Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 78 of 325
Found at i:24794152 original size:27 final size:26
Alignment explanation
Indices: 24794096--24794334 Score: 214
Period size: 27 Copynumber: 9.0 Consensus size: 26
24794086 GAGTAAAATG
* * * * *
24794096 GTAATTTTACCCCACAAGGTATCTCG
1 GTAATTCTACCCTACAGGGTATTTCA
*
24794122 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGG-GTATTTCA
24794149 GTAATTCTACCCTACAGGGGTATTT-A
1 GTAATTCTACCCTACA-GGGTATTTCA
* *
24794175 GGTATTTCTACCCTACAAGGGTATTTCG
1 -GTAATTCTACCCTAC-AGGGTATTTCA
*
24794203 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTAC-AGGGTATTTCA
* *
24794230 GTAATTCTACCCTATAGGGTATTTCG
1 GTAATTCTACCCTACAGGGTATTTCA
* *
24794256 GTATTTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACA-GGGTATTTCA
* * *
24794282 GATATTTGTACCCATA-AGGGTATTTCG
1 G-TAATTCTACCC-TACAGGGTATTTCA
* *
24794309 GTATTTCTACCCTATAGGGGTATTTC
1 GTAATTCTACCCTACA-GGGTATTTC
24794335 GATAATTTTG
Statistics
Matches: 184, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
25 2 0.01
26 60 0.33
27 117 0.64
28 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (26 bp):
GTAATTCTACCCTACAGGGTATTTCA
Found at i:24794199 original size:54 final size:54
Alignment explanation
Indices: 24794095--24794333 Score: 254
Period size: 53 Copynumber: 4.5 Consensus size: 54
24794085 GGAGTAAAAT
* * * * * *
24794095 GGTAATTTTACCCCACA-AGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAAGG-GTATTTC
* *
24794148 AGTAATTCTACCCTACAGGGGTATTTAGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAAGGGTATTTC
* *
24794202 GGTAATTCTACCCTACAAGGGTATTTTA-GTAATTCTACCCTA-TAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTA-TTTAGGTAATTCTACCCTACAAGGGTATTTC
* * * * * * *
24794255 GGTATTTCTACCCTATAGGGGTATTTCGATATTTGTACCC-ATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAAGGGTATTTC
* *
24794308 GGTATTTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
24794334 CGATAATTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
52 4 0.02
53 89 0.55
54 61 0.38
55 7 0.04
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAAGGGTATTTC
Found at i:24794376 original size:27 final size:27
Alignment explanation
Indices: 24794334--24794460 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 27
24794324 AGGGGTATTT
*
24794334 CGATAATTTTGT-AATCGAGGGTAAAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
*
24794360 CGATAATTCTGTAAATC-AAGGT-AAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
* * * *
24794385 CGGTAATTTTGTAAATTGAGGGTGAAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
*
24794412 CGATAATTCTATAAATCGAGGGTAAAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
* * **
24794439 TGGTAATTCTACAAATCGAGGG
1 CGATAATTCTGTAAATCGAGGG
24794461 CATTTCAGTA
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
25 17 0.20
26 19 0.23
27 48 0.57
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
CGATAATTCTGTAAATCGAGGGTAAAA
Found at i:24794414 original size:52 final size:53
Alignment explanation
Indices: 24794337--24794446 Score: 152
Period size: 52 Copynumber: 2.1 Consensus size: 53
24794327 GGTATTTCGA
*
24794337 TAATTTTGTAATCGAGGGTAAAACGATAATTCTGTAAATC-AAGGT-AAACGG
1 TAATTTTGTAATCGAGGGTAAAACGATAATTCTATAAATCGAAGGTAAAACGG
* * * *
24794388 TAATTTTGTAAATTGAGGGTGAAACGATAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTGT-AATCGAGGGTAAAACGATAATTCTATAAATCGAAGGTAAAACGG
24794442 TAATT
1 TAATT
24794447 CTACAAATCG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
51 9 0.18
52 28 0.55
53 4 0.08
54 10 0.20
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (53 bp):
TAATTTTGTAATCGAGGGTAAAACGATAATTCTATAAATCGAAGGTAAAACGG
Found at i:24796440 original size:6 final size:6
Alignment explanation
Indices: 24796431--24796509 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
24796421 TACCAGAACT
* * *
24796431 AGAATC AGAATC AGAATC AGGATA AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
24796480 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
24796510 GTAAATGCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
5 3 0.05
6 48 0.83
7 5 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:24796467 original size:31 final size:31
Alignment explanation
Indices: 24796431--24796509 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
24796421 TACCAGAACT
*
24796431 AGAATCAGAATCAGAATCAGGATAAGGTGAC
1 AGAATCAGAATCAGAATCAGGATAAGGTAAC
* *
24796462 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGATAAGGTAAC
*
24796493 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
24796510 GTAAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGATAAGGTAAC
Found at i:24797055 original size:27 final size:27
Alignment explanation
Indices: 24797025--24797275 Score: 252
Period size: 27 Copynumber: 9.3 Consensus size: 27
24797015 GGAGTAAAAT
* * * *
24797025 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24797052 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * *
24797079 AGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24797106 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24797133 GGTAATTCTACCCTACAAGGGGTATTTT
1 GGTAATTCTACCCTACAA-GGGTATTTC
* * *
24797161 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
24797188 GGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
24797215 GATATTTGTACCCAATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
24797242 GGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24797269 GATAATT
1 GGTAATT
24797276 TTGTAAATCG
Statistics
Matches: 190, Mismatches: 31, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
26 3 0.02
27 162 0.85
28 25 0.13
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:24797221 original size:109 final size:108
Alignment explanation
Indices: 24797053--24797267 Score: 304
Period size: 109 Copynumber: 2.0 Consensus size: 108
24797043 GGTTATCTCG
* *
24797053 GTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTAGGTATTTCTACC
1 GTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTAGATATTTCTACC
*
24797118 CTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGGTATTTTA
66 CAACAAGGGTATTTCGGTAATTCTACCCTA-AAGGGGTATTTTA
* * * * * * *
24797162 GTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTATAGGGGTATTTCGATATTTGTACC
1 GTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTAGATATTTCTACC
* * *
24797227 CAATAAGGGTATTTCGGTATTTCTACCCTATAGGGGTATTT
66 CAACAAGGGTATTTCGGTAATTCTACCCTAAAGGGGTATTT
24797268 CGATAATTTT
Statistics
Matches: 93, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 10 0.11
109 83 0.89
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (108 bp):
GTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTAGATATTTCTACC
CAACAAGGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTTA
Found at i:24797290 original size:27 final size:27
Alignment explanation
Indices: 24797268--24797397 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
24797258 AGGGGTATTT
*
24797268 CGATAATTTTGTAAATCGAGGGTAAAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
*
24797295 CGATAATTCTGTAAATCAAGGGTAAAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
* * * *
24797322 CGGTAATTTTGTAAATTGAGGGTGAAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
*
24797349 CGATAATTCTATAAATCGAGGGTAAAA
1 CGATAATTCTGTAAATCGAGGGTAAAA
* * **
24797376 TGGTAATTCTACAAATCGAGGG
1 CGATAATTCTGTAAATCGAGGG
24797398 CATTTCAGTA
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
CGATAATTCTGTAAATCGAGGGTAAAA
Found at i:24797291 original size:81 final size:81
Alignment explanation
Indices: 24797054--24797272 Score: 219
Period size: 82 Copynumber: 2.7 Consensus size: 81
24797044 GTTATCTCGG
** * * * * *
24797054 TAATTCTACCTTAC-AGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTAGGTATTTCTACC
1 TAATTCTACCCAACAAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATATTTCTACA
* * *
24797118 CTACAAGGGTATTTCGG
66 ATA-GAGGGTATTTCGA
* * *
24797135 TAATTCTACCCTACAAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACC
1 TAATTCTACCCAACAAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATATTTCTA--
*
24797200 CTATAG-GGGTATTTCGA
64 CAATAGAGGGTATTTCGA
* * * * *
24797217 TATTTGTACCCAATAA-GGGTATTTCGGTATTTCTACCCTATAGGGGTATTTCGATA
1 TAATTCTACCCAACAAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATA
24797273 ATTTTGTAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
81 49 0.42
82 66 0.56
84 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCAACAAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATATTTCTACA
ATAGAGGGTATTTCGA
Found at i:24797381 original size:54 final size:54
Alignment explanation
Indices: 24797271--24797397 Score: 182
Period size: 54 Copynumber: 2.4 Consensus size: 54
24797261 GGTATTTCGA
*
24797271 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
* * * *
24797325 TAATTTTGTAAATTGAGGGTGAAACGATAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
* **
24797379 TAATTCTACAAATCGAGGG
1 TAATTTTGTAAATCGAGGG
24797398 CATTTCAGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (54 bp):
TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
Found at i:24797409 original size:81 final size:81
Alignment explanation
Indices: 24797268--24797417 Score: 183
Period size: 81 Copynumber: 1.9 Consensus size: 81
24797258 AGGGGTATTT
* * ** * * *
24797268 CGATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGGTAATTTTG
1 CGATAATTCTATAAATCGAGGGTAAAACGATAATTCTACAAATCAAGGGCAAAACAGTAATTTGG
24797333 TAAATTGAGGGTGAAA
66 TAAATTGAGGGTGAAA
* * * ***
24797349 CGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGCATTTCAGTAATTTGG
1 CGATAATTCTATAAATCGAGGGTAAAACGATAATTCTACAAATCAAGGGCAAAACAGTAATTTGG
24797414 TAAA
66 TAAA
24797418 CTAAAGTATT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 56 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
CGATAATTCTATAAATCGAGGGTAAAACGATAATTCTACAAATCAAGGGCAAAACAGTAATTTGG
TAAATTGAGGGTGAAA
Found at i:24805285 original size:42 final size:42
Alignment explanation
Indices: 24805168--24805324 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
24805158 ATACCAATTG
* *
24805168 CATATCCCAAATATGGTCTTACATGAACTCT-AGTATCGATGC
1 CATATCCCAAATATGGTCTTACACGAAATCTCA-TATCGATGC
* ** * *
24805210 CAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCGCTGC
1 C-ATATCCCAAATATGGTCTTACACGAAATCTCATATCGATGC
* * *
24805253 CATATCCCAAATATTGTCTTACACAAAATCTCATATAGATGC
1 CATATCCCAAATATGGTCTTACACGAAATCTCATATCGATGC
*
24805295 CATATCCCATATATGGTCTTACACGTAAAT
1 CATATCCCAAATATGGTCTTACACG-AAAT
24805325 TCAATAACCC
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 56 0.59
43 38 0.40
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (42 bp):
CATATCCCAAATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:24812016 original size:55 final size:56
Alignment explanation
Indices: 24811951--24812065 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
24811941 AGCATGGCTG
* * *
24811951 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
24812007 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
24812062 CCAG
1 CCAG
24812066 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:24812062 original size:28 final size:27
Alignment explanation
Indices: 24811976--24812065 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
24811966 GTGACAGAGT
*
24811976 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
24812005 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
24812032 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
24812060 CACCAG
1 CACCAG
24812066 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:24812217 original size:28 final size:28
Alignment explanation
Indices: 24812172--24812234 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
24812162 TTAACCCTAG
* *
24812172 GGGGTATAAAGGTCATTTTGCACATATA
1 GGGGTATAAAGGTAATTTTGCACACATA
* *
24812200 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCACACATA
24812228 GGGGTAT
1 GGGGTAT
24812235 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.33
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTTGCACACATA
Found at i:24813311 original size:12 final size:13
Alignment explanation
Indices: 24813292--24813324 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24813282 GGGTTCGGCT
24813292 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
24813305 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
24813317 ATGGAGAA
1 ATGGAGAA
24813325 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:24819844 original size:55 final size:56
Alignment explanation
Indices: 24819779--24819893 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
24819769 AGCATGGCTG
* * *
24819779 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
24819835 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
24819890 CCAG
1 CCAG
24819894 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:24819890 original size:28 final size:27
Alignment explanation
Indices: 24819804--24819893 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
24819794 GTGACAGAGT
*
24819804 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
24819833 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
24819860 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
24819888 CACCAG
1 CACCAG
24819894 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:24820045 original size:28 final size:28
Alignment explanation
Indices: 24819998--24820062 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
24819988 AAATTAACCC
*
24819998 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
24820026 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
24820054 TAGGGGTAT
1 TAGGGGTAT
24820063 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:24821148 original size:12 final size:13
Alignment explanation
Indices: 24821129--24821161 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24821119 GGGTTCAGCT
24821129 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
24821142 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
24821154 ATGGAGAA
1 ATGGAGAA
24821162 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:24826544 original size:15 final size:16
Alignment explanation
Indices: 24826524--24826553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24826514 TTTAACAAAG
24826524 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
24826539 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
24826554 GTTTCAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:24827930 original size:16 final size:15
Alignment explanation
Indices: 24827889--24827930 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
24827879 GATGTATTAA
*
24827889 TAAAGGTTAAAATAG
1 TAAAGATTAAAATAG
24827904 TAAA-ATGTAAAATAAG
1 TAAAGAT-TAAAAT-AG
24827920 TAAAGATTAAA
1 TAAAGATTAAA
24827931 TAAAACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 10 0.43
16 10 0.43
17 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (15 bp):
TAAAGATTAAAATAG
Found at i:24829928 original size:19 final size:18
Alignment explanation
Indices: 24829906--24829945 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
24829896 TGAATAAAAA
24829906 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
24829925 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
24829943 TTA
1 TTA
24829946 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:24832052 original size:59 final size:59
Alignment explanation
Indices: 24831960--24832078 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
24831950 GAAGATTAGA
24831960 ATCAAAATAAGATTTGTTTCAACAAATGTGACATCCATGGTAACAATAATCTTCCTATC
1 ATCAAAATAAGATTTGTTTCAACAAATGTGACATCCATGGTAACAATAATCTTCCTATC
24832019 ATCAAAATAAGATTTGTTTCAACAAATGTGACATCCATGGTAACAATAATCTTCCTATC
1 ATCAAAATAAGATTTGTTTCAACAAATGTGACATCCATGGTAACAATAATCTTCCTATC
24832078 A
1 A
24832079 ATTGGATCAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (59 bp):
ATCAAAATAAGATTTGTTTCAACAAATGTGACATCCATGGTAACAATAATCTTCCTATC
Found at i:24835897 original size:47 final size:47
Alignment explanation
Indices: 24835846--24836132 Score: 450
Period size: 47 Copynumber: 6.1 Consensus size: 47
24835836 TTAGGATTTT
24835846 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
24835893 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
24835940 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
24835987 ATAT-ATCAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
24836033 ATGTGATGAATGTGAGCATGCATATGTGTGATACGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
24836080 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
24836127 ATGTGA
1 ATGTGA
24836133 AATATGTATG
Statistics
Matches: 218, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 41 0.19
47 177 0.81
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:24835946 original size:22 final size:22
Alignment explanation
Indices: 24835871--24835946 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
24835861 ACATGCATAT
*
24835871 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
*
24835893 ATGTGATGAATG-TGAGCAT-G-CA
1 ATGTGAT-AAGGCTGA--ATGGCCA
24835915 TATGTGTGATAAGGCTGAATGGCCA
1 -A--TGTGATAAGGCTGAATGGCCA
24835940 ATGTGAT
1 ATGTGAT
24835947 GAATGTGAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 7 0.17
24 7 0.17
25 11 0.26
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:24836026 original size:140 final size:140
Alignment explanation
Indices: 24835858--24836128 Score: 488
Period size: 140 Copynumber: 1.9 Consensus size: 140
24835848 GTGATGAATG
24835858 TGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTG
1 TGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTG
* * * * *
24835923 ATAAGGCTGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAA
66 ATAAGGCCGAATGGCCAATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAA
24835988 TATATCAATA
131 TATATCAATA
24835998 TGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTG
1 TGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTG
*
24836063 ATACGGCCGAATGGCCAATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAA
66 ATAAGGCCGAATGGCCAATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAA
24836128 T
131 T
24836129 GTGAAATATG
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (140 bp):
TGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTG
ATAAGGCCGAATGGCCAATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAA
TATATCAATA
Found at i:24836169 original size:48 final size:48
Alignment explanation
Indices: 24836102--24836236 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
24836092 TGAACATGCA
* * * *
24836102 TATATGTGATAAGGCCGAATGGCCAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
24836150 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
24836198 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
24836237 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:24836491 original size:37 final size:37
Alignment explanation
Indices: 24836383--24836491 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
24836373 GGAAATATAT
*
24836383 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
24836420 TCCGGGTAATACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
24836457 TCCGGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
24836492 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:24837824 original size:40 final size:40
Alignment explanation
Indices: 24837770--24838274 Score: 769
Period size: 40 Copynumber: 12.6 Consensus size: 40
24837760 GTTATATATA
*
24837770 TATCC-GGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
24837809 TATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
24837849 TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* ** *
24837889 TATCCGTGCTAAACCCCGAAGAGCATTCGTACTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
24837929 TATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
24837969 TAACCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
24838009 TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
24838049 TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
24838089 TATCAGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
24838129 TATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
24838169 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* ** * * *
24838209 TATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
24838249 TATCCGGGCTAGGTCCCGAAAGAGCA
1 TATCCGGGCTAAGTCCCG-AAGAGCA
24838275 ATCATGCTGG
Statistics
Matches: 423, Mismatches: 41, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
39 5 0.01
40 411 0.97
41 7 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:24838500 original size:25 final size:25
Alignment explanation
Indices: 24838450--24838500 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
24838440 TGTGTAACAA
* *
24838450 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
24838475 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
24838500 C
1 C
24838501 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:24841877 original size:47 final size:47
Alignment explanation
Indices: 24841826--24842113 Score: 486
Period size: 47 Copynumber: 6.1 Consensus size: 47
24841816 TTAGGATTTT
24841826 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
24841873 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
24841920 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
