Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 272 of 292
Found at i:78138246 original size:22 final size:23
Alignment explanation
Indices: 78138203--78138246 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
78138193 TAAGGGTGCT
** *
78138203 AATATTTTTTAAAAATTCATTTC
1 AATATTTTAAAAAAAGTCATTTC
78138226 AATATTTTAAAAAAAGT-ATTT
1 AATATTTTAAAAAAAGTCATTT
78138247 AATTTAACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
AATATTTTAAAAAAAGTCATTTC
Found at i:78141300 original size:28 final size:30
Alignment explanation
Indices: 78141258--78141315 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
78141248 GAATTGGATC
78141258 AAATCAAAATTTTATGTAT-GAATTACACA
1 AAATCAAAATTTTATGTATAGAATTACACA
*
78141287 AAATCAAAA-TTTATGTATATAATTACACA
1 AAATCAAAATTTTATGTATAGAATTACACA
78141316 TTCATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTTTATGTATAGAATTACACA
Found at i:78141993 original size:16 final size:16
Alignment explanation
Indices: 78141972--78142018 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
78141962 AAAGATTAAA
78141972 ATATATTTTAATTTTT
1 ATATATTTTAATTTTT
*
78141988 ATATATTTTTTATTTTT
1 ATATA-TTTTAATTTTT
*
78142005 A-A-AATTTAATTTTT
1 ATATATTTTAATTTTT
78142019 TATTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 6 0.22
17 11 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATATTTTAATTTTT
Found at i:78142602 original size:37 final size:36
Alignment explanation
Indices: 78142479--78142613 Score: 108
Period size: 37 Copynumber: 3.6 Consensus size: 36
78142469 ATGTCATTTA
* *
78142479 TGATGTTAAATCAAGCGAACTATTAAAAGATCAAATGTCG
1 TGATGTTAAATCAAGCGAATTA-TAAAA-ATAAAAT-T-G
* * * * ** * *
78142519 TAATCTTAAATCAAGTGAATTGTAAAAATGTCAAGTA
1 TGATGTTAAATCAAGCGAATTATAAAAAT-AAAATTG
* *
78142556 CGATATTAAATCAAGCGAATTATAAAAATAAAAATTG
1 TGATGTTAAATCAAGCGAATTATAAAAAT-AAAATTG
78142593 TGATGTTAAATCAAGCGAATT
1 TGATGTTAAATCAAGCGAATT
78142614 GTCAGAATAT
Statistics
Matches: 73, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
37 46 0.63
38 3 0.04
39 7 0.10
40 17 0.23
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.30
Consensus pattern (36 bp):
TGATGTTAAATCAAGCGAATTATAAAAATAAAATTG
Found at i:78142641 original size:39 final size:37
Alignment explanation
Indices: 78142561--78142641 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 37
78142551 AAGTACGATA
* **
78142561 TTAAATCAAGCGAATTATAAAAATAAAAATTGTGATG
1 TTAAATCAAGCGAATTATAAAAATAAAAATCGCCATG
* * *
78142598 TTAAATCAAGCGAATTGTCAGAATATAAAAATCGCCATT
1 TTAAATCAAGCGAATTAT-A-AAAATAAAAATCGCCATG
78142637 TTAAA
1 TTAAA
78142642 ATTCGAGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
37 17 0.47
38 1 0.03
39 18 0.50
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (37 bp):
TTAAATCAAGCGAATTATAAAAATAAAAATCGCCATG
Found at i:78143276 original size:39 final size:37
Alignment explanation
Indices: 78143219--78143307 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 37
78143209 TGTGTAAAAT
* * * *
78143219 TGAATCAATATTAAAATTTTATATATATATATATATATA
1 TGAATCAAAATTCAAATTTAATATATATA-AT-TACATA
* * *
78143258 TGAATCAAAATTCGAATTTAATATGTATAATTACATC
1 TGAATCAAAATTCAAATTTAATATATATAATTACATA
78143295 T-AATCAAAATTCA
1 TGAATCAAAATTCA
78143308 TATATTAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
36 11 0.26
37 5 0.12
38 2 0.05
39 24 0.57
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.40
Consensus pattern (37 bp):
TGAATCAAAATTCAAATTTAATATATATAATTACATA
Found at i:78143902 original size:17 final size:17
Alignment explanation
Indices: 78143854--78143904 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
78143844 GAAATATTTA
*
78143854 TTTTAATATTTTTATTAT
1 TTTTAATTTTTTTA-TAT
* * *
78143872 TTTTGA-TGTATTATAT
1 TTTTAATTTTTTTATAT
78143888 TTTTAATTTTTTTATAT
1 TTTTAATTTTTTTATAT
78143905 AAAAAACTAA
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
16 8 0.32
17 12 0.48
18 5 0.20
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTTTTATAT
Found at i:78144192 original size:16 final size:16
Alignment explanation
Indices: 78144167--78144207 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
78144157 AGAGTTAAAA
78144167 TATAATTTTATCAT-TT
1 TATAATTTTAT-ATCTT
*
78144183 TATTATTTTATATCTT
1 TATAATTTTATATCTT
78144199 TATAATTTT
1 TATAATTTT
78144208 TAAATGACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (16 bp):
TATAATTTTATATCTT
Found at i:78154059 original size:11 final size:11
Alignment explanation
Indices: 78154024--78154067 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
78154014 ATTCTCTTGG
* *
78154024 TTTTCATTTTT
1 TTTTTATTTCT
78154035 TTATTTAGTTTCT
1 TT-TTTA-TTTCT
78154048 TTTTTATTTCT
1 TTTTTATTTCT
78154059 TTTTTATTT
1 TTTTTATTT
78154068 TTGTTTACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 16 0.55
12 7 0.24
13 6 0.21
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATTTCT
Found at i:78154998 original size:2 final size:2
Alignment explanation
Indices: 78154991--78155026 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
78154981 TTATCTCTTT
78154991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78155027 CCTAATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78155124 original size:2 final size:2
Alignment explanation
Indices: 78155117--78155143 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
78155107 ATTTATGTAT
78155117 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
78155144 TTGATGCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78159236 original size:35 final size:35
Alignment explanation
Indices: 78159197--78159373 Score: 239
Period size: 35 Copynumber: 5.1 Consensus size: 35
78159187 CATGGCAAAA
*
78159197 TTATGACATGTAGGTATGGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
78159232 TTATGACACGTAGGTATGGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
* *
78159267 TAATGACACGTAGGTATGGTATTATTCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
* * * *
78159302 CTATAATACGTAGGTATGGTATT-TCCCATACCGAG
1 TTATGACACGTAGGTATGGTATTAT-CCATACTGAG
* * **
78159337 TTGTGAAACGTAGGTATGGTATTAAACATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
78159372 TT
1 TT
78159374 GTGAATCATG
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
34 1 0.01
35 123 0.99
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (35 bp):
TTATGACACGTAGGTATGGTATTATCCATACTGAG
Found at i:78162376 original size:30 final size:32
Alignment explanation
Indices: 78162333--78162396 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
78162323 CTGTGCCAAC
78162333 AATAGGACCAAATT-TTAAAATCTAAAAA-ATA
1 AATAGGACCAAATTCTTAAAA-CTAAAAATATA
* *
78162364 AATA-GACTAAATTCTTAAAAGTAAAAATATA
1 AATAGGACCAAATTCTTAAAACTAAAAATATA
78162395 AA
1 AA
78162397 AATTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (32 bp):
AATAGGACCAAATTCTTAAAACTAAAAATATA
Found at i:78169978 original size:16 final size:16
Alignment explanation
Indices: 78169957--78170016 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
78169947 TTTGGTTAAG
78169957 TGTAATGGAATAAGGT
1 TGTAATGGAATAAGGT
* ***
78169973 TGTAATGAAATAAAAC
1 TGTAATGGAATAAGGT
* *
78169989 TGTAATAGAATAGGGT
1 TGTAATGGAATAAGGT
78170005 TGTAATGGAATA
1 TGTAATGGAATA
78170017 GAACTGTAAT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAAGGT
Found at i:78170000 original size:32 final size:32
Alignment explanation
Indices: 78169957--78170060 Score: 140
Period size: 32 Copynumber: 3.2 Consensus size: 32
78169947 TTTGGTTAAG
* *
78169957 TGTAATGGAATAAGGTTGTAATGAAATAAAAC
1 TGTAATAGAATAAGGTTGTAATGAAATAGAAC
* *
78169989 TGTAATAGAATAGGGTTGTAATGGAATAGAAC
1 TGTAATAGAATAAGGTTGTAATGAAATAGAAC
78170021 TGTAATAGAAT-AGAGTTGTAAT-AGAATAGAAC
1 TGTAATAGAATAAG-GTTGTAATGA-AATAGAAC
78170053 TGTAATAG
1 TGTAATAG
78170061 CAATTCAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
31 1 0.02
32 63 0.98
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (32 bp):
TGTAATAGAATAAGGTTGTAATGAAATAGAAC
Found at i:78170017 original size:16 final size:16
Alignment explanation
Indices: 78169989--78170060 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 16
78169979 GAAATAAAAC
*
78169989 TGTAATAGAATAGGGT
1 TGTAATAGAATAGAGT
* **
78170005 TGTAATGGAATAGAAC
1 TGTAATAGAATAGAGT
78170021 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAGT
**
78170037 TGTAATAGAATAGAAC
1 TGTAATAGAATAGAGT
78170053 TGTAATAG
1 TGTAATAG
78170061 CAATTCAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:78170295 original size:61 final size:60
Alignment explanation
Indices: 78170230--78170382 Score: 150
Period size: 58 Copynumber: 2.5 Consensus size: 60
78170220 TTTAATAGGA
** *
78170230 TTATTATTAGATATAATTTAATAAAAATAATAATACATAATTTAACCCTATT-TTAATAAAT
1 TTATTATTA-ATATAA-TTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
* * * *
78170291 TTATTATTAATTATAATT--TAACAATAATAATATATAATTTAATAATATTCTTAATATAG
1 TTATTATTAA-TATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
**
78170350 CAATTATTAAAATATAAATTAATAAAAATAATA
1 TTATTATT--AATAT-AATTAATAAAAATAATA
78170383 TATAATATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
58 26 0.35
59 13 0.17
60 6 0.08
61 20 0.27
63 10 0.13
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (60 bp):
TTATTATTAATATAATTAATAAAAATAATAATACATAATTTAACAATATTCTTAATAAAG
Found at i:78170326 original size:21 final size:20
Alignment explanation
Indices: 78170298--78170337 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
78170288 AATTTATTAT
78170298 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
78170318 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
78170338 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:78170398 original size:22 final size:21
Alignment explanation
Indices: 78170361--78170406 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
78170351 AATTATTAAA
78170361 ATATAAATTAATAAAAATAAT
1 ATATAAATTAATAAAAATAAT
78170382 ATATAATATTACA-AAAAATAAT
1 ATATAA-ATTA-ATAAAAATAAT
78170404 ATA
1 ATA
78170407 CAACCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAATTAATAAAAATAAT
