Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 140 of 356
Found at i:45068320 original size:25 final size:25
Alignment explanation
Indices: 45068292--45068361 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
45068282 CTCTTTTAAT
*
45068292 AACTGGGGTAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
45068317 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
45068342 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
45068362 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:45068461 original size:11 final size:11
Alignment explanation
Indices: 45068409--45068477 Score: 58
Period size: 11 Copynumber: 6.7 Consensus size: 11
45068399 TATATGAATT
45068409 TATCATGTGCA
1 TATCATGTGCA
* *
45068420 TA-CA-ATACA
1 TATCATGTGCA
45068429 TATCATGTGCA
1 TATCATGTGCA
* *
45068440 TAT--TATACA
1 TATCATGTGCA
45068449 TATCATGTGCA
1 TATCATGTGCA
45068460 TATCATGT-CA
1 TATCATGTGCA
*
45068470 AATCATGT
1 TATCATGT
45068478 ATATCAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
9 12 0.27
10 13 0.29
11 20 0.44
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:45068462 original size:20 final size:20
Alignment explanation
Indices: 45068409--45068462 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
45068399 TATATGAATT
*
45068409 TATCATGTGCATACAATACA
1 TATCATGTGCATATAATACA
*
45068429 TATCATGTGCATATTATACA
1 TATCATGTGCATATAATACA
45068449 TATCATGTGCATAT
1 TATCATGTGCATAT
45068463 CATGTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (20 bp):
TATCATGTGCATATAATACA
Found at i:45096987 original size:42 final size:42
Alignment explanation
Indices: 45096935--45097090 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
45096925 TGACGAGAAC
* * *
45096935 TCGTATAAGACCATATCTGGGATATGGCATTGATATGAGATT
1 TCGTATAAGACCACATCTGGGACATGGCATCGATATGAGATT
* * * * *
45096977 TCGTGTAAGACCACGTTTGGGACATGGCATCGAAATGAGACT
1 TCGTATAAGACCACATCTGGGACATGGCATCGATATGAGATT
* * * * *
45097019 TCGTATAAGACC-CTATCTGAGATATGGCATCAATGTGAGATC
1 TCGTATAAGACCAC-ATCTGGGACATGGCATCGATATGAGATT
* * * *
45097061 CCATGTAAGACCACGTCTGGGACATGGCAT
1 TCGTATAAGACCACATCTGGGACATGGCAT
45097091 TGGCATCTTA
Statistics
Matches: 88, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
41 1 0.01
42 86 0.98
43 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (42 bp):
TCGTATAAGACCACATCTGGGACATGGCATCGATATGAGATT
Found at i:45097076 original size:84 final size:84
Alignment explanation
Indices: 45096935--45097090 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 84
45096925 TGACGAGAAC
* ** ** * *
45096935 TCGTATAAGACCATATCTGGGATATGGCATTGATATGAGATTTCGTGTAAGACCACGTTTGGGAC
1 TCGTATAAGACCATATCTGAGATATGGCATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
45097000 ATGGCATCGAAATGAGACT
66 ATGGCATCGAAATGAGACT
* *
45097019 TCGTATAAGACCCTATCTGAGATATGGCATCAATGTGAGATCCCATGTAAGACCACGTCTGGGAC
1 TCGTATAAGACCATATCTGAGATATGGCATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
45097084 ATGGCAT
66 ATGGCAT
45097091 TGGCATCTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (84 bp):
TCGTATAAGACCATATCTGAGATATGGCATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
ATGGCATCGAAATGAGACT
Found at i:45099253 original size:27 final size:27
Alignment explanation
Indices: 45099223--45099400 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
45099213 ATATTGAGTC
* * * *
45099223 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
45099250 CGCACACCTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45099277 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45099305 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45099332 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45099359 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45099386 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45099401 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45107397 original size:27 final size:27
Alignment explanation
Indices: 45107367--45107544 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45107357 ATATTGAGTC
* * * *
45107367 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45107394 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45107421 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45107449 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45107476 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45107503 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45107530 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45107545 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45107506 original size:82 final size:81
Alignment explanation
Indices: 45107388--45107543 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45107378 TGCTATATAA
* *
45107388 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45107453 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45107470 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45107534 CACTTAGTGC
65 CACTTAGTGC
45107544 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45124928 original size:32 final size:33
Alignment explanation
Indices: 45124891--45124983 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
45124881 AGGCCCATAT
45124891 TGTTACTGCATAGGGCTTAGG-CCAGACTGTAC
1 TGTTACTGCATAGGGCTTAGGCCCAGACTGTAC
* *
45124923 TGTTACTGCATAGGGCTTAGGCCCAAACTGTGC
1 TGTTACTGCATAGGGCTTAGGCCCAGACTGTAC
* ** *
45124956 TGTTATTAAATAGGGCTCAGGCCCAGAC
1 TGTTACTGCATAGGGCTTAGGCCCAGAC
45124984 CCTTACTGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 21 0.40
33 32 0.60
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (33 bp):
TGTTACTGCATAGGGCTTAGGCCCAGACTGTAC
Found at i:45124953 original size:28 final size:28
Alignment explanation
Indices: 45124880--45124953 Score: 78
Period size: 32 Copynumber: 2.5 Consensus size: 28
45124870 TATATTGTGA
* *
45124880 TAGGCCCATATTGTTACTGCATAGGGCT
1 TAGGCCCAAACTGTTACTGCATAGGGCT
45124908 TAGG-CCAGACTGTACTGTTACTGCATAGGGCT
1 TAGGCCCA-A----ACTGTTACTGCATAGGGCT
45124940 TAGGCCCAAACTGT
1 TAGGCCCAAACTGT
45124954 GCTGTTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
27 3 0.08
28 9 0.24
32 23 0.61
33 3 0.08
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (28 bp):
TAGGCCCAAACTGTTACTGCATAGGGCT
Found at i:45129158 original size:47 final size:45
Alignment explanation
Indices: 45128975--45129174 Score: 170
Period size: 46 Copynumber: 4.3 Consensus size: 45
45128965 CATTTCTGAG
* * **
45128975 AGCTAGTGTAAGACCATGTCTGGGACGAGGCATCGACATTGAGACGGG
1 AGCTAGTGTAAGA-CATGTCTGGGAC-ATGCATCGAC-TCGAGACGTA
* * *
45129023 TGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGACGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGACGTA
* * * *
45129069 AGCTAGTGTAAGACATGTCTGGGACATGCGTTGGCTACGAGATG-A
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGACGTA
* * **
45129114 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATATA
1 -AGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGACGTA
45129162 AGCTAGTGTAAGA
1 AGCTAGTGTAAGA
45129175 TCGTGTCTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
45 5 0.04
46 57 0.45
47 44 0.35
48 20 0.16
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGACGTA
Found at i:45129919 original size:12 final size:12
Alignment explanation
Indices: 45129898--45129931 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45129888 CTAATTTTGT
45129898 ACACACGGGTAA
1 ACACACGGGTAA
* *
45129910 ACACATGGGTAG
1 ACACACGGGTAA
45129922 ACACACGGGT
1 ACACACGGGT
45129932 GTATGTCTAG
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:0.35, C:0.24, G:0.29, T:0.12
Consensus pattern (12 bp):
ACACACGGGTAA
Found at i:45130213 original size:28 final size:28
Alignment explanation
Indices: 45130173--45130230 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
45130163 CACACGGGCT
45130173 AGGACACGGGC-GTGCCATGGCCGTGTGA
1 AGGACACGGGCGGTGCCA-GGCCGTGTGA
*
45130201 AGGACATGGGCGTGTGCCAGGCCGTGTGA
1 AGGACACGGGCG-GTGCCAGGCCGTGTGA
45130230 A
1 A
45130231 AACCCCTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.37
29 11 0.41
30 6 0.22
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (28 bp):
AGGACACGGGCGGTGCCAGGCCGTGTGA
Found at i:45137768 original size:47 final size:47
Alignment explanation
Indices: 45137635--45137797 Score: 140
Period size: 46 Copynumber: 3.5 Consensus size: 47
45137625 TGAGACGAGT
* * * **
45137635 GCTAGTGTAAGA-CATGTTTAGGACATGCATCAGCCT-TGAGACGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GACTATGAGATATAA
* * *
45137681 GCCAATGTAAGA-CATGTCTGGGACATGCATCGGCTATGAGATGAT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACTATGAGAT-ATAA
* *
45137727 G-TCAGTGTAAGACCATGTCTGGGACATGGCTTTGACT-TGAGATATAA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGACTATGAGATATAA
**
45137774 GCTAGTGTAAGACTTTGTCTGGGA
1 GCTAGTGTAAGACCATGTCTGGGA
45137798 TAAGGCATCG
Statistics
Matches: 96, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
45 3 0.03
46 44 0.46
47 42 0.44
48 7 0.07
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACTATGAGATATAA
Found at i:45144794 original size:150 final size:149
Alignment explanation
Indices: 45144561--45145098 Score: 720
Period size: 150 Copynumber: 3.6 Consensus size: 149
45144551 GAAGCTATTT
* * *
45144561 GGTACGCTTAGTAGCCTGCACTTAGAACTACACATGTGATCAACAATCCGATACACATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCGATACACATAGTAGCC
45144626 TGCACTTAGTACTACACACGTGACCTAACCATCTGATTCACGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATTCACGTAGTAGCCTGCACTTAGTACTAC
45144691 ACACGTGATTGAAGTTGTCG
131 ACACGTGATT-AAGTTGTCG
* * * * * * **
45144711 GGTACGCATAGTAGCTTGCACTTAGTATTACACATGTAACCAAACTATCTGGTACAGGTAGTAG-
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCCGATACACATAGTAGC
* * *
45144775 TTGCACTTAGTACTACACACGTGAACTAACCATCTGATTTACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATTCACGTAGTAGCCTGCACTTAGTACTA
45144840 CACACGTGATTCAAGTTGTCG
130 CACACGTGATT-AAGTTGTCG
* *
45144861 GTTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCGATACACATAGTAGCC
* * *
45144926 TGCACTTAGAACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATTCACGTAGTAGCCTGCACTTAGTACTAC