24841967 ATATGATCAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
24842014 ATGTGATGAATGTGAGCATGCATATGTGTGATACGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
24842061 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
24842108 ATGTGA
1 ATGTGA
24842114 AATATGTATG
Statistics
Matches: 222, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 222 1.00
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:24841879 original size:22 final size:22
Alignment explanation
Indices: 24841851--24841926 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
24841841 ACATGCATAT
24841851 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
24841873 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
24841897 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
24841920 ATGTGAT
1 ATGTGAT
24841927 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:24842150 original size:48 final size:48
Alignment explanation
Indices: 24842083--24842217 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
24842073 TGAACATGCA
* * *
24842083 TATATGTGATAAGGCCGAATGGCCAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
24842131 TATATGTGGTAAAGCCGAATGGCTACTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
24842179 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
24842218 GGCGATGTGC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:24842472 original size:37 final size:37
Alignment explanation
Indices: 24842364--24842472 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
24842354 GGAAATATAT
* *
24842364 TCCGGGTAAGATCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
24842401 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
24842438 TCCGAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
24842473 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:24846687 original size:17 final size:18
Alignment explanation
Indices: 24846665--24846698 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24846655 AGACCAATCT
24846665 GGGTGTGTGGG-CCACAC
1 GGGTGTGTGGGTCCACAC
24846682 GGGTGTGTGGGTCCACA
1 GGGTGTGTGGGTCCACA
24846699 TAGGCCTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (18 bp):
GGGTGTGTGGGTCCACAC
Found at i:24847428 original size:71 final size:71
Alignment explanation
Indices: 24847312--24847455 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
24847302 CCTCTGTTTG
24847312 TCTGTTTCTATACAGGTAATCTATAGAATTAGGCAGATCGGTGTGGTAGAGACTCAGCAGTGGCC
1 TCTGTTTCTATACAGGTAATCTATAGAATTAGGCAGATCGGTGTGGTAGAGACTCAGCAGTGGCC
24847377 ACTTCA
66 ACTTCA
24847383 TCTGTTTCTATACAGGTAATCTATAGAATTAGGCAGATCGGTGTGGTAGAGACTCAGCAGTGGCC
1 TCTGTTTCTATACAGGTAATCTATAGAATTAGGCAGATCGGTGTGGTAGAGACTCAGCAGTGGCC
24847448 ACTTCA
66 ACTTCA
24847454 TC
1 TC
24847456 ATAAAACTGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (71 bp):
TCTGTTTCTATACAGGTAATCTATAGAATTAGGCAGATCGGTGTGGTAGAGACTCAGCAGTGGCC
ACTTCA
Found at i:24854214 original size:94 final size:94
Alignment explanation
Indices: 24854053--24854242 Score: 326
Period size: 94 Copynumber: 2.0 Consensus size: 94
24854043 AACATTCATT
* *
24854053 TATAATCCGCACAATCTGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGTCAT
1 TATAATCCGCACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
*
24854118 TCCTCTATTCAATGAGCTCAATCTGAGTA
66 TCCTCTATTCAACGAGCTCAATCTGAGTA
**
24854147 TATAATCCTTACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
1 TATAATCCGCACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
*
24854212 TCCTCTATTCAACGAGCTCAATCTGATTA
66 TCCTCTATTCAACGAGCTCAATCTGAGTA
24854241 TA
1 TA
24854243 AGGAGACCCA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (94 bp):
TATAATCCGCACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
TCCTCTATTCAACGAGCTCAATCTGAGTA
Found at i:24865130 original size:27 final size:27
Alignment explanation
Indices: 24865097--24865317 Score: 214
Period size: 27 Copynumber: 8.2 Consensus size: 27
24865087 TTTTGCCCTA
* *
24865097 CAGGGGTATTTCGATAATTTTACACTA-
1 CAGGGGTATTTCGGTAATTTTACA-AAC
* * *
24865124 TAAGGGTATTTCGGTAATTTTACACTA-
1 CAGGGGTATTTCGGTAATTTTACA-AAC
* * *
24865151 TAGGGGTATTTTGGTAATTTTACACTA-
1 CAGGGGTATTTCGGTAATTTTACA-AAC
*
24865178 CATGGGTATTTCGGTAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
* *
24865205 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAC
* *
24865232 TAGGGGTATTTCGATAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
** * *
24865259 CAATGGTATTTCGATAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAC
* *
24865286 CGGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
*
24865313 TAGGG
1 CAGGG
24865318 TCTTAACGAC
Statistics
Matches: 165, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAC
Found at i:24865221 original size:81 final size:80
Alignment explanation
Indices: 24865094--24865317 Score: 265
Period size: 81 Copynumber: 2.8 Consensus size: 80
24865084 TCATTTTGCC
* * * * * *
24865094 CTACAGGGGTATTTCGATAATTTTACACTATAAGGGTATTTCGGTAATTTTAC-ACTATAGGGGT
1 CTACATGGGTATTTCGATAATTTTACA-AACAGGGGTATTTTGGTAATTTTACAAAT-TAGGGGT
* *
24865158 ATTTTGGTAATTTTACA
64 ATTTCGATAATTTTACA
*
24865175 CTACATGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATTAGGGGTA
1 CTACATGGGTATTTCGATAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAATTAGGGGTA
24865240 TTTCGATAATTTTACA
65 TTTCGATAATTTTACA
* * *
24865256 -AACCAAT-GGTATTTCGATAATTTTACAAATCGGGGGTATTTTGGTAATTTTACAAACTAGGG
1 CTA-C-ATGGGTATTTCGATAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAATTAGGG
24865318 TCTTAACGAC
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.02
81 119 0.95
82 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (80 bp):
CTACATGGGTATTTCGATAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAATTAGGGGTAT
TTCGATAATTTTACA
Found at i:24866906 original size:46 final size:47
Alignment explanation
Indices: 24866824--24867642 Score: 1105
Period size: 48 Copynumber: 17.6 Consensus size: 47
24866814 GATAATTGTG
* * *
24866824 ATGTGAATGTATATATATGAAGATAAGGCCTAATGGCCGATGT-ATGA
1 ATGTGAAAGTGTATATATG-TGATAAGGCCTAATGGCCGATGTGATGA
* *
24866871 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24866918 ATGTGAAAGTGTATTATATATGGATAAGGCCTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTA-TATATGT-GATAAGGCCTAATGGCCGATGTGATGA
24866966 ATGTGAAAGTGTATATATATGTGATAAGG-CT-ATGG-CGATGTGAT-A
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24867011 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG-
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24867057 ATGTGAAAGTGTATATATATGTGATAAGG-CTAATGG-CGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24867104 ATGTGAAGAGTGTATATATATGTGATAAGGCCTAATGGCCGATGGGATGA
1 ATGTGAA-AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24867154 ATG-GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG-A
24867203 ATGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24867249 ATGTGAAAGTGTATATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGA
24867299 ATGTGAAAGTGTATATATGTGATAAGCGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
24867347 ATGTGAAAGTGT-TATATGTGATAAGGCCTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
24867392 ATGTGAAAGTGTATATATGTGATAAAACCGAATGGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24867438 ATGTG-AAGTGTATATATATTGATGAA-GCGCTAAT-GCCGATGTGATGA
1 ATGTGAAAGTGTATATAT-GTGAT-AAGGC-CTAATGGCCGATGTGATGA
*
24867485 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CGAT-T-ATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24867529 ATGTGAAAGTGTAT-TATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
24867575 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG-C-ACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24867620 A-GTG-AAGTGTATA-ATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
24867643 TCCCGAAGGG
Statistics
Matches: 708, Mismatches: 29, Indels: 75
0.87 0.04 0.09
Matches are distributed among these distances:
42 8 0.01
43 43 0.06
44 27 0.04
45 61 0.09
46 155 0.22
47 136 0.19
48 181 0.26
49 43 0.06
50 54 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24866965 original size:48 final size:47
Alignment explanation
Indices: 24866824--24867592 Score: 1040
Period size: 46 Copynumber: 16.4 Consensus size: 47
24866814 GATAATTGTG
* * *
24866824 ATGTGAATGTATATATATGAAGATAAGGCCTAATGGCCGATGT-ATGA
1 ATGTGAAAGTGTATATAT-ATGATAAGGCCTAATGGCCGATGTGATGA
* * *
24866871 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
24866918 ATGTGAAAGTGTATTATATATGGATAAGGCCTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTA-TATATAT-GATAAGGCCTAATGGCCGATGTGATGA
24866966 ATGTGAAAGTGTATATATATGTGATAAGG-CT-ATGG-CGATGTGAT-A
1 ATGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCGATGTGATGA
*
24867011 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG-
1 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
24867057 ATGTGAAAGTGTATATATATGTGATAAGG-CTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCGATGTGATGA
*
24867104 ATGTGAAGAGTGTATATATATGTGATAAGGCCTAATGGCCGATGGGATGA
1 ATGTGAA-AGTGTATATATA--TGATAAGGCCTAATGGCCGATGTGATGA
24867154 ATG-GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 ATGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCGATGTGATG-A
*
24867203 ATGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
24867249 ATGTGAAAGTGTATATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATAT-A--TGATAAGGCCTAATGGCCGATGTGATGA
*
24867299 ATGTGAAAGTGTATATATGTGATAAGCGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGATAAG-GCCTAATGGCCGATGTGATGA
*
24867347 ATGTGAAAGTGT-TATATGTGATAAGGCCTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
* ** *
24867392 ATGTGAAAGTGTATATATGTGATAAAACCGAATGGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
24867438 ATGTG-AAGTGTATATATATTGATGAA-GCGCTAAT-GCCGATGTGATGA
1 ATGTGAAAGTGTATATATA-TGAT-AAGGC-CTAATGGCCGATGTGATGA
* *
24867485 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CGAT-T-ATGA
1 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
* *
24867529 ATGTGAAAGTGTAT-TATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
24867575 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATAT
24867593 GTGACAGGGC
Statistics
Matches: 662, Mismatches: 25, Indels: 70
0.87 0.03 0.09
Matches are distributed among these distances:
43 26 0.04
44 24 0.04
45 60 0.09
46 168 0.25
47 126 0.19
48 157 0.24
49 35 0.05
50 66 0.10
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24874601 original size:49 final size:48
Alignment explanation
Indices: 24874541--24875379 Score: 1412
Period size: 47 Copynumber: 17.6 Consensus size: 48
24874531 GATAATTGTG
*
