTTGGCCGTGGTCGAATCTAACTTGGGCCACACGGCTAGTTACAAGGT
1 CGTGTGCCTTGGCCGTGGTCGAATCTGACTTGGGCCACACGGCTAGCCACAAGCA
* * * *
75473995 CGTGTGCCTTGGCCGTGGTCTAATCTGATTTGGGTCACACGGCTAGCCACATGCA
1 CGTGTGCCTTGGCCGTGGTCGAATCTGACTTGGGCCACACGGCTAGCCACAAGCA
*
75474050 CGTGTGGCTTGGCCGTGGTCGAATCTGACTT
1 CGTGTGCCTTGGCCGTGGTCGAATCTGACTT
75474081 ACAATTGTAG
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 73 1.00
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (55 bp):
CGTGTGCCTTGGCCGTGGTCGAATCTGACTTGGGCCACACGGCTAGCCACAAGCA
Found at i:75475074 original size:40 final size:40
Alignment explanation
Indices: 75475020--75475117 Score: 160
Period size: 40 Copynumber: 2.5 Consensus size: 40
75475010 CTATCTCGGT
* *
75475020 ATCGCACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAGATAACCAAAGCTATTTTGA
75475060 ATCGCACACTTAGTGCCTCAGATAACCAAAGCTATTTTGA
1 ATCGCACACTTAGTGCCTCAGATAACCAAAGCTATTTTGA
* *
75475100 ATCGCAGAATTAGTGCCT
1 ATCGCACACTTAGTGCCT
75475118 AATACCATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAGATAACCAAAGCTATTTTGA
Found at i:75478056 original size:47 final size:47
Alignment explanation
Indices: 75477997--75478118 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
75477987 GCATTGGAAC
75477997 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
75478044 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
75478091 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
75478119 CCAAGGCATG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:75478100 original size:142 final size:140
Alignment explanation
Indices: 75477863--75478116 Score: 309
Period size: 142 Copynumber: 1.8 Consensus size: 140
75477853 TTGACGGTTT
* * *
75477863 AAGGATACCATGTAAGACTATGTCAAGACATGGCATTGGTAAGGCAAGGATCCTGTGTAAGACCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCTATGTAAGACCA
*
75477928 TGTCAAGACATGGCATCGGCATTGATTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATT
66 TGTCAAGACATGGCATCGGCATAGATTAAGGA-TACCATGTAAGACCACATCAAGATGTGGCATT
75477992 GGAACTAAGAC
130 GGAACTAAGAC
***
75478003 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATACC-ATGTAAGA
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGACAAGGAT-CCTATGTAAGA
*** * * *
75478067 CCATGTTTGGAACATGGCATTTGGTA-AGA-TAAGGATATCATGTAAGACCA
63 CCATGTCAAG-ACATGGCA-TCGGCATAGATTAAGGATACCATGTAAGACCA
75478117 TGCCAAGGCA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
140 23 0.24
141 9 0.09
142 47 0.49
143 12 0.13
144 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (140 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCTATGTAAGACCA
TGTCAAGACATGGCATCGGCATAGATTAAGGATACCATGTAAGACCACATCAAGATGTGGCATTG
GAACTAAGAC
Found at i:75478305 original size:53 final size:54
Alignment explanation
Indices: 75478097--75478304 Score: 249
Period size: 53 Copynumber: 3.9 Consensus size: 54
75478087 TTGGTAAGAT
* *
75478097 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
75478151 AAGGAAATCATGTAAGATCATGTCAAGACATGGCATTGATAAGATACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAG-TTCTATAAGGC
* * * *
75478206 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
75478259 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
75478305 AAAAAGGAAA
Statistics
Matches: 131, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 4 0.03
53 42 0.32
54 41 0.31
55 40 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:75481737 original size:40 final size:39
Alignment explanation
Indices: 75481572--75481755 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
75481562 AAATTGAATG
* * *
75481572 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
75481612 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
75481652 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
75481692 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
75481731 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
75481756 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:75481780 original size:80 final size:81
Alignment explanation
Indices: 75481612--75481800 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
75481602 GCTGGAAATT
* * * *
75481612 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
75481677 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
75481693 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
75481756 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
75481772 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
75481801 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:75488181 original size:6 final size:6
Alignment explanation
Indices: 75488170--75488213 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
75488160 TTTTGTAATT
* * * *
75488170 TGAATC TGAATC TGGATA TGAATC TGAATC TGAAAC TGTATC TG
1 TGAATC TGAATC TGAATC TGAATC TGAATC TGAATC TGAATC TG
75488214 CTTTTGACTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (6 bp):
TGAATC
Found at i:75489172 original size:8 final size:8
Alignment explanation
Indices: 75489161--75489185 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
75489151 CTTTCTTTAT
75489161 TTATAATA
1 TTATAATA
75489169 TTATAATA
1 TTATAATA
75489177 TTATAATA
1 TTATAATA
75489185 T
1 T
75489186 ATATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTATAATA
Found at i:75489201 original size:18 final size:20
Alignment explanation
Indices: 75489166--75489203 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
75489156 TTTATTTATA
75489166 ATATTATAATATTATAATAT
1 ATATTATAATATTATAATAT
*
75489186 ATATTTTAAT-TT-TAATAT
1 ATATTATAATATTATAATAT
75489204 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTATAATATTATAATAT
Found at i:75491578 original size:17 final size:17
Alignment explanation
Indices: 75491556--75491595 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
75491546 TGTTGCGTTT
75491556 GTAGTTAAATTAGATTA
1 GTAGTTAAATTAGATTA
**
75491573 GTAGTTTTATTAGATTA
1 GTAGTTAAATTAGATTA
75491590 GTAGTT
1 GTAGTT
75491596 TTAGATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (17 bp):
GTAGTTAAATTAGATTA
Found at i:75491596 original size:17 final size:17
Alignment explanation
Indices: 75491564--75491598 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
75491554 TTGTAGTTAA
75491564 ATTAGATTAGTAGTTTT
1 ATTAGATTAGTAGTTTT
75491581 ATTAGATTAGTAGTTTT
1 ATTAGATTAGTAGTTTT
75491598 A
1 A
75491599 GATTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (17 bp):
ATTAGATTAGTAGTTTT
Found at i:75491619 original size:34 final size:34
Alignment explanation
Indices: 75491581--75491645 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
75491571 TAGTAGTTTT
75491581 ATTAGATTAGTAGTTTTAGATTAAAAACAATTAA
1 ATTAGATTAGTAGTTTTAGATTAAAAACAATTAA
*
75491615 ATTAGATTAGTAGTTTTGGATTAAAAACAAT
1 ATTAGATTAGTAGTTTTAGATTAAAAACAAT
75491646 CACTTCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (34 bp):
ATTAGATTAGTAGTTTTAGATTAAAAACAATTAA
Found at i:75492750 original size:55 final size:55
Alignment explanation
Indices: 75492634--75492751 Score: 127
Period size: 55 Copynumber: 2.1 Consensus size: 55
75492624 AATTTCTAAA
75492634 TAAAGTTAAACTTTAAATTTGATAATTTTTTATATTGGAGTTTAAATTTTTTAATT
1 TAAA-TTAAACTTTAAATTTGATAATTTTTTATATTGGAGTTTAAATTTTTTAATT
* * **
75492690 CAAATTAAATTTTAAATTT-AGTAAATATTTTTATATT-GAGATTTTTA-TTTTT-ATT
1 TAAATTAAACTTTAAATTTGA-T-AAT-TTTTTATATTGGAG-TTTAAATTTTTTAATT
75492745 TAAATTA
1 TAAATTA
75492752 GTTATTGGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
54 1 0.02
55 24 0.45
56 14 0.26
57 14 0.26
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (55 bp):
TAAATTAAACTTTAAATTTGATAATTTTTTATATTGGAGTTTAAATTTTTTAATT
Found at i:75494858 original size:2 final size:2
Alignment explanation
Indices: 75494851--75494890 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
75494841 CTCATTATTC
