Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 78 of 211
Found at i:24248331 original size:21 final size:21
Alignment explanation
Indices: 24248299--24248339 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24248289 GTTTTTATTG
*
24248299 ATTTTAATTTTTTTATAAAAA
1 ATTTTAATTTTTTAATAAAAA
24248320 ATTTCTAA-TTTTTAATAAAA
1 ATTT-TAATTTTTTAATAAAA
24248340 GCAAGGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTAATTTTTTAATAAAAA
Found at i:24251326 original size:28 final size:31
Alignment explanation
Indices: 24251258--24251326 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
24251248 ATTTTCCAAC
* *
24251258 AATTTTTTATAAAAATATTCTAGTTTTACTT
1 AATTTTTCATAAAAATATTCTAGTTTTAATT
* *
24251289 TATTATTTCAT-AAATTATTC-A-TTTTAATT
1 AATT-TTTCATAAAAATATTCTAGTTTTAATT
24251318 AATTTTTCA
1 AATTTTTCA
24251327 CGAATGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.16
29 10 0.31
30 1 0.03
31 11 0.34
32 5 0.16
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (31 bp):
AATTTTTCATAAAAATATTCTAGTTTTAATT
Found at i:24263793 original size:18 final size:18
Alignment explanation
Indices: 24263745--24263793 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
24263735 TTAAAGAAAT
* *
24263745 AAAAATAAATAACTAATG
1 AAAAATAAATAAATAAAG
*
24263763 -AAAAGAAATAAATAAAG
1 AAAAATAAATAAATAAAG
*
24263780 AAAAATAAACAAAT
1 AAAAATAAATAAAT
24263794 GAAATAAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.16
Consensus pattern (18 bp):
AAAAATAAATAAATAAAG
Found at i:24269443 original size:14 final size:14
Alignment explanation
Indices: 24269424--24269450 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24269414 GTTTACTTTA
24269424 GTTTGATTCATAAT
1 GTTTGATTCATAAT
24269438 GTTTGATTCATAA
1 GTTTGATTCATAA
24269451 GTTATGGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (14 bp):
GTTTGATTCATAAT
Found at i:24275736 original size:17 final size:17
Alignment explanation
Indices: 24275714--24275751 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
24275704 TATTAGGGGT
24275714 AATTTTGCA-TAAATATG
1 AATTTTGCATTAAAT-TG
*
24275731 AATTTTGGATTAAATTG
1 AATTTTGCATTAAATTG
24275748 AATT
1 AATT
24275752 CTAGAAGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (17 bp):
AATTTTGCATTAAATTG
Found at i:24280614 original size:255 final size:254
Alignment explanation
Indices: 24280162--24280914 Score: 1348
Period size: 255 Copynumber: 3.0 Consensus size: 254
24280152 TTTTCAAATC
*
24280162 GTGCTTTGGAATTTTTACTTTGTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
24280227 TCAAAACAAAATATTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
66 TCAAAACAAAATA-TTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
*
24280292 ACAATCCTCGTGGGTACGATAACTCGGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
130 ACAATCCTCGTGGGTACGATAACTCAGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
* *
24280357 CACTTACACATTTCTATTGTTTCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
195 CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
24280417 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
24280482 TCAAAACAAAATAGTTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
66 TCAAAACAAAATA-TTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTC
* * * * *
24280547 ACAATCCTCATGGGTACGATAACTTAGCATTTACTTGCCACTTTATTACTTGTTACGATTCTTTA
130 ACAATCCTCGTGGGTACGATAACTCAGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTA
24280612 CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
195 CACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
* *
24280672 GTGCTTTGGAATTTTTACTTTTTATTTCTATTA--TAGTTAATTTTTAATTTTTAAATCACCTCT
1 GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
*
24280735 TCAAAACAAAATATTTTTCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
66 TCAAAACAAAATATTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
* *
24280800 CAATCCTCGTGGGTACGATAACTCAACATTTACTTGTCACTTTATTACTTTTTGCGATTGTTTAC
131 CAATCCTCGTGGGTACGATAACTCAGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTAC
24280865 ACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATA
196 ACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATA
24280915 TGTCAGATCG
Statistics
Matches: 478, Mismatches: 20, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
