Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 355 of 362
Found at i:117383853 original size:26 final size:26
Alignment explanation
Indices: 117383815--117383870 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
117383805 GGATTTTGTC
* *
117383815 AAATATAAGTATCGCATTA-AAAAAA
1 AAATACAAATATCGCATTAGAAAAAA
**
117383840 TAAATACAAATATCTTATTAGAAAAAA
1 -AAATACAAATATCGCATTAGAAAAAA
117383867 AAAT
1 AAAT
117383871 TGTGAAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (26 bp):
AAATACAAATATCGCATTAGAAAAAA
Found at i:117384346 original size:24 final size:25
Alignment explanation
Indices: 117384300--117384346 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
117384290 TGATGGTTGG
* **
117384300 TTTAATTAAATAATTAATTTATAAA
1 TTTAATTAAAAAATTAAAATATAAA
117384325 TTTAA-TAAAAAATTAAAATATA
1 TTTAATTAAAAAATTAAAATATA
117384347 TTGAAAGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTAATTAAAAAATTAAAATATAAA
Found at i:117386953 original size:39 final size:39
Alignment explanation
Indices: 117386899--117386983 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
117386889 CGAAATCTAG
* * *
117386899 CTGAAGCACATAAGTGCTAAACGGCAGCTCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAACCCGAAGGCTAA
*
117386938 CTGAAGCACATAAGTGCTAAACGGAAACCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAACCCGAAGGCTAA
117386977 CTGAAGC
1 CTGAAGC
117386984 TCATCAGAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.26, T:0.14
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAACCCGAAGGCTAA
Found at i:117387004 original size:39 final size:39
Alignment explanation
Indices: 117386899--117387006 Score: 117
Period size: 39 Copynumber: 2.8 Consensus size: 39
117386889 CGAAATCTAG
* * * * *
117386899 CTGAAGCACATAAGTGCTAAACGGCAGCTCGAAGGCTAA
1 CTGAAGCACATAAGAGCTAAACGGAAACCCGGAGGCTAA
*
117386938 CTGAAGCACATAAGTGCTAAACGGAAACCCGGAGGCTAA
1 CTGAAGCACATAAGAGCTAAACGGAAACCCGGAGGCTAA
* * * * *
117386977 CTGAAGCTCATCAGAGTTGAACTGAAACCC
1 CTGAAGCACATAAGAGCTAAACGGAAACCC
117387007 CAAAAGGGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (39 bp):
CTGAAGCACATAAGAGCTAAACGGAAACCCGGAGGCTAA
Found at i:117387039 original size:20 final size:19
Alignment explanation
Indices: 117386974--117387039 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 19
117386964 ACCCGGAGGC
*
117386974 TAACTGAAGCTCATCAGAGT
1 TAACTGAAACTCAT-AGAGT
* * *
117386994 TGAACTGAAACCCCAAAAGGGT
1 T-AACTGAAA-CTC-ATAGAGT
117387016 TAACTGAAACTCATATGAGT
1 TAACTGAAACTCATA-GAGT
117387036 TAAC
1 TAAC
117387040 GGAAGCTCGT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.06
20 10 0.29
21 15 0.43
22 7 0.20
23 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (19 bp):
TAACTGAAACTCATAGAGT
Found at i:117390107 original size:32 final size:32
Alignment explanation
Indices: 117390066--117390132 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
117390056 TGACATTAAT
117390066 TTTAAATATCATTATCAACCTACAATTTAGCC
1 TTTAAATATCATTATCAACCTACAATTTAGCC
117390098 TTTAAATATCATTATCAACCTACAATTTAGCC
1 TTTAAATATCATTATCAACCTACAATTTAGCC
117390130 TTT
1 TTT
117390133 CTTATTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (32 bp):
TTTAAATATCATTATCAACCTACAATTTAGCC
Found at i:117390525 original size:30 final size:30
Alignment explanation
Indices: 117390489--117390551 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
117390479 ACTTATTTTA
*
117390489 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTAGTTTAAAGACAT
* *
117390519 TTGTTAATTTTGTTATTAGTTTAGAGGCAT
1 TTGTTAATTTTGTTATTAGTTTAAAGACAT
117390549 TTG
1 TTG
117390552 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTAGTTTAAAGACAT
Found at i:117394497 original size:28 final size:28
Alignment explanation
Indices: 117394416--117394490 Score: 141
Period size: 28 Copynumber: 2.7 Consensus size: 28
117394406 GACTTTGCAT
117394416 AGAAGAAATATGTATAAATAAATAAAAA
1 AGAAGAAATATGTATAAATAAATAAAAA
117394444 AGAAGAAATATGTATAAATAAATAAAAA
1 AGAAGAAATATGTATAAATAAATAAAAA
*
117394472 AGAAGAAATATGTGTAAAT
1 AGAAGAAATATGTATAAAT
117394491 GCTTAAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (28 bp):
AGAAGAAATATGTATAAATAAATAAAAA
Found at i:117395414 original size:13 final size:13
Alignment explanation
Indices: 117395398--117395424 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117395388 TAAACCAAAC
117395398 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
117395411 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
117395424 T
1 T
117395425 GCCAAACTAG
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:117396246 original size:57 final size:56
Alignment explanation
Indices: 117396178--117396499 Score: 263
Period size: 57 Copynumber: 5.6 Consensus size: 56
117396168 GGATAAGAAA
* * * * * *
117396178 AAGTTCAAGGACTAATTTGGATAAAAAGGTTCAAACCCTAATGTAGGAACAATTGTC
1 AAGTTCAAGGACTAACTTGGAAAAAAAAGTTCAAGCCC-AATGTGGGAACAATTGCC
* * * * *
117396235 AAGTTCGAGGACTAACTTGAAAAAAAAAGTTTAGGCCCCAATGTAGGAACAATTGCC
1 AAGTTCAAGGACTAACTTGGAAAAAAAAGTTCAAG-CCCAATGTGGGAACAATTGCC
* * * * * * *
117396292 AAGTTCATGAATTAA-TT-TAAAAATAAAGTTCAAGCCCGATGCGGGAACAATTGCT
1 AAGTTCAAGGACTAACTTGGAAAAA-AAAGTTCAAGCCCAATGTGGGAACAATTGCC
* * * **
117396347 AAGTTC-AGAGACTAACTTGGACAAAAAATGTCCAGGTCCCAATGTGGGAACAATTGTT
1 AAGTTCAAG-GACTAACTTGGA-AAAAAAAGTTCAAG-CCCAATGTGGGAACAATTGCC
* * * *
117396405 AAGTTCAAAGATTAATTTGGACAAAAAAAAGTTGAAGCCCTAATGTGGGAACAATTGCC
1 AAGTTCAAGGACTAACTTGG--AAAAAAAAGTTCAAGCCC-AATGTGGGAACAATTGCC
* *
117396464 AAGTTTAAGGACTAACTTGGACAAAATAAAATTCAA
1 AAGTTCAAGGACTAACTTGGA-AAAA-AAAGTTCAA
117396500 CCTTCAATGT
Statistics
Matches: 207, Mismatches: 45, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
54 1 0.00
55 32 0.15
56 12 0.06
57 64 0.31
58 47 0.23
59 50 0.24
60 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (56 bp):
AAGTTCAAGGACTAACTTGGAAAAAAAAGTTCAAGCCCAATGTGGGAACAATTGCC
Found at i:117403246 original size:21 final size:22
Alignment explanation
Indices: 117403216--117403256 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
117403206 TTTATTTTAC
*
117403216 TTTAGTTATAATATAATAATAT
1 TTTAGTTATAATAAAATAATAT
117403238 TTTA-TTATAATAAAATAAT
1 TTTAGTTATAATAAAATAAT
117403257 TATATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAGTTATAATAAAATAATAT
Found at i:117408347 original size:8 final size:9
Alignment explanation
Indices: 117408326--117408351 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
117408316 TTTCTATTTC
117408326 TTTTTCTTG
1 TTTTTCTTG
117408335 TTTTTCTTG
1 TTTTTCTTG
117408344 TTTTTCTT
1 TTTTTCTT
117408352 TCTTGTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (9 bp):
TTTTTCTTG
Found at i:117427213 original size:18 final size:19
Alignment explanation
Indices: 117427174--117427226 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
117427164 TATCACTAGT
117427174 TTTACAAATTAAATACACTA
1 TTTA-AAATTAAATACACTA
*
117427194 -TTAAAATTGAAATAGA-TA
1 TTTAAAATT-AAATACACTA
117427212 TTTAAAATATAAATA
1 TTTAAAAT-TAAATA
117427227 ATGTTACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.24
19 21 0.72
20 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTTAAAATTAAATACACTA
Found at i:117428057 original size:183 final size:182
Alignment explanation
Indices: 117427744--117428244 Score: 649
Period size: 183 Copynumber: 2.7 Consensus size: 182
117427734 TTTTAAATTA
* * * *
117427744 GAAATGTTATTTTTTAGAGGGATTATTATGAACCTT-AAAAATATTAGTAT-TTTATAGACAGTA
1 GAAATGTCATTTTTTAGAGGGATAATCATGAA-CTTCAAAAATATTA--ATCTTTATAGACCGTA
* *
117427807 AAATAAACATTAAGGAAACTTTGTTCATAAAAAAATATACACATTTTTAAACAATTTT-CAAATT
63 AAATAAACATTAAGGAAACCTTGATCATAAAAAAATATACAC-TTTTTAAAC-ATTTTCCAAATT
117427871 AAGAATTCTTAATCCAAAACCCAAATTAACAATACTCAC-ATGTAAAAAATAT-ACAC
126 AAGAATTCTTAATCCAAAACCCAAATTAACAATACTCACGA-GTAAAAAATATGACAC
117427927 GAAATGTCATTTTTTTAGAGGGATAATCATGAACTTCAAAAATATTAATCTTTATAGACCGTAAA
1 GAAATGTCA-TTTTTTAGAGGGATAATCATGAACTTCAAAAATATTAATCTTTATAGACCGTAAA
* *
117427992 ATAAACATTAAGGAAACCTTGATCATAAAAAAAATATACGCTTTTTAAACATTTTCCACATTAAG
65 ATAAACATTAAGGAAACCTTGATCAT-AAAAAAATATACACTTTTTAAACATTTTCCAAATTAAG
* * **
117428057 AATTTTTAATCCAAAACCCAAATTAACAATACTCACGAGTAAAAGATATGACTG
129 AATTCTTAATCCAAAACCCAAATTAACAATACTCACGAGTAAAAAATATGACAC
* *
117428111 GAAATGTCATTTTTT-GAGAGATAATCATGAA-TCTCAAAAATATTAATCTTCATAGACCGTAAA
1 GAAATGTCATTTTTTAGAGGGATAATCATGAACT-TCAAAAATATTAATCTTTATAGACCGTAAA
* * * * * * * *
117428174 ATGAATATTAA-GAAATCTTGGTCATTAGAAAAATATACATTTTTTAAATATTTTCAAAATTAAG
65 ATAAACATTAAGGAAACCTTGATCA-TAAAAAAATATACACTTTTTAAACATTTTCCAAATTAAG
*
117428238 AAATCTT
129 AATTCTT
117428245 GATATTACCC
Statistics
Matches: 283, Mismatches: 26, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
181 49 0.17
182 61 0.22
183 117 0.41
184 56 0.20
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (182 bp):
GAAATGTCATTTTTTAGAGGGATAATCATGAACTTCAAAAATATTAATCTTTATAGACCGTAAAA
TAAACATTAAGGAAACCTTGATCATAAAAAAATATACACTTTTTAAACATTTTCCAAATTAAGAA
TTCTTAATCCAAAACCCAAATTAACAATACTCACGAGTAAAAAATATGACAC
Found at i:117433057 original size:17 final size:18
Alignment explanation