75494851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75494891 TCATATTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75495318 original size:45 final size:45
Alignment explanation
Indices: 75495254--75495341 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
75495244 AAACATGTGC
* *
75495254 CACATACATCATGAACTCAAACTACAACTCAATGAGTTCAGATGT
1 CACATACATCATGAACTCAAACCACAACTCAATGAATTCAGATGT
*
75495299 CACATATATCATGAACTCAAACCACAACTCAATGAATTCAGAT
1 CACATACATCATGAACTCAAACCACAACTCAATGAATTCAGAT
75495342 CACATAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (45 bp):
CACATACATCATGAACTCAAACCACAACTCAATGAATTCAGATGT
Found at i:75495345 original size:21 final size:21
Alignment explanation
Indices: 75495277--75495345 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
75495267 AACTCAAACT
*
75495277 ACAACTCAATGAGTTCAGATGTC
1 ACAACTCAATGAATTCAGA--TC
* * * *
75495300 ACATATATC-ATGAACTCAAACC
1 ACA-A-CTCAATGAATTCAGATC
75495322 ACAACTCAATGAATTCAGATC
1 ACAACTCAATGAATTCAGATC
75495343 ACA
1 ACA
75495346 TAGTTCCTAG
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
20 2 0.06
21 14 0.41
22 4 0.12
23 3 0.09
24 9 0.26
25 2 0.06
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (21 bp):
ACAACTCAATGAATTCAGATC
Found at i:75499697 original size:21 final size:20
Alignment explanation
Indices: 75499673--75499715 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
75499663 TAAGAGAGGG
* *
75499673 AGAAGAGAAAAGAAGAAAGAA
1 AGAAAAGAAAAGAA-AAAAAA
*
75499694 AGAAAAGAGAAGAAAAAAAA
1 AGAAAAGAAAAGAAAAAAAA
75499714 AG
1 AG
75499716 GTAATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AGAAAAGAAAAGAAAAAAAA
Found at i:75504295 original size:43 final size:43
Alignment explanation
Indices: 75504248--75504345 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
75504238 TAACCCAGCT
*
75504248 ATGGTCTTACATGAAATCAAATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
* * * *
75504291 ATGGTCTTACACGCAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
75504334 ATGGTCTTACAC
1 ATGGTCTTACAC
75504346 ATAATCATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAAC
Found at i:75505033 original size:56 final size:60
Alignment explanation
Indices: 75504914--75505058 Score: 201
Period size: 56 Copynumber: 2.4 Consensus size: 60
75504904 TGAACTTATG
* *
75504914 TAATTTATATAA-AAAAATTATATTACAAAGTTTGTTCCAATGAGATTATGGATGTAATGTATT
1 TAATTTATATAACATAATTTATATTACAAAGTTTGTTCC-A--AGATTAT-GATGTAATGTATT
75504977 TAATTTATATAACATAATTTATATTACAAAGTTTGTTCC-A-ATTAT-AT-TAATGTATT
1 TAATTTATATAACATAATTTATATTACAAAGTTTGTTCCAAGATTATGATGTAATGTATT
75505033 TAATTTATATAACATAATTTATATTA
1 TAATTTATATAACATAATTTATATTA
75505059 TAAAACTAAG
Statistics
Matches: 79, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
56 35 0.44
57 2 0.03
59 5 0.06
60 1 0.01
63 12 0.15
64 24 0.30
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (60 bp):
TAATTTATATAACATAATTTATATTACAAAGTTTGTTCCAAGATTATGATGTAATGTATT
Found at i:75507589 original size:17 final size:18
Alignment explanation
Indices: 75507565--75507618 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 18
75507555 CAATCTAACC
75507565 CAAAAAAATTGATATTTA
1 CAAAAAAATTGATATTTA
75507583 CAAAAAAAAATTGATATTTA
1 C--AAAAAAATTGATATTTA
*
75507603 C-AAAAATTTGATATTT
1 CAAAAAAATTGATATTT
75507619 GGATAATTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 14 0.42
18 1 0.03
20 18 0.55
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
CAAAAAAATTGATATTTA
Found at i:75507591 original size:20 final size:20
Alignment explanation
Indices: 75507566--75507608 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
75507556 AATCTAACCC
75507566 AAAAAAATTGATATTTACAA
1 AAAAAAATTGATATTTACAA
75507586 AAAAAAATTGATATTTACAA
1 AAAAAAATTGATATTTACAA
75507606 AAA
1 AAA
75507609 TTTGATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAAAATTGATATTTACAA
Found at i:75508335 original size:21 final size:22
Alignment explanation
Indices: 75508309--75508367 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
75508299 GTTTTAAGAA
*
75508309 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
75508330 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
75508352 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
75508368 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:75508382 original size:26 final size:24
Alignment explanation
Indices: 75508338--75508387 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
75508328 ATTTGTTTTA
*
75508338 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
75508362 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
75508388 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:75509214 original size:16 final size:15
Alignment explanation
Indices: 75509193--75509237 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
75509183 CCCTTCTCAT
75509193 TTTTCTTCTTCTCTCC
1 TTTTCTTCTTCT-TCC
*
75509209 TTTTCTTCTCCTTCC
1 TTTTCTTCTTCTTCC
*
75509224 CTTTCTTCTTCTTC
1 TTTTCTTCTTCTTC
75509238 ACCCACCCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTCTTCTTCTTCC
Found at i:75509224 original size:44 final size:44
Alignment explanation
Indices: 75509135--75509226 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
75509125 TTCTCTTTTT
**
75509135 CCTTCCCTCTCTATATTTTCCTTCTTCTTTTTTCTTTCTTTTTC
1 CCTTCCCTCTCTATATTTTCCTTCTTCTTTTTTCTTTCTCCTTC
75509179 CCTTCCCT-TCTCAT-TTTT-CTTCTTCTCTCCTTTTC-TTCTCCTTC
1 CCTTCCCTCTCT-ATATTTTCCTTCTTCT-T--TTTTCTTTCTCCTTC
75509223 CCTT
1 CCTT
75509227 TCTTCTTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
42 8 0.19
43 8 0.19
44 21 0.50
45 5 0.12
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (44 bp):
CCTTCCCTCTCTATATTTTCCTTCTTCTTTTTTCTTTCTCCTTC
Found at i:75509380 original size:27 final size:27
Alignment explanation
Indices: 75509342--75509395 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
75509332 TGCAAAATGG
75509342 GTGCCGCCTTTGACAG-CCCCTCCACCA
1 GTGCCGCCTTTGAC-GTCCCCTCCACCA
75509369 GTGCCGCCTTTGACGTCCCCTCCACCA
1 GTGCCGCCTTTGACGTCCCCTCCACCA
75509396 TTATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.13, C:0.48, G:0.19, T:0.20
Consensus pattern (27 bp):
GTGCCGCCTTTGACGTCCCCTCCACCA
Found at i:75509542 original size:2 final size:2
Alignment explanation
Indices: 75509535--75509571 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
75509525 GTATTTCTTT
75509535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75509572 TATTAGGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75509661 original size:18 final size:18
Alignment explanation
Indices: 75509615--75509673 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
75509605 AATTTCATAG
75509615 TTAATTTCATTTTAATATT
1 TTAATTT-ATTTTAATATT
* **
75509634 TAATATTTATTTTTTTATT
1 TTA-ATTTATTTTAATATT
75509653 TTAATTTATTTTAAT-TT
1 TTAATTTATTTTAATATT
75509670 TTAA
1 TTAA
75509674 ATTTTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 6 0.18
18 10 0.30
19 13 0.39
20 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTAATTTATTTTAATATT
Found at i:75509676 original size:18 final size:18
Alignment explanation
Indices: 75509617--75509677 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
75509607 TTTCATAGTT
*
75509617 AATTTCATTTTAATATTTA
1 AATTT-ATTTTAATTTTTA
* *
75509636 ATATTTATTTT-TTTATTTT
1 A-ATTTATTTTAATT-TTTA
75509655 AATTTATTTTAATTTTTA
1 AATTTATTTTAATTTTTA
75509673 AATTT
1 AATTT
75509678 TAAAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 18 0.53
19 12 0.35
20 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTTATTTTAATTTTTA
Found at i:75510659 original size:27 final size:28
Alignment explanation
Indices: 75510617--75510672 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
75510607 TTTTCTTTTC
**
75510617 TTTTTCTTTTCATTTTTAGTTTAGATTT
1 TTTTTCTTTTCATTTTTAGGATAGATTT
75510645 TTTTTCTTTTC-TTTTTAGGATAGATTT
1 TTTTTCTTTTCATTTTTAGGATAGATTT
75510672 T
1 T