252 159 0.33
253 41 0.09
255 278 0.58
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (254 bp):
GTGCTTTGGAATTTTTACTTTTTATTTCTATTACGTAGTTAATTTTTAGTTTTTAAATCACTTCT
TCAAAACAAAATATTTTCCCATCACCAAAGTGTTTAATTTACATCTCATAAATATTTTTCTTTCA
CAATCCTCGTGGGTACGATAACTCAGCATTTACTTGTCACTTTATTACTTGTTGCGATTGTTTAC
ACTTACACATTTCTGTTGTTCCAATAGTGCCAAGACACACACATTTCATAGTTCCAATA
Found at i:24282060 original size:27 final size:28
Alignment explanation
Indices: 24282029--24282293 Score: 167
Period size: 27 Copynumber: 9.8 Consensus size: 28
24282019 CTTTAGTGTG
*
24282029 CGCCATAAAGGCATTCC-CTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* *
24282056 CGCCACAAAGGTA-TCCTTTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
24282083 CGCCATAAAGGC-TTCCTTTTCATAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* *
24282110 TGCCATAAAGGC-TTCTTTTTTC-TAGAT
1 CGCCATAAAGGCATTC-CTTTTCATAGAT
* * *
24282137 CGCCACAAA--AATTTCATTTTTC-TAGAT
1 CGCCATAAAGGCA-TTC-CTTTTCATAGAT
* * * *
24282164 CACCACAAAGGC-TTCCTTTTTATAAAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * * * * *
24282191 CACCACAAGGGC-TTTCTTTTTAAAGAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* *
24282218 CGCCACAAAGGC-TTCCTTTTTTATAGAT
1 CGCCATAAAGGCATTCC-TTTTCATAGAT
** * *
24282246 CGCCGCAAAGGC-TTCCTTTTTATAAAT
1 CGCCATAAAGGCATTCCTTTTCATAGAT
* * *
24282273 CGCCACAAAGGCTTTCTTTTT
1 CGCCATAAAGGCATTCCTTTT
24282294 TGGCGTGTTC
Statistics
Matches: 200, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.04
27 156 0.78
28 37 0.19
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (28 bp):
CGCCATAAAGGCATTCCTTTTCATAGAT
Found at i:24282087 original size:54 final size:54
Alignment explanation
Indices: 24282029--24282292 Score: 189
Period size: 54 Copynumber: 4.9 Consensus size: 54
24282019 CTTTAGTGTG
24282029 CGCCATAAAGGCATTCC-CTTCATAGATCGCCACAAAGG-TATC-CTTTTCATAGAT
1 CGCCATAAAGGC-TTCCTCTTCATAGATCGCCACAAAGGCT-TCTCTTTTC-TAGAT
* * * *
24282083 CGCCATAAAGGCTTCCTTTTCATAGATTGCCATAAAGGCTTCTTTTTTCTAGAT
1 CGCCATAAAGGCTTCCTCTTCATAGATCGCCACAAAGGCTTCTCTTTTCTAGAT
* *** * * * * *
24282137 CGCCACAAAAATTTCATTTTTC-TAGATCACCACAAAGGCTTC-CTTTTTATAAAT
1 CGCCATAAAGGCTTC-CTCTTCATAGATCGCCACAAAGGCTTCTC-TTTTCTAGAT
* * * * * * * * *
24282191 CACCACAAGGGCTTTCTTTTTAAAGATCGCCACAAAGGCTTCCTTTTTTATAGAT
1 CGCCATAAAGGCTTCCTCTTCATAGATCGCCACAAAGGCTT-CTCTTTTCTAGAT
** * * *
24282246 CGCCGCAAAGGCTTCCTTTTTATAAATCGCCACAAAGGCTT-TCTTTT
1 CGCCATAAAGGCTTCCTCTTCATAGATCGCCACAAAGGCTTCTCTTTT
24282293 TTGGCGTGTT
Statistics
Matches: 168, Mismatches: 34, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
53 13 0.08
54 99 0.59
55 56 0.33
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (54 bp):
CGCCATAAAGGCTTCCTCTTCATAGATCGCCACAAAGGCTTCTCTTTTCTAGAT
Found at i:24282307 original size:82 final size:82
Alignment explanation
Indices: 24282052--24282293 Score: 267
Period size: 81 Copynumber: 3.0 Consensus size: 82
24282042 TTCCCTTCAT
* * * * * **
24282052 AGATCGCCACAAAGG-TATCC-TTTTCATAGATCGCCATAAAGGCTTCCTTTTCATAGATTGCCA
1 AGATCGCCACAAAGGCT-TCCTTTTTTATAGATCACCACAAAGGCTTCCTTTTTATAAATCACCA
* **
24282115 TAAAGGC-TTCTTTTTTCT
65 CAAAGGCTTTC-TTTTTAA
** * * *
24282133 AGATCGCCACAAA-AATTTCATTTTTCTAGATCACCACAAAGGCTTCCTTTTTATAAATCACCAC
1 AGATCGCCACAAAGGCTTCCTTTTTTATAGATCACCACAAAGGCTTCCTTTTTATAAATCACCAC
*
24282197 AAGGGCTTTCTTTTTAA
66 AAAGGCTTTCTTTTTAA
* * *
24282214 AGATCGCCACAAAGGCTTCCTTTTTTATAGATCGCCGCAAAGGCTTCCTTTTTATAAATCGCCAC
1 AGATCGCCACAAAGGCTTCCTTTTTTATAGATCACCACAAAGGCTTCCTTTTTATAAATCACCAC
24282279 AAAGGCTTTCTTTTT
66 AAAGGCTTTCTTTTT
24282294 TGGCGTGTTC
Statistics
Matches: 134, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
80 2 0.01
81 72 0.54
82 60 0.45
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (82 bp):
AGATCGCCACAAAGGCTTCCTTTTTTATAGATCACCACAAAGGCTTCCTTTTTATAAATCACCAC
AAAGGCTTTCTTTTTAA
Found at i:24285467 original size:16 final size:16
Alignment explanation
Indices: 24285446--24285477 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24285436 TTTGGACTAA
24285446 ATTGAATAGAATGAAT
1 ATTGAATAGAATGAAT
*
24285462 ATTGAATGGAATGAAT
1 ATTGAATAGAATGAAT
24285478 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (16 bp):