*** * * * *
45144991 ACATACGACCTAA-CTATCT
131 ACACGTGA-TTAAGTTGTCG
*** * * * *
45145010 GGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCCGATACACATAGTAGC
45145075 CTGCACTTAGTACTACACACGTGA
65 CTGCACTTAGTACTACACACGTGA
45145099 TTGAAGTTGT
Statistics
Matches: 335, Mismatches: 49, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
149 55 0.16
150 262 0.78
151 18 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCCGATACACATAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATTCACGTAGTAGCCTGCACTTAGTACTAC
ACACGTGATTAAGTTGTCG
Found at i:45145175 original size:300 final size:299
Alignment explanation
Indices: 45144555--45145196 Score: 785
Period size: 300 Copynumber: 2.1 Consensus size: 299
45144545 GTAACCGAAG
* * * * *
45144555 CTATTTGGTACGCTTAGTAGCCTGCACTTAGAACTACACATGTGATCAACAATCCGATACACATA
1 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACATA
* *
45144620 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATTCACGTAGTAGCCTGCACTTAG
66 GTAGCCTGCACTTAGAACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAG
** * * * * * * *
45144685 TACTACACACGTGATTGAAGTTGTCGGGTACGCATAGTAGCTTGCACTTAGTATTACACATGTAA
131 TACTACACACACGACTGAAGCTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAA
* * * * **
45144750 CCAAACTATCTGGTACAGGTAGTAGTTGCACTTAGTACTACACACGTGAACTAACCATCTGATTT
196 CCAAACCATCTGATACACGTAGTAGCTGCACTTAGTACTACACACGTGAACTAACCATCTGAGGT
* *
45144815 ACGTAGTAGCCTGCACTTAGTACTACACACGTGATTCAA
261 ACGTAGTAGCCTACACTTAGTACTACACACGTGACTCAA
* *
45144854 GT-TGTCGGTTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACA
1 CTATCT-GG-TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACA
*
45144918 TAGTAGCCTGCACTTAGAACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
64 TAGTAGCCTGCACTTAGAACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * **
45144983 AGTACTACACATACGACCT-AA-CTATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACG
129 AGTACTACACACACGA-CTGAAGCTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACG
* * * ** *
45145046 TGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATTGAA-GTTGT
193 TAACCAAACCATCTGATACACGTAGTAG-CTGCACTTAGTACTACACACGTGAACT-AACCATCT
*
45145109 CG-GGTACGCATAGTAGCCTACACTTAGTACTACACATGTGAC-CTAA
256 -GAGGTACG--TAGTAGCCTACACTTAGTACTACACACGTGACTC-AA
* * *
45145155 CTATCTGGTACACGTAGTAGCCTGCACTTATTACTACACATG
1 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATG
45145197 TGTTCTCACA
Statistics
Matches: 291, Mismatches: 42, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
298 2 0.01
299 67 0.23
300 185 0.64
301 35 0.12
302 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (299 bp):
CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACATA
GTAGCCTGCACTTAGAACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAG
TACTACACACACGACTGAAGCTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACACGTAA
CCAAACCATCTGATACACGTAGTAGCTGCACTTAGTACTACACACGTGAACTAACCATCTGAGGT
ACGTAGTAGCCTACACTTAGTACTACACACGTGACTCAA
Found at i:45145195 original size:50 final size:50
Alignment explanation
Indices: 45144555--45145198 Score: 627
Period size: 50 Copynumber: 12.9 Consensus size: 50
45144545 GTAACCGAAG
* * * * *
45144555 CTATTTGGTACGCTTAGTAGCCTGCACTTAGAACTACACATGTGATC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * *
45144604 CAATCCGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * *
45144654 CCATCTGATTCACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * * * * *
45144704 GTTGTCGGGTACGCATAGTAGCTTGCACTTAGTATTACACATGTAACCAAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * *
45144755 CTATCTGGTACAGGTAGTAG-TTGCACTTAGTACTACACACGTGAACTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * ** * *
45144804 CCATCTGATTTACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * *
45144854 GT-TGTCGGTTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCT-GG-TACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * *
45144904 CAATCCGATACACATAGTAGCCTGCACTTAGAACTACACATGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * **
45144954 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATACGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
45145004 CTATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * *
45145054 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * *
45145104 GTTGTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
*
45145155 CTATCTGGTACACGTAGTAGCCTGCACTTATTACTACACATGTG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTG
45145199 TTCTCACAAT
Statistics
Matches: 483, Mismatches: 98, Indels: 27
0.79 0.16 0.04
Matches are distributed among these distances:
49 118 0.24
50 259 0.54
51 105 0.22
52 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:45149740 original size:12 final size:13
Alignment explanation
Indices: 45149713--45149752 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
45149703 GTTTTTGTTG
45149713 TTATTTCTTCTTT
1 TTATTTCTTCTTT
45149726 TTATTTCTT-TTT
1 TTATTTCTTCTTT
45149738 TTATTTCTTCTTT
1 TTATTTCTTCTTT
45149751 TT
1 TT
45149753 TTGCGGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTCTTCTTT
Found at i:45152151 original size:24 final size:23
Alignment explanation
Indices: 45152107--45152162 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
45152097 TTTTGCTTTC
* *
45152107 TTATTTAATTAACTTTGTATTCT
1 TTATTTTATTAACTTTGTATTAT
*
45152130 TTATTTTATTAACTTTTTTATTAT
1 TTATTTTATTAAC-TTTGTATTAT
*
45152154 TGATTTTAT
1 TTATTTTAT
45152163 CTTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (23 bp):
TTATTTTATTAACTTTGTATTAT
Found at i:45159399 original size:49 final size:50
Alignment explanation
Indices: 45159218--45159412 Score: 178
Period size: 50 Copynumber: 3.9 Consensus size: 50
45159208 GCTACTACGT
* * * * *** *
45159218 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACTC-GACAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGA-TGGTTA
* * * *
45159269 GATCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTATCAGATGGTTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTA
* * * *
45159319 GGTCACATGTGTAGTAATAAGTGTAGGCTACTACGTGTACCGGATTGTT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTA
* * * *
45159368 GGTCGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
45159413 AGCTTTGGTT
Statistics
Matches: 116, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 38 0.33
50 44 0.38
51 34 0.29
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTA
Found at i:45165455 original size:40 final size:40
Alignment explanation
Indices: 45165393--45165469 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
45165383 ACGGTACCAT
* *
45165393 TTGGTATGTAGGGTTGGATGGGTTGATTTTATCCCCATAC
1 TTGGTATGTAGGGCTGGATGGGTCGATTTTATCCCCATAC
* *
45165433 TTGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCCCA
1 TTGGTATGTAGGGCTGGATGGGTCGATTTTATCCCCA
45165470 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (40 bp):
TTGGTATGTAGGGCTGGATGGGTCGATTTTATCCCCATAC
Found at i:45167580 original size:16 final size:15
Alignment explanation
Indices: 45167559--45167588 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45167549 GAATGGAGTA
45167559 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
45167575 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
45167589 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:45172520 original size:28 final size:28
Alignment explanation
Indices: 45172487--45172554 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
45172477 ACGGCTGAGC
* *
45172487 ACACGCCCGTGTCCCTCGCACGGCCTAG
1 ACACGCCCGTGTCCCTCACACAGCCTAG
**
45172515 ACACGCTTGTGTCCCTCACACAGCCTAG
1 ACACGCCCGTGTCCCTCACACAGCCTAG
45172543 ACACGCCCGTGT
1 ACACGCCCGTGT
45172555 GATCGCCCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (28 bp):
ACACGCCCGTGTCCCTCACACAGCCTAG
Found at i:45199192 original size:40 final size:40
Alignment explanation
Indices: 45199109--45199292 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
45199099 TTGAATGCTG
* * * * * *
45199109 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
45199149 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
45199189 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
45199229 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
45199269 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45199293 TGAACGAGGA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 115 0.93
41 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:45199246 original size:80 final size:81
Alignment explanation
Indices: 45199109--45199292 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
45199099 TTGAATGCTG
* * *
45199109 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
*
45199173 TGTGCGAGATACTAAA
66 CGTGCGAGATACTAAA
* * * * **
45199189 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* *
45199252 TCGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAA
* *
45199269 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
45199293 TGAACGAGGA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 80 0.92
81 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAA
Found at i:45209633 original size:20 final size:21
Alignment explanation
Indices: 45209583--45209634 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
45209573 ATTTTAAAAT
*
45209583 AAATAATATATAAGTCAATTTA
1 AAATGATATATAAG-CAATTTA
45209605 AAATGATATATAA-CAAGTTTA
1 AAATGATATATAAGCAA-TTTA
*
45209626 AGAT-ATATA
1 AAATGATATA
45209635 ATATGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 7 0.26
22 12 0.44
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATGATATATAAGCAATTTA
Found at i:45218082 original size:13 final size:13
Alignment explanation
Indices: 45218064--45218088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45218054 CCTGACACAC
45218064 GCCCATGTCTATG
1 GCCCATGTCTATG
45218077 GCCCATGTCTAT
1 GCCCATGTCTAT
45218089 AAACCTTGAC
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:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (13 bp):
GCCCATGTCTATG
Found at i:45219127 original size:47 final size:47
Alignment explanation
Indices: 45219058--45219417 Score: 192