75510673 AGTTTTATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (28 bp):
TTTTTCTTTTCATTTTTAGGATAGATTT
Found at i:75513377 original size:20 final size:20
Alignment explanation
Indices: 75513355--75513590 Score: 283
Period size: 20 Copynumber: 11.8 Consensus size: 20
75513345 GTGGACCTAC
* ** *
75513355 TGATGGCTTGGTGCCGTTAC
1 TGATGGCTTTGTGCCACTAT
* *
75513375 TGATGGCTTTGTGCCGCTAC
1 TGATGGCTTTGTGCCACTAT
75513395 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
75513415 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
*
75513435 TGATGGCTTTGTGCTACTAT
1 TGATGGCTTTGTGCCACTAT
*
75513455 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCACTAT
*
75513475 TAATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
* *
75513495 TGATGGCTTTGTACCGCTAT
1 TGATGGCTTTGTGCCACTAT
** * *
75513515 TGATGGCTTCATGCCGCTAC
1 TGATGGCTTTGTGCCACTAT
* * *
75513535 TCATGGTTTTGTACCACTAT
1 TGATGGCTTTGTGCCACTAT
* *
75513555 TGATGGCTTCGTGCCACTAC
1 TGATGGCTTTGTGCCACTAT
*
75513575 TCATGGCTTTGTGCCA
1 TGATGGCTTTGTGCCA
75513591 TATACTAATA
Statistics
Matches: 186, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 186 1.00
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:75523714 original size:40 final size:40
Alignment explanation
Indices: 75523660--75523804 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
75523650 CTCGCACAAG
* * * * *
75523660 GCCTTCGAGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
75523700 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
75523740 GCCTTC-GGATCTTAGTCCAGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
75523781 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
75523805 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:75528008 original size:391 final size:391
Alignment explanation
Indices: 75527282--75528043 Score: 1009
Period size: 391 Copynumber: 1.9 Consensus size: 391
75527272 ATCAAAACAT
* * * *
75527282 GTAAAATGCATGCCTAGTTACCTTTTTTCTCGGATCCATCGATGTTGGGGTGTGACACATTTATG
1 GTAAAATGCATGCCCAGTTACCCTTTATCTCGGATCCACCGATGTTGGGGTGTGACACATTTATG
** * *
75527347 GTGAGTCAGTGGGCAGAAAGCATACAATGACCTAACAAATTGAGTGATTCATCTGAGGGAAATGT
66 GCAAGCCAGGGGGCAGAAAGCATACAATGACCTAACAAATTGAGTGATTCATCTGAGGGAAATGT
* * *
75527412 AGCCAAGGATGAATAGAAAGAAGACAAAGTAGAAGAGGAGGACGATGAAAAGGTTACGGAGGATT
131 AGCCAAGAATGAATAGAAAGAAGACAAAGTAGAAGACGAGGACGATGAAAAGGCTACGGAGGATT
* * *
75527477 ACGAATTCGAGCCCTATCACGATGATCTATAAGATGTGTTCGCCCTCACACAACCATCTACGGGG
196 ACGAATTCGAGCCCTATCACAATGATCTATAAGATGTGTTCGCACTCACACAACCATCCACGGGG
* ** * * * *
75527542 CCCCTCGTCATTTGTGAACTGAGTGACCAACTCAGACTGTCTTACAAAAGTTCGATCATCAAGGG
261 CCCCTCATCAACTGTCAACTGAGCGACCAACTCAGACTATCTTACAAAAGTTCGATCATCAAGAG
* * * *
75527607 CAAAGTCAAAGGAATAGCAAGATCGAGTGAGAGTCCTAGGGATGCTCAAGGGCAAAGTTAAAATA
326 AAAAGTCAAAGAAATAGCAAAATCGAGTGAGAGTCCCAGGGATGCTCAAGGGCAAAGTTAAAATA
75527672 G
391 G
* * *
75527673 GTAATATGCATGCCCAGTTACCCTTTATCTCGGATCCGCCGATGTTGGTGTGTGACACATTTATG
1 GTAAAATGCATGCCCAGTTACCCTTTATCTCGGATCCACCGATGTTGGGGTGTGACACATTTATG
*
75527738 GCAAGCCAGGGGGCAGAAAGCATACAATGGCCTGAA-AAATTGAGTGATTCATCTGA-GGACAAT
66 GCAAGCCAGGGGGCAGAAAGCATACAATGACCT-AACAAATTGAGTGATTCATCTGAGGGA-AAT
* * ** * **
75527801 GTATCCAATAA-GTAATAGAAAGAAGATGAAGTAGGAA-ACGAGGATGATGATGAGGCTA-GGAA
129 GTAGCCAAGAATG-AATAGAAAGAAGACAAAGTA-GAAGACGAGGACGATGAAAAGGCTACGG-A
* * * *
75527863 GGATTAC-AACTTTGAGCCCTATCACAATGATCTATAGGATGTGTTCGCACTCGCACAACTATCC
191 GGATTACGAA-TTCGAGCCCTATCACAATGATCTATAAGATGTGTTCGCACTCACACAACCATCC
* *
75527927 ACGGGGCCCC-CTATCAACTGTCAACTGAGCGACCGACTCAGATTATCTTACAAAAGGTT-GATC
255 ACGGGGCCCCTC-ATCAACTGTCAACTGAGCGACCAACTCAGACTATCTTACAAAA-GTTCGATC
*
75527990 GTCAAGAGAAAAGTCAAAGAAATAGCAAAATCGAGTGAGAGTCCCAGGGATGCT
318 ATCAAGAGAAAAGTCAAAGAAATAGCAAAATCGAGTGAGAGTCCCAGGGATGCT
75528044 TAGGATTAGT
Statistics
Matches: 320, Mismatches: 43, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
390 9 0.03
391 303 0.95
392 8 0.03
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (391 bp):
GTAAAATGCATGCCCAGTTACCCTTTATCTCGGATCCACCGATGTTGGGGTGTGACACATTTATG
GCAAGCCAGGGGGCAGAAAGCATACAATGACCTAACAAATTGAGTGATTCATCTGAGGGAAATGT
AGCCAAGAATGAATAGAAAGAAGACAAAGTAGAAGACGAGGACGATGAAAAGGCTACGGAGGATT
ACGAATTCGAGCCCTATCACAATGATCTATAAGATGTGTTCGCACTCACACAACCATCCACGGGG
CCCCTCATCAACTGTCAACTGAGCGACCAACTCAGACTATCTTACAAAAGTTCGATCATCAAGAG
AAAAGTCAAAGAAATAGCAAAATCGAGTGAGAGTCCCAGGGATGCTCAAGGGCAAAGTTAAAATA
G
Found at i:75529711 original size:56 final size:54
Alignment explanation
Indices: 75529617--75529726 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 54
75529607 TGAAAAAAAA
75529617 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
* ***
75529671 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA-ATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
75529727 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
54 8 0.17
55 7 0.15
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (54 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:75531006 original size:40 final size:40
Alignment explanation
Indices: 75530922--75531087 Score: 130
Period size: 40 Copynumber: 4.2 Consensus size: 40
75530912 AATTGAATGA
* * **
75530922 TATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGA-TAC
* * *
75530961 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATAC
* * *
75531002 -ATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATAC
*
75531041 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGA-TAC
75531081 TATCCGG
1 TATCCGG
75531088 TTATATTCCG
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
39 18 0.18
40 80 0.79
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATAC
Found at i:75533905 original size:2 final size:2
Alignment explanation
Indices: 75533898--75533927 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
75533888 CAAATTCTTC
75533898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75533928 TCATATTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75536539 original size:49 final size:47
Alignment explanation
Indices: 75536436--75536545 Score: 114
Period size: 49 Copynumber: 2.3 Consensus size: 47
75536426 CCATGTTTGG
* * * * * *
75536436 GACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCG
1 GACATGGTATTACACTGACTCATCCATCAAGCCGACGCCATGACCCA
*
75536483 GACATGGTATTACACTGACT-ATCACAATCAAGGCCGACGTCATGACCCA
1 GACATGGTATTACACTGACTCATC-C-ATCAA-GCCGACGCCATGACCCA
*
75536532 GACATGGTTTTACA
1 GACATGGTATTACA
75536546 TTAGCTCTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
46 3 0.06
47 19 0.37
48 5 0.10
49 25 0.48
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (47 bp):
GACATGGTATTACACTGACTCATCCATCAAGCCGACGCCATGACCCA
Found at i:75538286 original size:38 final size:38
Alignment explanation
Indices: 75538243--75538318 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
75538233 ATTAACCAAA
*
75538243 TGACCAAAATGCCCTTAAGGCCTTTCTTTCAAATTTTT
1 TGACCAAAATGCCCTTAACGCCTTTCTTTCAAATTTTT
75538281 TGACCAAAATGCCCTTAACGCCTTTCTTTCAAATTTTT
1 TGACCAAAATGCCCTTAACGCCTTTCTTTCAAATTTTT
75538319 CCTATTCATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.39
Consensus pattern (38 bp):
TGACCAAAATGCCCTTAACGCCTTTCTTTCAAATTTTT
Found at i:75542301 original size:40 final size:39
Alignment explanation
Indices: 75542136--75542319 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
75542126 AAATTGAATG
* * *
75542136 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
75542176 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
75542216 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
75542256 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
75542295 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
75542320 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:75542344 original size:80 final size:81
Alignment explanation
Indices: 75542176--75542364 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