ATTGAATAGAATGAAT
Found at i:24291704 original size:24 final size:24
Alignment explanation
Indices: 24291677--24291738 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
24291667 CTTTTTCGTT
*
24291677 TTCACCTCTACCCTCGTAC-TCATC
1 TTCACCTCCACCCTCGT-CTTCATC
* * *
24291701 TTCATCTCCATCGTCGTCTTCATC
1 TTCACCTCCACCCTCGTCTTCATC
*
24291725 TTCACCTTCACCCT
1 TTCACCTCCACCCT
24291739 TGGCTTTGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.15, C:0.44, G:0.05, T:0.37
Consensus pattern (24 bp):
TTCACCTCCACCCTCGTCTTCATC
Found at i:24293732 original size:18 final size:18
Alignment explanation
Indices: 24293709--24293755 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
24293699 TAAGTGCACT
24293709 TTAATTATTTTGTAAAAA
1 TTAATTATTTTGTAAAAA
24293727 TTAATTATTTTGTAAAAA
1 TTAATTATTTTGTAAAAA
24293745 TTAATTATTTT
1 TTAATTATTTT
24293756 TTCGACAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTAATTATTTTGTAAAAA
Found at i:24297224 original size:20 final size:21
Alignment explanation
Indices: 24297179--24297225 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
24297169 AATGTTGATA
24297179 ATAATTAATATATTATAATAGAT
1 ATAATTAATATATTATAAT--AT
24297202 ATAATT-ATATATTAATAAT-T
1 ATAATTAATATATT-ATAATAT
24297222 ATAA
1 ATAA
24297226 CCTGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.22
22 7 0.30
23 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATAATTAATATATTATAATAT
Found at i:24297340 original size:29 final size:30
Alignment explanation
Indices: 24297285--24297345 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
24297275 GCTTTTTGAA
* *
24297285 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
24297315 AATATTTA-AAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
24297344 AA
1 AA
24297346 AAATAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 18 0.64
30 8 0.29
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:24304065 original size:18 final size:19
Alignment explanation
Indices: 24304039--24304075 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
24304029 AATTTTGGAA
24304039 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
24304057 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
24304076 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:24307012 original size:15 final size:16
Alignment explanation
Indices: 24306992--24307021 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24306982 TTTAACTAAG
24306992 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
24307007 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
24307022 TTTCTAATTC
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:24307701 original size:20 final size:18
Alignment explanation
Indices: 24307678--24307715 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
24307668 GACCTAACAC
24307678 TAATTAAATTTAAGTCATAT
1 TAATTAAA-TTAAG-CATAT
24307698 TAATTAAATTAAGCATAT
1 TAATTAAATTAAGCATAT
24307716 CAACATCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (18 bp):
TAATTAAATTAAGCATAT
Found at i:24311616 original size:11 final size:11
Alignment explanation
Indices: 24311600--24311626 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24311590 TTCTTGTCAA
24311600 AATTATAAAAT
1 AATTATAAAAT
24311611 AATTATAAAAT
1 AATTATAAAAT
24311622 AATTA
1 AATTA
24311627 AATTGTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:24319489 original size:58 final size:58
Alignment explanation
Indices: 24319392--24319507 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
24319382 CAATAGAGGA
24319392 GCCACCTAAATTAGAACTGAAGGTACTTCCCTCAAATTTGAAATATGTTTATTTAGGT
1 GCCACCTAAATTAGAACTGAAGGTACTTCCCTCAAATTTGAAATATGTTTATTTAGGT
* *
24319450 GCCACCTAAATTAGAACTGAAGGTACTTCCTTCACATTTGAAATATGTTTATTTAGGT
1 GCCACCTAAATTAGAACTGAAGGTACTTCCCTCAAATTTGAAATATGTTTATTTAGGT
24319508 AACTCTTCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (58 bp):
GCCACCTAAATTAGAACTGAAGGTACTTCCCTCAAATTTGAAATATGTTTATTTAGGT
Found at i:24323171 original size:50 final size:50
Alignment explanation
Indices: 24323105--24323342 Score: 298
Period size: 50 Copynumber: 4.6 Consensus size: 50
24323095 TCTGGTACTA
* * * *
24323105 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGCTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* *