Found at i:78172823 original size:35 final size:35
Alignment explanation
Indices: 78172779--78172946 Score: 176
Period size: 35 Copynumber: 4.6 Consensus size: 35
78172769 TCCTCATTGA
** *
78172779 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* ***
78172814 AATGCCATACCTACATTTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACA-TTTCACAACTCAGTAT-G----GAT
*
78172855 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
78172890 AATACCATACCTACATTTCACAAATCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
78172925 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
78172947 CTTTCCATGG
Statistics
Matches: 116, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
35 71 0.61
36 16 0.14
39 1 0.01
40 14 0.12
41 14 0.12
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:78176722 original size:31 final size:31
Alignment explanation
Indices: 78176687--78176750 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
78176677 CCTTTTCATG
*
78176687 TTTCATATTCCATAACATTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
78176718 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
78176749 TT
1 TT
78176751 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:78176993 original size:24 final size:24
Alignment explanation
Indices: 78176942--78177084 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
78176932 GCTTTATCAT
*
78176942 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
78176967 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
78176991 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
78177014 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
78177038 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
78177062 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
78177085 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:78177021 original size:47 final size:48
Alignment explanation
Indices: 78176942--78177083 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
78176932 GCTTTATCAT
* *
78176942 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
78176991 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
78177038 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
78177084 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:78177042 original size:71 final size:72
Alignment explanation
Indices: 78176941--78177084 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
78176931 TGCTTTATCA
*
78176941 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
78177006 GCCCTTT
66 GCCCTTT
* * **
78177013 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
78177076 AGCCCTTT
65 AGCCCTTT
78177084 T
1 T
78177085 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:78177159 original size:20 final size:20
Alignment explanation
Indices: 78177134--78177194 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
78177124 TTATGATTAC
78177134 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
78177154 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
78177174 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
78177194 A
1 A
78177195 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78177269 original size:25 final size:25
Alignment explanation
Indices: 78177237--78177284 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
78177227 ATACATAAAC
* * *
78177237 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
78177262 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
78177285 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:78178594 original size:27 final size:27
Alignment explanation
Indices: 78178523--78178857 Score: 419
Period size: 27 Copynumber: 12.5 Consensus size: 27
78178513 AGGTATTTTA
* *
78178523 GTAATTTTGTAAATCG-GGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78178549 GTAATTC--TAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78178574 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
78178601 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78178628 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78178655 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78178682 GTAATTATGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
78178709 ATAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
78178736 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
78178763 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
78178790 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78178817 GTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
78178844 GTAATTCTATAAAT
1 GTAATTCTGTAAAT
78178858 TGGGAGTACT
Statistics
Matches: 273, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.02
25 17 0.06
26 10 0.04
27 237 0.87
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78181666 original size:30 final size:31
Alignment explanation
Indices: 78181632--78181695 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
78181622 CCTTTTCATA
78181632 TTTTCATA-TTCATAACACTGGGCCGAAGCC
1 TTTTCATATTTCATAACACTGGGCCGAAGCC
**
78181662 TTTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTTCATATTTCATAACACTGGGCCGAAGCC
78181693 TTT
1 TTT
78181696 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:78181939 original size:24 final size:24
Alignment explanation
Indices: 78181888--78182030 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
78181878 GCTTTATCAT
*
78181888 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
78181913 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
78181937 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
78181960 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
78181984 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
78182008 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
78182031 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:78181967 original size:47 final size:48
Alignment explanation
Indices: 78181888--78182029 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
78181878 GCTTTATCAT
* *
78181888 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
78181937 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
78181984 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
78182030 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:78181988 original size:71 final size:72
Alignment explanation
Indices: 78181887--78182030 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
78181877 TGCTTTATCA
*
78181887 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
78181952 GCCCTTT
66 GCCCTTT
* * **
78181959 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
78182022 AGCCCTTT
65 AGCCCTTT
78182030 T
1 T
78182031 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:78182105 original size:20 final size:20
Alignment explanation
Indices: 78182080--78182158 Score: 117
Period size: 20 Copynumber: 4.0 Consensus size: 20
78182070 TTATGATTAC
78182080 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
78182100 ATCATGT--ATATCATACAT
1 ATCATGTGCATATCATACAT
*
78182118 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
78182138 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
78182158 A
1 A
78182159 CCATATTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
18 17 0.31
20 37 0.69
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78182233 original size:25 final size:25
Alignment explanation
Indices: 78182201--78182248 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
78182191 ATACATAAAC
* * *
78182201 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
78182226 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
78182249 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:78183534 original size:27 final size:27
Alignment explanation
Indices: 78183480--78183815 Score: 441
Period size: 27 Copynumber: 12.6 Consensus size: 27
78183470 GGGTATTTTA
* *
78183480 GTAATTTTGTAAATCG-GGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78183506 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78183533 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
78183560 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
78183587 GTAATTCTGTAAATCGAGGGTAAAA-G
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78183613 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78183640 GTAATTATGTAAATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
78183666 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
78183693 GT-ATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
78183719 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
78183746 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78183773 GTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
78183800 GTAATTCTATAAATCG
1 GTAATTCTGTAAATCG
78183816 GGTACTTTGG
Statistics
Matches: 276, Mismatches: 26, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
25 1 0.00
26 86 0.31
27 185 0.67
28 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78183573 original size:54 final size:54
Alignment explanation
Indices: 78183480--78183815 Score: 441
Period size: 53 Copynumber: 6.3 Consensus size: 54
78183470 GGGTATTTTA
* * * *
78183480 GTAATTTTGTAAATCG-GGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
78183533 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
78183587 GTAATTCTGTAAATCGAGGGTAAAA-GATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * **
78183640 GTAATTATGTAAATTG-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
78183693 GT-ATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
78183746 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
*
78183800 GTAATTCTATAAATCG
1 GTAATTCTGTAAATCG
78183816 GGTACTTTGG
Statistics
Matches: 248, Mismatches: 28, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
52 18 0.07
53 118 0.48
54 111 0.45
55 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78185874 original size:43 final size:42
Alignment explanation
Indices: 78185827--78186273 Score: 290
Period size: 43 Copynumber: 10.5 Consensus size: 42
78185817 GGTTCAACTG