75542166 GCTGGAAATT
* * * *
75542176 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
75542241 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
75542257 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
75542320 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
75542336 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
75542365 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:75550400 original size:40 final size:40
Alignment explanation
Indices: 75550317--75550418 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
75550307 GTTATTGTGC
* * **
75550317 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* *
75550357 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* * *
75550397 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
75550419 CTTGGTGCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
Found at i:75552769 original size:51 final size:51
Alignment explanation
Indices: 75552706--75552803 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
75552696 ATTTTCCAAA
*** * *
75552706 AACAGCAAAGGATTTTCTTTAACTGAAATTATTCTGAAAAT-ATTTTCTGC
1 AACAGCAAAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTTCTGC
*
75552756 AACAGTCAGAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTT
1 AACAG-CAAAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTT
75552804 TTTGCATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 5 0.12
51 30 0.75
52 5 0.12
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (51 bp):
AACAGCAAAGGATTTTCCACAACTAAAAATATTCTGAAAATAATTTTCTGC
Found at i:75554800 original size:26 final size:26
Alignment explanation
Indices: 75554771--75554852 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
75554761 ATCTGCCCAT
*
75554771 GGTCCACTAACCAACTCAAACTCAAG
1 GGTCCTCTAACCAACTCAAACTCAAG
* *
75554797 GGT-CTTTGGACTC-ACTCAAACTCAAG
1 GGTCCTCT-AAC-CAACTCAAACTCAAG
* * * *
75554823 GGACCTCCAACCAACACAAACTTAAG
1 GGTCCTCTAACCAACTCAAACTCAAG
75554849 GGTC
1 GGTC
75554853 ATTCCAAGCC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
25 3 0.07
26 36 0.86
27 3 0.07
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (26 bp):
GGTCCTCTAACCAACTCAAACTCAAG
Found at i:75561935 original size:20 final size:20
Alignment explanation
Indices: 75561910--75561953 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
75561900 TTTAACTGTA
75561910 TAATATAAGTTGGTGGAGTG
1 TAATATAAGTTGGTGGAGTG
75561930 TAATATAAGTTGGTGGAGTG
1 TAATATAAGTTGGTGGAGTG
75561950 TAAT
1 TAAT
75561954 TTTTAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (20 bp):
TAATATAAGTTGGTGGAGTG
Found at i:75569162 original size:33 final size:34
Alignment explanation
Indices: 75569115--75569185 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
75569105 AATTCTTTCT
75569115 ACTCGACATTCCAGCTCCTATCAAGCAACCAAAC
1 ACTCGACATTCCAGCTCCTATCAAGCAACCAAAC
* *
75569149 ACTC-ACATTCCAGCTCCTGTCTAGCAACCAAAC
1 ACTCGACATTCCAGCTCCTATCAAGCAACCAAAC
75569182 ACTC
1 ACTC
75569186 CCACTCAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 31 0.89
34 4 0.11
ACGTcount: A:0.32, C:0.39, G:0.08, T:0.20
Consensus pattern (34 bp):
ACTCGACATTCCAGCTCCTATCAAGCAACCAAAC
Found at i:75572372 original size:270 final size:270
Alignment explanation
Indices: 75571891--75572432 Score: 1003
Period size: 270 Copynumber: 2.0 Consensus size: 270
75571881 CACGGTTGTG
75571891 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCATAAGATATCTCAATTAAAA
1 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCATAAGATATCTCAATTAAAA
* *
75571956 CTTGTATTACATAGATACCACTTGATAGAAAGAACTGAAAACAATCAAGTTAATCAAGACTCATC
66 CTTGCATTACATAGATACCACTTGATAGAAAGAACCGAAAACAATCAAGTTAATCAAGACTCATC
*
75572021 TTAAGTAGCTAACTGGTATCTTCCATTTTTATCCATGTAAATGTAAAGCCTCAATGCTCTCTTGT
131 TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTAAATGTAAAGCCTCAATGCTCTCTTGT
*
75572086 TAAACCTCTATTTCTTCGATACTCTGTAATCACACTATCTTATACTGATCATAATCAACATAGCG
196 TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGCG
75572151 TCATTAGCTA
261 TCATTAGCTA
*
75572161 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCTTAAGATATCTCAATTAAAA
1 AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCATAAGATATCTCAATTAAAA
*
75572226 CTTGCATTACATAGATACCACTTGATAGAAAGAACCGAAAATAATCAAGTTAATCAAGACTCATC
66 CTTGCATTACATAGATACCACTTGATAGAAAGAACCGAAAACAATCAAGTTAATCAAGACTCATC
*
75572291 TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTACATGTAAAGCCTCAATGCTCTCTTGT
131 TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTAAATGTAAAGCCTCAATGCTCTCTTGT
*
75572356 TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGTG
196 TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGCG
*
75572421 TCATTGGCTA
261 TCATTAGCTA
75572431 AG
1 AG
75572433 CTTGCTACTG
Statistics
Matches: 263, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
270 263 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (270 bp):
AGATATCTCACTTAAAACATGATTCAATTTGCTAGCTCAAGCCTCATAAGATATCTCAATTAAAA
CTTGCATTACATAGATACCACTTGATAGAAAGAACCGAAAACAATCAAGTTAATCAAGACTCATC
TTAAGTAGCTAACTAGTATCTTCCATTTTTATCCATGTAAATGTAAAGCCTCAATGCTCTCTTGT
TAAACCTCTATTTCTTCGATACTCTATAATCACACTATCTTATACTGATCATAATCAACATAGCG
TCATTAGCTA
Found at i:75577824 original size:14 final size:14
Alignment explanation
Indices: 75577805--75577834 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
75577795 AGAATGAAGA
75577805 CAGAATCAATGCAT
1 CAGAATCAATGCAT
75577819 CAGAATCAATGCAT
1 CAGAATCAATGCAT
75577833 CA
1 CA
75577835 AATGGCAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.20
Consensus pattern (14 bp):
CAGAATCAATGCAT
Found at i:75580631 original size:25 final size:26
Alignment explanation
Indices: 75580602--75580659 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
75580592 CTTATTTCAT
75580602 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAATATAA
* *
75580627 TAAATTAAATATATTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAATATAA
75580653 -AAATAAA
1 TAAATAAA
75580660 TATTAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAATATAA
Found at i:75580672 original size:24 final size:25
Alignment explanation
Indices: 75580617--75580678 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
75580607 AAAAAATTTT
**
75580617 AAAAATATAATAAATTAAATATATTT
1 AAAAATATAA-AAATTAAATATATAA
75580643 AAAAATATAAAAA-TAAATAT-TAA
1 AAAAATATAAAAATTAAATATATAA
*
75580666 AACAA-ATAAAAAT
1 AAAAATATAAAAAT
75580679 AACACTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 7 0.22
23 5 0.16
24 7 0.22
25 3 0.09
26 10 0.31
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATATAAAAATTAAATATATAA
Found at i:75580674 original size:22 final size:20
Alignment explanation
Indices: 75580633--75580680 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
75580623 ATAATAAATT
* *
75580633 AAATATATTTAAAAATATAA
1 AAATAAATTTAAAAAAATAA
75580653 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
75580675 AAATAA
1 AAATAA
75580681 CACTAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:75580687 original size:21 final size:22
Alignment explanation
Indices: 75580649--75580691 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
75580639 ATTTAAAAAT
* *
75580649 ATAAAAATAAATATTAAAACAA
1 ATAAAAATAAACACTAAAACAA
75580671 ATAAAAAT-AACACTAAAACAA
1 ATAAAAATAAACACTAAAACAA
75580692 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (22 bp):
ATAAAAATAAACACTAAAACAA
Found at i:75581674 original size:2 final size:2
Alignment explanation
Indices: 75581667--75581698 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
75581657 TACAACTTCA
75581667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75581699 CTTTTAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75583666 original size:14 final size:14
Alignment explanation
Indices: 75583643--75583679 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
75583633 TTTATACTAA
*
75583643 ATTAATAAACAATT