Indices: 117433037--117433072 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
117433027 TAAGTCCTTT
117433037 TAAAATTTA-AAAAAAAA
1 TAAAATTTATAAAAAAAA
117433054 TAAAATTTATAAAAAAAA
1 TAAAATTTATAAAAAAAA
117433072 T
1 T
117433073 TCATTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATTTATAAAAAAAA
Found at i:117436877 original size:51 final size:51
Alignment explanation
Indices: 117436755--117436878 Score: 151
Period size: 51 Copynumber: 2.4 Consensus size: 51
117436745 TTTAGCCCTC
*
117436755 AAATTCTACACATTTTGTCAAATTGATCCTAAATTTAACAAATTTAACTGCA
1 AAATT-TACACATTTTGTCAACTTGATCCTAAATTTAACAAATTTAACTGCA
* * * * * **
117436807 ACATCTAAATATTTCGTCAACTTGAT-CTTGATTTAACAAATTTAACTTGCA
1 AAATTTACACATTTTGTCAACTTGATCCTAAATTTAACAAATTTAAC-TGCA
117436858 AAATTTACACATTTTGTCAAC
1 AAATTTACACATTTTGTCAAC
117436879 ATTTACACAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
50 18 0.31
51 37 0.64
52 3 0.05
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (51 bp):
AAATTTACACATTTTGTCAACTTGATCCTAAATTTAACAAATTTAACTGCA
Found at i:117439836 original size:54 final size:54
Alignment explanation
Indices: 117439754--117439858 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
117439744 CCTGTTGAGA
* *
117439754 ATTCAGATCACTGTGTTCACCCTGCTGAGTTTCAGTGTGAACAGTAGTACCCTC
1 ATTCAGATCACTGTATTCACCCTGCTGAGTTTCAGTGTGAACAGTAATACCCTC
**
117439808 ATTCAGATCACTGTATTCACCCTGCTGAGTTTTGGTGTGAACAGTAATACC
1 ATTCAGATCACTGTATTCACCCTGCTGAGTTTCAGTGTGAACAGTAATACC
117439859 AACAGACTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (54 bp):
ATTCAGATCACTGTATTCACCCTGCTGAGTTTCAGTGTGAACAGTAATACCCTC
Found at i:117448007 original size:18 final size:19
Alignment explanation
Indices: 117447974--117448009 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
117447964 TTCTCCAAAT
117447974 TATTTTAGGTATTATTTAA
1 TATTTTAGGTATTATTTAA
117447993 TATTTTAGG-ATTATTTA
1 TATTTTAGGTATTATTTA
117448010 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
TATTTTAGGTATTATTTAA
Found at i:117458695 original size:92 final size:92
Alignment explanation
Indices: 117458570--117458753 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
117458560 GAATTTGATA
117458570 AGACTACAAGAAAAGGATGATTATAAAGGAAGAAGAATAATATTAAAGACTGCAAAAAATTGAGA
1 AGACTACAAGAAAAGGATGATTATAAAGGAAGAAGAATAATATTAAAGACTGCAAAAAATTGAGA
117458635 TGCTATAATTCCATCTTGAAATTCTTT
66 TGCTATAATTCCATCTTGAAATTCTTT
117458662 AGACTACAAGAAAAGGATGATTATAAAGGAAGAAGAATAATATTAAAGACTGCAAAAAATTGAGA
1 AGACTACAAGAAAAGGATGATTATAAAGGAAGAAGAATAATATTAAAGACTGCAAAAAATTGAGA
117458727 TGCTATAATTCCATCTTGAAATTCTTT
66 TGCTATAATTCCATCTTGAAATTCTTT
117458754 CTCTAAATCC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (92 bp):
AGACTACAAGAAAAGGATGATTATAAAGGAAGAAGAATAATATTAAAGACTGCAAAAAATTGAGA
TGCTATAATTCCATCTTGAAATTCTTT
Found at i:117459507 original size:27 final size:27
Alignment explanation
Indices: 117459469--117459522 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
117459459 ATCTAAATGG
*
117459469 GTAAACTTGCCAGTCGGAAAGCGGACT
1 GTAAACTTGCCAGTCGGAAAGCAGACT
117459496 GTAAACTTGCCAGTCGGAAAGCAGACT
1 GTAAACTTGCCAGTCGGAAAGCAGACT
117459523 TTCTCATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (27 bp):
GTAAACTTGCCAGTCGGAAAGCAGACT
Found at i:117473367 original size:23 final size:24
Alignment explanation
Indices: 117473313--117473414 Score: 93
Period size: 23 Copynumber: 4.2 Consensus size: 24
117473303 GATTCACCAT
* *
117473313 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTACTG-T-TATC
117473339 AGCTCGTAAGAGCTTACTGTT-TC
1 AGCTCGTAAGAGCTTACTGTTATC
* * *
117473362 AGCTCGTTAGAGCTTACTATT-TT
1 AGCTCGTAAGAGCTTACTGTTATC
*
117473385 AGCTCAATAA-AGCTTACTGTTCATC
1 AGCTC-GTAAGAGCTTACTGTT-ATC
117473410 AGCTC
1 AGCTC
117473415 AATAGGAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
23 37 0.58
24 3 0.05
25 7 0.11
26 17 0.27
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTGTTATC
Found at i:117484156 original size:25 final size:25
Alignment explanation
Indices: 117484127--117484177 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
117484117 CAAAGGAAAA
**
117484127 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
117484152 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
117484177 T
1 T
117484178 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:117488820 original size:25 final size:25
Alignment explanation
Indices: 117488791--117488841 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
117488781 CAAAGGAAAA
**
117488791 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
117488816 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
117488841 T
1 T
117488842 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:117492671 original size:36 final size:36
Alignment explanation
Indices: 117492624--117492804 Score: 220
Period size: 36 Copynumber: 5.0 Consensus size: 36
117492614 ACCTGGTGGG
* * *
117492624 GGAGGAGGCACAGCAGGAGCTTTTGGTGCAGGGGGT
1 GGAGGGGGCACAGCAGGACCTTTTGGTGGAGGGGGT
* *
117492660 GGAGGAGGCACAGCAGGACCTTTTGGTGGAGGAGGT
1 GGAGGGGGCACAGCAGGACCTTTTGGTGGAGGGGGT
117492696 GGAGGGGGCACAGCAGGACCTTTTGGTGGAGGGGGT
1 GGAGGGGGCACAGCAGGACCTTTTGGTGGAGGGGGT
* * * * *
117492732 GGAGGGGGCACCG-TGGAACCTTTCGGTGGAGGTGGA
1 GGAGGGGGCACAGCAGG-ACCTTTTGGTGGAGGGGGT
** * *
117492768 GGAGGGGGTGCAGCAGGAGCTTTCGGTGGAGGGGGT
1 GGAGGGGGCACAGCAGGACCTTTTGGTGGAGGGGGT
117492804 G
1 G
117492805 CTGGAGGAGC
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
35 2 0.02
36 122 0.97
37 2 0.02
ACGTcount: A:0.18, C:0.14, G:0.52, T:0.17
Consensus pattern (36 bp):
GGAGGGGGCACAGCAGGACCTTTTGGTGGAGGGGGT
Found at i:117492802 original size:27 final size:27
Alignment explanation
Indices: 117492768--117492858 Score: 146
Period size: 27 Copynumber: 3.4 Consensus size: 27
117492758 TGGAGGTGGA
* * *
117492768 GGAGGGGGTGCAGCAGGAGCTTTCGGT
1 GGAGGGGGTGCTGGAGGAGCTTTTGGT
117492795 GGAGGGGGTGCTGGAGGAGCTTTTGGT
1 GGAGGGGGTGCTGGAGGAGCTTTTGGT
*
117492822 GGAGGGGGCGCTGGAGGAGCTTTTGGT
1 GGAGGGGGTGCTGGAGGAGCTTTTGGT
117492849 GGAGGGGGTG
1 GGAGGGGGTG
117492859 GAGGGGGCAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.12, C:0.10, G:0.57, T:0.21
Consensus pattern (27 bp):
GGAGGGGGTGCTGGAGGAGCTTTTGGT
Found at i:117492860 original size:36 final size:36
Alignment explanation
Indices: 117492819--117492898 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
117492809 AGGAGCTTTT
*
117492819 GGTGGAGGGGGCGCTGGAGGAGCTTTTGGTGGAGGG
1 GGTGGAGGGGGCACTGGAGGAGCTTTTGGTGGAGGG
117492855 GGTGGAGGGGGCACTGGAGGAGCTTTTGGTGGAGGG
1 GGTGGAGGGGGCACTGGAGGAGCTTTTGGTGGAGGG
117492891 GGTGGAGG
1 GGTGGAGG
117492899 AGGAATAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.12, C:0.07, G:0.61, T:0.19
Consensus pattern (36 bp):
GGTGGAGGGGGCACTGGAGGAGCTTTTGGTGGAGGG
Found at i:117493121 original size:12 final size:12
Alignment explanation
Indices: 117493095--117493137 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
117493085 GCTGAAGGAT
* *
117493095 GGTGGATGCAAG
1 GGTGGAGGCAGG
*
117493107 GGTGGGGGCAGG
1 GGTGGAGGCAGG
*
117493119 GGTGGAGGTAGG
1 GGTGGAGGCAGG
117493131 GGTGGAG
1 GGTGGAG
117493138 ATGGCAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.16, C:0.05, G:0.65, T:0.14
Consensus pattern (12 bp):
GGTGGAGGCAGG
Found at i:117496306 original size:23 final size:22
Alignment explanation
Indices: 117496269--117496318 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
117496259 AAAAGTTGAC
*
117496269 AAATTATAAGATTAATGTTTAAAA
1 AAATTATAAGATTAA--ATTAAAA
*
117496293 AAATTA-ATGATTAAATTAAAA
1 AAATTATAAGATTAAATTAAAA
117496314 AAATT
1 AAATT
117496319 TGTCAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.46
23 7 0.29
24 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (22 bp):
AAATTATAAGATTAAATTAAAA
Found at i:117514373 original size:142 final size:143
Alignment explanation
Indices: 117514131--117514387 Score: 374
Period size: 142 Copynumber: 1.8 Consensus size: 143
117514121 GTTTTGATCA
* * * * * *
117514131 TTAGGGTTTTTCGGGTTGGATCATCTTTGGGTTCATATCATTTCGGATCCTTTTGTGTTTGGAAC
1 TTAGGGTTTTTCAGGTTGGATAATCTTTGGATTCATATAATTTCGGATCATTTTATGTTTGGAAC
* *
117514196 ATCTTGGATTCGAATTCTTTTCAGGTTTGAATGAGCCAGTTTGGGTTATTGCCTTTTGATTACTA
66 ATCTTGGATTCGAATTATTTTCAGGTTCGAATGAGCCAGTTTGGGTTATTGCCTTTTGATTACTA
117514261 GGTTCATTCGTTT
131 GGTTCATTCGTTT
*
117514274 TTAGGGTTTTTCAGGTTGGATAATC-TTGGATTCATATAATTTTGGATCATTTTATGTTTGGAAC
1 TTAGGGTTTTTCAGGTTGGATAATCTTTGGATTCATATAATTTCGGATCATTTTATGTTTGGAAC
* * **
117514338 AT-TTGGAATTTGAATTATTTTCGGGTTCGGTTGAGCCAGTTTGGGTTATT
66 ATCTTGG-ATTCGAATTATTTTCAGGTTCGAATGAGCCAGTTTGGGTTATT
117514388 CCCCTTTCAT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
141 4 0.04
142 73 0.73
143 23 0.23
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.46
Consensus pattern (143 bp):
TTAGGGTTTTTCAGGTTGGATAATCTTTGGATTCATATAATTTCGGATCATTTTATGTTTGGAAC
ATCTTGGATTCGAATTATTTTCAGGTTCGAATGAGCCAGTTTGGGTTATTGCCTTTTGATTACTA
GGTTCATTCGTTT
Found at i:117515109 original size:29 final size:29
Alignment explanation
Indices: 117515067--117515124 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
117515057 TTTTAGAGGC
* *