78185827 TTCCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGT
1 TTCCCTACTGCTTAGG-GGTTAAGATCTTCATCTTCGATCTGT
* * * *
78185870 TTCCCTACTGC-TAGGGAGATAAGATCTGCA-ATTCGGTCTGT
1 TTCCCTACTGCTTAGGG-GTTAAGATCTTCATCTTCGATCTGT
* * * * *
78185911 TACCC--C-GATTAGGGTTTAAGACCCTTCGTCTTCGATCTGT
1 TTCCCTACTGCTTAGGGGTTAAGA-TCTTCATCTTCGATCTGT
* *
78185951 TTCCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTC-AGCCTGT
1 TTCCCTACTGCTTAGGGGTTAAGATCT-T-CATCTTCGA-TCTGT
* * * * * *
78185995 TACCCTACTGCTCAGGGGGTTAA-AGCTTGTAAAT-TTGGCT-TGT
1 TTCCCTACTGCTTA-GGGGTTAAGATC-T-T-CATCTTCGATCTGT
* * ** *
78186038 TACCCTACTGCATAGGGGGTTAAAGCCCATCATCTTCGATCTGT
1 TTCCCTACTGCTTA-GGGGTT-AAGATCTTCATCTTCGATCTGT
* *
78186082 TTCCCTACTGCTTAAGGGTTAAGATTTTCATCTTCGATCTGT
1 TTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGT
* * * *
78186124 TTCCCTACTGCTTAGAGAG--AAGATCTGCA-ATTCGGTCTGT
1 TTCCCTACTGCTTAG-GGGTTAAGATCTTCATCTTCGATCTGT
* * * * * * *
78186164 TACCCTACCGATTAGGGTTTAAGACCCTTCGTCTTCGATTTGT
1 TTCCCTACTGCTTAGGGGTTAAGA-TCTTCATCTTCGATCTGT
* * * *
78186207 TTCCCTACTGCTTAGGGGTTAAGATTTGTAAATCTTC-AGCCTGC
1 TTCCCTACTGCTTAGGGGTTAAGATCT-T-CATCTTCGA-TCTGT
*
78186251 TACCCTACTGCTTAGGGGTTAAG
1 TTCCCTACTGCTTAGGGGTTAAG
78186274 GCTTATGAAT
Statistics
Matches: 309, Mismatches: 70, Indels: 49
0.72 0.16 0.11
Matches are distributed among these distances:
38 6 0.02
39 10 0.03
40 34 0.11
41 26 0.08
42 56 0.18
43 90 0.29
44 71 0.23
45 16 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (42 bp):
TTCCCTACTGCTTAGGGGTTAAGATCTTCATCTTCGATCTGT
Found at i:78186163 original size:40 final size:41
Alignment explanation
Indices: 78186072--78186171 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
78186062 GCCCATCATC
* * * *
78186072 TTCGATCTGTTTCCCTACTGCTTAAGGGTTAAGATTTTCATC
1 TTCGATCTGTTTCCCTACTGCTTAAGAG-TAAGATCTGCATA
78186114 TTCGATCTGTTTCCCTACTGCTTAGAGAG-AAGATCTGCA-A
1 TTCGATCTGTTTCCCTACTGCTTA-AGAGTAAGATCTGCATA
* *
78186154 TTCGGTCTGTTACCCTAC
1 TTCGATCTGTTTCCCTAC
78186172 CGATTAGGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
40 16 0.31
41 8 0.16
42 24 0.47
43 3 0.06
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (41 bp):
TTCGATCTGTTTCCCTACTGCTTAAGAGTAAGATCTGCATA
Found at i:78186226 original size:125 final size:125
Alignment explanation
Indices: 78185827--78186233 Score: 463
Period size: 125 Copynumber: 3.2 Consensus size: 125
78185817 GGTTCAACTG
* *
78185827 TTCCCTACTGCTTAGGAGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGC-TAGGGAGATA
1 TTCCCTACTGCTTAGG-GGTTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTA--GAGAGA
78185891 AGATCTGCAATTCGGTCTGTTA-CC--CCGATTAGGGTTTAAGACCCTTCGTCTTCGATCTGT
63 AGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGTTTAAGACCCTTCGTCTTCGATCTGT
** * * * * *
78185951 TTCCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTCAGGGGGT
1 TTCCCTACTGCTTAGGGGTTAAGAT-T-TTCATCTTCGA-TCTGTTTCCCTACTGCTTAGAGAG-
* * * * * * *
78186015 TAA-AGCTTGTAAATTTGG-CTTGTTACCCTACTGCA-TAGGGGGTTAA-AGCCCATCATCTTCG
62 -AAGATC-TG-CAATTCGGTC-TGTTACCCTACCG-ATTA-GGGTTTAAGA-CCCTTCGTCTTCG
78186076 ATCTGT
120 ATCTGT
*
78186082 TTCCCTACTGCTTAAGGGTTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGAGAGAAGA
1 TTCCCTACTGCTTAGGGGTTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGAGAGAAGA
*
78186147 TCTGCAATTCGGTCTGTTACCCTACCGATTAGGGTTTAAGACCCTTCGTCTTCGATTTGT
66 TCTGCAATTCGGTCTGTTACCCTACCGATTAGGGTTTAAGACCCTTCGTCTTCGATCTGT
78186207 TTCCCTACTGCTTAGGGGTTAAGATTT
1 TTCCCTACTGCTTAGGGGTTAAGATTT
78186234 GTAAATCTTC
Statistics
Matches: 230, Mismatches: 33, Indels: 39
0.76 0.11 0.13
Matches are distributed among these distances:
123 9 0.04
124 19 0.08
125 73 0.32
126 27 0.12
127 16 0.07
128 4 0.02
129 26 0.11
130 7 0.03
131 49 0.21
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (125 bp):
TTCCCTACTGCTTAGGGGTTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGAGAGAAGA
TCTGCAATTCGGTCTGTTACCCTACCGATTAGGGTTTAAGACCCTTCGTCTTCGATCTGT
Found at i:78197180 original size:21 final size:22
Alignment explanation
Indices: 78197136--78197178 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
78197126 TGGAGTCGCC
78197136 AAGCTGTCGTAACCATTTTTTT
1 AAGCTGTCGTAACCATTTTTTT
78197158 AAGCTGTCGTAACCATTTTTT
1 AAGCTGTCGTAACCATTTTTT
78197179 AAAAAAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (22 bp):
AAGCTGTCGTAACCATTTTTTT
Found at i:78198876 original size:25 final size:24
Alignment explanation
Indices: 78198821--78198878 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
78198811 ATATATATGT
*
78198821 ATATAATACTAAGTAATAATAATA
1 ATATAATACCAAGTAATAATAATA
*
78198845 ATAATAATACCATGCTAATAAATAA-A
1 AT-ATAATACCAAG-TAAT-AATAATA
78198871 ATATAATA
1 ATATAATA
78198879 ATGATAGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 2 0.07
25 15 0.52
26 7 0.24
27 5 0.17
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATAATACCAAGTAATAATAATA
Found at i:78200274 original size:40 final size:40
Alignment explanation
Indices: 78200219--78200298 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
78200209 CCCATGATGG
78200219 AGTTCATAACAAAGTAAACCATTGTTTTTAAAAAGACTTA
1 AGTTCATAACAAAGTAAACCATTGTTTTTAAAAAGACTTA
78200259 AGTTCATAACAAAGTAAACCATTGTTTTTAAAAAGACTTA
1 AGTTCATAACAAAGTAAACCATTGTTTTTAAAAAGACTTA
78200299 CATTGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (40 bp):
AGTTCATAACAAAGTAAACCATTGTTTTTAAAAAGACTTA
Found at i:78208487 original size:2 final size:2
Alignment explanation
Indices: 78208480--78208508 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78208470 ATTGTTTAAT
78208480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78208509 TTTACGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78210116 original size:3 final size:3
Alignment explanation
Indices: 78210110--78210177 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
78210100 AGGAGGAGAG
78210110 GAA GAA GAA GGAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
78210155 GAA GAA GAA GAA TAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GA
78210178 CAGAGAGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.92
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:78218924 original size:89 final size:89
Alignment explanation
Indices: 78218772--78218981 Score: 264
Period size: 89 Copynumber: 2.4 Consensus size: 89
78218762 ATAAGACTTT
* * *
78218772 TTTTCATTATTAAT-AGCACTACT--AAAAAGAGGTAAAGTAAAGTAGTTTTATTTAATACCTAA
1 TTTT-ATTATTAATGA-CACTACTAAAAAAAAAAGTAAAGTAAAGTAGTTTTATTTAATAACTAA
* * *
78218834 AAGGTTTTTTTATTTTTGGAAACGTA
64 AAAGTTTTGTTATGTTTGGAAACGTA
* *
78218860 TTTTATTATTAATGACACTACTAAAAAAAAAAGTGAAGTAACGTAGTTTTATTTAATAACTAAAA
1 TTTTATTATTAATGACACTACTAAAAAAAAAAGTAAAGTAAAGTAGTTTTATTTAATAACTAAAA
*
78218925 AGTTTTGTTATGTTTGGAAATGTA
66 AGTTTTGTTATGTTTGGAAACGTA
* * *
78218949 TTTCATTATTAATGATACTATTTAAAAAAAAAA
1 TTTTATTATTAATGACACTA-CTAAAAAAAAAA
78218982 AAAGGTGAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 16 0.15
88 5 0.05
89 74 0.70
90 11 0.10
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (89 bp):
TTTTATTATTAATGACACTACTAAAAAAAAAAGTAAAGTAAAGTAGTTTTATTTAATAACTAAAA
AGTTTTGTTATGTTTGGAAACGTA
Found at i:78219054 original size:76 final size:76
Alignment explanation
Indices: 78218916--78219056 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 76
78218906 TTTTATTTAA
* *
78218916 TAACTAAAAAGTTTTGTTATGTTTGGAAATGTATTTCATTATTAATGATACTATTTAAAAAAAAA
1 TAACTAAAAAGTTTTGTTATGTTTGGAAATGTATTTCATTATTAATGACACTAGTTAAAAAAAAA
78218981 AAAAGGTGAAG
66 AAAAGGTGAAG
*
78218992 TAACATAAAAAGTTTT-TTATGTTTGGAAATGTA-TTCTATTATTAATGACACT-GTTAAGAAAA
1 TAAC-TAAAAAGTTTTGTTATGTTTGGAAATGTATTTC-ATTATTAATGACACTAGTTAAAAAAA
78219054 AAA
64 AAA
78219057 GGTTAAGTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
75 14 0.23
76 35 0.58
77 11 0.18
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (76 bp):
TAACTAAAAAGTTTTGTTATGTTTGGAAATGTATTTCATTATTAATGACACTAGTTAAAAAAAAA
AAAAGGTGAAG
Found at i:78219177 original size:96 final size:90
Alignment explanation
Indices: 78219004--78219399 Score: 425
Period size: 88 Copynumber: 4.4 Consensus size: 90
78218994 ACATAAAAAG
* *
78219004 TTTTTTATGTTTGGAAATGTATTCTATTATTAATGACACTGTTAAGAAAAAAAGGTTAAGTAACG
1 TTTTTTATGTTTGGAAATGTATTCTATTATTAATGACAC---TAATAAAAAAAGGTGAAGTAACG
78219069 TAATTTTATTTAATACCTAAAAAGTTTTTTTTTT
63 TAATTTTATTTAATACCTAAAAA------TTTTT
* * * *
78219103 TTTTTTATGTTTTGAAATGTATTCTATTATTAATCACACTAATAAAAAATGGTGGAGTAACGTAA
1 TTTTTTATGTTTGGAAATGTATTCTATTATTAATGACACTAATAAAAAAAGGTGAAGTAACGTAA
*
78219168 TTTTATTTAATACCT-AAAA-TGTT
66 TTTTATTTAATACCTAAAAATTTTT
* * * * * *
78219191 TTTTTTATGTTTGGAAATGTATTTTTTTATTAATGAGACTATTAAAAAAATGTAAAGTAACGTAG
1 TTTTTTATGTTTGGAAATGTATTCTATTATTAATGACACTAATAAAAAAAGGTGAAGTAACGTA-
* *
78219256 TTTTTTATTTAATAACT----A-TTTT
65 -ATTTTATTTAATACCTAAAAATTTTT
* *
78219278 TTTTTTATGTTTGGAAATGTATTTCTATTATTAATGACACTATTAAAAAAAAGTGAAGTAACGTA
1 TTTTTTATGTTTGGAAATGTA-TTCTATTATTAATGACACTAATAAAAAAAGGTGAAGTAACGTA
*
78219343 GTTTTATTTAATACCT---AATTTTT
65 ATTTTATTTAATACCTAAAAATTTTT
* *
78219366 TTTTTTAATCTTTGGAAATGTATTCCATTATTAA
1 TTTTTT-ATGTTTGGAAATGTATTCTATTATTAA
78219400 AAAAGTGAAG
Statistics
Matches: 262, Mismatches: 29, Indels: 23
0.83 0.09 0.07
Matches are distributed among these distances:
86 14 0.05
87 26 0.10
88 116 0.44
89 14 0.05
90 14 0.05
95 4 0.02
96 37 0.14
99 37 0.14
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.47
Consensus pattern (90 bp):
TTTTTTATGTTTGGAAATGTATTCTATTATTAATGACACTAATAAAAAAAGGTGAAGTAACGTAA
TTTTATTTAATACCTAAAAATTTTT
Found at i:78221323 original size:3 final size:3
Alignment explanation
Indices: 78221315--78221368 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
78221305 AACCTTCACA
* * * *
78221315 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
78221360 TAT TAT TAT
1 TAT TAT TAT
78221369 ACTTATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:78221473 original size:18 final size:17
Alignment explanation
Indices: 78221426--78221479 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