24874541 ATGTGAATGT-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24874588 ATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCC-ATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874634 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874682 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874731 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874778 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874827 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874876 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874925 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874972 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24875021 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24875070 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24875117 ATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24875164 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24875213 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24875260 ATGTGAAAGTG-TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
24875307 ATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24875354 ATGTGAAAGTG-TATAAATGTGATAAG
1 ATGTGAAAGTGATATATATGTGATAAG
24875380 TCCCGAAGGG
Statistics
Matches: 761, Mismatches: 21, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
46 20 0.03
47 387 0.51
48 20 0.03
49 334 0.44
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24874746 original size:96 final size:96
Alignment explanation
Indices: 24874541--24875379 Score: 1444
Period size: 96 Copynumber: 8.8 Consensus size: 96
24874531 GATAATTGTG
* *
24874541 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24874604 ATGTGATAAGGCCGAATGGCC-ATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
24874634 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
24874699 TATGTGATAAGGCCTAATGGCCGATGTGATGA
65 TATGTGATAAGGCCTAATGGCCGATGTGATGA
24874731 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24874796 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
24874827 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24874892 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
24874925 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24874990 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
24875021 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24875084 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24875117 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24875182 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24875213 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24875276 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
24875307 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24875370 ATGTGATAAG
66 ATGTGATAAG
24875380 TCCCGAAGGG
Statistics
Matches: 716, Mismatches: 18, Indels: 23
0.95 0.02 0.03
Matches are distributed among these distances:
93 9 0.01
94 186 0.26
95 1 0.00
96 357 0.50
97 20 0.03
98 143 0.20
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24880768 original size:9 final size:9
Alignment explanation
Indices: 24880756--24880812 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
24880746 TTTGATAAAC
24880756 ATGATATGT
1 ATGATATGT
*
24880765 ATGATATGCAC
1 ATGATATG--T
*
24880776 ATGACATGT
1 ATGATATGT
*
24880785 ATGATATGCAC
1 ATGATATG--T
24880796 ATGATATGT
1 ATGATATGT
24880805 ATGATATG
1 ATGATATG
24880813 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:24880779 original size:20 final size:20
Alignment explanation
Indices: 24880754--24880824 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
24880744 ATTTTGATAA
24880754 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24880774 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
24880794 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24880814 ACATGAGATGT
1 ACATGATATGT
24880825 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:24880801 original size:11 final size:11
Alignment explanation
Indices: 24880765--24880819 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
24880755 CATGATATGT
24880765 ATGATATGCAC
1 ATGATATGCAC
* *
24880776 ATGACATG--T
1 ATGATATGCAC
24880785 ATGATATGCAC
1 ATGATATGCAC
*
24880796 ATGATATG--T
1 ATGATATGCAC
24880805 ATGATATGCAC
1 ATGATATGCAC
24880816 ATGA
1 ATGA
24880820 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:24880926 original size:24 final size:24
Alignment explanation
Indices: 24880869--24881021 Score: 229
Period size: 24 Copynumber: 6.4 Consensus size: 24
24880859 GGAGGAAGTG
24880869 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
24880893 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
24880916 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
24880940 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
24880964 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
24880987 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
24881011 TAAAAGAGGCT
1 CAAAAG-GGCT
24881022 AGGCCTCCAG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.37
24 71 0.60
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:24880938 original size:47 final size:47
Alignment explanation
Indices: 24880869--24881021 Score: 227
Period size: 47 Copynumber: 3.2 Consensus size: 47
24880859 GGAGGAAGTG
24880869 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
24880916 CAAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
24880964 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
*
24881011 TAAAAGAGGCT
1 CAAAAG-GGCT
24881022 AGGCCTCCAG
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
47 65 0.68
48 26 0.27
49 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:24880985 original size:71 final size:71
Alignment explanation
Indices: 24880869--24881021 Score: 261
Period size: 71 Copynumber: 2.1 Consensus size: 71
24880859 GGAGGAAGTG
*
24880869 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
24880934 AGTTAT
66 AGTTAT
* *
24880940 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
24881005 AGTTAT
66 AGTTAT
*
24881011 TAAAAGAGGCT
1 CAAAAG-GGCT
24881022 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 73 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:24881263 original size:31 final size:31
Alignment explanation
Indices: 24881228--24881291 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
24881218 CGTTTACAGT
24881228 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
24881259 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24881290 AA
1 AA
24881292 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24887158 original size:26 final size:26
Alignment explanation
Indices: 24887128--24887182 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
24887118 AATTTAAGGG
*
24887128 TATAATTGAAAATGGGGAGCTAAATT
1 TATAATTGAAAATAGGGAGCTAAATT
24887154 TATAATTGAAAATAGGGAGCTAAATT
1 TATAATTGAAAATAGGGAGCTAAATT
24887180 TAT
1 TAT
24887183 CTTAAAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (26 bp):
TATAATTGAAAATAGGGAGCTAAATT
Found at i:24892274 original size:24 final size:22
Alignment explanation
Indices: 24892239--24892286 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
24892229 TTGATATGTC
24892239 TTCCATTTTTTAAAATTTTTAT
1 TTCCATTTTTTAAAATTTTTAT
**
24892261 TTCCTATTTATTTATGATTTTTAT
1 TTCC-ATTT-TTTAAAATTTTTAT
24892285 TT
1 TT
24892287 GTTCTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 4 0.18
24 14 0.64
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCCATTTTTTAAAATTTTTAT
Found at i:24895341 original size:42 final size:43
Alignment explanation
Indices: 24895239--24895354 Score: 114
Period size: 42 Copynumber: 2.7 Consensus size: 43
24895229 TCGTTTCAAT
* * * *
24895239 GCCATATCCC-AGATATGGTCTTACATGAAAT-ATCATATCGAT
1 GCCATATCCCGA-ATATGGTCTTATACGAAATCATCATACCGAG
* * *
24895281 GCAATGTCCCCG-ACATGGTCTTATACGAAATCA-CATACCGAG
1 GCCATAT-CCCGAATATGGTCTTATACGAAATCATCATACCGAG
*
24895323 GCCATATCCCGAATATGGTCTTATACGGAATC
1 GCCATATCCCGAATATGGTCTTATACGAAATC
24895355 TTAATAACCT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 4 0.07
42 51 0.86
43 4 0.07
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
GCCATATCCCGAATATGGTCTTATACGAAATCATCATACCGAG
Found at i:24897776 original size:6 final size:6
Alignment explanation
Indices: 24897765--24897795 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
24897755 AATTTTCTGA
24897765 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC C
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC C
24897796 GCTACATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CTCTCC
Found at i:24905777 original size:29 final size:29
Alignment explanation
Indices: 24905630--24905774 Score: 143
Period size: 29 Copynumber: 5.1 Consensus size: 29
24905620 ACCCCTACAT
*
24905630 ACATGCATATGGCCCACTT-GGCCC--ATC
1 ACATTCATATGGCCCA-TTAGGCCCAAATC
** * *
24905657 TTATTCGTATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
24905686 ACATTCATATGGCCCATCATGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
24905715 ACATTCATATGGCCTATTAGTCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
24905744 ACCTTTATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
24905773 AC
1 AC
24905775 CTTATATTAA
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.02
27 17 0.18
29 76 0.80
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:24909071 original size:17 final size:18
Alignment explanation
Indices: 24909049--24909084 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24909039 TACATTGAAG
24909049 TGTTTT-AGTGAAAACCC
1 TGTTTTCAGTGAAAACCC
*
24909066 TGTTTTCATTGAAAACCC
1 TGTTTTCAGTGAAAACCC
24909084 T
1 T
24909085 TCTTAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCC
Found at i:24910195 original size:56 final size:57
Alignment explanation
Indices: 24910129--24910257 Score: 147
Period size: 58 Copynumber: 2.3 Consensus size: 57
24910119 ACCCCTACAT
* * *
24910129 ACATGCATATGGCCCA-CTTGGCCC-ATCTC-ATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATC-AGGCCCAAT-TCAATTCATATGGCCCATCAGGCCCAAATC
* *
24910185 ACATTCATATGGCCCATCAGGCCCAATTCATATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTCA-ATTCATATGGCCCATCAGGCCCAAATC
* *
24910243 ACCTTTATATGGCCC
1 ACATTCATATGGCCC
24910258 GTTAAGCCCA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
56 22 0.35
57 3 0.05
58 37 0.60
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (57 bp):
ACATTCATATGGCCCATCAGGCCCAATTCAATTCATATGGCCCATCAGGCCCAAATC
Found at i:24910198 original size:29 final size:29
Alignment explanation
Indices: 24910157--24910257 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
24910147 TGGCCCATCT