Period size: 46 Copynumber: 7.6 Consensus size: 47
45219048 GTATAATGTT
*
45219058 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ATCGAAGCC
* *
45219105 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC---ATCGAAGCC
* * * * * *
45219154 GACGCCATGTCCCAAACATGATCTTATACTAGCTC-TCACATATCCG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--C--AT-CGAAGCC
* * * * * *
45219204 GATGTCATGTCTCAGACATGGTGTTACACTGACACATC-TCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCGAAGCC
* * * * **
45219250 GATG-GATGTCTCGGACAT-GTCTTACACTGGCTTACATC-TCGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATCGAAGCC
* * *
45219296 GATG-CATGTCCCAAACAT-GTCTTACACTAGCT-TTCGACTC-AATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-A-TCGAA-GCC
* * * * **
45219342 GATGCCATGTCCCAGACACGATCTTACACTGGCTTAT-ATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT--CGAAGCC
*
45219390 GATG-CATGTCCTAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
45219418 ATCACACAAA
Statistics
Matches: 240, Mismatches: 52, Indels: 43
0.72 0.16 0.13
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 16 0.07
46 62 0.26
47 58 0.24
48 22 0.09
49 34 0.14
50 31 0.13
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCGAAGCC
Found at i:45219290 original size:46 final size:46
Alignment explanation
Indices: 45219058--45219278 Score: 119
Period size: 47 Copynumber: 4.7 Consensus size: 46
45219048 GTATAATGTT
* * * * * *
45219058 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATC-AAGTC
1 GATGTCATGTCTCAGACATGGTCTTACACTGACACATC--TCGTAGCC
* * **
45219105 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG-AGGCC
1 GATGTCATGTCTCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCC
* * * * * ** *
45219154 GACGCCATGTCCCAAACATGATCTTATACTAGCTCTCACATATCCGT-GCC
1 GATGTCATGTCTCAGACATGGTC-T-TAC-A-CTGACACATCT-CGTAGCC
*
45219204 GATGTCATGTCTCAGACATGGTGTTACACTGACACATCTCGTAGCC
1 GATGTCATGTCTCAGACATGGTCTTACACTGACACATCTCGTAGCC
* *
45219250 GATG-GATGTCTCGGACAT-GTCTTACACTG
1 GATGTCATGTCTCAGACATGGTCTTACACTG
45219279 GCTTACATCT
Statistics
Matches: 139, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 15 0.11
47 33 0.24
48 6 0.04
49 24 0.17
50 25 0.18
51 6 0.04
52 2 0.01
53 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGTCATGTCTCAGACATGGTCTTACACTGACACATCTCGTAGCC
Found at i:45233022 original size:20 final size:20
Alignment explanation
Indices: 45232999--45233042 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
45232989 GGACACGGGT
45232999 GTGTCCCAATGCACACGAGC
1 GTGTCCCAATGCACACGAGC
*
45233019 GTGTCCCAATGCACACGGGC
1 GTGTCCCAATGCACACGAGC
45233039 GTGT
1 GTGT
45233043 GCATGATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (20 bp):
GTGTCCCAATGCACACGAGC
Found at i:45237499 original size:47 final size:47
Alignment explanation
Indices: 45237201--45237518 Score: 231
Period size: 47 Copynumber: 6.7 Consensus size: 47
45237191 TGGCGTATAA
* * *
45237201 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CATCCATCA
1 TGCCGATGCCATGTCCCAGACATGATCTTACACTGGCTACAT-AATCG
* * * * * * *
45237248 AGTCGATGCCATGTCCCAAATATGACCTTACACTGACTATCAAAATCG
1 TGCCGATGCCATGTCCCAGACATGATCTTACACTGGCTA-CATAATCG
* * * *
45237296 AGGCCAACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACAT-ATCCG
1 -TGCCGATGCCATGTCCCAGACATGATCTTACACT-G-GCT-ACATAAT-CG
* * *
45237347 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACAT-CTCG
1 TGCCGATGCCATGTCCCAGACATGATCTTACACTGGCTACATAATCG
* * * * ** **
45237392 TAGTCGATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCGTCTTAA
1 T-GCCGATGCCATGTCCCAGACATGATCTTACACTGGCT-ACATAATCG
*
45237439 TGCCGATGCCATGTCCCAAACATGATCTTACACTGGCTTACATAAT-G
1 TGCCGATGCCATGTCCCAGACATGATCTTACACTGGC-TACATAATCG
*
45237486 TGGTCGATG-CATGTCCCAGACATG-TCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGATCTTACACT
45237519 AGCACACAAA
Statistics
Matches: 213, Mismatches: 43, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.05
45 18 0.08
46 28 0.13
47 62 0.29
48 24 0.11
49 31 0.15
50 33 0.15
51 6 0.03
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGATCTTACACTGGCTACATAATCG
Found at i:45237504 original size:94 final size:94
Alignment explanation
Indices: 45237204--45237521 Score: 344
Period size: 94 Copynumber: 3.4 Consensus size: 94
45237194 CGTATAATGC
* * *
45237204 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GTCGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTC-TCCATTAATGCCGATGCCATGTCCCAAA
* * * * *
45237268 TATGACCTTACACTGACTATCAAAATCGAGGC
64 CATGATCTTACACTGACTA-CATAATCGTGGT
* * **
45237300 CAACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTC-CAT-T-AATGCCGATGCCATGTCCCA
* * * *
45237365 GACATGGTCTTACACTGAC-ACAT-CTCGTAGT
62 AACATGATCTTACACTGACTACATAATCGTGGT
45237396 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTC-TTAATGCCGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--CATTAATGCCGATGCCATGTCCCAAA
*
45237459 CATGATCTTACACTGGCTTACATAAT-GTGGT
64 CATGATCTTACACTGAC-TACATAATCGTGGT
45237490 CGATG-CATGTCCCAGACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC
45237522 ACACAAATAA
Statistics
Matches: 187, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
92 34 0.18
93 1 0.01
94 57 0.30
95 20 0.11
96 41 0.22
97 2 0.01
98 1 0.01
99 31 0.17
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCCATTAATGCCGATGCCATGTCCCAAACA
TGATCTTACACTGACTACATAATCGTGGT
Found at i:45240676 original size:25 final size:25
Alignment explanation
Indices: 45240642--45240715 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 25
45240632 TCTTATACAT
45240642 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
* * * * *
45240667 GTATGATCACATGACCTATGAAAATGG
1 GTATGCTCACACGAGCTGTG--AATCG
*
45240694 GTTTGCTCACACGAGCTGTGAA
1 GTATGCTCACACGAGCTGTGAA
45240716 AATGAGCCTA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
25 18 0.49
27 19 0.51
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:45244360 original size:19 final size:19
Alignment explanation
Indices: 45244336--45244386 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
45244326 GACAAAGCCC
45244336 AATAAATGATAAT-GCTTGA
1 AATAAATGATAATGGC-TGA
45244355 AATAAATGATAATGGCTGA
1 AATAAATGATAATGGCTGA
* *
45244374 AACAAAGGATAAT
1 AATAAATGATAAT
45244387 ACCCGATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.93
20 2 0.07
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (19 bp):
AATAAATGATAATGGCTGA
Found at i:45257804 original size:28 final size:29
Alignment explanation
Indices: 45257659--45257797 Score: 151
Period size: 29 Copynumber: 4.9 Consensus size: 29
45257649 TACATACACA
*
45257659 CATATGGCCCACTT-GGCCC--ATCTCATT
1 CATATGGCCCA-TTAGGCCCAAATCACATT
*
45257686 CATATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * * *
45257715 CATATGGCCCATCATGCCCAATTCATATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * *
45257744 CATATGGCCTATTTGGCCCAAATCACCTT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
45257773 -ATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCATTAGGCCCAAATCAC
45257798 CTTATATTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 16 0.17
28 22 0.23
29 54 0.57
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:45262366 original size:29 final size:29
Alignment explanation
Indices: 45262266--45262382 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
45262256 TGGCACATCT
* *
45262266 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCTATCAGGCCCAAATCA
* *
45262295 CATTCATATGG-CTCATCATGCCCAATTCA
1 CATTCATATGGCCT-ATCAGGCCCAAATCA
* *
45262324 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCTATCAGGCCCAAATCA
* * * *
45262353 CCTTTATATGGCCTGTTAGGCCCAAATCA
1 CATTCATATGGCCTATCAGGCCCAAATCA
45262382 C
1 C
45262383 CTTATATTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
28 1 0.01
29 73 0.96
30 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCTATCAGGCCCAAATCA
Found at i:45262635 original size:16 final size:16
Alignment explanation
Indices: 45262601--45262643 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
45262591 GTAGCCAAAC
* *
45262601 TTTCAACTTTTCGGTA
1 TTTCAACTTTTAGGCA
*
45262617 TTTCGACTTTTAGGCA
1 TTTCAACTTTTAGGCA
*
45262633 TTTCAGCTTTT
1 TTTCAACTTTT
45262644 CAGCTTTTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAACTTTTAGGCA
Found at i:45263919 original size:16 final size:16
Alignment explanation
Indices: 45263895--45263926 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45263885 AAGTTCTGGA
45263895 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
45263911 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
45263927 GCGTTACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:45264600 original size:20 final size:19
Alignment explanation
Indices: 45264574--45264625 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
45264564 AGCAATGAAT
45264574 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
*
45264594 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
45264611 CTGTTCATCAAGAGA
1 CTGTTCA-CAAGAGA
45264626 CAGAACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:45267998 original size:40 final size:41
Alignment explanation
Indices: 45267939--45268170 Score: 303
Period size: 40 Copynumber: 5.8 Consensus size: 41
45267929 CATTTGAATG
* * * *
45267939 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
45267979 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
45268019 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
45268059 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
45268099 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
45268139 ATATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
45268171 TTGTGGTTAT
Statistics
Matches: 166, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.01
40 159 0.96
41 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:45268153 original size:120 final size:119
Alignment explanation
Indices: 45267939--45268190 Score: 344
Period size: 120 Copynumber: 2.1 Consensus size: 119
45267929 CATTTGAATG
* * *
45267939 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
*
45268004 TTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