1 ATTAAAAAACAATT
*
75583657 TTTAAAAAACAATT
1 ATTAAAAAACAATT
75583671 ATTAAAAAA
1 ATTAAAAAA
75583680 AATAAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
ATTAAAAAACAATT
Found at i:75584193 original size:24 final size:24
Alignment explanation
Indices: 75584143--75584193 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
75584133 TTTTGAGCAA
*
75584143 TTTAATTATTTTCTTTTATGTTCT
1 TTTAATTATTTTCTTTTATCTTCT
* * *
75584167 TTTAATTTTTTTCTTTTTTCTTTT
1 TTTAATTATTTTCTTTTATCTTCT
75584191 TTT
1 TTT
75584194 CATTCTCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTAATTATTTTCTTTTATCTTCT
Found at i:75584482 original size:89 final size:89
Alignment explanation
Indices: 75584331--75584503 Score: 337
Period size: 89 Copynumber: 1.9 Consensus size: 89
75584321 TGTTAAAGCT
*
75584331 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTGTTTTCGATCACTGCAAGATGAA
1 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
75584396 TAAATCAATCCTATTGAATGAGCC
66 TAAATCAATCCTATTGAATGAGCC
75584420 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
1 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
75584485 TAAATCAATCCTATTGAAT
66 TAAATCAATCCTATTGAAT
75584504 TAATCAATAC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (89 bp):
AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
TAAATCAATCCTATTGAATGAGCC
Found at i:75586470 original size:18 final size:18
Alignment explanation
Indices: 75586447--75586497 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
75586437 TTCAGTATAA
*
75586447 TGGGCCCACATGCCCTTG
1 TGGGCCCACACGCCCTTG
75586465 TGGGCCCACACGCCCTTG
1 TGGGCCCACACGCCCTTG
75586483 TGGGCCCACACGCCC
1 TGGGCCCACACGCCC
75586498 AGATTGGCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.12, C:0.45, G:0.27, T:0.16
Consensus pattern (18 bp):
TGGGCCCACACGCCCTTG
Found at i:75596720 original size:20 final size:21
Alignment explanation
Indices: 75596686--75596725 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
75596676 ACATGACTGA
75596686 TATTGTGATAAATGATTGATC
1 TATTGTGATAAATGATTGATC
*
75596707 TATT-TGATATATGATTGAT
1 TATTGTGATAAATGATTGAT
75596726 TGTATGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (21 bp):
TATTGTGATAAATGATTGATC
Found at i:75603385 original size:20 final size:21
Alignment explanation
Indices: 75603352--75603395 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
75603342 GTTCGAATGT
* *
75603352 TTTCTGTTTCTTTTGC-TTTG
1 TTTCTGTTTATTTTACTTTTG
*
75603372 TTTCTTTTTATTTTACTTTTG
1 TTTCTGTTTATTTTACTTTTG
75603393 TTT
1 TTT
75603396 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.75
Consensus pattern (21 bp):
TTTCTGTTTATTTTACTTTTG
Found at i:75603573 original size:23 final size:22
Alignment explanation
Indices: 75603539--75603590 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
75603529 TAGTTTATTC
75603539 ATTAATATAATAATATAATATCA
1 ATTAATATAATAATA-AATATCA
75603562 ATTAAT-TAAATAATAAATAT-A
1 ATTAATAT-AATAATAAATATCA
*
75603583 ATGAATAT
1 ATTAATAT
75603591 CTATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 7 0.27
23 13 0.50
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTAATATAATAATAAATATCA
Found at i:75605315 original size:33 final size:33
Alignment explanation
Indices: 75605272--75605337 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
75605262 CTATATGTGA
*
75605272 TTACCATGTATCCTTAACGATTCTGAATGGTTC
1 TTACCATGTATCCTTAACGATTCTAAATGGTTC
*
75605305 TTACCGTGTATCCTTAACGATTCTAAATGGTTC
1 TTACCATGTATCCTTAACGATTCTAAATGGTTC
75605338 AATGGGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (33 bp):
TTACCATGTATCCTTAACGATTCTAAATGGTTC
Found at i:75612563 original size:40 final size:40
Alignment explanation
Indices: 75612508--75612586 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
75612498 TTTTAATTTG
75612508 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGGT
1 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGGT
75612548 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGG
1 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGG
75612587 AATATCTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (40 bp):
ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGGT
Found at i:75614246 original size:16 final size:16
Alignment explanation
Indices: 75614207--75614239 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
75614197 TAAGTTTCCA
75614207 AAAGGTTTCAAATGTC
1 AAAGGTTTCAAATGTC
75614223 AAAGGTTTCAAATGTC
1 AAAGGTTTCAAATGTC
75614239 A
1 A
75614240 TCAGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
AAAGGTTTCAAATGTC
Found at i:75614826 original size:2 final size:2
Alignment explanation
Indices: 75614819--75614846 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75614809 AATATCACAA
75614819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75614847 TTCTATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75614934 original size:23 final size:24
Alignment explanation
Indices: 75614908--75614966 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
75614898 TTTATTTCCT
75614908 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
75614931 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
75614955 TTAA-ATAATATT
1 TTAATATAATATT
75614967 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:75616773 original size:21 final size:21
Alignment explanation
Indices: 75616749--75616926 Score: 128
Period size: 21 Copynumber: 8.5 Consensus size: 21
75616739 AGCTTTCACA
*
75616749 AGTTTCTGTTTAACTCATATG
1 AGTTTCTGTTTAACTCTTATG
* *
75616770 AGTTTCTGTTCAGCTC-TATTG
1 AGTTTCTGTTTAACTCTTA-TG
* * *
75616791 AGCTTCTGTTTAACCCTGATG
1 AGTTTCTGTTTAACTCTTATG
* * * *
75616812 GGTTTCTGTTCAGCTCTTACG
1 AGTTTCTGTTTAACTCTTATG
* *
75616833 AGCTTT-TGTTTAGCCCTTATG
1 AG-TTTCTGTTTAACTCTTATG
*
75616854 GGTTTCTG-TTAAGCTCTTATG
1 AGTTTCTGTTTAA-CTCTTATG
* *
75616875 AGTTTCTGTTCAACCCTTATG
1 AGTTTCTGTTTAACTCTTATG
* * * *
75616896 GGTTTCCGTTTAGCTCTCATG
1 AGTTTCTGTTTAACTCTTATG
*
75616917 AGCTTCTGTT
1 AGTTTCTGTT
75616927 CAGCTTTCGA
Statistics
Matches: 118, Mismatches: 33, Indels: 12
0.72 0.20 0.07
Matches are distributed among these distances:
20 8 0.07
21 103 0.87
22 7 0.06
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (21 bp):
AGTTTCTGTTTAACTCTTATG
Found at i:75616817 original size:42 final size:42
Alignment explanation
Indices: 75616752--75616926 Score: 217
Period size: 42 Copynumber: 4.2 Consensus size: 42
75616742 TTTCACAAGT
* * *
75616752 TTCTGTTTAACTCATATGAGTTTCTGTTCAGCTC-TATTGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTA-TGAGC
* *
75616794 TTCTGTTTAACCCTGATGGGTTTCTGTTCAGCTCTTACGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * * *
75616836 TTTTGTTTAGCCCTTATGGGTTTCTGTTAAGCTCTTATGAGT
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * * *
75616878 TTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCTCATGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
75616920 TTCTGTT
1 TTCTGTT
75616927 CAGCTTTCGA
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
42 112 0.98
43 2 0.02
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
Found at i:75618186 original size:75 final size:75
Alignment explanation
Indices: 75618063--75618222 Score: 302
Period size: 75 Copynumber: 2.1 Consensus size: 75
75618053 TTAGGTGACA
*
75618063 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAACAGAATGCTCACACAGCCTAGCACATGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
75618128 GCGTGTGGCT
66 GCGTGTGGCT
*
75618138 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAACAGAATGCTCACATAGCCTAGCACACGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
75618203 GCGTGTGGCT
66 GCGTGTGGCT
75618213 TGGCCGTGTG
1 TGGCCGTGTG
75618223 ACCTAAGTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (75 bp):
TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
GCGTGTGGCT