78221416 TTATTGTACG
*
78221426 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
78221442 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
78221460 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
78221479 T
1 T
78221480 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:78222091 original size:17 final size:17
Alignment explanation
Indices: 78222071--78222123 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
78222061 TCGGATCCCA
78222071 AAAATTTTCGTGTTTTC
1 AAAATTTTCGTGTTTTC
*
78222088 AAAATTTTCGTGTTTTAA
1 AAAATTTTCGTGTTTT-C
*
78222106 AAAATTATCGT-TTTTC
1 AAAATTTTCGTGTTTTC
78222122 AA
1 AA
78222124 TCGGATCACG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 20 0.62
18 10 0.31
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTC
Found at i:78224008 original size:2 final size:2
Alignment explanation
Indices: 78224001--78224029 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78223991 AATTAGACAC
78224001 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78224030 TCAATTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78226033 original size:22 final size:18
Alignment explanation
Indices: 78225994--78226028 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
78225984 CTGTGATATC
78225994 ATTTATTTCCTAATTATA
1 ATTTATTTCCTAATTATA
78226012 ATTTATTTCCTAATTAT
1 ATTTATTTCCTAATTAT
78226029 CTATACGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATTTCCTAATTATA
Found at i:78226828 original size:78 final size:78
Alignment explanation
Indices: 78226699--78226850 Score: 286
Period size: 78 Copynumber: 1.9 Consensus size: 78
78226689 CAGAATCTGA
78226699 ATATATCGGACCGTGTATGTTTAAACCACATAAGGGAGAAAACACCAACAGTGACCTATATTTGA
1 ATATATCGGACCGTGTATGTTTAAACCACATAAGGGAGAAAACACCAACAGTGACCTATATTTGA
78226764 CAAAGACAAATTT
66 CAAAGACAAATTT
* *
78226777 ATATATCGGACCGTGTATGTTTAAACCGCATAAGGGCGAAAACACCAACAGTGACCTATATTTGA
1 ATATATCGGACCGTGTATGTTTAAACCACATAAGGGAGAAAACACCAACAGTGACCTATATTTGA
78226842 CAAAGACAA
66 CAAAGACAA
78226851 TTAATCACGC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (78 bp):
ATATATCGGACCGTGTATGTTTAAACCACATAAGGGAGAAAACACCAACAGTGACCTATATTTGA
CAAAGACAAATTT
Found at i:78233942 original size:20 final size:20
Alignment explanation
Indices: 78233917--78233971 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
78233907 ACATGGGCAG
*
78233917 GCCACACGGGCATGTTCCAA
1 GCCACACGGGCATGTCCCAA
*
78233937 GCCACACGGGCGTGTCCCAA
1 GCCACACGGGCATGTCCCAA
*
78233957 ACCACACGGGCATGT
1 GCCACACGGGCATGT
78233972 GCCCCTATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.36, G:0.27, T:0.13
Consensus pattern (20 bp):
GCCACACGGGCATGTCCCAA
Found at i:78235742 original size:20 final size:20
Alignment explanation
Indices: 78235705--78235742 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78235695 TTATCATACA
*
78235705 TATTAAATAATAATTTCAAC
1 TATTAAATAATAAGTTCAAC
*
78235725 TATTAAATATTAAGTTCA
1 TATTAAATAATAAGTTCA
78235743 GATTATAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (20 bp):
TATTAAATAATAAGTTCAAC
Found at i:78235935 original size:12 final size:11
Alignment explanation
Indices: 78235895--78235935 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
78235885 TTAATATTTA
78235895 AATTTCTTATTC
1 AATTTC-TATTC
78235907 AATTTCTATTC
1 AATTTCTATTC
*
78235918 AATTTCTACTTT
1 AATTTCTA-TTC
78235930 AATTTC
1 AATTTC
78235936 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:78236407 original size:2 final size:2
Alignment explanation
Indices: 78236400--78236444 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
78236390 TCTTTTATGT
78236400 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78236442 TA T
1 TA T
78236445 TTATTCTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:78236763 original size:17 final size:18
Alignment explanation
Indices: 78236735--78236769 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
78236725 AATTTAATTA
78236735 TTTTATCTAAAAAATATC
1 TTTTATCTAAAAAATATC
78236753 TTTTA-CTAAAAAATATC
1 TTTTATCTAAAAAATATC
78236770 ACAAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTTATCTAAAAAATATC
Found at i:78238607 original size:26 final size:26
Alignment explanation
Indices: 78238536--78238608 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
78238526 GGGTGTGGTG
* * *
78238536 CCTATCTAATAGGCGGCACCAGTGACC
1 CCTATCTGATAGGCGACA-CAGTGACA
* * * *
78238563 CCTATCTGATAAGCAACACTGTGATA
1 CCTATCTGATAGGCGACACAGTGACA
78238589 CCTATCTGATAGGCGACACA
1 CCTATCTGATAGGCGACACA
78238609 TCTAGTATTT
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (26 bp):
CCTATCTGATAGGCGACACAGTGACA
Found at i:78240053 original size:22 final size:22
Alignment explanation
Indices: 78240028--78240070 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
78240018 TATCCAAACA
78240028 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
78240050 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
78240071 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:78240074 original size:11 final size:11
Alignment explanation
Indices: 78240035--78240075 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
78240025 ACAATAACAA
78240035 CAAAATAGTAG
1 CAAAATAGTAG
* *
78240046 CAACATAATAG
1 CAAAATAGTAG
*
78240057 TAAAATAGTAG
1 CAAAATAGTAG
78240068 CAAAATAG
1 CAAAATAG
78240076 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:78240662 original size:12 final size:12
Alignment explanation
Indices: 78240642--78240683 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
78240632 AGCCACCCCG
78240642 TTACTTTTTGTA
1 TTACTTTTTGTA
* *
78240654 TTTCTTTTTTTA
1 TTACTTTTTGTA
78240666 TTACTTTTT-T-
1 TTACTTTTTGTA
78240676 TTACTTTT
1 TTACTTTT
78240684 GTCATATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 8 0.30
11 1 0.04
12 18 0.67
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (12 bp):
TTACTTTTTGTA
Found at i:78240683 original size:9 final size:11
Alignment explanation
Indices: 78240642--78240683 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
78240632 AGCCACCCCG
78240642 TTACTTTTTGTA
1 TTACTTTTT-TA
*
78240654 TTTCTTTTTTTA
1 TTAC-TTTTTTA
78240666 TTACTTTTTT-
1 TTACTTTTTTA
78240676 TTACTTTT
1 TTACTTTT
78240684 GTCATATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 8 0.30
11 6 0.22
12 8 0.30
13 5 0.19
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (11 bp):
TTACTTTTTTA
Found at i:78240847 original size:21 final size:20
Alignment explanation
Indices: 78240823--78240871 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
78240813 TGAAATTATT
* *
78240823 TTTTTTGAATTTTAAATATAA
1 TTTTTTAAATATTAAATAT-A
*
78240844 TTTTTAAAATATTAAATATA
1 TTTTTTAAATATTAAATATA
78240864 TTTTTTAA
1 TTTTTTAA
78240872 TAATATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTTTAAATATTAAATATA
Found at i:78240880 original size:21 final size:21
Alignment explanation
Indices: 78240834--78240877 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
78240824 TTTTTGAATT
78240834 TTAAATATAATTTTTAAAATA
1 TTAAATATAATTTTTAAAATA
*
78240855 TTAAATATATTTTTTAATAATA
1 TTAAATATAATTTTTAA-AATA
78240877 T
1 T
78240878 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATATAATTTTTAAAATA
Found at i:78240959 original size:20 final size:21
Alignment explanation
Indices: 78240934--78240977 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
78240924 GTTTTATAAT
*
78240934 ATTTTAAAT-ATATATTTTAA
1 ATTTTAAATAAAATATTTTAA
78240954 ATTTTAAATAAAATATTTTAA
1 ATTTTAAATAAAATATTTTAA
78240975 ATT
1 ATT
78240978 ATTTTTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTAAATAAAATATTTTAA
Found at i:78241044 original size:19 final size:20
Alignment explanation
Indices: 78241022--78241064 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
78241012 TAATTAAAAG
* *
78241022 TTAAAAAAG-AATATTTTAT
1 TTAAAAAAGTAAAATTTGAT
78241041 TTAAAAAAGTAAAATTTGAT
1 TTAAAAAAGTAAAATTTGAT
78241061 TTAA
1 TTAA
78241065 TTAGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
TTAAAAAAGTAAAATTTGAT
Found at i:78241175 original size:20 final size:19
Alignment explanation
Indices: 78241119--78241194 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 19
78241109 ATATTAAAAA
* *
78241119 TTAAAA-ATTTAAATTAAA
1 TTAAAATATTTAAAATAAT
78241137 TTAAAA-ATTTAAATCATAAT
1 TTAAAATATTTAAA--ATAAT
78241157 TTAAAATATTATAAAATAAAT
1 TTAAAATATT-TAAAAT-AAT
*
78241178 TGAAAAATATTTAAAAT
1 T-TAAAATATTTAAAAT
78241195 TTAATTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 13 0.27
20 11 0.22
21 13 0.27
22 12 0.24
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
TTAAAATATTTAAAATAAT
Found at i:78241302 original size:19 final size:21
Alignment explanation
Indices: 78241263--78241304 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
78241253 TAAAATATTT
*
78241263 AAATATTTTATATTATTAAAA
1 AAATATTTTATAATATTAAAA
78241284 AAATA-TTTATAAT-TTAAAA
1 AAATATTTTATAATATTAAAA
78241303 AA
1 AA
78241305 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATATTTTATAATATTAAAA
Found at i:78241309 original size:12 final size:12
Alignment explanation
Indices: 78241292--78241325 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
78241282 AAAAATATTT
78241292 ATAATTTAAAAA
1 ATAATTTAAAAA
*
78241304 ATAATTAAAAAA
1 ATAATTTAAAAA
78241316 AT-ATTTAAAA
1 ATAATTTAAAA
78241326 TTTAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATTTAAAAA
Found at i:78241335 original size:31 final size:30
Alignment explanation
Indices: 78241277--78241371 Score: 127
Period size: 30 Copynumber: 3.0 Consensus size: 30
78241267 ATTTTATATT
*
78241277 ATTAAAAAAATATTTATAATTTAAAAAATA
1 ATTAAAAAAATATTTAAAATTTAAAAAATA
78241307 ATTAAAAAAATATTTAAAATTTAGAAAAATA
1 ATTAAAAAAATATTTAAAATTTA-AAAAATA
*
78241338 ATTTCAAATATATATATTTAAAATTTAAAAAATA
1 A-TT-AAA-A-AAATATTTAAAATTTAAAAAATA
78241372 TATATTATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
30 22 0.38
31 8 0.14
32 2 0.03
33 3 0.05
34 8 0.14
35 15 0.26
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (30 bp):