65 TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
45268059 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCTGGGCTAAGACCCGAAGGC
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGC
* * * * * *
45268123 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
64 ATTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
45268179 ATATCCGGCTAA
1 ATATCCGGCTAA
45268191 ATTCCAAAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
119 6 0.05
120 106 0.92
121 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (119 bp):
ATATCCGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:45268183 original size:80 final size:80
Alignment explanation
Indices: 45267939--45268170 Score: 349
Period size: 80 Copynumber: 2.9 Consensus size: 80
45267929 CATTTGAATG
* * *
45267939 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
45268004 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
45268019 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
45268084 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
45268099 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAGGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
45268163 ATTTGTGC
65 ATTTGTGC
45268171 TTGTGGTTAT
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 135 0.98
81 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:45276114 original size:40 final size:40
Alignment explanation
Indices: 45276055--45276286 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
45276045 CATTTGAATG
* * * *
45276055 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * *
45276095 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
45276135 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
45276175 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
45276215 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
45276255 ATATCTGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
45276287 TTGTGGTTAT
Statistics
Matches: 167, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 160 0.96
41 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:45276269 original size:120 final size:120
Alignment explanation
Indices: 45276056--45276306 Score: 344
Period size: 120 Copynumber: 2.1 Consensus size: 120
45276046 ATTTGAATGA
* * *
45276056 TATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCAT
1 TATCCAGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
*
45276121 TTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTT
66 TTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTT
* * *
45276176 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCA
1 TATCCAGGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGCA
* * * * * * * *
45276240 TTTGTGCGAGTTGATATATCTGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTTA
65 TTTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTT
45276296 TATCCA-GCTAA
1 TATCCAGGCTAA
45276307 ATTCCAAAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
119 5 0.04
120 106 0.93
121 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TATCCAGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTT
Found at i:45276300 original size:80 final size:80
Alignment explanation
Indices: 45276055--45276286 Score: 349
Period size: 80 Copynumber: 2.9 Consensus size: 80
45276045 CATTTGAATG
* * *
45276055 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
45276120 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
45276135 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
45276200 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
45276215 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCTGGGCTAAGACCCGAGGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
45276279 ATTTGTGC
65 ATTTGTGC
45276287 TTGTGGTTAT
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 135 0.98
81 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:45278894 original size:8 final size:8
Alignment explanation
Indices: 45278877--45278915 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
45278867 ATATATATAC
45278877 TAAT-AAA
1 TAATAAAA
45278884 TAATAAAA
1 TAATAAAA
45278892 TAATAAAA
1 TAATAAAA
*
45278900 TAAT-ATA
1 TAATAAAA
45278907 TAATAAAA
1 TAATAAAA
45278915 T
1 T
45278916 GAAGATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 10 0.36
8 18 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TAATAAAA
Found at i:45278896 original size:3 final size:3
Alignment explanation
Indices: 45278877--45278975 Score: 55
Period size: 3 Copynumber: 31.7 Consensus size: 3
45278867 ATATATATAC
*
45278877 TAA TAAA TAA TAA -AA TAA TAA -AA TAA TATA TAA TAA -AA TGAA -GA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA
* *
45278921 TAA T-A TAGA GAA CAA TATA TAA TAA TATA TAA TATA TAA TAA TATA
1 TAA TAA TA-A TAA TAA TA-A TAA TAA TA-A TAA TA-A TAA TAA TA-A
45278967 TATA TAA TA
1 TA-A TAA TA
45278976 TACAATGAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
2 9 0.12
3 43 0.55
4 26 0.33
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:45278949 original size:10 final size:10
Alignment explanation
Indices: 45278869--45278996 Score: 68
Period size: 10 Copynumber: 12.3 Consensus size: 10
45278859 TTTTAATTAT
*
45278869 ATATATACTA
1 ATATATAATA
*
45278879 ATAAATAATAAA
1 ATATATAAT--A
*
45278891 ATAATAAAATA
1 AT-ATATAATA
45278902 ATATATAATA
1 ATATATAATA
*
45278912 AAATGA-AGATA
1 ATAT-ATA-ATA
* *
45278923 ATATAGAGAACA
1 ATAT--ATAATA
45278935 ATATATAAT-
1 ATATATAATA
45278944 A-ATAT-ATA
1 ATATATAATA
45278952 ATATATAATA
1 ATATATAATA
45278962 ATATATATATA
1 ATATATA-ATA
*
45278973 ATATACAATGA
1 ATATATAAT-A
45278984 A-ATATAAGTA
1 ATATATAA-TA
45278994 ATA
1 ATA
45278997 CGATAAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
7 2 0.02
8 5 0.05
9 5 0.05
10 40 0.43
11 23 0.25
12 11 0.12
13 6 0.07
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (10 bp):
ATATATAATA
Found at i:45278952 original size:7 final size:7
Alignment explanation
Indices: 45278937--45278977 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
45278927 AGAGAACAAT
45278937 ATATAATA
1 ATAT-ATA
45278945 ATATATA
1 ATATATA
45278952 ATATATA
1 ATATATA
45278959 ATA-ATA
1 ATATATA
45278965 TATATATA
1 -ATATATA
45278973 ATATA
1 ATATA
45278978 CAATGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.10
7 21 0.68
8 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATATA
Found at i:45278956 original size:17 final size:17
Alignment explanation
Indices: 45278934--45278972 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
45278924 TATAGAGAAC
45278934 AATATATAATAATATAT
1 AATATATAATAATATAT
45278951 AATATATAATAATATAT
1 AATATATAATAATATAT
45278968 -ATATA
1 AATATA
45278973 ATATACAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATATAATAATATAT
Found at i:45278996 original size:21 final size:21
Alignment explanation
Indices: 45278939--45278989 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
45278929 AGAACAATAT
*
45278939 ATAATA-ATATATAATATATA
1 ATAATATATATATAATATACA
45278959 ATAATATATATATAATATACA
1 ATAATATATATATAATATACA
45278980 ATGAA-ATATA
1 AT-AATATATA
45278990 AGTAATACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.21
21 20 0.71
22 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAATATATATATAATATACA
Found at i:45281160 original size:44 final size:44
Alignment explanation
Indices: 45280612--45281144 Score: 671
Period size: 44 Copynumber: 12.1 Consensus size: 44
45280602 CAGGAATGTT
* * * * *
45280612 AAATCTGTTATCTTCGATCTACTCCCCGTCCAATACAAAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGT-CAATACAGAGACGCC
** * * *
45280657 AAATCTG-TCATCTTTAATCTGATCTCTGTCAACACAGAGATGCC
1 AAATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
*
45280701 AAATCTGCTATCTTCGATCTACTCTCTGTCAATACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * *
45280745 AAATCTACTATCGGT-GATCTGCTCTCTGTCAATACAGAGATGCC
1 AAATCTGCTATC-TTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * *
45280789 AAATCTGCTATCGGT-GATCTGCTCTCTATCAATACAGAGATGCC
1 AAATCTGCTATC-TTCGATCTGCTCTCTGTCAATACAGAGACGCC
* *
45280833 AAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
*
45280877 AAATC-GACTATCTTCGATCTGCTCTCTGTCACTACAGAGACGCC
1 AAATCTG-CTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * ** *
45280921 AGATCT-ATCATCTTCGATCTGCTCTCTGAGAATATAGAGACGCC
1 AAATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* * * * * *
45280965 AAATCGGCTCTCTTAGATCTACTCTCTGACAATACAGAGACGTC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
* *
45281009 AAATATGCTATCTTCGATCTCCTCTCTGTCAATACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
45281053 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
*
45281097 AAATCTGCTATCTTCGATCTGCTCTCTGTCACTACAGAGACGCC
1 AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
45281141 AAAT
1 AAAT
45281145 TTGTCATCTT
Statistics
Matches: 428, Mismatches: 52, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
43 3 0.01
44 401 0.94
45 24 0.06
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
AAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCC
Found at i:45291449 original size:7 final size:7
Alignment explanation
Indices: 45291437--45291472 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
45291427 ATATATATGC
45291437 TAATAAA
1 TAATAAA
45291444 TAATAAA
1 TAATAAA
45291451 TAATAAAA
1 TAAT-AAA
*
45291459 TAATATA
1 TAATAAA
45291466 TAATAAA
1 TAATAAA
45291473 ATGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:45291515 original size:17 final size:15
Alignment explanation
Indices: 45291437--45291534 Score: 94
Period size: 17 Copynumber: 6.3 Consensus size: 15
45291427 ATATATATGC
*
45291437 TAAT-AAATAATAAA
1 TAATAAAATAATATA
45291451 TAATAAAATAATATA
1 TAATAAAATAATATA
*
45291466 TAATAAAATGAAGATA
1 TAATAAAAT-AATATA
*
45291482 -ATATAGAGAACAATATA
1 TA-ATA-A-AATAATATA
45291499 TAATAATATATAATATA
1 TAATAA-A-ATAATATA
45291516 TAATAAAAT-ATATA
1 TAATAAAATAATATA
45291530 TAATA
1 TAATA
45291535 TACAATGAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
14 14 0.20
15 21 0.30
16 11 0.15
17 22 0.31
18 3 0.04
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (15 bp):