24323155 CCCATGCCATGTCCCAGACATGGTCTTAC-GGGCGACCTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATATCGGTG
* *
24323205 CCAATGCCATGTCCCACACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* *
24323255 CCAAATGCCATGTCCCAGAAATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
*
24323312 CCAATGCCATGTCTCAGACATGGTCTTACAT
1 CCAATGCCATGTCCCAGACATGGTCTTACAT
24323343 AGAATCTTTT
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
49 2 0.01
50 86 0.53
51 41 0.25
54 2 0.01
56 27 0.17
57 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:24323958 original size:28 final size:28
Alignment explanation
Indices: 24323918--24323974 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24323908 TTAGCAAAAG
24323918 TTGTTTAACATAATTTCAAGCTTCATAT
1 TTGTTTAACATAATTTCAAGCTTCATAT
24323946 TTGTTTAACATAATTTCAAGCTTCATAT
1 TTGTTTAACATAATTTCAAGCTTCATAT
24323974 T
1 T
24323975 CTACCATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (28 bp):
TTGTTTAACATAATTTCAAGCTTCATAT
Found at i:24330233 original size:50 final size:50
Alignment explanation
Indices: 24330158--24330405 Score: 237
Period size: 50 Copynumber: 4.8 Consensus size: 50
24330148 TTTCTTGTAC
* * * * *
24330158 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAACTCTCATATGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* *** * *
24330208 TGCCAATGCCATGTCCTAGACATGGTCTTATGGGGGACCTCTCGTCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * * *
24330258 TGCCAACGCCATG-CCCCGCACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAG-ACATGGTCTTACATGGGACCTCTCATATTGG
* * * * *
24330308 TGTCAACGCCATGTCCCAGACATGGTCTTACATAGTACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T---TGG
*
24330364 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24330406 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 31, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
49 3 0.02
50 113 0.71
51 4 0.03
53 1 0.01
56 38 0.24
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
Found at i:24332446 original size:22 final size:19
Alignment explanation
Indices: 24332415--24332461 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
24332405 AAATATGATA
24332415 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
24332438 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
24332457 ATTAT
1 ATTAT
24332462 CAGTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:24332457 original size:16 final size:15
Alignment explanation
Indices: 24332417--24332458 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
24332407 ATATGATAAT
24332417 TATTAATATATAATTA
1 TATTAAT-TATAATTA
24332433 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
24332449 TATTAATTAT
1 TATTAATTAT
24332459 TATCAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:24343206 original size:13 final size:12
Alignment explanation
Indices: 24343185--24343232 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
24343175 TAGTAGTTTC
*
24343185 TTCAAAAAAAAT
1 TTCAAAAAAAAA
24343197 TTCAAAAAAAAA
1 TTCAAAAAAAAA
24343209 TTCAAAAAAAAA
1 TTCAAAAAAAAA
*
24343221 ATCAAAAAAAAA
1 TTCAAAAAAAAA
24343233 ATTTGGTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:24343293 original size:15 final size:15
Alignment explanation
Indices: 24343273--24343328 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
24343263 GATATCAAGT
24343273 TGAAAAAAATTTTCG
1 TGAAAAAAATTTTCG
**
24343288 TGAAAAAAAAATTCG
1 TGAAAAAAATTTTCG
24343303 TGAAAAAAAAATTTTCG
1 TG--AAAAAAATTTTCG
24343320 TGAAAAAAA
1 TGAAAAAAA
24343329 AAAGAAGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 22 0.63
17 13 0.37
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.25
Consensus pattern (15 bp):
TGAAAAAAATTTTCG
Found at i:24343297 original size:17 final size:17
Alignment explanation
Indices: 24343275--24343330 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
24343265 TATCAAGTTG
24343275 AAAAAAATTTTCGTGAA
1 AAAAAAATTTTCGTGAA
24343292 AAAAAAA--TTCGTGAA
1 AAAAAAATTTTCGTGAA
24343307 AAAAAAATTTTCGTGAA
1 AAAAAAATTTTCGTGAA
24343324 AAAAAAA
1 AAAAAAA
24343331 AGAAGCTAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.41
17 22 0.59
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (17 bp):