Found at i:75619813 original size:27 final size:27
Alignment explanation
Indices: 75619782--75619836 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
75619772 AAAGGAAATA
*
75619782 AAGTGACAAAAAATAGAATTTTGAGTT
1 AAGTGAAAAAAAATAGAATTTTGAGTT
75619809 AAGTGAAAAAAAATAGAATTTTGAGTT
1 AAGTGAAAAAAAATAGAATTTTGAGTT
75619836 A
1 A
75619837 TGTCAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.18, T:0.29
Consensus pattern (27 bp):
AAGTGAAAAAAAATAGAATTTTGAGTT
Found at i:75619847 original size:27 final size:27
Alignment explanation
Indices: 75619789--75619847 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
75619779 ATAAAGTGAC
*
75619789 AAAAAATAGAATTTTGAGTTAAGTGAA
1 AAAAAATAGAATTTTGAGTTAAGTCAA
*
75619816 AAAAAATAGAATTTTGAGTTATGTCAA
1 AAAAAATAGAATTTTGAGTTAAGTCAA
*
75619843 CAAAA
1 AAAAA
75619848 TCTGTTTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (27 bp):
AAAAAATAGAATTTTGAGTTAAGTCAA
Found at i:75620345 original size:4 final size:4
Alignment explanation
Indices: 75620336--75620374 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
75620326 ACGTGAGAAG
75620336 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
75620375 GAATTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:75620927 original size:21 final size:20
Alignment explanation
Indices: 75620903--75621100 Score: 81
Period size: 21 Copynumber: 9.4 Consensus size: 20
75620893 TTACTTTTCC
75620903 TTTAGCTTTCATGAGTTTCTG
1 TTTAGCTTT-ATGAGTTTCTG
* * *
75620924 TTTAACTCATACGAGTTTCTG
1 TTTAGCT-TTATGAGTTTCTG
* * **
75620945 TTCAGCTCTATTGACCTTCTG
1 TTTAGCTTTA-TGAGTTTCTG
* * * *
75620966 TTTAACCCTGATGGGTTTCTG
1 TTT-AGCTTTATGAGTTTCTG
* * *
75620987 TTCAGCTCTTACGAGCTTCTG
1 TTTAGCT-TTATGAGTTTCTG
* *
75621008 TTTAGCCCTTATGGGTTTCTG
1 TTTAG-CTTTATGAGTTTCTG
* **
75621029 TTAAGCTCTTATGAACTTCTG
1 TTTAGCT-TTATGAGTTTCTG
* * * *
75621050 TTCAACCCTTATGGGTTTCTG
1 TT-TAGCTTTATGAGTTTCTG
* *
75621071 TTTAGCTCTCATGAGCTTCTG
1 TTTAGCT-TTATGAGTTTCTG
*
75621092 TTCAGCTTT
1 TTTAGCTTT
75621101 CGAGCTTTTG
Statistics
Matches: 122, Mismatches: 47, Indels: 17
0.66 0.25 0.09
Matches are distributed among these distances:
20 8 0.07
21 106 0.87
22 8 0.07
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (20 bp):
TTTAGCTTTATGAGTTTCTG
Found at i:75620984 original size:42 final size:42
Alignment explanation
Indices: 75620913--75621093 Score: 220
Period size: 42 Copynumber: 4.3 Consensus size: 42
75620903 TTTAGCTTTC
* * * * *
75620913 ATGAGTTTCTGTTTAACTCATACGAGTTTCTGTTCAGCTC-T
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTT
* *
75620954 ATTGACCTTCTGTTTAACCCTGATGGGTTTCTGTTCAGCTCTT
1 A-TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTT
* * *
75620997 ACGAGCTTCTGTTTAGCCCTTATGGGTTTCTGTTAAGCTCTT
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTT
* * * *
75621039 ATGAACTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTC
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTT
75621081 ATGAGCTTCTGTT
1 ATGAGCTTCTGTT
75621094 CAGCTTTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 116 0.97
43 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.44
Consensus pattern (42 bp):
ATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTT
Found at i:75621613 original size:27 final size:27
Alignment explanation
Indices: 75621583--75621639 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
75621573 TGTGGCTATG
* *
75621583 GTTGAATGATATGTTTATGATTGCTGT
1 GTTGAATGATATGTCTATGACTGCTGT
* *
75621610 GTTGAATGATCTGTCTATGACTGGTGT
1 GTTGAATGATATGTCTATGACTGCTGT
75621637 GTT
1 GTT
75621640 ATGCATATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.46
Consensus pattern (27 bp):
GTTGAATGATATGTCTATGACTGCTGT
Found at i:75622626 original size:18 final size:18
Alignment explanation
Indices: 75622605--75622640 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
75622595 GCTATATGAT
75622605 ATGAAATGACTATTATTC
1 ATGAAATGACTATTATTC
75622623 ATGAAATGACTATTATTC
1 ATGAAATGACTATTATTC
75622641 GATCTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
ATGAAATGACTATTATTC
Found at i:75623056 original size:21 final size:22
Alignment explanation
Indices: 75623011--75623065 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
75623001 TGCAGAGCTC
*
75623011 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
75623033 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
75623054 ACACGCCCGTGT
1 ACACGCCCGTGT
75623066 TGGAGGCCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.16, C:0.36, G:0.33, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:75624395 original size:47 final size:49
Alignment explanation
Indices: 75624326--75624502 Score: 215
Period size: 47 Copynumber: 3.7 Consensus size: 49
75624316 ATTTGTGTGT
75624326 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATTAT-GAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATCGAGAGC
* * * *
75624373 CAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATT-TCGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATCGAGAGC
*
75624422 CAGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATCGA-GAGC
* *
75624469 TAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
75624503 ATTATACCCT
Statistics
Matches: 111, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
44 2 0.02
46 4 0.04
47 56 0.50
48 12 0.11
49 37 0.33
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATCGAGAGC
Found at i:75624490 original size:96 final size:95
Alignment explanation
Indices: 75624324--75624502 Score: 265
Period size: 96 Copynumber: 1.9 Consensus size: 95
75624314 TTATTTGTGT
75624324 GTCAGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGCATCGG-CACATTATGAGAGCCAGTGTAAGACCATGT
*
75624389 CTGGGACATGGCGTCGGCCTCGATTTCGATA
65 CTGGGACATGGCATCGGCCTCGATTTCGATA
*
75624420 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGATGGATGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACATT-AT-GA-GAGCCAGTGTAAGACCA
*
75624482 TGTTTGGGACATGGCATCGGC
62 TGTCTGGGACATGGCATCGGC
75624503 ATTATACCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
93 2 0.03
94 4 0.05
95 2 0.03
96 63 0.83
97 5 0.07
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (95 bp):
GTCAGTGTAAGACCATGTCTGGGACATGCATCGGCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCCTCGATTTCGATA
Found at i:75631015 original size:29 final size:29
Alignment explanation
Indices: 75630981--75631054 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
75630971 TAATCAGCCG
*
75630981 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
75631010 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
75631039 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
75631055 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:75641237 original size:21 final size:22
Alignment explanation
Indices: 75641208--75641248 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
75641198 GAGCACGTTC
*
75641208 AACATTTGCGAGAGGTGTTAGA
1 AACATTTGCGAGAGGAGTTAGA
*
75641230 AACA-TTGCGATAGGAGTTA
1 AACATTTGCGAGAGGAGTTA
75641249 CTCTATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (22 bp):
AACATTTGCGAGAGGAGTTAGA
Found at i:75647244 original size:31 final size:31
Alignment explanation
Indices: 75647208--75647269 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
75647198 AAATTTTACA
75647208 GCACATGTATTCATAAAATTTCAGAATTTTT
1 GCACATGTATTCATAAAATTTCAGAATTTTT
75647239 GCACATGTATTCATAAAATTTCAGAATTTTT
1 GCACATGTATTCATAAAATTTCAGAATTTTT
75647270 CATCAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (31 bp):
GCACATGTATTCATAAAATTTCAGAATTTTT
Found at i:75653344 original size:16 final size:16
Alignment explanation
Indices: 75653325--75653355 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75653315 ATTAGATAGA
*
75653325 AAAAATTATTTAATTG
1 AAAAATTAATTAATTG
75653341 AAAAATTAATTAATT
1 AAAAATTAATTAATT