TAATAAAATAATATA
Found at i:45291548 original size:19 final size:20
Alignment explanation
Indices: 45291498--45291540 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
45291488 AGAACAATAT
* *
45291498 ATAATAATATATAATATATA
1 ATAAAAATATATAATATACA
45291518 ATAAAATATATATAATATACA
1 ATAAAA-ATATATAATATACA
45291539 AT
1 AT
45291541 GAAATATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAAATATATAATATACA
Found at i:45291555 original size:21 final size:21
Alignment explanation
Indices: 45291509--45291548 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45291499 TAATAATATA
*
45291509 TAATATATAATAAAATATATA
1 TAATATACAATAAAATATATA
*
45291530 TAATATACAATGAAATATA
1 TAATATACAATAAAATATA
45291549 AGTAATACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TAATATACAATAAAATATATA
Found at i:45296212 original size:20 final size:21
Alignment explanation
Indices: 45296174--45296223 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
45296164 GTCATCTAAA
*
45296174 AAAATTTA-AAATTAAAATATT
1 AAAATTTATAAA-TAAAATACT
45296195 AAAATTTATAAA-AAAATACT
1 AAAATTTATAAATAAAATACT
45296215 AAAATTTAT
1 AAAATTTAT
45296224 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 16 0.59
21 8 0.30
22 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTTATAAATAAAATACT
Found at i:45296240 original size:9 final size:10
Alignment explanation
Indices: 45296187--45296258 Score: 51
Period size: 10 Copynumber: 7.5 Consensus size: 10
45296177 ATTTAAAATT
45296187 AAAA-TATTA
1 AAAATTATTA
* *
45296196 AAATTTATAA
1 AAAATTATTA
* *
45296206 AAAAATACTA
1 AAAATTATTA
* *
45296216 AAATTTATTT
1 AAAATTATTA
45296226 AAAATT-TTA
1 AAAATTATTA
**
45296235 AAAATTGGT-
1 AAAATTATTA
45296244 AAAATTATTA
1 AAAATTATTA
45296254 AAAAT
1 AAAAT
45296259 GTCTAAATAT
Statistics
Matches: 45, Mismatches: 15, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
9 18 0.40
10 27 0.60
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (10 bp):
AAAATTATTA
Found at i:45297631 original size:24 final size:25
Alignment explanation
Indices: 45297599--45297645 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
45297589 CTAATTAAAT
*
45297599 TTTATAAATAATTAATATTTATAGC
1 TTTATAAATAATTAAAATTTATAGC
*
45297624 TTTA-AAATATTTAAAATTTATA
1 TTTATAAATAATTAAAATTTATA
45297646 TTTCATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTATAAATAATTAAAATTTATAGC
Found at i:45297647 original size:30 final size:30
Alignment explanation
Indices: 45297603--45297669 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
45297593 TTAAATTTTA
45297603 TAAATAATTAATATTT-ATAGCT-TTAAAATAT
1 TAAA-AATTAATATTTCATA--TATTAAAATAT
* *
45297634 TTAAAATTTATATTTCATATATTAAAATAT
1 TAAAAATTAATATTTCATATATTAAAATAT
45297664 TAAAAA
1 TAAAAA
45297670 CAAGTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 1 0.03
30 24 0.77
31 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
TAAAAATTAATATTTCATATATTAAAATAT
Found at i:45297855 original size:13 final size:12
Alignment explanation
Indices: 45297839--45297891 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
45297829 TTTAAACCAA
45297839 ACTTTTCAATAGC
1 ACTTTTCAA-AGC
* *
45297852 ACTTCTCAAAAGT
1 ACTTTTC-AAAGC
45297865 ACTTTTCCAAAGC
1 ACTTTT-CAAAGC
45297878 ACTTTTCCAAAGC
1 ACTTTT-CAAAGC
45297891 A
1 A
45297892 TTTCTGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 31 0.91
14 3 0.09
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTTTTCAAAGC
Found at i:45302352 original size:7 final size:6
Alignment explanation
Indices: 45302331--45302364 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
45302321 ACCAACGGAG
*
45302331 TTTTCT TTTTCT TTTTCTT TTTTCT TCTTCT TTT
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTT
45302365 GCTAATTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:45302354 original size:13 final size:13
Alignment explanation
Indices: 45302331--45302364 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
45302321 ACCAACGGAG
45302331 TTTTC-TTTTTCT
1 TTTTCTTTTTTCT
45302343 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
*
45302356 TCTTCTTTT
1 TTTTCTTTT
45302365 GCTAATTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:45317045 original size:49 final size:49
Alignment explanation
Indices: 45316931--45317154 Score: 270
Period size: 49 Copynumber: 4.5 Consensus size: 49
45316921 CGAGGTCGCA
* * * * * * * *
45316931 TGTGTAGTACTAAGTGCAGGATATTATGCGCACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * *
45316982 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
45317031 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
45317080 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
45317129 TGTGTAGTACTATGTGCAGGGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
45317155 TGCGTACCAG
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
48 1 0.01
49 119 0.78
50 2 0.01
51 30 0.20
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:45317162 original size:98 final size:100
Alignment explanation
Indices: 45316923--45317167 Score: 307
Period size: 98 Copynumber: 2.5 Consensus size: 100
45316913 ATCTATTGCG
* * * *
45316923 AGGTCGCATGTGTAGTACTAAGTGCAGGATATTATGCGCACCCGAAAACTGTGATCACGTGTGTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACCAGATAACTGTGATCACGTGTGTA
* *
45316988 GTACTAAGTGCAGGCTACTACGTGTATCAGATGTT
66 GTACTAAGTGCAGGCTACTACGTGTACCAGATATT
* * * * * * *
45317023 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACCAGATAACTGTGATCACGTGTGTA
* *
45317086 GTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 GTACTAAGTGCAGGCTACTACGTGTACCAGAT-ATT
* *
45317122 -GGTCGCATGTGTAGTACTATGTGCAGGGTACTATGCGTACCAGATA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACCAGATA
45317168 GCTTTGGCTA
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
98 81 0.66
99 3 0.02
100 39 0.32
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGATACTATGCGTACCAGATAACTGTGATCACGTGTGTA
GTACTAAGTGCAGGCTACTACGTGTACCAGATATT
Found at i:45324365 original size:91 final size:90
Alignment explanation
Indices: 45324211--45324420 Score: 246
Period size: 91 Copynumber: 2.3 Consensus size: 90
45324201 GACAGTTTAT
* *
45324211 CTGCAAACACTGGTGGTTTATCCACAAACTTACTGGCCACTTTTATCTACAAACCCATTGTGTAT
1 CTGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACCCATTGTGTAT
*
45324276 TTACAACTATTGACAACGTATTAAC
66 TCACAACTATTGACAACGTATTAAC
* * * **
45324301 CTGCAAGCACTGGT-GTTACATCCACAATCTTCACTGGCAACTTTTATCTGCAAACCTGTTGTGT
1 CTGCAAACACTGGTGGTT-CATCCACAAACTT-ACTGGCAACTTTTATCTACAAACCCATTGTGT
* **
45324365 ATTCACAACTATT-AGTAACACATTAAC
64 ATTCACAACTATTGA-CAACGTATTAAC
* * *
45324392 CTAC-AATACTAGTGGTTCATCCACAAACT
1 CTGCAAACACTGGTGGTTCATCCACAAACT
45324421 GCAGTGTTCG
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
89 3 0.03
90 42 0.42
91 55 0.55
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (90 bp):
CTGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACCCATTGTGTAT
TCACAACTATTGACAACGTATTAAC
Found at i:45325777 original size:22 final size:21
Alignment explanation
Indices: 45325742--45325836 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 21
45325732 AAAAGGTATC
* *
45325742 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
45325763 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
45325786 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
45325805 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
45325823 TGCATATCATATCT
1 TACAAATCATATCT
45325837 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 16 0.25
21 4 0.06
22 15 0.24
23 11 0.17
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:45325785 original size:23 final size:22
Alignment explanation
Indices: 45325742--45325799 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
45325732 AAAAGGTATC
* *
45325742 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
45325763 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
45325786 TACATATCATATCT
1 TACAAATCATATCT
45325800 AAGATTGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:45325802 original size:19 final size:19
Alignment explanation
Indices: 45325778--45325851 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
45325768 AATCATATCT
*
45325778 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
45325797 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
45325815 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
45325834 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
45325852 TGAAGATTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
18 18 0.34
19 35 0.66
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:45325829 original size:37 final size:38
Alignment explanation
Indices: 45325771--45325851 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 38
45325761 ATTACAAAAT
45325771 CATATC-T-TCTAAGATTACATATCATATCTAAGATTG
1 CATATCATATCTAAGATTACATATCATATCTAAGATTG
*
45325807 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTACATATCATATCTAAGATTG
45325844 CATATCAT
1 CATATCAT
45325852 TGAAGATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 30 0.73
38 5 0.12
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:45325871 original size:37 final size:37
Alignment explanation
Indices: 45325781--45325860 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
45325771 CATATCTTCT
*
45325781 AAGATTACATATCATATCTAAGATTGCAATCATATCT
1 AAGATTACATATCATATCTAAGATTGCAATCATATCG
*
45325818 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCTAAGATTGCA-ATCATATCG
45325854 AAGATTA
1 AAGATTA
45325861 TATTTCCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 6 0.15
37 28 0.72
38 5 0.13
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGCAATCATATCG
Found at i:45326007 original size:21 final size:20
Alignment explanation
Indices: 45325970--45326008 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
45325960 TTGGACTTCA
**
45325970 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
45325990 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
45326009 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:45326533 original size:78 final size:78
Alignment explanation