117515067 TGGATCAAATTAGTCCCTCTACTATTAAA
1 TGGACCAAATTAGTCCCTATACTATTAAA
*
117515096 TGGACCAATTTAGTCCCTATACTATTAAA
1 TGGACCAAATTAGTCCCTATACTATTAAA
117515125 AAGAATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (29 bp):
TGGACCAAATTAGTCCCTATACTATTAAA
Found at i:117526779 original size:7 final size:7
Alignment explanation
Indices: 117526767--117526810 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
117526757 AGAAATGAGC
117526767 TTTTTAT
1 TTTTTAT
117526774 TTTTTAT
1 TTTTTAT
117526781 TTTTTA-
1 TTTTTAT
*
117526787 TTTTTAC
1 TTTTTAT
*
117526794 CTTTTA-
1 TTTTTAT
117526800 TTTTTAT
1 TTTTTAT
117526807 TTTT
1 TTTT
117526811 ATTCTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.33
7 22 0.67
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:117526783 original size:6 final size:6
Alignment explanation
Indices: 117526767--117526813 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
117526757 AGAAATGAGC
*
117526767 TTTTTA TTTTTTA TTTTTTA TTTTTA CCTTTTA TTTTTA TTTTTA TT
1 TTTTTA -TTTTTA -TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TT
117526814 CTTTTCTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 19 0.51
7 18 0.49
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:117526790 original size:13 final size:13
Alignment explanation
Indices: 117526767--117526810 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
117526757 AGAAATGAGC
117526767 TTTTTATTTTTTAT
1 TTTTTA-TTTTTAT
*
117526781 TTTTTATTTTTAC
1 TTTTTATTTTTAT
*
117526794 CTTTTATTTTTAT
1 TTTTTATTTTTAT
117526807 TTTT
1 TTTT
117526811 ATTCTTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:117526792 original size:20 final size:19
Alignment explanation
Indices: 117526767--117526818 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
117526757 AGAAATGAGC
117526767 TTTTTATTTTTTATTTTTTA
1 TTTTTATTTTTTA-TTTTTA
**
117526787 TTTTTACCTTTTATTTTTA
1 TTTTTATTTTTTATTTTTA
117526806 TTTTTATTCTTTT
1 TTTTTATT-TTTT
117526819 CTTTGCTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTATTTTTTATTTTTA
Found at i:117528514 original size:13 final size:13
Alignment explanation
Indices: 117528496--117528538 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
117528486 TAATATATTA
117528496 TTTGATATTTAAG
1 TTTGATATTTAAG
117528509 TTTGATATTTTTAA-
1 TTTGATA--TTTAAG
*
117528523 TTTAATATTTAAG
1 TTTGATATTTAAG
117528536 TTT
1 TTT
117528539 TTTTATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 6 0.23
15 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (13 bp):
TTTGATATTTAAG
Found at i:117528620 original size:56 final size:56
Alignment explanation
Indices: 117528516--117528621 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
117528506 AAGTTTGATA
* * *
117528516 TTTTTAATTTAATATTTAAGTTTTTTTATTTAGTTTAGTATTTGAACTTGATATTT
1 TTTTTAATTTAATATTTAAGTTTTTTTATTTAATTTAATATTTAAACTTGATATTT
*
117528572 TTTTTACTTTAATATTTAAGTTTTTTTATTTAATTTAAT-TTCTAAACTTG
1 TTTTTAATTTAATATTTAAGTTTTTTTATTTAATTTAATATT-TAAACTTG
117528622 TCAAGTGTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
55 2 0.04
56 43 0.96
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (56 bp):
TTTTTAATTTAATATTTAAGTTTTTTTATTTAATTTAATATTTAAACTTGATATTT
Found at i:117535385 original size:20 final size:21
Alignment explanation
Indices: 117535339--117535385 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
117535329 ATATTTTTAT
**
117535339 ACAAATCTTCTTAAATTTTAA
1 ACAAATCTTCTTAAAACTTAA
* *
117535360 ATAAATCTT-TTAAAACTTGA
1 ACAAATCTTCTTAAAACTTAA
117535380 ACAAAT
1 ACAAAT
117535386 ATCTCGACCC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (21 bp):
ACAAATCTTCTTAAAACTTAA
Found at i:117539449 original size:22 final size:22
Alignment explanation
Indices: 117539424--117539472 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
117539414 TATAACTATT
117539424 TTAAAATAATAAATATTTTAT-A
1 TTAAAAT-ATAAATATTTTATAA
* * *
117539446 TTAATATTTATATATTTTATAA
1 TTAAAATATAAATATTTTATAA
117539468 TTAAA
1 TTAAA
117539473 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAAATATAAATATTTTATAA
Found at i:117539460 original size:21 final size:21
Alignment explanation
Indices: 117539436--117539476 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
117539426 AAAATAATAA
117539436 ATATTTTAT-ATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
117539457 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
117539477 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:117540267 original size:20 final size:20
Alignment explanation
Indices: 117540239--117540276 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117540229 TTATTATGTT
*
117540239 TAAATTTAAAAGTTTAAAGA
1 TAAAGTTAAAAGTTTAAAGA
*
117540259 TAAAGTTAATAGTTTAAA
1 TAAAGTTAAAAGTTTAAA
117540277 ATGTATGAGC
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:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
TAAAGTTAAAAGTTTAAAGA
Found at i:117547059 original size:26 final size:26
Alignment explanation
Indices: 117547029--117547081 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
117547019 TTTAATTTAC
117547029 TTAAAATTCGATTCATATTGTATTCT
1 TTAAAATTCGATTCATATTGTATTCT
117547055 TTAAAATTCGATTCATATTGTATTCT
1 TTAAAATTCGATTCATATTGTATTCT
117547081 T
1 T
117547082 GTACGATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (26 bp):
TTAAAATTCGATTCATATTGTATTCT
Found at i:117549984 original size:19 final size:19
Alignment explanation
Indices: 117549940--117549985 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
117549930 AAATTTAGTA
*
117549940 AAAT-ATTTTTAAATCATT
1 AAATAATTTTTAAATCAAT
117549958 AAATTAATTTTTAATAT-AAT
1 AAA-TAATTTTTAA-ATCAAT
117549978 AAATAATT
1 AAATAATT
117549986 ACACATGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 6 0.25
20 13 0.54
21 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATAATTTTTAAATCAAT
Found at i:117550862 original size:26 final size:26
Alignment explanation
Indices: 117550811--117550869 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
117550801 TTAAATTTAA
* *
117550811 TTATTAACATTATTTTTAAATTAAAT
1 TTATTAACATAATTTTTAAATAAAAT
* *
117550837 TTATTAATATAATATTTTAAAAAAATAT
1 TTATTAACATAAT-TTTTAAATAAA-AT
117550865 TTATT
1 TTATT
117550870 CAGTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.41
27 9 0.33
28 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATTAACATAATTTTTAAATAAAAT
Found at i:117551582 original size:19 final size:18
Alignment explanation
Indices: 117551541--117551580 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
117551531 AACAATATGC
117551541 AATTCAATTATTAATACAA
1 AATTCAATTATTAATA-AA
117551560 AATTCTAATTATTAACTAAA
1 AATTC-AATTATTAA-TAAA
117551580 A
1 A
117551581 TTTTCACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 12 0.63
21 2 0.11
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTCAATTATTAATAAA
Found at i:117556055 original size:14 final size:14
Alignment explanation
Indices: 117556022--117556055 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
117556012 ATAACAGAAT
117556022 AAATAATAAGGATA
1 AAATAATAAGGATA
* *
117556036 ATATAATAAGTATA
1 AAATAATAAGGATA
117556050 AAATAA
1 AAATAA
117556056 GTCGAAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
AAATAATAAGGATA
Found at i:117562363 original size:42 final size:45
Alignment explanation
Indices: 117562284--117562373 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 45
117562274 AACAAACATA
117562284 TATATAAGATTACAAGATAATATAAACACGATACGAGTATAATAAAG
1 TATATAAGATTACAAGATAATATAAACAC-A-ACGAGTATAATAAAG
117562331 TATATAAGATTACAAGATAATAT-AA-AC-ACGAGTATAATAAAG
1 TATATAAGATTACAAGATAATATAAACACAACGAGTATAATAAAG
117562373 T
1 T
117562374 TAAGATGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
42 16 0.37
45 2 0.05
46 2 0.05
47 23 0.53
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (45 bp):
TATATAAGATTACAAGATAATATAAACACAACGAGTATAATAAAG
Found at i:117564537 original size:14 final size:15
Alignment explanation
Indices: 117564511--117564550 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
117564501 TTAAATTTTG
117564511 AGTTT-AGAGTTT-AT
1 AGTTTAAGA-TTTAAT
117564525 AGTTTAAGATTTAAT
1 AGTTTAAGATTTAAT
117564540 A-TTTAAGATTT
1 AGTTTAAGATTT
117564551 TACATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (15 bp):
AGTTTAAGATTTAAT
Found at i:117565936 original size:23 final size:23
Alignment explanation
Indices: 117565910--117565954 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
117565900 TCAAAAATAC
117565910 GGTTCGATGATTAACTCTATTAT
1 GGTTCGATGATTAACTCTATTAT
117565933 GGTTCGATGATTAACTCTATTA
1 GGTTCGATGATTAACTCTATTA
117565955 AACTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (23 bp):
GGTTCGATGATTAACTCTATTAT
Found at i:117566740 original size:39 final size:40
Alignment explanation
Indices: 117566692--117566778 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 40
117566682 AAATTCTAAA
* * **
117566692 AATACAATAAAATATTTTTTATATTTAT-TTATATTTTTT
1 AATATAATAAAATATTTATTATATTTATACAATATTTTTT
117566731 AATATAATAAAATATTTATTATATTTATGACAATATTTTTT
1 AATATAATAAAATATTTATTATATTTAT-ACAATATTTTTT
117566772 AATATAA