75653356 TACATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTAATTAATTG
Found at i:75654179 original size:19 final size:19
Alignment explanation
Indices: 75654155--75654193 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
75654145 TATTTTGTTG
75654155 TTATTGTTTGGATATTGTA
1 TTATTGTTTGGATATTGTA
*
75654174 TTATTGTTTGTATATTGTA
1 TTATTGTTTGGATATTGTA
75654193 T
1 T
75654194 AACTCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.62
Consensus pattern (19 bp):
TTATTGTTTGGATATTGTA
Found at i:75657242 original size:27 final size:27
Alignment explanation
Indices: 75657212--75657352 Score: 169
Period size: 27 Copynumber: 5.2 Consensus size: 27
75657202 CAAAAAGTTT
* *
75657212 TTCTTTCAAAGTTCGCTGCAAAGGTTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
* *
75657239 TTCTTTTAGAGTTCG-TGACAAAGGCTA
1 TTCTTTCAGAGTTCGCT-ACAAAGGTTA
* * *
75657266 TTCTTTCAGAGTTCGCCATAGAGGTTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
75657293 TTCTTTCAGAGCTT-GCTACAAAGGTTA
1 TTCTTTCAGAG-TTCGCTACAAAGGTTA
* *
75657320 TTCTTTCAGAGTTCGCCACAAAGGCTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
75657347 TTCTTT
1 TTCTTT
75657353 GTTTTCATTT
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.03
27 91 0.95
28 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
TTCTTTCAGAGTTCGCTACAAAGGTTA
Found at i:75662062 original size:21 final size:22
Alignment explanation
Indices: 75662036--75662076 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
75662026 CACTTGACAC
*
75662036 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCCTGTGGG
75662057 AGGGGCAACACGCCCCTGTG
1 AGGGGCAACACGCCCCTGTG
75662077 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.32, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCCTGTGGG
Found at i:75663084 original size:47 final size:49
Alignment explanation
Indices: 75663014--75663141 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 49
75663004 AGGTATGATA
* *
75663014 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCCAATATC-TCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACCAATATCATCAAGG
* * * *
75663061 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGTCATCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACCAATATCATCAAGG
* *
75663110 CCGACGCCATGTCCCAGACATGTTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
75663142 AGCTCTCGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
47 36 0.51
48 4 0.06
49 30 0.43
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACCAATATCATCAAGG
Found at i:75663137 original size:49 final size:47
Alignment explanation
Indices: 75663014--75663231 Score: 167
Period size: 47 Copynumber: 4.6 Consensus size: 47
75663004 AGGTATGATA
* *
75663014 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCCAATATCTCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACCAATATCTCAAG
* * * *
75663061 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGTCATCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACCAATATC-TCAA-G
* * * * **
75663110 CCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCGCATATC-CGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-C-AATATCTCAAG
* ** * *
75663160 CCAATTTCATGTCCCAGACATGGTCTTACACT-AAC-ACATCTCATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACCAATATCTCA-AG
* *
75663206 CTGATG-CATGTCCCTGACAT-GTCTTA
1 CCGATGCCATGTCCCAGACATGGTCTTA
75663232 TACTAGCTTA
Statistics
Matches: 133, Mismatches: 30, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
44 10 0.08
45 14 0.11
46 5 0.04
47 36 0.27
48 4 0.03
49 30 0.23
50 29 0.22
51 2 0.02
53 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACCAATATCTCAAG
Found at i:75663301 original size:46 final size:47
Alignment explanation
Indices: 75663068--75663336 Score: 185
Period size: 46 Copynumber: 5.7 Consensus size: 47
75663058 AAGTCGATGC
* * * *
75663068 CATGTCCCAGACATGGTCTTACACT-GACTATTGTCATCAAGGCCGACG
1 CATGTCCCAGACATGGTCTTACACTAG-CTCTCGTC-TCAATGCCAACG
* * ** **
75663116 CCATGTCCCAGACATGTTCTTACACTAGCTCTCGCATATCCGTGCCAATTT
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCG--TCTCAATGCCAA-CG
* * * ** *
75663167 CATGTCCCAGACATGGTCTTACACTA--ACACATCTC-ATAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT-GCCAACG
* * * *
75663212 CATGTCCCTGACAT-GTCTTATACTAGCT-TACCT-TACAACGCCAACG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-CGTCT-CAATGCCAACG
*
75663258 CATGTCCCAGACA-CGTCTTACACTAGCTCTCGTCTCAATGCCAACGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCAAC-G
* *
75663305 CATGTTCCAGACATGGTCTTACACTGGCTCTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCTC
75663337 ATAATTTGGT
Statistics
Matches: 170, Mismatches: 35, Indels: 31
0.72 0.15 0.13
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 49 0.29
47 16 0.09
48 18 0.11
49 28 0.16
50 32 0.19
51 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCAACG
Found at i:75666251 original size:2 final size:2
Alignment explanation
Indices: 75666244--75666278 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
75666234 TTCAATCCAA
75666244 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
75666279 TTTCTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:75666307 original size:9 final size:8
Alignment explanation
Indices: 75666278--75666319 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 8
75666268 TCTCTCTCTC
75666278 TTTTCTCTT
1 TTTTCT-TT
75666287 TTTTCTTT
1 TTTTCTTT
75666295 TTTTCCTTT
1 TTTT-CTTT
75666304 TTTT-TTT
1 TTTTCTTT
75666311 TTTT-TTT
1 TTTTCTTT
75666318 TT
1 TT
75666320 GCATTGATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 12 0.38
8 6 0.19
9 14 0.44
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:75666314 original size:16 final size:17
Alignment explanation
Indices: 75666278--75666313 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
75666268 TCTCTCTCTC
75666278 TTTTCTCTTTTTTCTTT
1 TTTTCTCTTTTTTCTTT
75666295 TTTTC-CTTTTTT-TTT
1 TTTTCTCTTTTTTCTTT
75666310 TTTT
1 TTTT
75666314 TTTTTTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTCTCTTTTTTCTTT
Found at i:75666639 original size:3 final size:3
Alignment explanation
Indices: 75666631--75666678 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
75666621 AATTAATCTC
75666631 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
75666679 TTGGATTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:75675213 original size:21 final size:20
Alignment explanation
Indices: 75675188--75675232 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
75675178 TAACTCAAGG
75675188 GAAACAATATTAAAATCGAGT
1 GAAACAAT-TTAAAATCGAGT
* * *
75675209 GAAACAGTTTTAAATCGATT
1 GAAACAATTTAAAATCGAGT
75675229 GAAA
1 GAAA
75675233 ACTTTTAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (20 bp):
GAAACAATTTAAAATCGAGT
Found at i:75680966 original size:16 final size:16
Alignment explanation
Indices: 75680935--75680979 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
75680925 GAATTATTTT
75680935 TTAATAATAAATTATA
1 TTAATAATAAATTATA
75680951 TTAATTAATAAA-TATA
1 TTAA-TAATAAATTATA
*
75680967 ATAA-AA-AAATTAT
1 TTAATAATAAATTAT
75680980 TATCCATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.12
14 5 0.19
16 11 0.42
17 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAATAATAAATTATA
Found at i:75681838 original size:52 final size:50
Alignment explanation
Indices: 75681744--75681846 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 50
75681734 ACAAATTTAG
* * *
75681744 CTCTCAACTTTTACATATATATCAATTTACTCATAATTTTAAAAAAATTAA
1 CTCTCAAATTTTACAAATATATCAATTTACTCA-AATCTTAAAAAAATTAA
*
75681795 CTCTCAAATTTTACAAATATTTCTAATTTGATCTC-AATCTTAAAAAAATTAA
1 CTCTCAAATTTTACAAATATATC-AATTT-A-CTCAAATCTTAAAAAAATTAA
75681847 AAAATATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 20 0.44
52 21 0.47
53 1 0.02
54 3 0.07
ACGTcount: A:0.43, C:0.16, G:0.01, T:0.41
Consensus pattern (50 bp):