Indices: 45326403--45326617 Score: 349
Period size: 78 Copynumber: 2.8 Consensus size: 78
45326393 GAAAACATCC
* * * * *
45326403 GAAGGTTAGATTTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGTGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
45326468 GATCTGCTTCAAT
66 GATCTGCTTCAAT
*
45326481 GAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
45326546 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * *
45326559 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
45326618 TGTTTCTTTG
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 127 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTA
GATCTGCTTCAAT
Found at i:45334065 original size:6 final size:6
Alignment explanation
Indices: 45334054--45334083 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
45334044 TACAACGGTC
*
45334054 ATGCAA ATGCAA ATACAA ATGCAA ATGCAA
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA
45334084 TGTATTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (6 bp):
ATGCAA
Found at i:45334473 original size:22 final size:21
Alignment explanation
Indices: 45334438--45334532 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
45334428 AAAAGGTATC
* *
45334438 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
45334459 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
45334482 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
45334501 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
45334519 TGCATATCATATCT
1 TACAAATCATATCT
45334533 AAGATTGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:45334481 original size:23 final size:22
Alignment explanation
Indices: 45334438--45334495 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
45334428 AAAAGGTATC
* *
45334438 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
45334459 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
45334482 TGCATATCATATCT
1 TACAAATCATATCT
45334496 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:45334498 original size:19 final size:19
Alignment explanation
Indices: 45334474--45334583 Score: 199
Period size: 19 Copynumber: 5.9 Consensus size: 19
45334464 AATCATATCT
45334474 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
45334493 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
45334511 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
45334530 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
45334547 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
45334566 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
45334584 TGAAGATTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.19
18 18 0.20
19 53 0.60
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:45334591 original size:36 final size:38
Alignment explanation
Indices: 45334467--45334583 Score: 199
Period size: 36 Copynumber: 3.2 Consensus size: 38
45334457 ATTACAAAAT
45334467 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
45334503 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
45334540 --TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
45334576 CATATCAT
1 CATATCAT
45334584 TGAAGATTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.04
36 38 0.50
37 29 0.38
38 6 0.08
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:45334733 original size:16 final size:16
Alignment explanation
Indices: 45334692--45334735 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
45334682 TGGACTGAAC
*
45334692 TTGGACTTCTTTTTTT
1 TTGGACTTATTTTTTT
**
45334708 TTGGGTTTATTTTTTT
1 TTGGACTTATTTTTTT
45334724 TTGGACTTATTT
1 TTGGACTTATTT
45334736 CTGGGCCCGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.07, G:0.16, T:0.68
Consensus pattern (16 bp):
TTGGACTTATTTTTTT
Found at i:45336071 original size:15 final size:15
Alignment explanation
Indices: 45336051--45336080 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45336041 GACATATGAC
45336051 AAAAATGATAAAAAT
1 AAAAATGATAAAAAT
*
45336066 AAAAATTATAAAAAT
1 AAAAATGATAAAAAT
45336081 TATTAAATTT
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:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAAATGATAAAAAT
Found at i:45336079 original size:10 final size:10
Alignment explanation
Indices: 45336066--45336176 Score: 68
Period size: 10 Copynumber: 11.4 Consensus size: 10
45336056 TGATAAAAAT
45336066 AAAAATTAT-
1 AAAAATTATA
*
45336075 AAAAATTATT
1 AAAAATTATA
**
45336085 AAATTTTAATA
1 AAAAATT-ATA
*
45336096 AAAAA--ATT
1 AAAAATTATA
* *
45336104 AAAATTTATT
1 AAAAATTATA
*
45336114 AAAAATTAGA
1 AAAAATTATA
*
45336124 AAAAATTTTA
1 AAAAATTATA
*
45336134 AAAAATTTTA
1 AAAAATTATA
**
45336144 AAATTTTAT-
1 AAAAATTATA
*
45336153 AAAAATAATA
1 AAAAATTATA
*
45336163 ATAAATTATA
1 AAAAATTATA
45336173 AAAA
1 AAAA
45336177 TATATAGAAC
Statistics
Matches: 76, Mismatches: 21, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
8 6 0.08
9 15 0.20
10 50 0.66
11 5 0.07
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAAATTATA
Found at i:45336106 original size:29 final size:29
Alignment explanation
Indices: 45336074--45336171 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
45336064 ATAAAAATTA
45336074 TAAAAATTATTAAATTTTAATAAAAAAAT
1 TAAAAATTATTAAATTTTAATAAAAAAAT
* ** **
45336103 TAAAATTTATTAAAAATTAGA-AAAAATTT
1 TAAAAATTATTAAATTTTA-ATAAAAAAAT
45336132 TAAAAAATT-TTAAAATTTT-ATAAAAATAA-
1 T-AAAAATTATT-AAATTTTAATAAAAA-AAT
45336161 TAATAAATTAT
1 TAA-AAATTAT
45336172 AAAAATATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
28 3 0.06
29 36 0.69
30 13 0.25
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
TAAAAATTATTAAATTTTAATAAAAAAAT
Found at i:45336157 original size:19 final size:20
Alignment explanation
Indices: 45336071--45336158 Score: 87
Period size: 19 Copynumber: 4.5 Consensus size: 20
45336061 AAAATAAAAA
45336071 TTATAAAAATTATT-AAATT
1 TTATAAAAATTATTAAAATT
*
45336090 TTAATAAAAA-AATTAAAA-T
1 TT-ATAAAAATTATTAAAATT
**
45336109 TTATTAAAAATTAGAAAAAATT
1 TTA-TAAAAATTA-TTAAAATT
45336131 TTA-AAAAATT-TTAAAATT
1 TTATAAAAATTATTAAAATT
45336149 TTATAAAAAT
1 TTATAAAAAT
45336159 AATAATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
18 10 0.18
19 20 0.36
20 18 0.32
21 4 0.07
22 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
TTATAAAAATTATTAAAATT
Found at i:45336239 original size:19 final size:18
Alignment explanation
Indices: 45336217--45336274 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
45336207 TTTATTAAGT
45336217 TGTAAGAAAATTATAAAAA
1 TGTAA-AAAATTATAAAAA
*
45336236 TGTAAAGAAA-TATAAAAT
1 TGTAAA-AAATTATAAAAA
45336254 TCGTACAAAAATTATAAAAA
1 T-GTA-AAAAATTATAAAAA
45336274 T
1 T
45336275 TATCGTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 9 0.27
19 14 0.42
20 10 0.30
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (18 bp):
TGTAAAAAATTATAAAAA
Found at i:45336245 original size:20 final size:21
Alignment explanation
Indices: 45336220--45336274 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
45336210 ATTAAGTTGT
45336220 AAGAAAATTATAAAAAT-GTA
1 AAGAAAATTATAAAAATCGTA
*
45336240 AAG-AAA-TATAAAATTCGTA
1 AAGAAAATTATAAAAATCGTA
*
45336259 CA-AAAATTATAAAAAT
1 AAGAAAATTATAAAAAT
45336275 TATCGTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
20 11 0.38
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (21 bp):
AAGAAAATTATAAAAATCGTA
Found at i:45336489 original size:31 final size:32
Alignment explanation
Indices: 45336431--45336499 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
45336421 CTTTTTTATG
45336431 TTTTTTTTATGATTATTATAAAATTTTACA-A
1 TTTTTTTTATGATTATTATAAAATTTTACATA
* ** *
45336462 TTTTTTTTATGATTTTTATAATTTTTTATATA
1 TTTTTTTTATGATTATTATAAAATTTTACATA
45336494 TTTTTT
1 TTTTTT
45336500 GCCATATGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (32 bp):
TTTTTTTTATGATTATTATAAAATTTTACATA
Found at i:45336499 original size:21 final size:21
Alignment explanation
Indices: 45336454--45336498 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
45336444 TATTATAAAA
*
45336454 TTTTACAATTTTTTTTATGAT
1 TTTTACAATTTTTTATATGAT
*
45336475 TTTTATAATTTTTTATAT-AT
1 TTTTACAATTTTTTATATGAT
45336495 TTTT
1 TTTT
45336499 TGCCATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTACAATTTTTTATATGAT
Found at i:45337500 original size:41 final size:41
Alignment explanation
Indices: 45337406--45337487 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
45337396 GGTGAAAGAA
*
45337406 AAAAAATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
1 AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
45337447 AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
1 AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
45337488 TTAGTGTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (41 bp):
AAAATATGAAAAATAGATTTATAAAAGTATTATTCATTGTT
Found at i:45343151 original size:46 final size:46
Alignment explanation
Indices: 45343091--45343206 Score: 196
Period size: 46 Copynumber: 2.5 Consensus size: 46
45343081 ATGGGGGTGT
* *
45343091 TAGGATATTATTATTAGATATTATTTTTTAGTAATTTGATTTCTAA
1 TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
*
45343137 TAGGATATTTTTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
1 TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
*
45343183 TAGGATAGTATTATTAGATATTAT
1 TAGGATATTATTATTAGATATTAT
45343207 AAATTCAAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.52
Consensus pattern (46 bp):
TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTTCTAA
Found at i:45347533 original size:133 final size:134
Alignment explanation
Indices: 45347265--45347534 Score: 282
Period size: 133 Copynumber: 2.0 Consensus size: 134
45347255 ACGACATGAT
* * * * *
45347265 AATTTTGTGGGGATTTTCTTGCATTGTAGGTTTAGTTCTTGAAGACCCTTGTATGTTTTTGACTC
1 AATTTTCTGGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTGTATGTTTTCGACTC
** * * * * *
45347330 TCTGTTTGCATGTATATGGTGCATCTTGGGAACAATTTGTATCAAGACATGCCTTTGATTATTTA
66 TCTGAATGCATGCATATGGTGCATCTTGGAAACAATTTGTATCAAGACATGCATTTGATCAATTA
45347395 TTAA
131 TTAA
45347399 AATTTTCTAGGGG-TTTTCTTGCATTGTAGGTTTAATTCATGAA-AACCTTGCT-TGTTTTCGAC