24910157 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
24910186 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * *
24910215 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
24910244 CCTTTATATGGCCC
1 CATTCATATGGCCC
24910258 GTTAAGCCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:24910215 original size:23 final size:26
Alignment explanation
Indices: 24910129--24910238 Score: 87
Period size: 29 Copynumber: 4.0 Consensus size: 26
24910119 ACCCCTACAT
* *
24910129 ACATGCATATGGCCCA-CTTGGCCCATC
1 ACATTCATATGGCCCATC-AGGCCCA-C
*
24910156 TCATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCC-A--C
24910185 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCC-A--C
* * *
24910214 ATATTCATATGGCCTATTAGGCCCA
1 ACATTCATATGGCCCATCAGGCCCA
24910239 AATCACCTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
27 19 0.26
28 3 0.04
29 51 0.70
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (26 bp):
ACATTCATATGGCCCATCAGGCCCAC
Found at i:24910266 original size:29 final size:28
Alignment explanation
Indices: 24910162--24910280 Score: 103
Period size: 29 Copynumber: 4.1 Consensus size: 28
24910152 CATCTCATTC
* * * *
24910162 ATATGGCCCATCAGGCCCAATTCACATT
1 ATATGGCCCATTAAGCCCAAATCACCTT
* * * **
24910190 CATATGGCCCATCAGGCCCAATTCATATT
1 -ATATGGCCCATTAAGCCCAAATCACCTT
* *
24910219 CATATGGCCTATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTAAGCCCAAATCACC-TT
*
24910249 ATATGGCCCGTTAAGCCCAAATCACCTT
1 ATATGGCCCATTAAGCCCAAATCACCTT
24910277 ATAT
1 ATAT
24910281 TCACGCTCAC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 6 0.08
29 72 0.90
30 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAAGCCCAAATCACCTT
Found at i:24913872 original size:20 final size:20
Alignment explanation
Indices: 24913849--24913888 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24913839 TAATTTAGCC
*
24913849 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTTTTAATTTAAT
24913869 ATTTTTATTTTTAATTTAAT
1 ATTTTTATTTTTAATTTAAT
24913889 TTAATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTATTTTTAATTTAAT
Found at i:24916811 original size:13 final size:13
Alignment explanation
Indices: 24916793--24916817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24916783 GTGACTACAC
24916793 GACCTACCCACAT
1 GACCTACCCACAT
24916806 GACCTACCCACA
1 GACCTACCCACA
24916818 CGAGCGTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.48, G:0.08, T:0.12
Consensus pattern (13 bp):
GACCTACCCACAT
Found at i:24924752 original size:15 final size:15
Alignment explanation
Indices: 24924722--24924777 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
24924712 TCATATATAT
*
24924722 AATATATATGTCAATC
1 AATATAAAT-TCAATC
24924738 AATATAAATTCAATC
1 AATATAAATTCAATC
* * *
24924753 AAAATGATTTCAATC
1 AATATAAATTCAATC
24924768 AATATAAATT
1 AATATAAATT
24924778 TGATAAATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
15 25 0.76
16 8 0.24
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.36
Consensus pattern (15 bp):
AATATAAATTCAATC
Found at i:24925496 original size:19 final size:20
Alignment explanation
Indices: 24925460--24925509 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
24925450 CAAACCCTAA
* *
24925460 TTCTCCCTT-TTTCTTTTCT
1 TTCTCCTTTCTTTCTTTTCC
24925479 TTCTCCTTTCTTTC-TTTCC
1 TTCTCCTTTCTTTCTTTTCC
*
24925498 TTC-CCTTGCTTT
1 TTCTCCTTTCTTT
24925510 TCGTTTGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.30
19 15 0.56
20 4 0.15
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (20 bp):
TTCTCCTTTCTTTCTTTTCC
Found at i:24925756 original size:31 final size:32
Alignment explanation
Indices: 24925698--24925761 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
24925688 TATACATTTT
*
24925698 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
24925730 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
24925761 T
1 T
24925762 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:24930034 original size:50 final size:50
Alignment explanation
Indices: 24929868--24930155 Score: 343
Period size: 50 Copynumber: 5.8 Consensus size: 50
24929858 TACTAGGGTA
* * * * * *
24929868 ATATGTGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCATCG-T
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGAT
* * * * * *
24929917 A-ATGAGAGCTAGTGTAAGACTATGTTTGGAACATGGCA-CGGGCATCG-T
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACCGAT
* *
24929965 A-ATGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATCGACACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGAT
* *
24930014 ATATGAGAGCCAGTGGAAGACCATGTCTGGGACATGGCATCGACACCAAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGAT
*
24930064 ATATGAGAGCCATTGTAAGACCATGTCTGGGACATGGCATCGACACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGAT
* * * *
24930114 ATATGAAAGCCAGTCTAAGACCATATTTGGGACATGGCATCG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
24930156 GCGTCTTACC
Statistics
Matches: 213, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.00
48 80 0.38
49 4 0.02
50 128 0.60
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (50 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGAT
Found at i:24933714 original size:17 final size:18
Alignment explanation
Indices: 24933688--24933721 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24933678 TATTTTTTTA
24933688 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
24933705 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
24933722 ATATTTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:24941284 original size:48 final size:47
Alignment explanation
Indices: 24941124--24941289 Score: 162
Period size: 48 Copynumber: 3.6 Consensus size: 47
24941114 CCCGTATAAT
** * *
24941124 ACCATATCTGGGATATGGCATCAGCATCAATAGGTGTTACCATGTAAG
1 ACCATATCTGGGATATGGCATTGGCATCAAT-GGTGATCCCATGTAAG
* *
24941172 ACCATATCTGGGATATTGCATT-G-AT--AT-GAGATCCCATGTAAG
1 ACCATATCTGGGATATGGCATTGGCATCAATGGTGATCCCATGTAAG
*** * * *
24941214 ACCACGCCTGGGACACGACATTGGCATCGAATGGTGATCCCATGTAAG
1 ACCATATCTGGGATATGGCATTGGCATC-AATGGTGATCCCATGTAAG
*
24941262 ACCATATCTAGGATATGGCATTGGCATC
1 ACCATATCTGGGATATGGCATTGGCATC
24941290 TTATTATGTG
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 27 0.29
43 1 0.01
44 4 0.04
46 2 0.02
47 3 0.03
48 55 0.60
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (47 bp):
ACCATATCTGGGATATGGCATTGGCATCAATGGTGATCCCATGTAAG
Found at i:24942315 original size:13 final size:13
Alignment explanation
Indices: 24942297--24942330 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24942287 CTAAGAACCA
*
24942297 GGGCGTGTGGACT
1 GGGCGTGTGCACT
24942310 GGGCGTGTGCACT
1 GGGCGTGTGCACT
*
24942323 GGCCGTGT
1 GGGCGTGT
24942331 CACCTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.21, G:0.50, T:0.24
Consensus pattern (13 bp):
GGGCGTGTGCACT
Found at i:24948890 original size:48 final size:47
Alignment explanation
Indices: 24948731--24948893 Score: 156
Period size: 48 Copynumber: 3.5 Consensus size: 47
24948721 TTATAAGATT
* * **
24948731 ATATCTGGGATATGGCATTGGCATCGATATGTGTTATCATGTAAGACC
1 ATATCTGGGATATGGCATTGGCATCGAT-GGTGATCCCATGTAAGACC
* *
24948779 ATATCTGGGATATGGCGTT-G-AT--AT-GAGATCCCATGTAAGACC
1 ATATCTGGGATATGGCATTGGCATCGATGGTGATCCCATGTAAGACC
* * * ***
24948821 ATGTTTGGGACACATCATTGGCATCGAGTGGTGATCCCATGTAAGACC
1 ATATCTGGGATATGGCATTGGCATCGA-TGGTGATCCCATGTAAGACC
*
24948869 ATATCTGGGATATGGCGTTGGCATC
1 ATATCTGGGATATGGCATTGGCATC
24948894 TTATTATGGG
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
42 26 0.29
43 1 0.01
44 4 0.04
46 3 0.03
47 2 0.02
48 53 0.60
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (47 bp):
ATATCTGGGATATGGCATTGGCATCGATGGTGATCCCATGTAAGACC
Found at i:24952577 original size:33 final size:33
Alignment explanation
Indices: 24952540--24952612 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
24952530 AATGAGCGTA
*
24952540 TGAACGATATTATGGTCAATGAGAATGACATTG
1 TGAACGATATTATGGTAAATGAGAATGACATTG
24952573 TGAACGATATTATGGTAAATGAGAATGACATTG
1 TGAACGATATTATGGTAAATGAGAATGACATTG
24952606 TGAACGA
1 TGAACGA
24952613 GTTAGACGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (33 bp):
TGAACGATATTATGGTAAATGAGAATGACATTG
Found at i:24954176 original size:20 final size:20
Alignment explanation
Indices: 24954151--24954198 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
24954141 CGGGATGAGG
24954151 ACACGGGCGTGTCCCAAGTC
1 ACACGGGCGTGTCCCAAGTC
*
24954171 ACACGGGTGTGTCCCAAGTC
1 ACACGGGCGTGTCCCAAGTC
24954191 ACACGGGC
1 ACACGGGC
24954199 CTACCCACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGTC
Found at i:24956312 original size:6 final size:6
Alignment explanation
Indices: 24956282--24956499 Score: 135
Period size: 6 Copynumber: 35.3 Consensus size: 6
24956272 AAGAAACATT
* * * *
24956282 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAAA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
24956329 GTGACAGA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
24956380 ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAG- AGCTAGA ATCAAA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATC-AGA ATCAGA ATCA-G-A
* * * *
24956431 A-CAAA ATCAGA ATCAGT ATCAGA TAACAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA ATCAGA ATCA-G-A
24956481 A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
24956500 GTGAATGCAA
Statistics
Matches: 163, Mismatches: 29, Indels: 40
0.70 0.12 0.17
Matches are distributed among these distances:
5 12 0.07
6 124 0.76
7 20 0.12
8 7 0.04
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:24956373 original size:25 final size:25
Alignment explanation
Indices: 24956345--24956410 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
24956335 GAATCAAAAT
*
24956345 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
24956370 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
24956395 CAGAATCAGAATCAGA
1 CAGAATCAGAATCAGA
24956411 GCTAGAATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:24956391 original size:62 final size:61
Alignment explanation
Indices: 24956309--24956477 Score: 239
Period size: 62 Copynumber: 2.7 Consensus size: 61
24956299 AATGAGAATT
** * * *
24956309 AGAATCAGAATCAAAATCAGGTGACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAG-ATCAGAATCAAAATTAGGTAAC
*
24956371 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAGCTAGAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGATC-AGAATCAAAATTAGGTAAC
* *
24956433 AAAATCAGAATCAGTATCAGATAACAGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAG-ATCAG
24956478 GTAACAGAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 2 0.02
62 92 0.96
63 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (61 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGATCAGAATCAAAATTAGGTAAC
Found at i:24956457 original size:25 final size:25
Alignment explanation
Indices: 24956429--24956496 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
24956419 CAAAATTAGG
*
24956429 TAACAAAATCAGAATCAGTATCAGA
1 TAACAGAATCAGAATCAGTATCAGA
*
24956454 TAACAGAATCAGAATCAGTATCAGG
1 TAACAGAATCAGAATCAGTATCAGA
24956479 TAACAGAATCAGAATCAG
1 TAACAGAATCAGAATCAG
24956497 AATGTGAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (25 bp):
TAACAGAATCAGAATCAGTATCAGA
Found at i:24956485 original size:19 final size:19
Alignment explanation
Indices: 24956314--24956496 Score: 111
Period size: 19 Copynumber: 9.8 Consensus size: 19
24956304 GAATTAGAAT
* *
24956314 CAGAATCAAAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
*
24956333 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
24956350 TCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
24956370 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
*
24956395 CAGAATCAGAATCA-G-AG
1 CAGAATCAGAATCAGGTAA
* *
24956412 CTAGAATCAAAATTAGGTAA
1 C-AGAATCAGAATCAGGTAA
* *
24956432 CAAAATCAGAATCA-GTAT
1 CAGAATCAGAATCAGGTAA
24956450 CAG-AT---AA-CA-G-AA
1 CAGAATCAGAATCAGGTAA
*
24956462 TCAGAATCAGTATCAGGTAA
1 -CAGAATCAGAATCAGGTAA
24956482 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
24956497 AATGTGAATG
Statistics
Matches: 128, Mismatches: 16, Indels: 40
0.70 0.09 0.22
Matches are distributed among these distances:
12 1 0.01
13 6 0.05
14 4 0.03
17 6 0.05
18 32 0.25
19 54 0.42
20 6 0.05
21 1 0.01
23 1 0.01
25 17 0.13
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:24956919 original size:27 final size:27
Alignment explanation
Indices: 24956889--24957112 Score: 204
Period size: 27 Copynumber: 8.3 Consensus size: 27
24956879 GGGGTAAAAT
* *
24956889 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
24956916 GGTAATTCTACCTTAC-AGGAATATTTT
1 GGTAATTTTACCCTACAAGG-GTATTTC
* *
24956943 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
24956970 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
24956997 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
24957024 AGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
24957051 AGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
24957078 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
24957105 GATAATTT
1 GGTAATTT
24957113 AGTAAATCGA
Statistics
Matches: 168, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.04
27 155 0.92
28 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:24957100 original size:81 final size:81
Alignment explanation
Indices: 24956893--24957104 Score: 268
Period size: 81 Copynumber: 2.6 Consensus size: 81
24956883 TAAAATGGTA
* * * * * *
24956893 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAATATTTTAGTAATTCTACCC
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCC
24956956 TACAAGGGTATTTCGAT
65 TACAAGGGTATTTCGAT
* * * *
24956973 AATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
*
24957038 ACAGGGGTATTTC-AGT
66 ACAAGGGTATTTCGA-T
* *
24957054 ATTTCTACCCTACAAGGGTATTTTGGCATTTCTACCCTACAAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC
24957105 GATAATTTAG
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 4 0.04
81 107 0.95
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCGAT
Found at i:24957104 original size:54 final size:54
Alignment explanation
Indices: 24956890--24957104 Score: 270
Period size: 54 Copynumber: 4.0 Consensus size: 54
24956880 GGGTAAAATG
* * * * * *
24956890 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAATATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTCA
* *
24956944 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * *
24956998 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * *
24957052 GTATTTCTACCCTACAAGGGTATTTTGGCATTTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
24957105 GATAATTTAG
Statistics
Matches: 142, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 139 0.98
55 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:24957125 original size:27 final size:26
Alignment explanation
Indices: 24957095--24957274 Score: 82
Period size: 27 Copynumber: 6.7 Consensus size: 26
24957085 CTACCCTACA
24957095 AGGGTATTTCGATAATTTAGTAAATCG
1 AGGGTATTTCGATAATTTA-TAAATCG
*** *
24957122 AGGGTAAAACGATAATTCTATAAATCA
1 AGGGTATTTCGATAATT-TATAAATCG
* *
24957149 ATGGTACTTT-GGTAATTT-TACAAGTCG
1 AGGGTA-TTTCGATAATTTATA-AA-TCG
* *
24957176 AGGGTATTTCAATAATTT-TACAGGTCG
1 AGGGTATTTCGATAATTTATA-A-ATCG
* *
24957203 AGGGTATTTC-AGTAATTTCACAAATCA
1 AGGGTATTTCGA-TAATTT-ATAAATCG
* * * * *
24957230 AAGGTATTTTGGTAATTT-TACAAACT
1 AGGGTATTTCGATAATTTATA-AATCG
*
24957256 AGGGGTATTTTGATAATTT
1 A-GGGTATTTCGATAATTT
24957275 TACAAACTAG
Statistics
Matches: 116, Mismatches: 25, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
25 3 0.03
26 11 0.09
27 98 0.84
28 3 0.03
29 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (26 bp):
AGGGTATTTCGATAATTTATAAATCG
Found at i:24957204 original size:81 final size:81
Alignment explanation
Indices: 24957119--24957278 Score: 182
Period size: 81 Copynumber: 2.0 Consensus size: 81
24957109 ATTTAGTAAA
* * *
24957119 TCGAGGGTAAAAC-GATAA-TTCTATAAATCAATGGTACTTTGGTAATTTTACAAGTCGA-GGGT
1 TCGAGGGTAAAACAG-TAATTTC-ACAAATCAAAGGTACTTTGGTAATTTTACAA-ACGAGGGGT
24957181 ATTTCAATAATTTTACAGG
63 ATTTCAATAATTTTACAGG
*** * *
24957200 TCGAGGGTATTTCAGTAATTTCACAAATCAAAGGTATTTTGGTAATTTTACAAACTAGGGGTATT
1 TCGAGGGTAAAACAGTAATTTCACAAATCAAAGGTACTTTGGTAATTTTACAAACGAGGGGTATT
**
24957265 TTGATAATTTTACA
66 TCAATAATTTTACA
24957279 AACTAGGGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
80 2 0.03
81 60 0.91
82 4 0.06
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (81 bp):
TCGAGGGTAAAACAGTAATTTCACAAATCAAAGGTACTTTGGTAATTTTACAAACGAGGGGTATT
TCAATAATTTTACAGG
Found at i:24957289 original size:81 final size:80
Alignment explanation
Indices: 24957151--24957544 Score: 382
Period size: 81 Copynumber: 4.9 Consensus size: 80
24957141 ATAAATCAAT
* * * * *** **
24957151 GGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGTATTTCA
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACAAACCAG-GGGTATTTTG
* *
24957214 GTAATTTCACAAATCAAA
63 GTAATTTCACAAACCAAG
*
24957232 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACCAGGGGTATTTTGGT
* * *
24957297 AATTTTACAAACTAGG
65 AATTTCACAAACCAAG
* **
24957313 GGTATTTTGGTAATTTT-CTAAACCAATGGTATTTTACTAATTTTACAAACCAGGGGTATTTTGG
1 GGTATTTTGGTAATTTTAC-AAACTAGGGGTATTTTA-TAATTTTACAAACCAGGGGTATTTTGG
**
24957377 TAA-TTCTGTAAACCAAG
64 TAATTTC-ACAAACCAAG
* * * ** *
24957394 GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTGATTTTGTAAACCAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACCAGGGGTATTTTGGT
*
24957459 AATTTTACAAACCAAG
65 AATTTCACAAACCAAG
* * * ** *
24957475 GGTATTTTGGTGATTTTATAAACCAAAGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTTTACAAACCAGGGGTATTTTGGT
24957540 AATTT
65 AATTT
24957545 GGTAAACTAA
Statistics
Matches: 257, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
80 4 0.02
81 246 0.96
82 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACCAGGGGTATTTTGGTA
ATTTCACAAACCAAG
Found at i:24957551 original size:27 final size:27
Alignment explanation
Indices: 24957204--24957544 Score: 387
Period size: 27 Copynumber: 12.6 Consensus size: 27
24957194 TACAGGTCGA
** * * *
24957204 GGGTATTTCAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
24957231 AGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
24957258 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
24957285 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
24957312 GGGTATTTTGGTAATTTT-CTAAACCAA
1 GGGTATTTTGGTAATTTTAC-AAACCAG
* **
24957339 TGGTATTTTACTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
24957366 GGGTATTTTGGTAATTCTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
24957393 GGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
24957420 GGGTATTTTGGTGATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
24957447 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
24957474 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
24957501 AGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
24957528 TGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
24957545 GGTAAACTAA
Statistics
Matches: 269, Mismatches: 43, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 267 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:24957551 original size:54 final size:54
Alignment explanation
Indices: 24957228--24957560 Score: 434
Period size: 54 Copynumber: 6.2 Consensus size: 54
24957218 TTTCACAAAT
* * **
24957228 CAAAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAAC
1 CAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
* ** * *
24957282 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTCTAAAC
1 CAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
* ** *
24957336 CAATGGTATTTTACTAATTTTACAAACCAGGGGTATTTTGGTAATTCTGTAAAC
1 CAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
* * * *
24957390 CAAGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTGATTTTGTAAAC
1 CAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
* * * *
24957444 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAAC
1 CAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
* * *
24957498 CAAAGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGTAATTTGGTAAAC
1 CAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
*
24957552 TAAA-GTATT
1 CAAAGGTATT
24957561 CTAAACAGCG
Statistics
Matches: 246, Mismatches: 33, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
53 5 0.02
54 241 0.98
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
Found at i:24959552 original size:6 final size:6
Alignment explanation
Indices: 24959525--24959671 Score: 104
Period size: 6 Copynumber: 23.8 Consensus size: 6
24959515 AAACATTGTT
* * * * *
24959525 AGAATT AGAATC AAAATG AGAATC AGAATC AGGTAA-C AAAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * *
24959574 AGAATC AGAATT AGAATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC
* *
24959624 AGAATC AGAATC AGAATC AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
24959672 GTGAATGCAA
Statistics
Matches: 114, Mismatches: 15, Indels: 24
0.75 0.10 0.16
Matches are distributed among these distances:
5 8 0.07
6 89 0.78
7 11 0.10
8 6 0.05
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:24959571 original size:31 final size:31
Alignment explanation
Indices: 24959531--24959671 Score: 162
Period size: 31 Copynumber: 4.5 Consensus size: 31
24959521 TGTTAGAATT
*