1 AATATAA
117566779 ATACTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 26 0.62
41 16 0.38
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (40 bp):
AATATAATAAAATATTTATTATATTTATACAATATTTTTT
Found at i:117566786 original size:16 final size:17
Alignment explanation
Indices: 117566762--117566793 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117566752 TATTTATGAC
117566762 AATA-TTTTTTAATATA
1 AATACTTTTTTAATATA
117566778 AATACTTTTTTAATAT
1 AATACTTTTTTAATAT
117566794 GTTAGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATACTTTTTTAATATA
Found at i:117568313 original size:28 final size:28
Alignment explanation
Indices: 117568273--117568329 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
117568263 GATAGCATTG
117568273 TTGAGATTGGTAGTCACAAGTCCAGTAA
1 TTGAGATTGGTAGTCACAAGTCCAGTAA
117568301 TTGAGATTGGTAGTCACAAGTCCAGTAA
1 TTGAGATTGGTAGTCACAAGTCCAGTAA
117568329 T
1 T
117568330 AGACCATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
TTGAGATTGGTAGTCACAAGTCCAGTAA
Found at i:117572101 original size:29 final size:30
Alignment explanation
Indices: 117572053--117572112 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
117572043 GGACTCTTGG
*
117572053 AATTTAGTTTTTATATTTTTA-TTTTTAAA
1 AATTTAGTTTTTATATTTTTAGATTTTAAA
*
117572082 AATTTAG-TTTTATGTTTTTTAGATTTTAAA
1 AATTTAGTTTTTAT-ATTTTTAGATTTTAAA
117572112 A
1 A
117572113 TTGAGCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 6 0.22
29 13 0.48
30 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.62
Consensus pattern (30 bp):
AATTTAGTTTTTATATTTTTAGATTTTAAA
Found at i:117575627 original size:15 final size:15
Alignment explanation
Indices: 117575602--117575650 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
117575592 GTCGATAAAT
117575602 AAATT-AAAATTATA
1 AAATTAAAAATTATA
*
117575616 AAATTAAAAATTTTAA
1 AAATTAAAAATTAT-A
*
117575632 AAATACAAAAATTATA
1 AAAT-TAAAAATTATA
117575648 AAA
1 AAA
117575651 AAAAGTATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 5 0.17
15 7 0.24
16 9 0.31
17 8 0.28
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTAAAAATTATA
Found at i:117578951 original size:16 final size:16
Alignment explanation
Indices: 117578932--117578988 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
117578922 ATTGGAATAT
117578932 AGGCGTAATGGATTAG
1 AGGCGTAATGGATTAG
117578948 AGGCGTAATGGATTAG
1 AGGCGTAATGGATTAG
* *
117578964 AGGCGTAATAGAATAG
1 AGGCGTAATGGATTAG
117578980 AGGCGTAAT
1 AGGCGTAAT
117578989 AGCAAATCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.23
Consensus pattern (16 bp):
AGGCGTAATGGATTAG
Found at i:117578989 original size:16 final size:16
Alignment explanation
Indices: 117578926--117578990 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
117578916 CGCTGTATTG
* *
117578926 GAATATAGGCGTAATG
1 GAATAGAGGCGTAATA
* *
117578942 GATTAGAGGCGTAATG
1 GAATAGAGGCGTAATA
*
117578958 GATTAGAGGCGTAATA
1 GAATAGAGGCGTAATA
117578974 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
117578990 G
1 G
117578991 CAAATCAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:117579239 original size:16 final size:16
Alignment explanation
Indices: 117579202--117579243 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
117579192 TTAATCATAT
*
117579202 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
117579218 TT-AAATATATTATAA
1 TTAAAATATATTATAA
117579233 TTAAAATATAT
1 TTAAAATATAT
117579244 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:117579250 original size:14 final size:15
Alignment explanation
Indices: 117579211--117579252 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
117579201 TTTAAACATA
*
117579211 ATTATTATTAAATAT
1 ATTATAATTAAATAT
117579226 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
117579240 A-TATAATTTAATA
1 ATTATAATTAAATA
117579253 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:117579363 original size:18 final size:17
Alignment explanation
Indices: 117579342--117579376 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
117579332 TTATTATTAA
*
117579342 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
117579360 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
117579377 TCTAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:117579434 original size:60 final size:60
Alignment explanation
Indices: 117579250--117579436 Score: 168
Period size: 60 Copynumber: 3.1 Consensus size: 60
117579240 ATATAATTTA
* *
117579250 ATAAAATTCTTAATAGTCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
** * * * * ** * * * *
117579311 ATAAAA-GATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAATTCTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
117579369 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
117579430 ATAAAAT
1 ATAAAAT
117579437 ACAATTTGAA
Statistics
Matches: 92, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
58 4 0.04
59 39 0.42
60 40 0.43
61 9 0.10
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (60 bp):
ATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:117579434 original size:119 final size:121
Alignment explanation
Indices: 117579200--117579496 Score: 501
Period size: 119 Copynumber: 2.5 Consensus size: 121
117579190 ATTTAATCAT
*
117579200 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
117579265 GTCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGACA
117579321 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
117579384 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATACA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGACA
* * *
117579440 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
117579497 TAAAATAATT
Statistics
Matches: 168, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 109 0.65
120 55 0.33
121 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGACA
Found at i:117579495 original size:59 final size:58
Alignment explanation
Indices: 117579298--117579485 Score: 164
Period size: 59 Copynumber: 3.2 Consensus size: 58
117579288 CTCAAATCAT
* *
117579298 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATACAATTTAA-ATAATTATTATTAAATATATTTTAATTAA
* * * * * * * * * ** * *
117579357 AATATATAAT-TTAATAAAATTCTAATAATCAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATACT-ATAAAATAC-AAT-TTAAATAATTATTAT-TAAATATATTTTAATTAA
*
117579417 AATATATGATACTATAAAATACAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATACAATTT-AAATAATTATTATTAAATATATTTTAATTAA
117579476 AATATATGAT
1 AATATATGAT
117579486 TTAATAAAAT
Statistics
Matches: 93, Mismatches: 29, Indels: 14
0.68 0.21 0.10
Matches are distributed among these distances:
58 2 0.02
59 49 0.53
60 39 0.42
61 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (58 bp):
AATATATGATACTATAAAATACAATTTAAATAATTATTATTAAATATATTTTAATTAA
Found at i:117585715 original size:19 final size:20
Alignment explanation
Indices: 117585681--117585718 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
117585671 CTTTAGGTTT
*
117585681 ATTTTAGTTATAGTTAGTTA
1 ATTTGAGTTATAGTTAGTTA
117585701 ATTTGAGTT-TAGTTAGTT
1 ATTTGAGTTATAGTTAGTT
117585719 GTTAAGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (20 bp):
ATTTGAGTTATAGTTAGTTA
Found at i:117588632 original size:31 final size:32
Alignment explanation
Indices: 117588597--117588669 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
117588587 AATCTATCGA
* * **
117588597 TTGGTATTTTAGTTTAGTTTTAA-TATTTAAT
1 TTGGTATTTAAATTTAAATTTAATTATTTAAT
*
117588628 TTGGTATTTAAATTTAAATTTAATTGTTTAAT
1 TTGGTATTTAAATTTAAATTTAATTATTTAAT
*
117588660 TTGATATTTA
1 TTGGTATTTA
117588670 GATTAAACAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 19 0.54
32 16 0.46
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (32 bp):
TTGGTATTTAAATTTAAATTTAATTATTTAAT
Found at i:117588848 original size:26 final size:25
Alignment explanation
Indices: 117588810--117588858 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
117588800 TGGGATGAAG
*
117588810 AAAAACTCAAACATCAAATTGAAAA
1 AAAAACTCAAACACCAAATTGAAAA
*
117588835 AAAATACTCAAACACCTAATTGAA
1 AAAA-ACTCAAACACCAAATTGAA
117588859 CATTAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.59, C:0.18, G:0.04, T:0.18
Consensus pattern (25 bp):
AAAAACTCAAACACCAAATTGAAAA
Found at i:117593429 original size:30 final size:30
Alignment explanation
Indices: 117593389--117593445 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
117593379 TTTTATAAAT
117593389 AATTAATA-TTTAT-TACTTAAAAATATTTGA
1 AATTAATATTTTATATA-TT-AAAATATTTGA
*
117593419 AATTTATATTTTATATATTAAAATATT
1 AATTAATATTTTATATATTAAAATATT
117593446 AACAAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 7 0.29
32 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTAATATTTTATATATTAAAATATTTGA
Found at i:117593844 original size:32 final size:32
Alignment explanation
Indices: 117593806--117593872 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
117593796 CGATTTTAAC
117593806 TTAAACATAATTTGGTCTTTATTTTAATAATG
1 TTAAACATAATTTGGTCTTTATTTTAATAATG
* *
117593838 TTAAACATAATTTTGTCTTTATTTTACTAATG
1 TTAAACATAATTTGGTCTTTATTTTAATAATG
117593870 TTA