1 AATTTTCT-GGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTG-TATGTTTTCGAC
* * * * * * *
45347461 -CGTCTGAATGCATGCGTCTGGTGCATTTTGGAAACAATTATTGTGTCCAGACGT-CATTTTATC
64 TC-TCTGAATGCATGCATATGGTGCATCTTGGAAACAA-T-TTGTATCAAGACATGCATTTGATC
45347524 AATTA-TAA
126 AATTATTAA
45347532 AAT
1 AAT
45347535 CCTTGAAAGT
Statistics
Matches: 112, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
132 1 0.01
133 49 0.44
134 47 0.42
135 15 0.13
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (134 bp):
AATTTTCTGGGGATTTTCTTGCATTGTAGGTTTAATTCATGAAGAACCTTGTATGTTTTCGACTC
TCTGAATGCATGCATATGGTGCATCTTGGAAACAATTTGTATCAAGACATGCATTTGATCAATTA
TTAA
Found at i:45354736 original size:18 final size:18
Alignment explanation
Indices: 45354710--45354745 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45354700 CAAGTTGGTT
*
45354710 CTCTCCATCTATTGCCAA
1 CTCTCCATCTACTGCCAA
*
45354728 CTCTGCATCTACTGCCAA
1 CTCTCCATCTACTGCCAA
45354746 TTAGTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.39, G:0.08, T:0.31
Consensus pattern (18 bp):
CTCTCCATCTACTGCCAA
Found at i:45358053 original size:21 final size:21
Alignment explanation
Indices: 45358013--45358053 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45358003 TCCAGCAACC
* *
45358013 AAACACTCTCATTCTAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
45358034 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
45358054 CTGTCCAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.39, G:0.07, T:0.27
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:45373722 original size:93 final size:93
Alignment explanation
Indices: 45373563--45373733 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
45373553 GCCCCTAAGT
* *
45373563 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
45373628 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
45373656 GAACTCGGACTCAACTCAACGAG-TTGGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45373720 ACGAGTTCAGATGC
65 ACGAGTTCAGATGC
45373734 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:45373726 original size:46 final size:45
Alignment explanation
Indices: 45373558--45373726 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
45373548 AACCCGCCCC
* * *
45373558 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTGGGCATTCGCATCCA
* *
45373604 TGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTT-GG--G-C-A-TTCGCATCCA
* *
45373652 TCA-CGAACTCGGACTCAACTCAACGAGTTGGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTGGG-CATTCGCATCCA
45373697 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
45373727 CAGATGCTCA
Statistics
Matches: 102, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 55 0.54
47 25 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTGGGCATTCGCATCCA
Found at i:45373749 original size:46 final size:44
Alignment explanation
Indices: 45373606--45373749 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
45373596 CGCATCCATG
*
45373606 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCC-A---ACCATCT
* * * * * *
45373653 CA-CGAACTCGGACTCAACTCAACGAGTTGGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTT--CAGATGC-CAACCATCT
45373699 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-CAACCAT-CT
45373745 AGTGA
1 AGTGA
45373750 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
44 10 0.13
45 1 0.01
46 30 0.40
47 28 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCAACCATCT
Found at i:45377543 original size:48 final size:48
Alignment explanation
Indices: 45377472--45377751 Score: 425
Period size: 48 Copynumber: 5.8 Consensus size: 48
45377462 CATTAGGGTT
* *
45377472 ATATGAGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
45377520 ATATGAGATCCTATGTAAGACCATATCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
45377568 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
45377616 ATATGAGATCCCATGTAAGACCATGTCTGGGACTTGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * *
45377664 ATAAGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* ** * *
45377712 ATATGTGATTTCGTGTAAGACCATGTTTGGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
45377752 CGATATGAGA
Statistics
Matches: 210, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 210 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:45377619 original size:96 final size:96
Alignment explanation
Indices: 45377472--45377845 Score: 409
Period size: 96 Copynumber: 4.0 Consensus size: 96
45377462 CATTAGGGTT
* *
45377472 ATATGAGATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATTGATATGAGATCCTATGTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
45377537 AGACCATATCTGGGACATGGCATTGGCATCG
66 AGACCATATCTGGGACATGGCATTGGCATCG
*
45377568 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCCATGTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
* * *
45377633 AGACCATGTCTGGGACTTGACATTGGCATCG
66 AGACCATATCTGGGACATGGCATTGGCATCG
* * * * * * *
45377664 ATAAGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATCGATATGTGAT-TTCGTGT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCT-ATGT
* *
45377728 AAGACCATGTTTGGG--A---CA-TGGCATCG
65 AAGACCATATCTGGGACATGGCATTGGCATCG
* * *
45377754 ATATGAGA-CATCATGTAAGACCATAG-CTGGG-C-T---ATCGGAATCGATATGTGAGATACC-
1 ATATGAGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA--TGAGAT-CCT
* *
45377811 ATGTAAGACCATATATGGGATATGGCATTGGCATC
61 ATGTAAGACCATATCTGGGACATGGCATTGGCATC
45377846 TTACTATGTG
Statistics
Matches: 237, Mismatches: 28, Indels: 29
0.81 0.10 0.10
Matches are distributed among these distances:
85 10 0.04
87 21 0.09
88 1 0.00
89 2 0.01
90 33 0.14
91 2 0.01
92 2 0.01
93 7 0.03
96 159 0.67
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (96 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGATCCTATGTA
AGACCATATCTGGGACATGGCATTGGCATCG
Found at i:45384249 original size:21 final size:21
Alignment explanation
Indices: 45384174--45384249 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
45384164 TGGTCTCGAG
*
45384174 GTGGAGGTGAA-GGACCTTGTT
1 GTGGAGGTAAACGG-CCTTGTT
**
45384195 GTGGAGGTAAACATCCTTGTT
1 GTGGAGGTAAACGGCCTTGTT
*** *
45384216 GTGGTTTTAAACGGGCTTGTT
1 GTGGAGGTAAACGGCCTTGTT
*
45384237 GTGGAGGTGAACG
1 GTGGAGGTAAACG
45384250 TCCTCATTGT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.20, C:0.11, G:0.38, T:0.32
Consensus pattern (21 bp):
GTGGAGGTAAACGGCCTTGTT
Found at i:45384812 original size:12 final size:11
Alignment explanation
Indices: 45384770--45384818 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
45384760 AAATTGATTC
*
45384770 TTTTTTTTTGC
1 TTTTTTTTTGA
*
45384781 TTTTTTTTTGC
1 TTTTTTTTTGA
*
45384792 TTTTTTTTCGA
1 TTTTTTTTTGA
*
45384803 TTTTTTTTTCA
1 TTTTTTTTTGA
45384814 TTTTT
1 TTTTT
45384819 GAACTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.04, C:0.08, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:45384818 original size:11 final size:11
Alignment explanation
Indices: 45384769--45384811 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
45384759 AAAATTGATT
45384769 CTTTTTTTTTG
1 CTTTTTTTTTG
45384780 CTTTTTTTTTG
1 CTTTTTTTTTG
*
45384791 CTTTTTTTTCG
1 CTTTTTTTTTG
*
45384802 ATTTTTTTTT
1 CTTTTTTTTT
45384812 CATTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTG
Found at i:45394466 original size:53 final size:54
Alignment explanation
Indices: 45394337--45394588 Score: 257
Period size: 55 Copynumber: 4.7 Consensus size: 54
45394327 ACACGGGTAC
* * * * *
45394337 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * *
45394386 TTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * * * * *
45394439 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-GAAA
** *
45394494 CTTTTCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* *
45394547 CCTTACCAATTGCCATGTCTAGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATC
45394589 CTTAAACCCT
Statistics
Matches: 167, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 33 0.20
53 48 0.29
54 13 0.08
55 73 0.44
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
Found at i:45396192 original size:28 final size:28
Alignment explanation
Indices: 45396160--45396256 Score: 176
Period size: 28 Copynumber: 3.4 Consensus size: 28
45396150 TACATACATG
45396160 CATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATCTCATT
45396188 CATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATCTCATT
*
45396216 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCC-AATCTCATT
45396245 CATATGGCCCAT
1 CATATGGCCCAT
45396257 CCGACCCGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
28 47 0.70
29 20 0.30
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCTCATT
Found at i:45399464 original size:16 final size:16
Alignment explanation
Indices: 45399443--45399473 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45399433 ATATATTTTC
*
45399443 ATTTGCATCATATATA
1 ATTTGCATCACATATA
45399459 ATTTGCATCACATAT
1 ATTTGCATCACATAT
45399474 CAAATAGTCA
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:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:45399687 original size:43 final size:43
Alignment explanation
Indices: 45399635--45400714 Score: 819
Period size: 43 Copynumber: 24.8 Consensus size: 43
45399625 CAATGCCAAA
* * * *
45399635 GTCCAAGACATGGTCTTACATGTAATAACATATCGATGCCATT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
45399678 GTCCCAGACACGGTCTTACACG-AATCAAATA-CGATGCCGA-T
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* *
45399719 GTCCCAGACATGGTCTTACACGTAATCACATATCAATTCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
45399762 GTCCCAGACGTGGTCTTACACGTAATCACATATCAATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
45399805 ATCCCAGACAGGGTCTTACACGTAATCACATATCGATTCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * * * * *
45399848 GTCCTAGACGTGGTCTTACATGTAATCACATATCAAATACTTACCTT
1 GTCCCAGACATGGTCTTACACGTAATCACATATC-GATGC-CA-C-T
* *** * * *
45399895 ATTTTA-AAATAGG-CAATT-TA-GCT-ATCACATACCTGAT--CACT
1 GTCCCAGACAT-GGTC--TTACACG-TAATCACATATC-GATGCCACT
* * * * * * *
45399936 -T--TAG-CTTGAT-TACACATTCGATAATAACTTAT-TATTGCC-CGTT
1 GTCCCAGACATGGTCT-TACA--CG-TAATCACATATCGA-TGCCAC--T
* * * ** ** *