ATTAAAAAAATATTTAAAATTTAAAAAATA
Found at i:78241363 original size:22 final size:24
Alignment explanation
Indices: 78241337--78241399 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 24
78241327 TTAGAAAAAT
78241337 AATTTCAAATATATATATT-T-AA
1 AATTTCAAATATATATATTATAAA
* *
78241359 AATTTAAAAAATATATATTATAAA
1 AATTTCAAATATATATATTATAAA
78241383 ACATTTCAAATATATAT
1 A-ATTTCAAATATATAT
78241400 TTCAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.50
23 1 0.03
24 3 0.09
25 13 0.38
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (24 bp):
AATTTCAAATATATATATTATAAA
Found at i:78241374 original size:20 final size:20
Alignment explanation
Indices: 78241308--78241374 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
78241298 TAAAAAATAA
78241308 TTAAAAAA-ATATTTAAAAT
1 TTAAAAAATATATTTAAAAT
*
78241327 TTAGAAAAATA-ATTTCAAA-
1 TTA-AAAAATATATTTAAAAT
*
78241346 -T---ATATATATTTAAAAT
1 TTAAAAAATATATTTAAAAT
78241362 TTAAAAAATATAT
1 TTAAAAAATATAT
78241375 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 15
0.65 0.07 0.27
Matches are distributed among these distances:
14 4 0.11
15 7 0.19
17 1 0.03
18 1 0.03
19 3 0.08
20 19 0.53
21 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:78241416 original size:23 final size:22
Alignment explanation
Indices: 78241347--78241416 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
78241337 AATTTCAAAT
**
78241347 ATATATATTTAAAATTTAAAAA
1 ATATATATTTAAAATTTTTAAA
** *
78241369 ATATATATTATAAAACATTTCAA
1 ATATATATT-TAAAATTTTTAAA
*
78241392 ATATATATTTCAAATTTTTTAAA
1 ATATATATTT-AAAATTTTTAAA
78241415 AT
1 AT
78241417 TAATAATAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 10 0.27
23 27 0.73
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATATATTTAAAATTTTTAAA
Found at i:78241432 original size:16 final size:15
Alignment explanation
Indices: 78241411--78241459 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
78241401 TCAAATTTTT
*
78241411 TAAAATTAATAATAAA
1 TAAAATAAATAA-AAA
78241427 TAAAATAAATAAAAA
1 TAAAATAAATAAAAA
*
78241442 T-AAATAAATAAAGA
1 TAAAATAAATAAAAA
78241456 TAAA
1 TAAA
78241460 GACAAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 13 0.43
15 6 0.20
16 11 0.37
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:78241459 original size:10 final size:9
Alignment explanation
Indices: 78241421--78241453 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
78241411 TAAAATTAAT
78241421 AATAAATAA
1 AATAAATAA
78241430 AATAAATAAA
1 AATAAAT-AA
78241440 AATAAAT-A
1 AATAAATAA
78241448 AATAAA
1 AATAAA
78241454 GATAAAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:78244180 original size:7 final size:7
Alignment explanation
Indices: 78244168--78244200 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
78244158 TTTATTCAAT
*
78244168 TATTTAC
1 TATTTAA
78244175 TATTTAA
1 TATTTAA
78244182 TATTTAA
1 TATTTAA
78244189 TATTTAA
1 TATTTAA
78244196 TATTT
1 TATTT
78244201 GGTCGTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (7 bp):
TATTTAA
Found at i:78244867 original size:31 final size:31
Alignment explanation
Indices: 78244829--78244903 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
78244819 AATATATAAT
78244829 ATGGACACATAAATAAGTTATGTTCATACTC
1 ATGGACACATAAATAAGTTATGTTCATACTC
*
78244860 ATGGACACATAAATAAGTTATGTTCATACTT
1 ATGGACACATAAATAAGTTATGTTCATACTC
*
78244891 ATTGAC-CATAAAT
1 ATGGACACATAAAT
78244904 TTTTTATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
30 7 0.17
31 35 0.83
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (31 bp):
ATGGACACATAAATAAGTTATGTTCATACTC
Found at i:78252812 original size:20 final size:20
Alignment explanation
Indices: 78252789--78252858 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
78252779 CTAAAAAGTA
78252789 AAAATATTTTTATATTTTTT
1 AAAATATTTTTATATTTTTT
78252809 AAAATATTTTTATATTTTTT
1 AAAATATTTTTATATTTTTT
* *
78252829 AAAATAATTTTA-ATTTTTA
1 AAAATATTTTTATATTTTTT
78252848 AAAATAATTTT
1 AAAAT-ATTTT
78252859 CATAATTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 11 0.24
20 35 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AAAATATTTTTATATTTTTT
Found at i:78253011 original size:7 final size:8
Alignment explanation
Indices: 78252993--78253027 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
78252983 AATAAATAAC
78252993 AAAAATTA
1 AAAAATTA
78253001 AAAAATTA
1 AAAAATTA
*
78253009 AAAAAGATA
1 AAAAA-TTA
78253018 AAAAATTA
1 AAAAATTA
78253026 AA
1 AA
78253028 TCAATAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (8 bp):
AAAAATTA
Found at i:78260759 original size:13 final size:13
Alignment explanation
Indices: 78260741--78260767 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78260731 AATAAACGTT
78260741 AGAAACCTCAACC
1 AGAAACCTCAACC
78260754 AGAAACCTCAACC
1 AGAAACCTCAACC
78260767 A
1 A
78260768 TAAGATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.37, G:0.07, T:0.07
Consensus pattern (13 bp):
AGAAACCTCAACC
Found at i:78262874 original size:23 final size:23
Alignment explanation
Indices: 78262848--78262893 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
78262838 TTAGTATTAT
*
78262848 AATT-TAAATTAATACGAAGTAAA
1 AATTATAAATT-ATACAAAGTAAA
*
78262871 AATTATATATTATACAAAGTAAA
1 AATTATAAATTATACAAAGTAAA
78262894 GGAAAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
AATTATAAATTATACAAAGTAAA
Found at i:78268994 original size:21 final size:21
Alignment explanation
Indices: 78268962--78269007 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
78268952 CACAGGTGAG
78268962 CACACGGACGTGA-GGAGTAGC
1 CACACGGACGTGAGGGA-TAGC
*
78268983 CACAC-GAGCGTGTGGGATAGC
1 CACACGGA-CGTGAGGGATAGC
78269004 CACA
1 CACA
78269008 TAGCCATGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 2 0.09
21 17 0.77
22 3 0.14
ACGTcount: A:0.28, C:0.26, G:0.35, T:0.11
Consensus pattern (21 bp):
CACACGGACGTGAGGGATAGC
Found at i:78270049 original size:17 final size:17
Alignment explanation
Indices: 78270009--78270042 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78269999 AATATTAAAA
* *
78270009 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
78270026 TTATAATTATTATGATT
1 TTATAATTATTATGATT
78270043 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:78271481 original size:39 final size:40
Alignment explanation
Indices: 78271374--78271484 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
78271364 GACCTCGAGT
* **
78271374 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGC
** ** *
78271415 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTA-AGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
78271453 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
78271485 AACTATTCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 20 0.36
39 18 0.32
41 15 0.27
42 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:78271496 original size:39 final size:39
Alignment explanation
Indices: 78271373--78271508 Score: 109
Period size: 39 Copynumber: 3.5 Consensus size: 39
78271363 CGACCTCGAG
* *
78271373 TCGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATA-GAT
1 TCGATGAGACACTGGGTGTCAACT--ATTACTTC-GA-ACTAT
** ** * *
78271414 TCGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAAG
1 TCGATGAGACACTGGGTGTCAACTATTACTTCGAACT-AT
*
78271452 CCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
1 TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
*
78271491 TCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
78271509 CCATATTGGT
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
38 21 0.29
39 31 0.42
40 2 0.03
41 16 0.22
42 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
Found at i:78271633 original size:18 final size:18
Alignment explanation
Indices: 78271610--78271650 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
78271600 GAAAAAAAAA
78271610 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
78271628 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
78271646 AGAAA
1 AGAAA
78271651 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:78272160 original size:20 final size:20
Alignment explanation
Indices: 78272137--78272174 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78272127 GTTATTAAGT
78272137 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
78272157 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
78272175 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:78279708 original size:15 final size:14
Alignment explanation
Indices: 78279690--78279733 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
78279680 ATAATAATTA
78279690 AAATAATAAGAAAAT
1 AAATAATAA-AAAAT
*
78279705 AAATAA-AAACAA-
1 AAATAATAAAAAAT
78279717 AAATAATAAAAAAT
1 AAATAATAAAAAAT
78279731 AAA
1 AAA
78279734 ATAAAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 6 0.24
13 8 0.32
14 5 0.20
15 6 0.24
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (14 bp):
AAATAATAAAAAAT
Found at i:78279734 original size:15 final size:15
Alignment explanation
Indices: 78279609--78279737 Score: 61
Period size: 15 Copynumber: 8.3 Consensus size: 15
78279599 ATAATATTAG
78279609 AATAATAAAATAATAA
1 AATAATAAAA-AATAA
* *
78279625 AATAATGACAAGAATACT
1 AATAAT-A-AAAAATA-A
*
78279643 AATACTAAACAAAATAA
1 AATAAT-AA-AAAATAA
* *
78279660 ACAT-ATTAATAATAA
1 A-ATAATAAAAAATAA
* * *
78279675 GAGTAATAATAATTAA
1 -AATAATAAAAAATAA
78279691 AATAATAAGAAAAT-A
1 AATAATAA-AAAATAA
*
78279706 AAT-A-AAAACA-AA
1 AATAATAAAAAATAA
78279718 AATAATAAAAAATAA
1 AATAATAAAAAATAA
78279733 AATAA
1 AATAA
78279738 AATGAAAGAA
Statistics
Matches: 82, Mismatches: 19, Indels: 25
0.65 0.15 0.20
Matches are distributed among these distances:
12 7 0.09
13 3 0.04
14 6 0.07
15 25 0.30
16 18 0.22
17 8 0.10
18 15 0.18
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.22
Consensus pattern (15 bp):
AATAATAAAAAATAA
Found at i:78286877 original size:26 final size:29
Alignment explanation
Indices: 78286855--78286909 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
78286845 ATATTATGTT
78286855 TTAAA-AATAATTATATTAATTATATATG