24959531 AGAATCAAAATGAGAATCAGAATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* * *
24959562 AAAATCAAAATCAGAATCAGAATTA-G-AATT
1 AGAATCAAAATCAGAATCAGAATCAGGTAA-C
* *
24959592 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAAAATCAGAATCAGAATCAGGTAAC
* *
24959624 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
24959655 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
24959672 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
29 2 0.02
30 4 0.04
31 82 0.87
32 4 0.04
33 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:24959601 original size:25 final size:25
Alignment explanation
Indices: 24959573--24959668 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 25
24959563 AAATCAAAAT
* *
24959573 CAGAATCAGAATTAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
24959598 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
24959623 CAGAATCAGAATCAGAATCA-GTAT
1 CAGAATCAGAATCAGAATCAGGTAA
*
24959647 CAGGTAA-CAGAATCAAAATCAG
1 CA-G-AATCAGAATCAGAATCAG
24959669 AATGTGAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 5 0.08
25 55 0.89
26 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:24959612 original size:37 final size:37
Alignment explanation
Indices: 24959525--24959668 Score: 125
Period size: 37 Copynumber: 3.9 Consensus size: 37
24959515 AAACATTGTT
* * *
24959525 AGAATTAGAATCAAAATGAGAATCAGAATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* * * *
24959562 AAAATCAAAATCAGAATCAGAATTAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
24959599 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-C
* *
24959636 AGAATCAGTATCAGGTAA-CAGAATCAAAATCAG
1 AGAATCAGAATCA-G-AATCAGAATCAGAATCAG
24959669 AATGTGAATG
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
36 4 0.05
37 68 0.80
38 10 0.12
39 3 0.04
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:24960327 original size:27 final size:27
Alignment explanation
Indices: 24960117--24960331 Score: 268
Period size: 27 Copynumber: 8.0 Consensus size: 27
24960107 ATCTTAGTAA
* * ** *
24960117 TTCTACCTTACAGGAGTATTTAAGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAT
24960144 TTCTACCCTACAGGGGTATTTCGGTAT
1 TTCTACCCTACAGGGGTATTTCGGTAT
* * *
24960171 TTCTACCCTACAAGGGTATTTCGATAA
1 TTCTACCCTACAGGGGTATTTCGGTAT
** *
24960198 TTCTACCCTACAGGGGTATTTTAGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAT
* *
24960225 TTCTACCCTATAGGGGTATTTCGATAT
1 TTCTACCCTACAGGGGTATTTCGGTAT
*
24960252 TTCTACCCTACAGGGGTATTTCAGTAT
1 TTCTACCCTACAGGGGTATTTCGGTAT
* * *
24960279 TTCTACCCTATAAGGGTATTTCGGCAT
1 TTCTACCCTACAGGGGTATTTCGGTAT
*
24960306 TTCTACCCTACAAGGGTATTTCGGTA
1 TTCTACCCTACAGGGGTATTTCGGTA
24960332 ATTTGTAAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TTCTACCCTACAGGGGTATTTCGGTAT
Found at i:24960501 original size:27 final size:27
Alignment explanation
Indices: 24960377--24960874 Score: 550
Period size: 27 Copynumber: 18.4 Consensus size: 27
24960367 TCAATTGTAC
** *
24960377 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*** ** *
24960404 TTCAATAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
** * * *
24960431 TTCAGTAATTTCACAAATCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
24960458 TTTGGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
**
24960485 TTTAATAATTTTACAAACC-AGTGGTAT
1 TTTGGTAATTTTACAAACCAAG-GGTAT
* *
24960512 TTTGGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
24960539 TTTGGTAATTTTATAAACCAATGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * *
24960566 TTTAGTAATTTTGCAAACTAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
**
24960593 TTTGGTAATTTTGTAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
24960620 TTTGGTAATTTTACAAACTAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * *
24960647 TTTGGTGATTTTATAAACCAATGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
24960674 TTTAGTAATTTTACAAACCAAGGATAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
** *
24960701 TTTGGTAATTTTGTAAACCAATGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
24960728 TTTGGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
24960755 TTTGGTGATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
24960782 TTTAGTAATTTTACAAACC-AGGAGTAT
1 TTTGGTAATTTTACAAACCAAGG-GTAT
* * *
24960809 TTTGATGATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * *
24960836 TTTAGTAATTTTACAAATCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
24960863 TTTGGTAATTTT
1 TTTGGTAATTTT
24960875 GTGAACTAAA
Statistics
Matches: 396, Mismatches: 71, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.01
27 388 0.98
28 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACCAAGGGTAT
Found at i:24965466 original size:18 final size:18
Alignment explanation
Indices: 24965443--24965479 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24965433 AGAACTCAAA
24965443 GTATAGAAATTTTTCCAT
1 GTATAGAAATTTTTCCAT
24965461 GTATAGAAATTTTTCCAT
1 GTATAGAAATTTTTCCAT
24965479 G
1 G
24965480 GATGAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (18 bp):
GTATAGAAATTTTTCCAT
Found at i:24980815 original size:13 final size:13
Alignment explanation
Indices: 24980797--24980822 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24980787 AAATGAGAAG
24980797 TTTATAAGTCCTA
1 TTTATAAGTCCTA
24980810 TTTATAAGTCCTA
1 TTTATAAGTCCTA
24980823 ATCTGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTATAAGTCCTA
Found at i:24984191 original size:27 final size:27
Alignment explanation
Indices: 24984161--24984228 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 27
24984151 AATGTATAAA
*
24984161 AAATATATATTAAAATTA-TGTTATATT
1 AAATATATATTAAAA-TAGTATTATATT
*
24984188 AAATCT-TAATTAAAATAGTATTATATT
1 AAATATAT-ATTAAAATAGTATTATATT
24984215 AAA-ATAATATTAAA
1 AAATAT-ATATTAAA
24984229 GTGAGAGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
26 4 0.12
27 29 0.85
28 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (27 bp):
AAATATATATTAAAATAGTATTATATT
Found at i:24984217 original size:16 final size:16
Alignment explanation
Indices: 24984157--24984226 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 16
24984147 AATAAATGTA
24984157 TAAAA-AATA-TATAT
1 TAAAATAATATTATAT
* *
24984171 TAAAATTATGTTATAT
1 TAAAATAATATTATAT
*
24984187 T---A-AATCTTA-AT
1 TAAAATAATATTATAT
*
24984198 TAAAATAGTATTATAT
1 TAAAATAATATTATAT
24984214 TAAAATAATATTA
1 TAAAATAATATTA
24984227 AAGTGAGAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
11 3 0.07
12 5 0.12
13 1 0.02
14 6 0.14
15 7 0.17
16 20 0.48
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAAATAATATTATAT
Found at i:24986728 original size:13 final size:13
Alignment explanation
Indices: 24986710--24986735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24986700 TTGAATAAAA
24986710 TAAACTGGTGTAT
1 TAAACTGGTGTAT
24986723 TAAACTGGTGTAT
1 TAAACTGGTGTAT
24986736 GCACCCTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TAAACTGGTGTAT
Found at i:24986886 original size:25 final size:25
Alignment explanation
Indices: 24986852--24986899 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
24986842 GAAATTATGC
24986852 ATTTTAATAAACAAAACTTTCGTTA
1 ATTTTAATAAACAAAACTTTCGTTA
24986877 ATTTTAATAAACAAAACTTTCGT
1 ATTTTAATAAACAAAACTTTCGT
24986900 GCAACGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTTAATAAACAAAACTTTCGTTA
Found at i:24989566 original size:18 final size:18
Alignment explanation
Indices: 24989545--24989582 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24989535 TAAACCAATT
*
24989545 TATGTAATAAA-ATTTAAA
1 TATGTAA-AAATATTAAAA
24989563 TATGTAAAAATATTAAAA
1 TATGTAAAAATATTAAAA
24989581 TA
1 TA
24989583 ATAGTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TATGTAAAAATATTAAAA
Found at i:24990678 original size:42 final size:41
Alignment explanation
Indices: 24990605--24990684 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 41
24990595 TATATCAAAT
*
24990605 AATTTCTCTTAAAAGAAATAAGAATATAAAAAATTTAAAAA
1 AATTTCTCTTAAAAGAAATAAGAATATAAAAAAATTAAAAA
*
24990646 AATTATCTCTTTAAACGAAATTAA-AATA-AAAAAAATTAA
1 AATT-TCTC-TTAAAAGAAA-TAAGAATATAAAAAAATTAA
24990685 TTACGATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 4 0.12
42 14 0.41
43 13 0.38
44 3 0.09
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (41 bp):
AATTTCTCTTAAAAGAAATAAGAATATAAAAAAATTAAAAA
Found at i:24993650 original size:41 final size:41
Alignment explanation
Indices: 24993593--24993678 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
24993583 TGTGTACAAG
24993593 GTAAGAAATCTGAAAGTCTGCCTTCTTTTACATGTTTTCTT
1 GTAAGAAATCTGAAAGTCTGCCTTCTTTTACATGTTTTCTT
24993634 GTAAGAAATCTGAAAGTCTGCCTTCTTTTACATGTTTTCTT
1 GTAAGAAATCTGAAAGTCTGCCTTCTTTTACATGTTTTCTT
24993675 GTAA
1 GTAA
24993679 AAGTTGGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (41 bp):
GTAAGAAATCTGAAAGTCTGCCTTCTTTTACATGTTTTCTT
Found at i:24998766 original size:42 final size:42
Alignment explanation
Indices: 24998719--24998810 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
24998709 TGGCCCTTAG
** ** * *
24998719 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGTAA
1 GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
24998761 GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
24998803 GCCCATTT
1 GCCCATTT
24998811 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
Found at i:24998986 original size:25 final size:25
Alignment explanation
Indices: 24998958--24999027 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
24998948 CTCTTTTAAT
*
24998958 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
24998983 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
24999008 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
24999028 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:24999896 original size:26 final size:26
Alignment explanation
Indices: 24999831--24999931 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 26
24999821 GGCGTATTCT
24999831 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACC-TACAAGGGTATTACGG
* *
24999858 TCACTTTATCCTACAGGGGCT-TTACGG
1 TCATTTTA-CCTACAAGGG-TATTACGG
* * ***
24999885 TCTTTTTACCTATTAAGGGTATTTTAG
1 TCATTTTACCTA-CAAGGGTATTACGG
*
24999912 TCATTTCATCCTACAAGGGT
1 TCATTTTA-CCTACAAGGGT
24999932 GTTTTGGTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
26 5 0.09
27 45 0.79
28 7 0.12
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGTATTACGG
Found at i:24999978 original size:27 final size:27
Alignment explanation
Indices: 24999948--25000046 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
24999938 GTAAATCTAC
*
24999948 AAACTAAGGGTATTTCAATAATTTTGT
1 AAACTAAGGGTATTTCTATAATTTTGT
* * *
24999975 AAACCAATGGTATTCCTATAATTTT-T