1 TTA
117593873 TTCGTAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (32 bp):
TTAAACATAATTTGGTCTTTATTTTAATAATG
Found at i:117594513 original size:21 final size:19
Alignment explanation
Indices: 117594488--117594533 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
117594478 ATGTATTGTT
117594488 TATAAAATT-TTATATATGATA
1 TATAAAATTATT-TAT-T-ATA
117594509 TATAAAATTATTTATTATA
1 TATAAAATTATTTATTATA
117594528 TATAAA
1 TATAAA
117594534 TAAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
20 1 0.04
21 12 0.50
22 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATAAAATTATTTATTATA
Found at i:117594519 original size:19 final size:19
Alignment explanation
Indices: 117594497--117594533 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
117594487 TTATAAAATT
117594497 TTATATATGATATATAAAA
1 TTATATATGATATATAAAA
* *
117594516 TTATTTATTATATATAAA
1 TTATATATGATATATAAA
117594534 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTATATATGATATATAAAA
Found at i:117594527 original size:24 final size:22
Alignment explanation
Indices: 117594488--117594545 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
117594478 ATGTATTGTT
117594488 TATAAAA-T-TTTATATATGATA
1 TATAAAATTATTTATATAT-ATA
117594509 TATAAAATTATTTATTATATATA
1 TATAAAATTATTTA-TATATATA
*
117594532 AATAAAAATTATTT
1 TAT-AAAATTATTT
117594546 TTTAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.22
22 1 0.03
23 9 0.28
24 15 0.47
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATAAAATTATTTATATATATA
Found at i:117594556 original size:24 final size:25
Alignment explanation
Indices: 117594512--117594574 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
117594502 TATGATATAT
* * *
117594512 AAAATTATTTATTATATATAAA-TA
1 AAAATTATTTTTTAAAAATAAAGTA
117594536 AAAATTATTTTTTAAAAATAAAGTA
1 AAAATTATTTTTTAAAAATAAAGTA
117594561 ATATAATT-TTTTTT
1 A-A-AATTATTTTTT
117594575 CTTTTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 19 0.58
25 3 0.09
26 7 0.21
27 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AAAATTATTTTTTAAAAATAAAGTA
Found at i:117594557 original size:20 final size:24
Alignment explanation
Indices: 117594497--117594545 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
117594487 TTATAAAATT
*
117594497 TTATATATGATATATAAAATTATTTA
1 TTATATAT-AAATA-AAAATTATTTA
117594523 TTATATATAAATAAAAATTATTT
1 TTATATATAAATAAAAATTATTT
117594546 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTATATATAAATAAAAATTATTTA
Found at i:117595053 original size:21 final size:21
Alignment explanation
Indices: 117595001--117595053 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
117594991 TCATATTTAA
*
117595001 TTTTATT-TTATATCAATTTT
1 TTTTATTATTATATAAATTTT
117595021 TTTATAATTATTAT-TAAATTATT
1 TTT-T-ATTATTATATAAATT-TT
117595044 TTTTATTATT
1 TTTTATTATT
117595054 TAATTATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 3 0.11
21 7 0.25
22 9 0.32
23 9 0.32
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATTATTATATAAATTTT
Found at i:117596449 original size:17 final size:18
Alignment explanation
Indices: 117596427--117596461 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
117596417 GCAAAACTTT
*
117596427 TAAAATT-AAAAATAAAG
1 TAAAATTGAAAAAGAAAG
117596444 TAAAATTGAAAAAGAAAG
1 TAAAATTGAAAAAGAAAG
117596462 AGTTTGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (18 bp):
TAAAATTGAAAAAGAAAG
Found at i:117601011 original size:180 final size:181
Alignment explanation
Indices: 117600682--117601044 Score: 602
Period size: 180 Copynumber: 2.0 Consensus size: 181
117600672 TGATGATCAC
* * *
117600682 ATAGCAACTTCATATGTACTTCAAATTCCATGTTTCCATTTGATCATCATTAAATCATATATAAC
1 ATAGCAACTTCAAATGTACTTCAAATTCCATGGTTCCATTTGATCATCAATAAATCATATAT-A-
*
117600747 CATATGAATGTACATGCAAGTCATAGGAAGCATGGAGTGAAAAGTTCTCACATAACCATGATGGT
64 -ATATGAATGTACATGCAAGTCATAGGAAGCATGGAGTGAAAAGTTCTCACATAACCATGATGGG
* *
117600812 CACATAGTAACTTCATATGTACTTCAAATTCCATGGTTCCATATATGAATGTAT
128 CACATAGCAACTCCATATGTACTTCAAATTCCATGGTTCCATATATGAATGTAT
* *
117600866 ATAGTAACTTCAAATGTACTTCAAGTTCCATGGTTCCATTTGATCATCAATAAATCATATAT-AT
1 ATAGCAACTTCAAATGTACTTCAAATTCCATGGTTCCATTTGATCATCAATAAATCATATATAAT
* *
117600930 ATGAATGTACATGCAAGTCATAGGAAGCATGGAGTGAAAAGTTCTCCCATAACCATGATGGGCGC
66 ATGAATGTACATGCAAGTCATAGGAAGCATGGAGTGAAAAGTTCTCACATAACCATGATGGGCAC
117600995 ATAGCAACTCCATATGTACTTCAAATTCCATGGTTCCATATATGAATGTA
131 ATAGCAACTCCATATGTACTTCAAATTCCATGGTTCCATATATGAATGTA
117601045 CAAGCAAATC
Statistics
Matches: 169, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
180 112 0.66
184 57 0.34
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (181 bp):
ATAGCAACTTCAAATGTACTTCAAATTCCATGGTTCCATTTGATCATCAATAAATCATATATAAT
ATGAATGTACATGCAAGTCATAGGAAGCATGGAGTGAAAAGTTCTCACATAACCATGATGGGCAC
ATAGCAACTCCATATGTACTTCAAATTCCATGGTTCCATATATGAATGTAT
Found at i:117601804 original size:16 final size:16
Alignment explanation
Indices: 117601775--117601810 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
117601765 GAAAAGAATG
117601775 AAAACCCAGAGAAAAA
1 AAAACCCAGAGAAAAA
117601791 AAAATCCCAG-GAAAAA
1 AAAA-CCCAGAGAAAAA
117601807 AAAA
1 AAAA
117601811 GAAAAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.69, C:0.17, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAACCCAGAGAAAAA
Found at i:117609686 original size:30 final size:28
Alignment explanation
Indices: 117609647--117609783 Score: 91
Period size: 30 Copynumber: 4.8 Consensus size: 28
117609637 TTTATTTATC
117609647 TTTAATTAAATGTATCTATCTTTTTAGAA
1 TTTAATTAAAT-TATCTATCTTTTTAGAA
* ** *
117609676 TTTAAGTTAAATTAGACTATCTTCCTAGGAT
1 TTTAA-TTAAATTA-TCTATCTTTTTA-GAA
* * ** **
117609707 TTTATTTTAATTATCT-T-TAATTA-TC
1 TTTAATTAAATTATCTATCTTTTTAGAA
117609732 TTTAATTAAATGTATCTATCTTTTTAGAA
1 TTTAATTAAAT-TATCTATCTTTTTAGAA
*
117609761 TTTAAGTTAAATTAGACTATCTT
1 TTTAA-TTAAATTA-TCTATCTT
117609784 CCTACTATAA
Statistics
Matches: 80, Mismatches: 19, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
25 9 0.11
26 5 0.06
27 4 0.05
28 5 0.06
29 16 0.20
30 35 0.44
31 6 0.08
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (28 bp):
TTTAATTAAATTATCTATCTTTTTAGAA
Found at i:117609709 original size:85 final size:85
Alignment explanation
Indices: 117609616--117609787 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
117609606 ATTTAAATTT
*
117609616 TAGGATTTTATTTTAATTATCTTTATTTATCTTTAATTAAATGTATCTATCTTTTTAGAATTTAA
1 TAGGATTTTATTTTAATTATCTTTAATTATCTTTAATTAAATGTATCTATCTTTTTAGAATTTAA
117609681 GTTAAATTAGACTATCTTCC
66 GTTAAATTAGACTATCTTCC
117609701 TAGGATTTTATTTTAATTATCTTTAATTATCTTTAATTAAATGTATCTATCTTTTTAGAATTTAA
1 TAGGATTTTATTTTAATTATCTTTAATTATCTTTAATTAAATGTATCTATCTTTTTAGAATTTAA
117609766 GTTAAATTAGACTATCTTCC
66 GTTAAATTAGACTATCTTCC
117609786 TA
1 TA
117609788 CTATAAATAG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (85 bp):
TAGGATTTTATTTTAATTATCTTTAATTATCTTTAATTAAATGTATCTATCTTTTTAGAATTTAA
GTTAAATTAGACTATCTTCC
Found at i:117609727 original size:10 final size:10
Alignment explanation
Indices: 117609708--117609739 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
117609698 TCCTAGGATT
117609708 TTAT-TTTAA
1 TTATCTTTAA
117609717 TTATCTTTAA
1 TTATCTTTAA
117609727 TTATCTTTAA
1 TTATCTTTAA
117609737 TTA
1 TTA
117609740 AATGTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:117610482 original size:17 final size:19
Alignment explanation
Indices: 117610446--117610483 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
117610436 TTATTTTTTC
117610446 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
117610465 TTATTT-AATTTC-GCAAT
1 TTATTTCAATTTCTGCAAT
117610482 TT
1 TT
117610484 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:117611607 original size:20 final size:20
Alignment explanation
Indices: 117611584--117611625 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
117611574 AATTCGTAAC
*
117611584 CTTAAA-CTCTGAACTCTGAA
1 CTTAAATCT-TGAACCCTGAA
117611604 CTTAAATCTTGAACCCTGAA
1 CTTAAATCTTGAACCCTGAA
117611624 CT
1 CT
117611626 CAAGTACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (20 bp):
CTTAAATCTTGAACCCTGAA
Found at i:117612615 original size:3 final size:3
Alignment explanation
Indices: 117612607--117612631 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
117612597 GATCGGCGGT
117612607 GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG G
117612632 GATGGGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:117615024 original size:46 final size:47
Alignment explanation
Indices: 117614971--117615255 Score: 339
Period size: 46 Copynumber: 6.2 Consensus size: 47
117614961 TGATGTCATA
* * ** *
117614971 GTATCTTTCAACTATGGTTTTACTTGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTTCATTTCATGTCACGTTGCCATG
* * *
117615017 GTATCTTTCAACCATGGTCTTA-TTTATTTTCCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTTCA-TTTCATGTCACGTTGCCATG
* *
117615064 GTATCTTTCAACCATGGTCTTAC-TCATTTCATGTCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTTCATTTCATGTCACGTTGCCATG
* *
117615110 GTATCTTTTAACCATGGTCTTA-TTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTTCATTTCATGTCACGTTGCCATG
* * * *
117615156 ATATTTTTCAACCATGGTCTTAC-ACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTTCATTTCATGTCACGTTGCCATG
* * *
117615202 GTATCTTTCAACCATGGTCTTAC-ACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTTCATTTCATGTCACGTTGCCATG
*
117615248 ATATCTTT
1 GTATCTTT
117615256 TCCATATCAC
Statistics
Matches: 214, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
45 2 0.01
46 173 0.81
47 39 0.18
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTACTTCATTTCATGTCACGTTGCCATG
Found at i:117615032 original size:24 final size:24
Alignment explanation
Indices: 117615005--117615079 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
117614995 TGTTTTCTGT
117615005 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
* * * ***
117615029 CATGGT-CTTAT-TTAT-TTTCCTGT
1 CATGTTGC-CATGGTATCTTT-CAAC
117615052 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
117615076 CATG
1 CATG
117615080 GTCTTACTCA
Statistics
Matches: 34, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
22 3 0.09
23 12 0.35
24 16 0.47
25 3 0.09
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.43
Consensus pattern (24 bp):
CATGTTGCCATGGTATCTTTCAAC
Found at i:117615081 original size:93 final size:93
Alignment explanation
Indices: 117614941--117615223 Score: 349
Period size: 92 Copynumber: 3.1 Consensus size: 93
117614931 TCTCTTCCTC
* * * * * * **
117614941 GGTCTTATTTATTTT-C-GACATGATGTCATAGTATCTTTCAACTATGGTTTTACTTGTTTTC-T
1 GGTCTTATTTATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCAT
*
117615003 GTCATGTTGCCATGGTATCTTTCAACCAT
65 GTCACGTTGCCATGGTATCTTTCAACCAT
117615032 GGTCTTATTTATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATG
1 GGTCTTATTTATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATG
* * *
117615097 TCAGGTTGTCATGGTATCTTTTAACCAT
66 TCACGTTGCCATGGTATCTTTCAACCAT
* * * * * * * *
117615125 GGTCTTATTCA-TTTCATATCACGTTGCCATGATATTTTTCAACCATGGTCTTACACATTTCATA
1 GGTCTTATTTATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATG
117615189 TCACGTTGCCATGGTATCTTTCAACCAT
66 TCACGTTGCCATGGTATCTTTCAACCAT
117615217 GGTCTTA
1 GGTCTTA
117615224 CACATTTCAT
Statistics
Matches: 167, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
91 15 0.09
92 84 0.50
93 68 0.41
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.44
Consensus pattern (93 bp):
GGTCTTATTTATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATG
TCACGTTGCCATGGTATCTTTCAACCAT
Found at i:117615239 original size:138 final size:139
Alignment explanation
Indices: 117614964--117615256 Score: 383
Period size: 138 Copynumber: 2.1 Consensus size: 139
117614954 TTCGACATGA
* * * * ** * * *
117614964 TGTCATAGTATCTTTCAACTATGGTTTTACTTGTTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGTCATGGTATCTTTTAACCATGGTCTTACTTCATTTCTATCACGTTGCCATGATATCTTTCAAC
*** * * * *
117615029 CATGGTCTTATTTATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
66 CATGGTCTTACACATTTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
117615094 ATGTCAGGT
131 ATATCAGGT
*
117615103 TGTCATGGTATCTTTTAACCATGGTCTTA-TTCATTTCATATCACGTTGCCATGATATTTTTCAA
1 TGTCATGGTATCTTTTAACCATGGTCTTACTTCATTTC-TATCACGTTGCCATGATATCTTTCAA
117615167 CCATGGTCTTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
65 CCATGGTCTTACACATTTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
117615231 CATATCAGGT
130 CATATCAGGT
* *
117615241 TGCCATGATATCTTTT
1 TGTCATGGTATCTTTT
117615257 CCATATCACG
Statistics
Matches: 133, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
138 74 0.56
139 59 0.44
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (139 bp):
TGTCATGGTATCTTTTAACCATGGTCTTACTTCATTTCTATCACGTTGCCATGATATCTTTCAAC
CATGGTCTTACACATTTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
ATATCAGGT
Found at i:117615262 original size:27 final size:27
Alignment explanation
Indices: 117615231--117615282 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
117615221 TTACACATTT
*
117615231 CATATCAGGTTGCCATGATATCTTTTC
1 CATATCACGTTGCCATGATATCTTTTC
*
117615258 CATATCACGTTGCCATGGTATCTTT
1 CATATCACGTTGCCATGATATCTTT
117615283 CAACCATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (27 bp):
CATATCACGTTGCCATGATATCTTTTC
Found at i:117615269 original size:73 final size:73
Alignment explanation
Indices: 117615185--117615328 Score: 279
Period size: 73 Copynumber: 2.0 Consensus size: 73
117615175 TTACACATTT
117615185 CATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGAT
1 CATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGAT
117615250 ATCTTTTC
66 ATCTTTTC
*
117615258 CATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
1 CATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGAT
117615323 ATCTTT
66 ATCTTT
117615329 CAACCATGGT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (73 bp):
CATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGAT
ATCTTTTC
Found at i:117615269 original size:119 final size:119
Alignment explanation
Indices: 117615139--117615357 Score: 402
Period size: 119 Copynumber: 1.8 Consensus size: 119
117615129 TTATTCATTT
*
117615139 CATATCACGTTGCCATGATATTTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGT
1 CATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGT
*
117615204 ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGATATCTTTTC
66 ATCTTTCAACCATGGTCTTACACATTCCATATCAGGTTGCCATGATATCTTTTC
* *
117615258 CATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
1 CATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGT
117615323 ATCTTTCAACCATGGTCTTACACATTCCATATCAG
66 ATCTTTCAACCATGGTCTTACACATTCCATATCAG
117615358 AGAGCACACT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 96 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (119 bp):
CATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGT
ATCTTTCAACCATGGTCTTACACATTCCATATCAGGTTGCCATGATATCTTTTC
Found at i:117615316 original size:46 final size:46
Alignment explanation
Indices: 117615255--117615357 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
117615245 ATGATATCTT
*
117615255 TTCCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TTCCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
117615301 TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TTCCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
117615347 TTCCATATCAG
1 TTCCATATCAG
117615358 AGAGCACACT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (46 bp):
TTCCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:117619444 original size:27 final size:27
Alignment explanation
Indices: 117619396--117619451 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
117619386 TTCTTCCTTG
*
117619396 AGCATTTGAACTGAGTTAGAATCTTAA
1 AGCATTTGAACTGAATTAGAATCTTAA
* *
117619423 AGCATTTGAATTGAATTTGAATCTTAA
1 AGCATTTGAACTGAATTAGAATCTTAA
117619450 AG
1 AG
117619452 TCATCAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (27 bp):
AGCATTTGAACTGAATTAGAATCTTAA
Found at i:117623326 original size:16 final size:15
Alignment explanation
Indices: 117623286--117623318 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
117623276 TTGGGTATTT
117623286 TTCATATTTTTGTTA
1 TTCATATTTTTGTTA
117623301 TTCATATTTTTGTTA
1 TTCATATTTTTGTTA
117623316 TTC
1 TTC
117623319 GTCATTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (15 bp):
TTCATATTTTTGTTA
Found at i:117623765 original size:16 final size:15
Alignment explanation
Indices: 117623727--117623767 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
117623717 TTAATTTTAC
117623727 TATA-TATT-TTAAA
1 TATATTATTATTAAA
*
117623740 TATTTTATTATTAAA
1 TATATTATTATTAAA
117623755 TTATATTATTATT
1 -TATATTATTATT
117623768 CTTAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 4 0.17
15 5 0.22
16 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATATTATTATTAAA
Found at i:117623772 original size:19 final size:19
Alignment explanation
Indices: 117623739--117623785 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
117623729 TATATTTTAA
117623739 ATATT-TTATTATTAA-ATT
1 ATATTATTATTATTAATA-T
*
117623757 ATATTATTATTCTTAATAT
1 ATATTATTATTATTAATAT
117623776 ATATTTATTA
1 ATA-TTATTA
117623786 ACATTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTATTATTATTAATAT
Found at i:117627086 original size:22 final size:22
Alignment explanation
Indices: 117627040--117627086 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
117627030 ATTGAACTAT
* *
117627040 TTGAAAGTTTTCATTTAAGTCA
1 TTGAAAGTTTTCATTTAAATAA
117627062 TTGAAAGTGTTT-ATTTAAATAA
1 TTGAAAGT-TTTCATTTAAATAA
117627084 TTG
1 TTG
117627087 GACTGTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (22 bp):
TTGAAAGTTTTCATTTAAATAA
Found at i:117629906 original size:29 final size:29
Alignment explanation
Indices: 117629842--117629909 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 29
117629832 TGGAAAGTAA
117629842 GACTAAATTCCTAAAAATAAATGTATAGG
1 GACTAAATTCCTAAAAATAAATGTATAGG
117629871 GAACTAAATTCCTAAAAATAAATGTATAGG
1 G-ACTAAATTCCTAAAAATAAATGTATAGG
117629901 GACTAAATT
1 GACTAAATT
117629910 TCAAATGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 9 0.24