1 TTAAATAATAATTATATTAATTATATATG
*
78286883 TTAAATAATAATTATA-TATTTATATAT
1 TTAAATAATAATTATATTAATTATATAT
78286910 ATTGAATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TTAAATAATAATTATATTAATTATATATG
Found at i:78293407 original size:20 final size:20
Alignment explanation
Indices: 78293358--78293407 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
78293348 ATAAAAATAA
*
78293358 TTATATTAATTATATATGTT
1 TTATATTTATTATATATGTT
** * *
78293378 AAATAATTATTATATATTTT
1 TTATATTTATTATATATGTT
78293398 TTATATTTAT
1 TTATATTTAT
78293408 ATTAAATTAT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTATATTTATTATATATGTT
Found at i:78306948 original size:26 final size:26
Alignment explanation
Indices: 78306908--78307043 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
78306898 TGATACAAAT
*
78306908 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
78306934 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
78306960 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
78306986 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
78307012 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
78307038 TGATAA
1 TGATAA
78307044 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:78309072 original size:136 final size:136
Alignment explanation
Indices: 78308828--78309112 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
78308818 GAGTAGTCTC
*
78308828 CCCAAATGGGTTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
78308893 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
78308958 CTGTTA
131 CTGTTA
*
78308964 CCCAAATGGGCTTGCATATGTTATTGATGTTGCGTGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
78309029 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
78309094 CTGTTA
131 CTGTTA
**
78309100 CCTGAATGGGCTT
1 CCCAAATGGGCTT
78309113 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:78311340 original size:21 final size:21
Alignment explanation
Indices: 78311316--78311360 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
78311306 AAGGAAGGTT
78311316 AAAA-TAATATAAAATGAAAAA
1 AAAATTAAT-TAAAATGAAAAA
*
78311337 AAAATTACTTAAAATGAAAAA
1 AAAATTAATTAAAATGAAAAA
78311358 AAA
1 AAA
78311361 TATAGGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAATTAATTAAAATGAAAAA
Found at i:78311944 original size:20 final size:21
Alignment explanation
Indices: 78311919--78311958 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
78311909 ATTATAAGCA
78311919 TTTAACAAT-TCATCCTGTAC
1 TTTAACAATCTCATCCTGTAC
*
78311939 TTTAACAATCTCATCGTGTA
1 TTTAACAATCTCATCCTGTA
78311959 TAAATTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTAACAATCTCATCCTGTAC
Found at i:78319543 original size:43 final size:45
Alignment explanation
Indices: 78319490--78319573 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 45
78319480 TTTTCAATGT
* * *
78319490 TTCAAATTTAATT-TTTATACTTTTATTTTTAATA-ATTTTAAAA
1 TTCAAATTTAATTATTAATAATATTATTTTTAATATATTTTAAAA
* *
78319533 TTCAAGTTTAATTATTAATAATATTATTTTTATTATATTTT
1 TTCAAATTTAATTATTAATAATATTATTTTTAATATATTTT
78319574 TATTAAATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 12 0.35
44 17 0.50
45 5 0.15
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (45 bp):
TTCAAATTTAATTATTAATAATATTATTTTTAATATATTTTAAAA
Found at i:78327622 original size:94 final size:94
Alignment explanation
Indices: 78327478--78327854 Score: 738
Period size: 94 Copynumber: 4.0 Consensus size: 94
78327468 TTTAACTATA
78327478 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
1 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
78327543 TATCAATAATATTTTTATAATAGGGTTCT
66 TATCAATAATATTTTTATAATAGGGTTCT
78327572 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAAC-AAAAAAAT
1 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
78327636 TATCAATAATATTTTTATAATAGGGTTCT
66 TATCAATAATATTTTTATAATAGGGTTCT
78327665 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
1 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
78327730 TATCAATAATATTTTTATAATAGGGTTCT
66 TATCAATAATATTTTTATAATAGGGTTCT
*
78327759 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAA
1 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
78327824 TATCAATAATATTTTTATAATAGGGTTCT
66 TATCAATAATATTTTTATAATAGGGTTCT
78327853 TA
1 TA
78327855 TTCTTTTAAA
Statistics
Matches: 281, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
93 93 0.33
94 188 0.67
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (94 bp):
TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
TATCAATAATATTTTTATAATAGGGTTCT
Found at i:78327793 original size:187 final size:188
Alignment explanation
Indices: 78327478--78327854 Score: 738
Period size: 187 Copynumber: 2.0 Consensus size: 188
78327468 TTTAACTATA
78327478 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
1 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
78327543 TATCAATAATATTTTTATAATAGGGTTCTTAATTAGATTGAAGTTGAATTTAACCAATAATTAAT
66 TATCAATAATATTTTTATAATAGGGTTCTTAATTAGATTGAAGTTGAATTTAACCAATAATTAAT
*
78327608 ATTAATTAGTTATGAATAAC-AAAAAAATTATCAATAATATTTTTATAATAGGGTTCT
131 ATTAATTAGTTATGAATAACAAAAAAAAATATCAATAATATTTTTATAATAGGGTTCT
78327665 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
1 TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
78327730 TATCAATAATATTTTTATAATAGGGTTCTTAATTAGATTGAAGTTGAATTTAACCAATAATTAAT
66 TATCAATAATATTTTTATAATAGGGTTCTTAATTAGATTGAAGTTGAATTTAACCAATAATTAAT
78327795 ATTAATTAGTTATGAATAACAAAAAAAAATATCAATAATATTTTTATAATAGGGTTCT
131 ATTAATTAGTTATGAATAACAAAAAAAAATATCAATAATATTTTTATAATAGGGTTCT
78327853 TA
1 TA
78327855 TTCTTTTAAA
Statistics
Matches: 188, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
187 150 0.80
188 38 0.20
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (188 bp):
TAATTAGATTGAAGTTGAATTTAACCAATAATTAATATTAATTAGTTATGAATAACAAAAAAAAT
TATCAATAATATTTTTATAATAGGGTTCTTAATTAGATTGAAGTTGAATTTAACCAATAATTAAT
ATTAATTAGTTATGAATAACAAAAAAAAATATCAATAATATTTTTATAATAGGGTTCT
Found at i:78343616 original size:19 final size:21
Alignment explanation
Indices: 78343575--78343623 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
78343565 CTCAATGAAT
78343575 ATAAACAATTTATTATTTCAA
1 ATAAACAATTTATTATTTCAA
78343596 ATAAACTAATTTA-TA-TT-AA
1 ATAAAC-AATTTATTATTTCAA
78343615 ATAAA-AATT
1 ATAAACAATT
78343624 AAGGACTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.15
19 7 0.26
20 2 0.07
21 8 0.30
22 6 0.22
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAACAATTTATTATTTCAA
Found at i:78352840 original size:3 final size:3
Alignment explanation
Indices: 78352827--78352871 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
78352817 CTTTCGTAGC
*
78352827 ATT ATTT ATT ATT A-T ATT AATT GTT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT AT
78352872 ATATATACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:78352913 original size:25 final size:24
Alignment explanation
Indices: 78352857--78352924 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
78352847 TTGTTATTAT
*
78352857 TATTATTATTATTATATATATACATG
1 TATT-TTATTATTAT-TATATACATA
**
78352883 CCTTTTATTATTATTCATATACATA
1 TATTTTATTATTATT-ATATACATA
*
78352908 TATTTTAAATATTATTA
1 TATTTT-ATTATTATTA
78352925 CCATTATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.03
25 23 0.68
26 10 0.29
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (24 bp):
TATTTTATTATTATTATATACATA
Found at i:78355126 original size:16 final size:15
Alignment explanation
Indices: 78355101--78355131 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
78355091 CCTCTTGAGC
78355101 AAAAAGAGGAGGAAA
1 AAAAAGAGGAGGAAA
78355116 AAAAGAGAGGAGGAAA
1 AAAA-AGAGGAGGAAA
78355132 TCAACTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AAAAAGAGGAGGAAA
Found at i:78361124 original size:39 final size:40
Alignment explanation
Indices: 78360959--78361125 Score: 91
Period size: 39 Copynumber: 4.1 Consensus size: 40
78360949 TAATAAGAAT
* *
78360959 AATATTAAAGTAAAGTAA-AC---AATAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
* * *
78360995 AATATATATATATGTATA-TAATAGAAATACACACTACTATATAATAA
1 AATAT-TA-A-AT-TAAAGTAATACAAA-A-ACAATACTATAT-AT-A
* * * *
78361042 TAATAATAAA-TATAGAAATACAAAAAGCAA-A-TATAATAAA
1 -AATATTAAATTAAAGTAATACAAAAA-CAATACTAT-ATATA
78361082 AATATTAAATTAAAGTAATA-AAAAACAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
78361121 AATAT
1 AATAT
78361126 ATATATATAT
Statistics
Matches: 98, Mismatches: 14, Indels: 35
0.67 0.10 0.24
Matches are distributed among these distances:
36 5 0.05
37 2 0.02
38 4 0.04
39 27 0.28
40 16 0.16
41 4 0.04
42 4 0.04
43 7 0.07
44 8 0.08
45 11 0.11
46 3 0.03
47 3 0.03
48 4 0.04
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (40 bp):
AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
Found at i:78361383 original size:3 final size:3
Alignment explanation
Indices: 78361365--78361452 Score: 60
Period size: 3 Copynumber: 28.7 Consensus size: 3
78361355 ATGGAGAGGG
78361365 AAT ATAT AAT -AT AAT AAT -AT AAAT AAT AAT ATAT ACAT GAGA- AAT
1 AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT A-AT -A-AT AAT
* *
78361410 AAT AAT AAT AAT -AT AAAT AAT AGT AAA AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
78361453 AACAAAGCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
2 9 0.13
3 46 0.67
4 12 0.17
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:78361390 original size:12 final size:12
Alignment explanation
Indices: 78361368--78361449 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 12
78361358 GAGAGGGAAT
78361368 ATATAATATAATA
1 ATATAA-ATAATA
78361381 ATATAAATAATA
1 ATATAAATAATA
78361393 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
78361408 ATA-ATAATAATA
1 ATATA-AATAATA
78361420 ATATAAATAATA
1 ATATAAATAATA
* *
78361432 GTAAAAATAATA
1 ATATAAATAATA
*
78361444 AAATAA
1 ATATAA
78361450 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 36 0.62
13 10 0.17
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:78361440 original size:27 final size:27