1 AAACTAAGGGTATTTCTATAATTTTGT
* *
25000001 AAAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 ---AAACT-AAGGGTATTTCTATAATTTTGT
* *
25000032 AAATTAGGGGTATTT
1 AAACTAAGGGTATTT
25000047 TGGTAATTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
26 1 0.02
27 30 0.54
28 4 0.07
29 3 0.05
30 17 0.30
31 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTCTATAATTTTGT
Found at i:25000052 original size:27 final size:26
Alignment explanation
Indices: 25000012--25000108 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 26
25000002 AAAAAGTCAA
*
25000012 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTT-CAAATTAG
25000039 GGGTATTTTGGTAATTTTACAAATT-G
1 GGGTATTTTGGTAATTTT-CAAATTAG
* **
25000065 AGGGTATTTCGGTAATTTCTCAAACCAG
1 -GGGTATTTTGGTAATTT-TCAAATTAG
*
25000093 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
25000109 CTATCCTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.03
27 55 0.93
28 2 0.03
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCAAATTAG
Found at i:25002842 original size:27 final size:27
Alignment explanation
Indices: 25002789--25002963 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
25002779 TAAATTGTAC
*
25002789 AGCACTAAAGTGTGCGATTTGACTATGT
1 AGCACT-AAGTGTGCGAATTGACTATGT
* * *
25002817 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
25002843 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
25002870 CGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25002897 AGCACT-AGTG-GCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25002922 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
25002949 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25002964 GACTCAATAT
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
25 18 0.15
26 31 0.25
27 70 0.56
28 5 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:25005619 original size:27 final size:27
Alignment explanation
Indices: 25005588--25005761 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
25005578 TAAATTGTAC
*
25005588 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25005615 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
25005641 ATGCACTAAGTGTGCGAATTGAC-ATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
25005668 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
25005695 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
25005722 AGCA-TAAGTGTGCGAGTTGA-TATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
25005747 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25005762 GACTCAATAT
Statistics
Matches: 125, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.06
26 47 0.38
27 71 0.57
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:25005700 original size:53 final size:52
Alignment explanation
Indices: 25005588--25005761 Score: 192
Period size: 53 Copynumber: 3.3 Consensus size: 52
25005578 TAAATTGTAC
** **
25005588 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGAC-ATGCGGCACTAAGTGTGCGAGTTG-ATATGT
*
25005641 ATGCACTAAGTGTGCGAATTGACATGCGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACATGCGGCACTAAGTGTGCGAGTTGA-TATGT
* * *
25005695 AGCACTAAGTGTGCGATTTGA-TTACGTAGCA-TAAGTGTGCGAGTTGATATAT
1 AGCACTAAGTGTGCGATTTGACATGCG--GCACTAAGTGTGCGAGTTGATATGT
*
25005747 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25005762 GACTCAATAT
Statistics
Matches: 106, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
52 22 0.21
53 60 0.57
54 24 0.23
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGATTTGACATGCGGCACTAAGTGTGCGAGTTGATATGT
Found at i:25008404 original size:45 final size:45
Alignment explanation
Indices: 25008352--25008538 Score: 223
Period size: 45 Copynumber: 4.2 Consensus size: 45
25008342 TACACATAAC
* ** *
25008352 CACATATATTAATGTTAACATCCCAGACGTGGTCTTACACAAAAA
1 CACATATATCAATGCCAACATCCCAGACGTGGTCTTACACGAAAA
* *
25008397 CACATATATCAATGCCAACGTCCTAGACGTGGTCTTACACGAAAA
1 CACATATATCAATGCCAACATCCCAGACGTGGTCTTACACGAAAA
* * **
25008442 CACATATAACGATGCCAATGTCCCAGACGTGGTCTTACACGAAAA
1 CACATATATCAATGCCAACATCCCAGACGTGGTCTTACACGAAAA
** * * *
25008487 CACATATATTGATGCCAA-AGTCCTAGACGTTGTCTTACATGAAAA
1 CACATATATCAATGCCAACA-TCCCAGACGTGGTCTTACACGAAAA
25008532 CACATAT
1 CACATAT
25008539 CGAAATCCTA
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 125 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (45 bp):
CACATATATCAATGCCAACATCCCAGACGTGGTCTTACACGAAAA
Found at i:25008470 original size:90 final size:90
Alignment explanation
Indices: 25008372--25008538 Score: 280
Period size: 90 Copynumber: 1.9 Consensus size: 90
25008362 AATGTTAACA
*
25008372 TCCCAGACGTGGTCTTACACAAAAACACATATATCAATGCCAACGTCCTAGACGTGGTCTTACAC
1 TCCCAGACGTGGTCTTACACAAAAACACATATATCAATGCCAAAGTCCTAGACGTGGTCTTACAC
25008437 GAAAACACATATAACGATGCCAATG
66 GAAAACACATATAACGATGCCAATG
* ** * *
25008462 TCCCAGACGTGGTCTTACACGAAAACACATATATTGATGCCAAAGTCCTAGACGTTGTCTTACAT
1 TCCCAGACGTGGTCTTACACAAAAACACATATATCAATGCCAAAGTCCTAGACGTGGTCTTACAC
25008527 GAAAACACATAT
66 GAAAACACATAT
25008539 CGAAATCCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (90 bp):
TCCCAGACGTGGTCTTACACAAAAACACATATATCAATGCCAAAGTCCTAGACGTGGTCTTACAC
GAAAACACATATAACGATGCCAATG
Found at i:25015426 original size:15 final size:15
Alignment explanation
Indices: 25015383--25015444 Score: 70
Period size: 15 Copynumber: 4.0 Consensus size: 15
25015373 GGTATTGTAA
**
25015383 CTTGGATTTCTGAAT
1 CTTGGATTTCTTTAT
25015398 CTTGGGAGTTTCTTTAT
1 CTT-GGA-TTTCTTTAT
25015415 CTTGGATTTCTTTAT
1 CTTGGATTTCTTTAT
* *
25015430 CTCGGACTTCTTTAT
1 CTTGGATTTCTTTAT
25015445 TGGGTTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
15 25 0.61
16 6 0.15
17 10 0.24
ACGTcount: A:0.15, C:0.16, G:0.18, T:0.52
Consensus pattern (15 bp):
CTTGGATTTCTTTAT
Found at i:25021290 original size:43 final size:43
Alignment explanation
Indices: 25021224--25021308 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
25021214 AAATCGTACA
** *
25021224 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTAC-TCGTAAACACATATCG
25021267 ATGCC-ACTGTCCCAGACAAGGTCTTACTCGTAAACACATATC
1 ATGCCAAC-GTCCCAGACAAGGTCTTACTCGTAAACACATATC
25021309 AGAATCACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACTCGTAAACACATATCG
Found at i:25025262 original size:40 final size:39
Alignment explanation
Indices: 25025208--25025441 Score: 146
Period size: 39 Copynumber: 5.9 Consensus size: 39
25025198 AAATTCAATC
* * * *
25025208 ACCAACACAAAGCCTACGGGACTTTAAGCCCAGATATAGT
1 ACCAGCACGAAGCCTAC-AGACCTTAAGCCCAGATATAGT
* * * *
25025248 ACCAGTACGAAGCCTGCAGACCTTAAGTCCGGATATAGT
1 ACCAGCACGAAGCCTACAGACCTTAAGCCCAGATATAGT
* * * * * *
25025287 ACCAGCACGAAGCCTGCAGATCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTACAGACCTTAAGCCCAGATATAGT
* * * * * * *
25025326 TCCAGCACGAAGCCTGCAGGTCTTTAAGCCCGGATACAAT
1 ACCAGCACGAAGCCTACA-GACCTTAAGCCCAGATATAGT
* * * * * *
25025366 TCCAGCACGAAGCCTGC-GAACCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTACAG-ACCTTAAGCCCAGATATAGT
* * * * *
25025405 TCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATA
1 ACCAGCACGAAGCCTACAGACCTTAAGCCCAGATATA
25025442 CATCAAATAT
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
38 1 0.01
39 121 0.71
40 48 0.28
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
ACCAGCACGAAGCCTACAGACCTTAAGCCCAGATATAGT
Found at i:25025283 original size:39 final size:39
Alignment explanation
Indices: 25025249--25025439 Score: 276
Period size: 39 Copynumber: 4.9 Consensus size: 39
25025239 AGATATAGTA
* * * *
25025249 CCAGTACGAAGCCTGCAGACCTTAAGTCCGGATATAGTA
1 CCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATT
*
25025288 CCAGCACGAAGCCTGCAGATCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATT
* * *
25025327 CCAGCACGAAGCCTGCAGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGCA-GACCTTAAGTCCGGATACAATT
25025367 CCAGCACGAAGCCTGC-GAACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCAG-ACCTTAAGTCCGGATACAATT
*
25025406 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCAGACCTTAAGTCCGGATA
25025440 TACATCAAAT
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 101 0.74
40 35 0.26
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATT
Found at i:25025361 original size:79 final size:79
Alignment explanation
Indices: 25025249--25025441 Score: 284
Period size: 79 Copynumber: 2.5 Consensus size: 79
25025239 AGATATAGTA
* * *
25025249 CCAGTACGAAGCCTGCA-GACCTTAAGTCCGGATATAGTACCAGCACGAAGCCTGC-AGATCTTA
1 CCAGCACGAAGCCTGCAGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGA-ACCTTA
25025312 AGTCCGGATACAATT
65 AGTCCGGATACAATT
* * * * *
25025327 CCAGCACGAAGCCTGCAGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGAACCTTAA
1 CCAGCACGAAGCCTGCAGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGAACCTTAA
25025392 GTCCGGATACAATT
66 GTCCGGATACAATT
25025406 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATATA
1 CCAGCACGAAGCCTGCAGGACCTTAAGTCCGGATATA
25025442 CATCAAATAT
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
78 32 0.32
79 68 0.67
80 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (79 bp):
CCAGCACGAAGCCTGCAGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGAACCTTAA
GTCCGGATACAATT
Found at i:25026111 original size:24 final size:24
Alignment explanation
Indices: 25026084--25026166 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 24
25026074 TAATTCACAT
* * *
25026084 ACATATTGACATTCCAATCCGCAC
1 ACATAATGCCATTCAAATCCGCAC
* *
25026108 ACATAGTGCCATACAAATCCGCAC
1 ACATAATGCCATTCAAATCCGCAC
* *
25026132 ACATAATGCCATTCAAATTCGTAC
1 ACATAATGCCATTCAAATCCGCAC
*
25026156 ACATAGTGCCA
1 ACATAATGCCA
25026167 AAATCATTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (24 bp):
ACATAATGCCATTCAAATCCGCAC
Found at i:25026136 original size:48 final size:48
Alignment explanation
Indices: 25026056--25026166 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
25026046 ATGTTAACCT
* ** * * * *
25026056 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCC
1 GCACACATAGTGCCATACAAATCCACACACATAATGACATTCAAATCC
* * *
25026104 GCACACATAGTGCCATACAAATCCGCACACATAATGCCATTCAAATTC
1 GCACACATAGTGCCATACAAATCCACACACATAATGACATTCAAATCC
*
25026152 GTACACATAGTGCCA
1 GCACACATAGTGCCA
25026167 AAATCATTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (48 bp):
GCACACATAGTGCCATACAAATCCACACACATAATGACATTCAAATCC
Found at i:25027364 original size:17 final size:17
Alignment explanation
Indices: 25027342--25027375 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25027332 CCCCACTTAA
*
25027342 TATATTATAACTTATTT
1 TATATTATAACATATTT
25027359 TATATTATAACATATTT
1 TATATTATAACATATTT
25027376 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Done.