CTCTCAAATTTTACAAATATATCAATTTACTCAAATCTTAAAAAAATTAA
Found at i:75690287 original size:28 final size:28
Alignment explanation
Indices: 75690252--75690330 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
75690242 GACATCAAAT
75690252 ATGACACTTAGTGTGTGAAATATTGAGA
1 ATGACACTTAGTGTGTGAAATATTGAGA
* * *
75690280 ATGGCACTTAGTGTATGAGATATTGAGA
1 ATGACACTTAGTGTGTGAAATATTGAGA
* *
75690308 ATGACATTTAGCGTGTGAAATAT
1 ATGACACTTAGTGTGTGAAATAT
75690331 CGAATAATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (28 bp):
ATGACACTTAGTGTGTGAAATATTGAGA
Found at i:75695542 original size:28 final size:28
Alignment explanation
Indices: 75695511--75695589 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
75695501 GACATCAAAT
75695511 ATGGAACTTAGTGTGCGAAATATTGAGA
1 ATGGAACTTAGTGTGCGAAATATTGAGA
*
75695539 ATGGCACTTAGTGTGC-AAGATATTGAGA
1 ATGGAACTTAGTGTGCGAA-ATATTGAGA
*
75695567 AT-GACACTTAGTGTACGAAATAT
1 ATGGA-ACTTAGTGTGCGAAATAT
75695590 CGAATGATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.07
28 40 0.89
29 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGAACTTAGTGTGCGAAATATTGAGA
Found at i:75695840 original size:17 final size:17
Alignment explanation
Indices: 75695815--75695853 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
75695805 AGATATGAAT
*
75695815 AATAGTTGTTTAAACTA
1 AATATTTGTTTAAACTA
75695832 AATATTTGTTTAAACTA
1 AATATTTGTTTAAACTA
75695849 AATAT
1 AATAT
75695854 ACATATGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (17 bp):
AATATTTGTTTAAACTA
Found at i:75696033 original size:33 final size:33
Alignment explanation
Indices: 75695996--75696075 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
75695986 ATAAGCATTT
75695996 ATAAACCAAAGAGG-TTTGATAAGAGTATGAGTG
1 ATAAA-CAAAGAGGTTTTGATAAGAGTATGAGTG
* *
75696029 ATAAATATAGAGGTTTTGATAAGAGTATGAGTG
1 ATAAACAAAGAGGTTTTGATAAGAGTATGAGTG
* *
75696062 ATAAATATAGAGGT
1 ATAAACAAAGAGGT
75696076 ATCAATACAG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 6 0.14
33 38 0.86
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (33 bp):
ATAAACAAAGAGGTTTTGATAAGAGTATGAGTG
Found at i:75696090 original size:33 final size:33
Alignment explanation
Indices: 75696014--75696090 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
75696004 AAGAGGTTTG
* **
75696014 ATAAGAGTATGAGTGATAAATATAGAGGTTTTG
1 ATAAGAGTATGAGTGATAAATATAGAGGTATCA
75696047 ATAAGAGTATGAGTGATAAATATAGAGGTATCA
1 ATAAGAGTATGAGTGATAAATATAGAGGTATCA
75696080 ATACAG-GTATG
1 ATA-AGAGTATG
75696091 TACGGAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 38 0.95
34 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.30
Consensus pattern (33 bp):
ATAAGAGTATGAGTGATAAATATAGAGGTATCA
Found at i:75698228 original size:28 final size:28
Alignment explanation
Indices: 75698159--75698259 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
75698149 GACAAGATTG
* * * *
75698159 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
75698189 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
75698217 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
*
75698246 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
75698260 GATTCACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 19 0.30
30 18 0.29
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:75701764 original size:48 final size:48
Alignment explanation
Indices: 75701706--75702871 Score: 1927
Period size: 48 Copynumber: 24.3 Consensus size: 48
75701696 ATATACACAC
* *
75701706 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75701754 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75701802 ATCTCATACATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75701850 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75701898 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75701946 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75701994 ATCTCATACATATTTCATATTAGCCATCCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702042 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
75702090 ATCTCATATACATTTCAAATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702138 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702186 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702234 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702282 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702330 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
75702378 ATCTCATATACATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
75702426 ATCTCATACATATTTCATATTAGCCATTTGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75702474 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75702522 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75702570 ATTTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
75702618 ATCTCATACATATTTCATACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
75702666 ATCTCAAAGACATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702714 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75702762 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75702810 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
75702858 ATCTCATACATATT
1 ATCTCATACATATT
75702872 ATATCTCATA
Statistics
Matches: 1040, Mismatches: 78, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 1040 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:75702877 original size:16 final size:16
Alignment explanation
Indices: 75702856--75702887 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
75702846 CCACATATAC
75702856 ATATCTCATACATATT
1 ATATCTCATACATATT
75702872 ATATCTCATACATATT
1 ATATCTCATACATATT
75702888 TCATATTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATCTCATACATATT
Found at i:75702882 original size:64 final size:64
Alignment explanation
Indices: 75702800--75702935 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
75702790 CGGCTTTACC
75702800 ACATATATATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
1 ACATAT-TATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
* *
75702865 ACATATTATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCAT
1 ACATATTATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
75702929 ACATATT
1 ACATATT
75702936 TCACACTAGC
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 63 0.91
65 6 0.09
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (64 bp):
ACATATTATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
Found at i:75702902 original size:112 final size:112
Alignment explanation
Indices: 75702760--75702971 Score: 370
Period size: 112 Copynumber: 1.9 Consensus size: 112
75702750 CCACATATAC
*
75702760 ATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTT
1 ATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
*
75702825 CACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
66 CACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATT
* *
75702872 ATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
* *
75702937 CACACTAGCCGTTCGGCTTTACCACACATATATAT
66 CACACTAGCCATTCGGCTTTACCACACATACATAT
75702972 ATTTATCTTG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 94 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (112 bp):
ATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
CACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATT
Found at i:75702935 original size:48 final size:48
Alignment explanation
Indices: 75702872--75702971 Score: 155
Period size: 48 Copynumber: 2.1 Consensus size: 48
75702862 CATACATATT
* * *
75702872 ATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATAC
1 ATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATAC
* *
75702920 ATATCTCATACATATTTCACACTAGCCGTTCGGCTTTACCACACATAT
1 ATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATAC
75702968 ATAT
1 ATAT
75702972 ATTTATCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATAC
Done.