30 29 0.76
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (29 bp):
GACTAAATTCCTAAAAATAAATGTATAGG
Found at i:117630313 original size:16 final size:16
Alignment explanation
Indices: 117630292--117630325 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
117630282 TAGTCCTACC
*
117630292 CTCCCAATTGCCACCT
1 CTCCCAACTGCCACCT
117630308 CTCCCAACTGCCACCT
1 CTCCCAACTGCCACCT
117630324 CT
1 CT
117630326 ATGACACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.53, G:0.06, T:0.24
Consensus pattern (16 bp):
CTCCCAACTGCCACCT
Found at i:117640115 original size:30 final size:31
Alignment explanation
Indices: 117640079--117640142 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
117640069 ACTTAACAAG
*
117640079 CAAATGT-TTCTAAAATAAT-AACAAAATTAA
1 CAAATGTCTT-TAAAATAATAAAAAAAATTAA
117640109 CAAATGTCTTTAAAATAATAAAAAAAATTAA
1 CAAATGTCTTTAAAATAATAAAAAAAATTAA
117640140 CAA
1 CAA
117640143 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (31 bp):
CAAATGTCTTTAAAATAATAAAAAAAATTAA
Found at i:117640197 original size:22 final size:22
Alignment explanation
Indices: 117640172--117640214 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
117640162 TATCCAGACA
117640172 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
117640194 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
117640215 AATAGAGAGA
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:117640218 original size:11 final size:11
Alignment explanation
Indices: 117640179--117640219 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
117640169 ACAATAACAA
117640179 CAAAATAGTAG
1 CAAAATAGTAG
* *
117640190 CAACATAATAG
1 CAAAATAGTAG
*
117640201 TAAAATAGTAG
1 CAAAATAGTAG
117640212 CAAAATAG
1 CAAAATAG
117640220 AGAGAAAACA
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:117640227 original size:22 final size:22
Alignment explanation
Indices: 117640180--117640227 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
117640170 CAATAACAAC
* *
117640180 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
117640202 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
117640224 AAAA
1 AAAA
117640228 CAATAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:117642392 original size:21 final size:20
Alignment explanation
Indices: 117642368--117642411 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 20
117642358 TAAAAGGTCA
117642368 TTCCTAAAAAGAAAAAAATCT
1 TTCCTAAAAAG-AAAAAATCT
117642389 TTCCTAAAAAGAAAAAATCT
1 TTCCTAAAAAGAAAAAATCT
117642409 TTC
1 TTC
117642412 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (20 bp):
TTCCTAAAAAGAAAAAATCT
Found at i:117644718 original size:15 final size:15
Alignment explanation
Indices: 117644670--117644718 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
117644660 AAAATGCATA
*
117644670 TATTTTTATAAATAC
1 TATTTTTATAAATTC
*
117644685 -ATTTTTATATAATTT
1 TATTTTTATA-AATTC
*
117644700 TATTTATATAAATTC
1 TATTTTTATAAATTC
117644715 TATT
1 TATT
117644719 ATTGGATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 9 0.32
15 11 0.39
16 8 0.29
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTTTATAAATTC
Found at i:117645475 original size:19 final size:20
Alignment explanation
Indices: 117645446--117645483 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
117645436 TAATTACACC
*
117645446 AAAATTAAAATTTATATATT
1 AAAATTAAAATTTACATATT
117645466 AAAA-TAAAATTTACATAT
1 AAAATTAAAATTTACATAT
117645484 AAATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTAAAATTTACATATT
Found at i:117654864 original size:21 final size:20
Alignment explanation
Indices: 117654836--117654880 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
117654826 TATAAGAATC
117654836 ATTAATAAT-TAGCTTAATTT
1 ATTAATAATATAG-TTAATTT
117654856 ATTATATAATATAGTTAATTT
1 ATTA-ATAATATAGTTAATTT
117654877 ATTA
1 ATTA
117654881 CGTGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTAATAATATAGTTAATTT
Found at i:117666948 original size:47 final size:45
Alignment explanation
Indices: 117666869--117666960 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 45
117666859 AGCTATTGTT
*
117666869 TAGATATTAATTTTTTATTACATTTTAAAATATTTTAATTTAATC
1 TAGATATTAATTTTTTATTACATTTTAAAATATTTTAATTGAATC
* * *
117666914 TAGATATTAGATTTTTTTGTTATATTTTATAATATTTTAATTGAATC
1 TAGATATTA-A-TTTTTTATTACATTTTAAAATATTTTAATTGAATC
117666961 CTTAATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 9 0.22
46 1 0.02
47 31 0.76
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (45 bp):
TAGATATTAATTTTTTATTACATTTTAAAATATTTTAATTGAATC
Found at i:117668736 original size:20 final size:19
Alignment explanation
Indices: 117668698--117668737 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
117668688 AGCCGAATAA
* *
117668698 AAATTTGATAGATTTTAAT
1 AAATTTGAAAGAATTTAAT
117668717 AAATTTGTAAAGAATTTAAT
1 AAATTTG-AAAGAATTTAAT
117668737 A
1 A
117668738 TAGTCGATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (19 bp):
AAATTTGAAAGAATTTAAT
Found at i:117670129 original size:21 final size:20
Alignment explanation
Indices: 117670088--117670145 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
117670078 AAGTTTGTTT
117670088 AAAATAAAATATTAAATTTA
1 AAAATAAAATATTAAATTTA
117670108 AAAATAAAA-ATTATAATATTA
1 AAAATAAAATATTA-AAT-TTA
* *
117670129 AATATTTAAATATTAAA
1 AA-AATAAAATATTAAA
117670146 AACACTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 12 0.38
21 5 0.16
22 7 0.22
23 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAAAATATTAAATTTA
Found at i:117670130 original size:15 final size:15
Alignment explanation
Indices: 117670101--117670147 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
117670091 ATAAAATATT
*
117670101 AAATTTAAA-AATAA
1 AAATTTAAATATTAA
117670115 AAA-TTATAATATTAA
1 AAATTTA-AATATTAA
*
117670130 ATATTTAAATATTAA
1 AAATTTAAATATTAA
117670145 AAA
1 AAA
117670148 CACTTTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.11
14 5 0.19
15 16 0.59
16 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTTAAATATTAA
Found at i:117670132 original size:7 final size:7
Alignment explanation
Indices: 117670094--117670145 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
117670084 GTTTAAAATA
117670094 AAATATT
1 AAATATT
117670101 AAAT-TT
1 AAATATT
*
117670107 AAA-AAT
1 AAATATT
*
117670113 AAAAATT
1 AAATATT
117670120 ATAATATT
1 A-AATATT
117670128 AAATATTT
1 AAATA-TT
117670136 AAATATT
1 AAATATT
117670143 AAA
1 AAA
117670146 AACACTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 9 0.24
7 16 0.42
8 13 0.34
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAATATT
Found at i:117671179 original size:23 final size:21
Alignment explanation
Indices: 117671148--117671191 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
117671138 TGAATCAAAA
*
117671148 TTTTAAATATATATATTTTAATT
1 TTTTAAATAAAT-TA-TTTAATT
*
117671171 TTTTTAATAAATTATTTAATT
1 TTTTAAATAAATTATTTAATT
117671192 AAACCGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAATAAATTATTTAATT
Found at i:117674680 original size:22 final size:20
Alignment explanation
Indices: 117674647--117674740 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 20
117674637 ATATTAAATA
117674647 ATTTAAATATTATTTAGTATTAT
1 ATTT-AATATTATTTA-TATT-T
117674670 ATTTAATATTATTCTATATTT
1 ATTTAATATTATT-TATATTT
*
117674691 CATAT-ATCATTATATTAT-TTT
1 -ATTTAAT-ATTAT-TTATATTT
*
117674712 ATTTAAAATTTATTTATTATTAT
1 ATTTAATA-TTATTTA-TATT-T
117674735 ATTTAA
1 ATTTAA
117674741 AATTTTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
20 7 0.12
21 12 0.20
22 26 0.44
23 14 0.24
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (20 bp):
ATTTAATATTATTTATATTT
Found at i:117677348 original size:14 final size:15
Alignment explanation
Indices: 117677329--117677357 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
117677319 AAATATTTGC
117677329 AAAAGAAAA-AAAAA
1 AAAAGAAAAGAAAAA
117677343 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
117677358 GAGGAGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAA
Found at i:117679095 original size:106 final size:107
Alignment explanation
Indices: 117678890--117679110 Score: 392
Period size: 106 Copynumber: 2.1 Consensus size: 107
117678880 ATACTAAAGC
* **
117678890 TATT-TGGTACATATGCCATACTGTATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
1 TATTATGGTACATACGCCATACTAAATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
*
117678954 ACAGTTATTTGTACCCTCACTGTATTTGTATTTTAAATATTT
66 ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
117678996 TATTATGGTACATACGCCATACTAAATGAGATTACACAAGAAAGCATGCTTTT-CTTACAAAGTA
1 TATTATGGTACATACGCCATACTAAATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
117679060 ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
66 ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
117679102 TATTATGGT
1 TATTATGGT
117679111 TAGCAATGTT
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
106 65 0.59
107 45 0.41
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (107 bp):
TATTATGGTACATACGCCATACTAAATGAGATTACACAAGAAAGCATGCTTTTCCTTACAAAGTA
ACAGTTATTTGAACCCTCACTGTATTTGTATTTTAAATATTT