Alignment explanation
Indices: 78361368--78361453 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
78361358 GAGAGGGAAT
* *
78361368 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
78361395 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
78361420 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
78361446 ATAATAAA
1 AT-ATAAA
78361454 ACAAAGCTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 7 0.15
26 5 0.11
27 20 0.43
28 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:78361807 original size:21 final size:22
Alignment explanation
Indices: 78361783--78361874 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 22
78361773 ACCTTCTTTC
78361783 CAAAAAAA-CACCTCCAAAAAA
1 CAAAAAAACCACCTCCAAAAAA
*
78361804 CAAAAAAACCTCCTCC--AAAA
1 CAAAAAAACCACCTCCAAAAAA
**
78361824 CAAAGAACAATCCTTCTCCAAAAAA
1 CAAA-AA-AA-CCACCTCCAAAAAA
* * *
78361849 CCAAAAACCCACC-CCGTAAAAA
1 CAAAAAAACCACCTCC-AAAAAA
78361871 CAAA
1 CAAA
78361875 GTCTTGAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
20 8 0.14
21 12 0.21
22 19 0.34
23 8 0.14
24 2 0.04
25 7 0.12
ACGTcount: A:0.57, C:0.33, G:0.02, T:0.09
Consensus pattern (22 bp):
CAAAAAAACCACCTCCAAAAAA
Found at i:78361818 original size:22 final size:22
Alignment explanation
Indices: 78361783--78361855 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 22
78361773 ACCTTCTTTC
*
78361783 CAAAAAAA-CACCTCCAAAAAA
1 CAAAAAAACCTCCTCCAAAAAA
78361804 CAAAAAAACCTCCTCC--AAAA
1 CAAAAAAACCTCCTCCAAAAAA
*
78361824 CAAAGAACAATCCTTCTCCAAAAAA
1 CAAA-AA-AA-CCTCCTCCAAAAAA
*
78361849 CCAAAAA
1 CAAAAAA
78361856 CCCACCCCGT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
20 8 0.19
21 10 0.23
22 8 0.19
23 8 0.19
24 2 0.05
25 7 0.16
ACGTcount: A:0.59, C:0.30, G:0.01, T:0.10
Consensus pattern (22 bp):
CAAAAAAACCTCCTCCAAAAAA
Found at i:78361823 original size:20 final size:23
Alignment explanation
Indices: 78361800--78361846 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
78361790 ACACCTCCAA
78361800 AAAACAAA-AA-AA-CCTCCTCC
1 AAAACAAAGAACAATCCTCCTCC
*
78361820 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAACAATCCTCCTCC
78361843 AAAA
1 AAAA
78361847 AACCAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 2 0.09
23 11 0.48
ACGTcount: A:0.55, C:0.30, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAACAAAGAACAATCCTCCTCC
Found at i:78362376 original size:44 final size:44
Alignment explanation
Indices: 78362302--78363197 Score: 604
Period size: 44 Copynumber: 20.3 Consensus size: 44
78362292 GGCGATATCC
* * * * * *
78362302 GCTATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCT
* **
78362347 GCTATCTTCGATCCGTTCCCTATAAGCACAGGGATACCAAATCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCT
* * * *
78362391 GCTGTTTTC-AACTTATTCCCTATAAGCACAGGGATGTC--ATGCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CT
** * * * * * *
78362434 GAAATCTTCGATTTACTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATCT-GTTCCCTATAAGCACAGGGATGTCAAATCT
* *
78362479 GCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCT
* * * * * *
78362523 GTTGTTTTC-AACTTGTTTCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAATCT
* * * * *
78362567 GATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CT
** * * * * *
78362610 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCT
* *
78362655 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCT
* * * * *
78362699 GATGTTTTC-AACTTATTCCCTATAAGCACAGGGATGTC--ATGCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CT
** * * * * *
78362742 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCT
* *
78362787 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCT
* * * * * *
78362831 GATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCATA-CT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAATCT
** * * * * *
78362874 GAAATCTTCGATTTGCTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCT
* * *
78362919 GCTATTTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCT
* * * *
78362963 GCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CT
** * * * *
78363006 GAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCT
*
78363051 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCT
* * * * *
78363095 GCTGTTTTC-AACTTGCTCCCTATAAGCACAGGGATG-C-CATGCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAAAT-CT
** * ** * * * *
78363138 GAAATCTTGGATCTGCTTCAGTGTAAGCACAGGAATGACAGATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAAATCT
*
78363183 GCTATCTTCGGTCTG
1 GCTATCTTCGATCTG
78363198 CTCCTCTGCA
Statistics
Matches: 664, Mismatches: 153, Indels: 68
0.75 0.17 0.08
Matches are distributed among these distances:
42 10 0.02
43 64 0.10
44 484 0.73
45 96 0.14
46 10 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCT
Found at i:78362567 original size:176 final size:175
Alignment explanation
Indices: 78362302--78363197 Score: 797
Period size: 176 Copynumber: 5.1 Consensus size: 175
78362292 GGCGATATCC
* * * * * * * * * *
78362302 GCTATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGA-TCCGTTCC
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACT-TGTTCC
* * *
78362366 CTATAAGCACAGGGATACCAAATCTGCTGTTTTCAACTTATTCCCTATAAGCACAGGGATGTCAT
64 CTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAT
78362431 GCTGAAATCTTCGATTTACTTCACTGTAAGCACAGGAATGTCAGATCT
129 GCTGAAATCTTCGATTT-CTTCACTGTAAGCACAGGAATGTCAGATCT
* * * * *
78362479 GCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTTCCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCT
*
78362544 ATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
66 ATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
* *
78362609 TGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT
131 TGAAATCTTCGAT-TTCTTCACTGTAAGCACAGGAATGTCAGATCT
* * * *
78362655 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTATTCCCT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCT
* *** * * * * * *
78362720 ATAAGCACAGGGATGTC--ATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCA
66 ATAAGCACAGGGATGCCAAAT-CTGCTGT-TTTCAACTTG-TTCCCTATAAGCACAGGGATGCCA
** * * * * * *
78362782 -GATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
128 TG--CTGAAATCTTCGATTTCTTCACTGTAAGCACAGGAATGTCAGATCT
* * * * * * * * *
78362831 GATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCATA-CTGAAATCTTCGATTTGCTTCA
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTG-TTCC
* * * * * * *
78362894 CTGTAAGCACAGGAATGTCAGATCTGCTATTTTCGATTTGTTCCCTATAAGCACAGGGATGCCAA
64 CTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--
*** * * * * * * * *
78362959 AT-CTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-C-CATGCT
127 ATGCTGAAATCTTCGATTTCTTCACTGTAAGCACAGGAATGTCAGAT-CT
** * * * * * * *
78363006 GAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCTGTTCC
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACT-TGTTCC
*
78363070 CTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGCTCCCTATAAGCACAGGGATGCCAT
64 CTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAT
* * * *
78363135 GCTGAAATCTTGGATCTGCTTCAGTGTAAGCACAGGAATGACAGATCT
129 GCTGAAATCTTCGAT-TTCTTCACTGTAAGCACAGGAATGTCAGATCT
*
78363183 GCTATCTTCGGTCTG
1 GCTATCTTCGATCTG
78363198 CTCCTCTGCA
Statistics
Matches: 584, Mismatches: 111, Indels: 48
0.79 0.15 0.06
Matches are distributed among these distances:
174 6 0.01
175 38 0.07
176 474 0.81
177 61 0.10
178 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (175 bp):
GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCCT
ATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
TGAAATCTTCGATTTCTTCACTGTAAGCACAGGAATGTCAGATCT
Found at i:78362593 original size:132 final size:133
Alignment explanation
Indices: 78362482--78363192 Score: 1155
Period size: 132 Copynumber: 5.4 Consensus size: 133
78362472 CAGATCTGCT
* * * * * * * * * * * *
78362482 ATCTTCGATCCG-TTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTTCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
78362546 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-CCATGCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCCATGCT
78362610 GAA
131 GAA
*
78362613 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
78362678 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTATTCCCTATAAGCACAGGGATGT-CATGCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCCATGCT
78362742 GAA
131 GAA
*
78362745 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
78362810 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-CCATACT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCCATGCT
78362874 GAA
131 GAA
* *
78362877 ATCTTCGATTTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATTTTCGATTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
78362942 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-CCATGCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCCATGCT
78363006 GAA
131 GAA
*
78363009 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
78363074 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGCTCCCTATAAGCACAGGGATG-CCATGCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCCATGCT
78363138 GAA
131 GAA
* * *
78363141 ATCTTGGATCTGCTTCAGTGTAAGCACAGGAATGACAGATCTGCTATCTTCG
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
78363193 GTCTGCTCCT
Statistics
Matches: 549, Mismatches: 28, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
131 10 0.02
132 539 0.98
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (133 bp):
ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCCATGCT
GAA
Found at i:78363354 original size:68 final size:67
Alignment explanation
Indices: 78363245--78363443 Score: 258
Period size: 68 Copynumber: 2.9 Consensus size: 67
78363235 TCTTCTTCCA
* * *
78363245 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAG-CTCTCCAATGCCATTTCAGGAAGAAAAGAT
*
78363310 -TT
65 CCT
* * *
78363312 GCTGAAACTTCAAGGAGATCAGTTGTGGCTTTTAGCTACTCCAACGCCATTTCAGGAAGAAAATA