45399979 GAACCATTCA-AAATTGAATAGGATACTGGGATAATCACACATATCGTACAATGCCAAT
1 G-TCC---CAGACA-TG-GT--CTTAC-ACG-TAAT--CACATATCG----ATGCCACT
* **
45400037 GTCCAAGATGTGGTCTTACATC-TAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACA-CGTAATCACATATCGATGCCACT
* * *
45400080 GTCCCAGACAGGGTCTTACAC-AAATCAAATA-CGATGCCGA-T
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* * *
45400121 GTCCCAGACATGGTCTTACACGTAATCACAAATTGATTCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
45400164 GTCCCAGACGT-GTCTTACACATAATCACATATCAATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
45400206 GTCCCAGACAAGGTCTTAGACGTAATCACATATCGACGCCAAC-
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
45400249 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * * *
45400292 ATCCCAGACAGGGTCTTACACGTAATCACATATCGACGCCAAT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
45400335 GTCCCAGACGTGGTCTTACACGTATTCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
45400378 GTCCCAGACGTGGTCTTACATGTGATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * *
45400421 GTCCCAGACAGGGTCTTACACATAATCACATATTGATGCCAAC-
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* * *
45400464 GTCCCAAACGTGGTCTTACAAGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* * * *
45400507 GTCCCAGACAGGGTCTTACATGTAATCACATATCGATGACAAT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
** *
45400550 GTCCCAGATGTGGTCTTACATGTAATCACATATCGATGCCAAC-
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ACT
* * * **
45400593 GTCCCAGACGTGGTCTTACAAGTAATCACATATCGGTGCCAAA
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
** * *
45400636 GTCCCAGATGTGGTCTTACACGTAATCACGTATCGATGCCGCT
1 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
* *
45400679 GTCCCAGAC-TAGGTCTTACGCATAATCACATATCGA
1 GTCCCAGACAT-GGTCTTACACGTAATCACATATCGA
45400715 AAATCCTATG
Statistics
Matches: 832, Mismatches: 144, Indels: 122
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.00
37 2 0.00
38 3 0.00
39 1 0.00
40 4 0.00
41 65 0.08
42 78 0.09
43 595 0.72
44 8 0.01
45 1 0.00
46 16 0.02
47 17 0.02
48 2 0.00
49 4 0.00
50 1 0.00
51 5 0.01
52 2 0.00
53 7 0.01
54 5 0.01
55 6 0.01
57 2 0.00
58 2 0.00
59 4 0.00
60 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACT
Found at i:45401353 original size:25 final size:25
Alignment explanation
Indices: 45401319--45401368 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45401309 AATCCAAAAC
45401319 ATATCTTTCATAATTCATCATCTAA
1 ATATCTTTCATAATTCATCATCTAA
45401344 ATATCTTTCATAATTCATCATCTAA
1 ATATCTTTCATAATTCATCATCTAA
45401369 CATCACAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATCTTTCATAATTCATCATCTAA
Found at i:45404440 original size:20 final size:20
Alignment explanation
Indices: 45404415--45404452 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45404405 CGTTTTGGCC
45404415 CTAAATCAGGCTGTTACAGT
1 CTAAATCAGGCTGTTACAGT
*
45404435 CTAAATCGGGCTGTTACA
1 CTAAATCAGGCTGTTACA
45404453 CATACTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (20 bp):
CTAAATCAGGCTGTTACAGT
Found at i:45410757 original size:43 final size:43
Alignment explanation
Indices: 45410691--45410777 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
45410681 AAATCATACA
**
45410691 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAGCCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
45410734 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
45410777 A
1 A
45410778 AATCACAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:45423144 original size:23 final size:22
Alignment explanation
Indices: 45423118--45423162 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
45423108 ATTTTTTAGG
*
45423118 TCATTTAGG-TTTTTATAGAAGAT
1 TCATTAAGGATTTTT-T-GAAGAT
45423141 TCATTAAGGATTTTTTGAAGAT
1 TCATTAAGGATTTTTTGAAGAT
45423163 ATCTAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TCATTAAGGATTTTTTGAAGAT
Found at i:45429645 original size:16 final size:14
Alignment explanation
Indices: 45429613--45429639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45429603 GTTTTAGATT
45429613 TTTTTGTTGAATGC
1 TTTTTGTTGAATGC
45429627 TTTTTGTTGAATG
1 TTTTTGTTGAATG
45429640 TTCTTTAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.22, T:0.59
Consensus pattern (14 bp):
TTTTTGTTGAATGC
Found at i:45430539 original size:11 final size:11
Alignment explanation
Indices: 45430508--45430542 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
45430498 TGATTACTGT
45430508 CAACAAATGAC
1 CAACAAATGAC
45430519 CATCACAAATGAC
1 CA--ACAAATGAC
45430532 CAACAAATGAC
1 CAACAAATGAC
45430543 ACATGTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.51, C:0.29, G:0.09, T:0.11
Consensus pattern (11 bp):
CAACAAATGAC
Found at i:45431788 original size:26 final size:26
Alignment explanation
Indices: 45431751--45431834 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
45431741 TGATACAAAT
* *
45431751 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45431777 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45431803 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45431829 TGATAA
1 TGATAA
45431835 GAATTTCATG
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:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:45433352 original size:26 final size:26
Alignment explanation
Indices: 45433323--45433375 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45433313 TTTACAGTTT
45433323 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
45433349 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
45433375 T
1 T
45433376 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:45438813 original size:26 final size:26
Alignment explanation
Indices: 45438776--45438833 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
45438766 TGATACAAAT
45438776 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
45438802 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
45438828 TGATAA
1 TGATAA
45438834 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:45440595 original size:145 final size:145
Alignment explanation
Indices: 45440332--45440607 Score: 516
Period size: 145 Copynumber: 1.9 Consensus size: 145
45440322 AACTCAAGGT
* *
45440332 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
45440397 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
45440462 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
45440477 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
45440542 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
45440607 A
131 A
45440608 CTTTAAACTC
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 127 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:45440651 original size:29 final size:29
Alignment explanation
Indices: 45440588--45440655 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
45440578 TAATCAACCG
45440588 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
45440617 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
45440646 CGCACACTTA
1 CGCACACTTA
45440656 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:45440794 original size:29 final size:30
Alignment explanation
Indices: 45440755--45440833 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
45440745 CTTAATAATC
45440755 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
45440785 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
45440814 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45440834 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:45443833 original size:26 final size:26
Alignment explanation
Indices: 45443804--45443856 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
45443794 TTTACAGTTT
45443804 TACCTCTAGGAGATAAATT-ACCGAAA
1 TACCTCTAGG-GATAAATTGACCGAAA
* *
45443830 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCTCTAGGGATAAATTGACCGAAA
45443856 T
1 T
45443857 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCTCTAGGGATAAATTGACCGAAA
Found at i:45445497 original size:20 final size:20
Alignment explanation
Indices: 45445469--45445581 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
45445459 ATTCATTTCT
*
45445469 ATTCGTATAAACTGTAGTTC
1 ATTCGTATAAACAGTAGTTC
* *
45445489 ATTCATATAACCAGTAGTTC
1 ATTCGTATAAACAGTAGTTC
*
45445509 ATCCGTATAAACAGTAGTTC
1 ATTCGTATAAACAGTAGTTC
*
45445529 A-TCAGTA-ATAACAGTAATTC
1 ATTC-GTATA-AACAGTAGTTC
* * *
45445549 ATCCGTATGAACAGTAATTC
1 ATTCGTATAAACAGTAGTTC
* *
45445569 ATCCATATAAACA
1 ATTCGTATAAACA
45445582 CGTATCTTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 74 0.96
21 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (20 bp):
ATTCGTATAAACAGTAGTTC
Found at i:45445527 original size:40 final size:39
Alignment explanation
Indices: 45445472--45445578 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
45445462 CATTTCTATT
* *
45445472 CGTATAAACTGTAGTTCATTCATATAACCAGTAGTTCATC
1 CGTATAAACAGTAGTTCATTCATATAA-CAGTAATTCATC
45445512 CGTATAAACAGTAGTTCA-TCAGTAATAACAGTAATTCATC
1 CGTATAAACAGTAGTTCATTCA-T-ATAACAGTAATTCATC
* * *
45445552 CGTATGAACAGTAATTCATCCATATAA
1 CGTATAAACAGTAGTTCATTCATATAA
45445579 ACACGTATCT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
39 7 0.12
40 46 0.78
41 6 0.10
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (39 bp):
CGTATAAACAGTAGTTCATTCATATAACAGTAATTCATC
Found at i:45445830 original size:24 final size:23
Alignment explanation
Indices: 45445726--45445860 Score: 80
Period size: 23 Copynumber: 5.7 Consensus size: 23
45445716 CCATGAACAC
**
45445726 TAAGCTC-TATTGAGCTGAAACGG
1 TAAGCTCATA-TGAGCTGAAATAG
* *
45445749 TAAGCTC-TATCAAGGTG-AATAG
1 TAAGCTCATAT-GAGCTGAAATAG
* **
45445771 TAACCTCATATGAGCTGAAACGG
1 TAAGCTCATATGAGCTGAAATAG
*
45445794 TAAGCTCCA-ATGAGTTGAAAATAG
1 TAAGCT-CATATGAGCTG-AAATAG
* *
45445818 TAAGCTCTTATGAGCTGATATATCGG
1 TAAGCTCATATGAGCTGA-A-AT-AG
*
45445844 TAAGCTCATACGAGCTG
1 TAAGCTCATATGAGCTG
45445861 TGGTAAATAC
Statistics
Matches: 85, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
22 14 0.16
23 33 0.39
24 20 0.24
25 2 0.02
26 16 0.19
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (23 bp):
TAAGCTCATATGAGCTGAAATAG
Done.