Found at i:117681113 original size:53 final size:53
Alignment explanation
Indices: 117681050--117681158 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
117681040 AAAAGTTAAA
117681050 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
1 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
117681103 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
1 CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
117681156 CTT
1 CTT
117681159 CCCCCTCTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.04, C:0.19, G:0.20, T:0.57
Consensus pattern (53 bp):
CTTGTTTGCTTTCTGCTGTTGTTGTTGTTCCTTTGTTTGTAATCGTTTTGCCC
Found at i:117681160 original size:27 final size:27
Alignment explanation
Indices: 117681077--117681160 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
117681067 GTTGTTGTTG
117681077 TTCCTTTGTTTGTAATCGTTTTGCCCC
1 TTCCTTTGTTTGTAATCGTTTTGCCCC
* * ** ***
117681104 TT-GTTTGCTTTCTGCT-GTTGTTG-TTG
1 TTCCTTTG-TTTGTAATCGTT-TTGCCCC
117681130 TTCCTTTGTTTGTAATCGTTTTGCCCC
1 TTCCTTTGTTTGTAATCGTTTTGCCCC
117681157 TTCC
1 TTCC
117681161 CCCTCTGTAA
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.05, C:0.23, G:0.18, T:0.55
Consensus pattern (27 bp):
TTCCTTTGTTTGTAATCGTTTTGCCCC
Found at i:117693842 original size:172 final size:178
Alignment explanation
Indices: 117693404--117693848 Score: 536
Period size: 180 Copynumber: 2.5 Consensus size: 178
117693394 TATTATCATA
* *
117693404 TCATTGATATGGTGTGTTTTAC--CGTTCTAAACCCCAGAGTGATAACATATTGTCAAACACGTT
1 TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGTT
* *
117693467 GAGTGCTCTTGGCTTATAAGGTCTGTGCATATGTTCATAGAATTCGGTGTATTGAGAGTCTACTG
66 GAGTGCTTTTGGCTTATAAGGTCCGTGCATATGTTCATAGAATTCGGTGTATTGAGAG--TAC-G
* * *
117693532 TATTTAATGGACGTATCATCATATCATCCATCCATCACGTTTAGAAGGTTT
128 TATTCAATGGACGCATCATCACATCATCCATCCATCACGTTTAGAAGGTTT
* * *
117693583 T-GTTGATATGGTGTGTTTTACTTTGTTCAAAACCCCAGATTGATAACATATTGTCAAACATGTT
1 TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGTT
* * *
117693647 GAGTG-TTATTGGCTTAGAAGGTCCGTGTATATGTTCATAGAATTTGGTGTATTG-G-G-A-GTA
66 GAGTGCTT-TTGGCTTATAAGGTCCGTGCATATGTTCATAGAATTCGGTGTATTGAGAGTACGTA
* ** *
117693707 TTCAATTGTTGCAT-TTC-CAT-AT-CATCCATCACGTTTAGAAGGTTTT
130 TTCAATGGACGCATCATCACATCATCCATCCATCACGTTTAGAAGG-TTT
* * * *
117693753 CTCATTGATATGGTGTGTTTTACTTTGTTCTAAGCCCCAGAGTGATAGCATATTGTCAATCGTGT
1 -TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGT
** *
117693818 TGAACGCTTTTGGGTTATAAGGTCCGTGCAT
65 TGAGTGCTTTTGGCTTATAAGGTCCGTGCAT
117693849 GTGAACATTG
Statistics
Matches: 230, Mismatches: 29, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
169 20 0.09
170 5 0.02
171 3 0.01
172 80 0.35
173 14 0.06
175 1 0.00
178 20 0.09
179 3 0.01
180 84 0.37
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (178 bp):
TCATTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACATATTGTCAAACATGTT
GAGTGCTTTTGGCTTATAAGGTCCGTGCATATGTTCATAGAATTCGGTGTATTGAGAGTACGTAT
TCAATGGACGCATCATCACATCATCCATCCATCACGTTTAGAAGGTTT
Found at i:117695955 original size:120 final size:120
Alignment explanation
Indices: 117695793--117696044 Score: 310
Period size: 120 Copynumber: 2.1 Consensus size: 120
117695783 GTGGGCAGTG
* * *
117695793 GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCTCCGTCTTCACCCCATGGGGAGCAGCTTTT
1 GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCCCCGTCTTCACCCCATGAGGAGCAGCTTTC
* * * *
117695858 TGATGGAGCCGCAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCT
66 CGATGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
* * * *
117695913 GCAGTGGCATTGGCAGCTCCTCT-GTTGGTAGAG-CCCCTGTCTTCATCCCATGATGAGCTGCTT
1 GCAGTGGCAGTGGCAGCTCCT-TGGTTGGTAGAGTCCCC-GTCTTCACCCCATGAGGAGCAGCTT
* * * * *
117695976 TCCGCTGGTGCCACAGTTCCACTTACATTGCTGAAGGCTTGAGACCGAAGCCCATCT
64 TCCGATGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
* *
117696033 CCAGTGGTAGTG
1 GCAGTGGCAGTG
117696045 ACATTGGCAT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
119 3 0.03
120 107 0.96
121 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (120 bp):
GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCCCCGTCTTCACCCCATGAGGAGCAGCTTTC
CGATGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
Found at i:117696165 original size:138 final size:132
Alignment explanation
Indices: 117695914--117696560 Score: 563
Period size: 132 Copynumber: 4.9 Consensus size: 132
117695904 ACCCCACCTG
* * * * * * *
117695914 CAGTGGCATTGGCAGCTCCT-CTGTTGGTAGAGCCCCTGTCTTCATCCCATGATGAGCTGCTTTC
1 CAGTGGCATTGGAAGCT-CTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* * * * * * *
117695978 CGCTGGTGCCACAGTTCCACTTACATTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAG
65 TGCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
117696043 TGA
130 TGA
* * *
117696046 CATTGGCATTGGCATTAGCAGCTCTGCAGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCCG
1 CAGTGGCATTGG----A--AGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTG
* * * * *
117696111 CTTTTTGCTAGAGCCACAGTTCCACTTGTATAGCTCAAGGCTTGAGATTGAAGCCCATCTGCGGC
60 CTTTTTGCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGT
*
117696176 GGTAGTGG
125 GGTAGTGA
* * * * * * *
117696184 TAGTGGCATTGGAAGTTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTTT
1 CAGTGGCATTGGAAGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
* * * *
117696249 GC-AGGAGCCACAGCTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATTTGCAGT-G--G
66 GCTA-GAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
117696310 T--
130 TGA
** * * * * *
117696311 -AGTGGC------AGCTCCACTGTTGGCAGAGCCCCACTCTTCGTCCCATGCTGGGCTGCTTTTT
1 CAGTGGCATTGGAAGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
* * * ** *
117696369 GCCAGAGCCACGGCTCCACTTGTGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTAGT
66 GCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAGT
*
117696434 GG
131 GA
* * * * *
117696436 CAGTGGCATTGGCAGCTCCT-C-TGTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTT
1 CAGTGGCATTGGAAGCT-CTGCAGGT-GGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTT
** **
117696499 TTGCCGGAGCCACAGTTCCACTTGCATTGCTCAACACTTGAGACTGAAGCCCAT-TGGCAGTG
64 TTGCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCT-GCAGTG
117696561 ACAGCATGTT
Statistics
Matches: 422, Mismatches: 69, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
120 97 0.23
121 2 0.00
123 2 0.00
126 12 0.03
129 2 0.00
131 4 0.01
132 194 0.46
133 1 0.00
134 1 0.00
137 2 0.00
138 105 0.25
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (132 bp):
CAGTGGCATTGGAAGCTCTGCAGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTTT
GCTAGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAGT
GA
Found at i:117696389 original size:252 final size:252
Alignment explanation
Indices: 117696080--117696560 Score: 669
Period size: 252 Copynumber: 1.9 Consensus size: 252
117696070 TGCAGGTGGT
* * * *
117696080 AGAGCCCCAGTTTTCATCCCATGCTGGGCCGCTTTTTGCTAGAGCCACAGTTCCACTTGTATAGC
1 AGAGCCCCACTCTTCATCCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGC
* * * *
117696145 TCAAGGCTTGAGATTGAAGCCCATCTGCGGCGGTAGTGGTAGTGGCATTGGAAG-TTCTGCTG-G
66 TCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCT-CTGTG
* * ** * *
117696208 AGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTTTGCAGGAGCCACAGCTCCACTTGCG
130 -GGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCA
** * *
117696273 TTGCTCAAGGCTTGAGACTGAATCCCATTTGCAGTGGTAGTGGCAGCTCCACTGTTGGC
194 TTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTGGCAGCTCCACTGTTGGC
* * * * *
117696332 AGAGCCCCACTCTTCGTCCCATGCTGGGCTGCTTTTTGCCAGAGCCACGGCTCCACTTGTGTTGC
1 AGAGCCCCACTCTTCATCCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGC
* * *
117696397 TCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGCAGTGGCATTGGCAGCTCCTCTGTGG
66 TCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCTCTGTGG
* * *
117696462 GCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTGCCGGAGCCACAGTTCCACTTGCATT
131 GCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCATT
117696527 GCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
196 GCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
117696561 ACAGCATGTT
Statistics
Matches: 198, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
252 194 0.98
253 4 0.02
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (252 bp):
AGAGCCCCACTCTTCATCCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGC
TCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCTCTGTGG
GCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCATT
GCTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTGGCAGCTCCACTGTTGGC
Found at i:117700529 original size:22 final size:22
Alignment explanation
Indices: 117700495--117700546 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
117700485 AAGTTTGAAC
117700495 ATATTTGTAGGAATATTCTGTAA
1 ATATTT-TAGGAATATTCTGTAA
* *
117700518 ATATTTTAGGAATATTTTGTAG
1 ATATTTTAGGAATATTCTGTAA
117700540 ATATTTT
1 ATATTTT
117700547 CTTTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (22 bp):
ATATTTTAGGAATATTCTGTAA
Done.