1 -CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCT-CTCCAATGCCATTTCAGGAAGAAAAGA
78363377 TCCT
64 TCCT
* * *
78363381 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAG-CTCTCCAATGCCATTTCAGGAAGAAAAGA
78363444 AATTTGTAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
67 7 0.06
68 106 0.92
69 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (67 bp):
CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCTCTCCAATGCCATTTCAGGAAGAAAAGATC
CT
Found at i:78363684 original size:132 final size:131
Alignment explanation
Indices: 78363548--78364156 Score: 834
Period size: 132 Copynumber: 4.6 Consensus size: 131
78363538 TAAATTCAAC
* * *
78363548 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
* * *
78363613 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTATTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTTG
78363678 AT
130 AT
* *
78363680 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
* *
78363745 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATTATCTTTGA
66 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTTGA
78363810 T
131 T
*
78363811 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
78363876 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
66 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTTG
78363941 AT
130 AT
* * * *
78363943 CTGTTTCTCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
** * * * * * * * * *
78364005 -GGAGATAAGATCTG-CAATTCAG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCT
65 AGG-TTTAAGGTTTGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCT
*
78364067 TCGAT
127 TTGAT
* *
78364072 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
* * *
78364137 GGCTTAAGGCTTGTGAATTC
66 GGTTTAAGGTTTGTAAATTC
78364157 ACTGATTCTA
Statistics
Matches: 425, Mismatches: 42, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
128 10 0.02
129 67 0.16
130 32 0.08
131 154 0.36
132 162 0.38
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (131 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTTGA
T
Found at i:78363775 original size:175 final size:174
Alignment explanation
Indices: 78363464--78363791 Score: 451
Period size: 175 Copynumber: 1.9 Consensus size: 174
78363454 TTCCAGCCTA
* *
78363464 TTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
1 TTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
* * * *
78363529 TAAGATCTGTAAATTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCC
66 TAAGATCTGTAAATTCAACCAGTTACCCTACTGCTTAGAGGGTTAAGACTTGTAAA-CTTCAGCC
78363594 TGTTACCCTACTGCTTAGAGGTTTAAGGTTTGTAAATTCGGCTTG
130 TGTTACCCTACTGCTTAGAGGTTTAAGGTTTGTAAATTCGGCTTG
* * * ** * *
78363639 TTACCCTATTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTGTTTCCCTACTGCTTAAGGGGT
1 TTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
* * * *
78363704 TAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGAGGTTTAAGGCTTGTAAA-TTCGGC
66 TAAGATCTGTAAA--TTCAACCAGTTACCCTACTGCTTAGAGGGTTAAGACTTGTAAACTTCAGC
* *
78363768 TTGTTACCCTACTGCTTAGGGGTT
129 CTGTTACCCTACTGCTTAGAGGTT
78363792 AAAGCCCATT
Statistics
Matches: 132, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
175 96 0.73
177 36 0.27
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (174 bp):
TTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
TAAGATCTGTAAATTCAACCAGTTACCCTACTGCTTAGAGGGTTAAGACTTGTAAACTTCAGCCT
GTTACCCTACTGCTTAGAGGTTTAAGGTTTGTAAATTCGGCTTG
Found at i:78363829 original size:175 final size:174
Alignment explanation
Indices: 78363464--78363837 Score: 430
Period size: 175 Copynumber: 2.1 Consensus size: 174
78363454 TTCCAGCCTA
* * *
78363464 TTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
* * * *
78363529 TAAGATCTGTAAATTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCC
66 TAAGATCTGTAAATTCAACCAGTTACCCTACTGCTTAGAGGGTTAAGACTTGTAAA-CTTCAGCC
* ***
78363594 TGTTACCCTACTGCTTAGAGGTTTAAGGTTTGTAAATTCGGCTTG
130 TGTTACCCTACTGCTTAGAGGTTAAAGCCATGTAAATTCGGCTTG
* * ** * *
78363639 TTACCCTATTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTGTTTCCCTACTGCTTAAGGGGT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
* * * *
78363704 TAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGAGGTTTAAGGCTTGTAAA-TTCGGC
66 TAAGATCTGTAAA--TTCAACCAGTTACCCTACTGCTTAGAGGGTTAAGACTTGTAAACTTCAGC
* * ** * *
78363768 TTGTTACCCTACTGCTTAGGGGTTAAAGCCCAT-TATCTT-TGATCTG
129 CTGTTACCCTACTGCTTAGAGGTTAAAG-CCATGTAAATTCGGCT-TG
*
78363814 TTTCCCTACTGCTTAGGGGGTTAA
1 TTACCCTACTGCTTAGGGGGTTAA
78363838 GATCTGTAAA
Statistics
Matches: 166, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
174 2 0.01
175 127 0.77
176 1 0.01
177 36 0.22
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (174 bp):
TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
TAAGATCTGTAAATTCAACCAGTTACCCTACTGCTTAGAGGGTTAAGACTTGTAAACTTCAGCCT
GTTACCCTACTGCTTAGAGGTTAAAGCCATGTAAATTCGGCTTG
Found at i:78364056 original size:42 final size:42
Alignment explanation
Indices: 78363962--78364104 Score: 110
Period size: 42 Copynumber: 3.3 Consensus size: 42
78363952 TACTGCTTAG
* * * * *
78363962 GGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTA
1 GGGGTTAAGATCTGCATATTCGATCTGTTACCCTACCGATTA
*
78364004 GGGAGATAAGATCTGCA-ATTC-AGTCTGTTACCCTACCGATTA
1 GGG-GTTAAGATCTGCATATTCGA-TCTGTTACCCTACCGATTA
* * * * * * *
78364046 GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
1 GGGG-TTAAGA-TCTGCATATTCGATCTGTTACCCTACCGATTA
78364090 GGGGGTTAAGATCTG
1 -GGGGTTAAGATCTG
78364105 TAAATCTTCA
Statistics
Matches: 78, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.03
42 30 0.38
43 16 0.21
44 25 0.32
45 5 0.06
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (42 bp):
GGGGTTAAGATCTGCATATTCGATCTGTTACCCTACCGATTA
Found at i:78364082 original size:44 final size:43
Alignment explanation
Indices: 78363467--78364144 Score: 270
Period size: 43 Copynumber: 15.5 Consensus size: 43
78363457 CAGCCTATTA
* * * * *
78363467 CCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTT
1 CCCTACTGCTTAGGGGGTTAA-GACCTTCATCTTCGATCTGTTT
* * * ** * * *
78363511 CCCAACTGCTTAAGGGGTTAAGATCTGT-AAATTCAACCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCT-TCATCTTCGATCTGTTT
* ** * * *
78363554 CCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTC-AGCCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-TCTGTTT
* * ** * ** * *
78363599 CCCTACTGCTTAGAGGTTTAAG-GTTTGTAAATTCG-GCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCTT-CATCTTCGATC-TGTTT
* * * * **
78363642 CCCTATTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTGTTT
1 CCCTACTGCTTAGGGGGTT-AAGACCTTCATCTTCGATCTGTTT
* * * * * *
78363686 CCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTC-AGCCAGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-TCTGTTT
* * * * ** * *
78363731 CCCTACTGCTTAGAGGTTTAAG-GCTTGTAAATTCG-GCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCTT-CATCTTCGATC-TGTTT
* *
78363774 CCCTACTGCTTA-GGGGTTAAAGCCCATT-ATCTTTGATCTGTTT
1 CCCTACTGCTTAGGGGGTT-AAGACC-TTCATCTTCGATCTGTTT
* * * *
78363817 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-TCTGTTT
* ** * ** * *
78363862 CCCTACTGCTTAGGGGTTTAAG-GTTTGTAAATTCG-GCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCTT-CATCTTCGATC-TGTTT
* * *
78363905 CCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGATCTGTTT
1 CCCTACTGCTTAGGGGGTT-AAGACCTTCATCTTCGATCTGTTT
* *
78363949 CTCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATCTGTTT
* * * * * *
78363992 CCCTACTGCTTAGGGAGATAAGATCTGCA-ATTC-AGTCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGA-TCTGTTT
* * * *
78364034 CCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAGA-CCTTCATCTTCGATCTGTTT
* * * *
78364078 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-TCTGTTT
* *
78364123 CCCTATTGCTTAGGGGCTTAAG
1 CCCTACTGCTTAGGGGGTTAAG
78364145 GCTTGTGAAT
Statistics
Matches: 475, Mismatches: 124, Indels: 69
0.71 0.19 0.10
Matches are distributed among these distances:
41 1 0.00
42 35 0.07
43 192 0.40
44 122 0.26
45 125 0.26
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATCTGTTT
Found at i:78364082 original size:86 final size:87
Alignment explanation
Indices: 78363756--78364127 Score: 258
Period size: 87 Copynumber: 4.3 Consensus size: 87
78363746 GTTTAAGGCT
* * * * * *
78363756 TGTAAA-TTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATT-ATCTTTGATCTGTTTC
1 TGTAAACTTCAGCCTGTTACCCTACCGATTAGGGGGTT-AAGACC-TTCATCTTCGATCTGTTTC
* *
78363818 CCTACTGCTTAGGGGGTTAAGATC
64 CCTACTGCTTAGGGAGATAAGATC
* * * ** * ** * *
78363842 TGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG-GTTTGTAAATTCG-GCTTGTTA
1 TGTAAA-CTTCAGCCTGTTACCCTACCGATTAGGGGGTTAAGACCTT-CATCTTCGATC-TGTTT
* * *
78363905 CCCTACTGCTTAGGGGGTTAA-AGCC
63 CCCTACTGCTTAGGGAGATAAGA-TC
** * * * * * * * * *
78363930 CATCATCTT-TGATCTGTTTCTCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCC
1 TGTAAACTTCAG-CCTGTTACCCTACCGATTAGGGGGTTAAGACCTTCATCTTCGATCTGTTTCC
78363994 CTACTGCTTAGGGAGATAAGATC
65 CTACTGCTTAGGGAGATAAGATC
* * * *
78364017 TG-CAA-TTCAGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC
1 TGTAAACTTCAGCCTGTTACCCTACCGATTAGGGGGTTAAGA-CCTTCATCTTCGATCTGTTTCC
* *
78364080 CTACTGCTTAGGGGGTTAAGATC
65 CTACTGCTTAGGGAGATAAGATC
78364103 TGTAAATCTTCAGCCTGTTACCCTA
1 TGTAAA-CTTCAGCCTGTTACCCTA
78364128 TTGCTTAGGG
Statistics
Matches: 225, Mismatches: 45, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
85 27 0.12
86 55 0.24
87 61 0.27
88 61 0.27
89 21 0.09
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (87 bp):
TGTAAACTTCAGCCTGTTACCCTACCGATTAGGGGGTTAAGACCTTCATCTTCGATCTGTTTCCC
TACTGCTTAGGGAGATAAGATC
Found at i:78364314 original size:66 final size:66
Alignment explanation
Indices: 78364208--78364334 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
78364198 TCTATGTTTA
*
78364208 TGTCAAATGATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
78364273 G
66 G
* *
78364274 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
78364335 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Done.