AAAAAAATTTTCGTGAA
Found at i:24352842 original size:46 final size:46
Alignment explanation
Indices: 24352789--24352882 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
24352779 CAAAGAAAAG
* *
24352789 ACCTCGACGCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
24352835 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
24352881 AC
1 AC
24352883 GCCACACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:24355610 original size:19 final size:18
Alignment explanation
Indices: 24355574--24355613 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24355564 TTTCCACTCG
*
24355574 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
24355592 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
24355611 TTT
1 TTT
24355614 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:24356689 original size:14 final size:14
Alignment explanation
Indices: 24356670--24356720 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
24356660 ACTAGCTTTC
24356670 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
24356684 TTTTTTTTCACAA-
1 TTTTTTTTCACAAT
24356697 -TTTTTTTCA-AAT
1 TTTTTTTTCACAAT
24356709 TTTTTTTT-ACAA
1 TTTTTTTTCACAA
24356721 CTTGATATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.06
12 10 0.29
13 9 0.26
14 13 0.38
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:24356715 original size:12 final size:13
Alignment explanation
Indices: 24356670--24356720 Score: 70
Period size: 12 Copynumber: 4.0 Consensus size: 13
24356660 ACTAGCTTTC
24356670 TTTTTTTTCACAA
1 TTTTTTTTCACAA
24356683 TTTTTTTTTCACAA
1 -TTTTTTTTCACAA
24356697 -TTTTTTTCA-AA
1 TTTTTTTTCACAA
*
24356708 TTTTTTTTTACAA
1 TTTTTTTTCACAA
24356721 CTTGATATCC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
11 2 0.06
12 17 0.50
13 2 0.06
14 13 0.38
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:24356776 original size:13 final size:13
Alignment explanation
Indices: 24356758--24356807 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
24356748 TGGAAACTAG
24356758 TTTTTTTTTCG-A
1 TTTTTTTTTCGAA
*
24356770 TTTTTTTTTTGAA
1 TTTTTTTTTCGAA
*
24356783 TTTTTTTTTCGAC
1 TTTTTTTTTCGAA
24356796 TTTTTTTTTCGA
1 TTTTTTTTTCGA
24356808 GAAACTACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 10 0.29
13 24 0.71
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:24357175 original size:46 final size:46
Alignment explanation
Indices: 24357122--24357214 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
24357112 CAAAGAAAAG
*
24357122 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
24357168 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
24357214 A
1 A
24357215 TGCCACACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:24361454 original size:9 final size:9
Alignment explanation
Indices: 24361415--24361467 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
24361405 AGGTTAAGAA
24361415 AATT-ATTT
1 AATTAATTT
*
24361423 AATTAA-TA
1 AATTAATTT
*
24361431 AATTAACTT
1 AATTAATTT
*
24361440 AGTTAATTT
1 AATTAATTT
*
24361449 AATTAATTA
1 AATTAATTT
24361458 AATTAATTT
1 AATTAATTT
24361467 A
1 A
24361468 TAAATAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 11 0.31
9 25 0.69
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (9 bp):
AATTAATTT
Found at i:24361458 original size:13 final size:13
Alignment explanation
Indices: 24361421--24361465 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
24361411 AGAAAATTAT
24361421 TTAATTAA-TAAA
1 TTAATTAATTAAA
* *
24361433 TTAACTTAGTTAAT
1 TTAA-TTAATTAAA
24361447 TTAATTAATTAAA
1 TTAATTAATTAAA
24361460 TTAATT
1 TTAATT
24361466 TATAAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 4 0.15
13 16 0.59
14 7 0.26
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:24363179 original size:20 final size:21
Alignment explanation
Indices: 24363154--24363192 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
24363144 AAGGGAGTAG
24363154 TCTTTCACTTGA-TTAAAAAA
1 TCTTTCACTTGAGTTAAAAAA
24363174 TCTTTCACTTGAGTTAAAA
1 TCTTTCACTTGAGTTAAAA
24363193 TTGTTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (21 bp):
TCTTTCACTTGAGTTAAAAAA
Found at i:24363593 original size:18 final size:18
Alignment explanation
Indices: 24363567--24363601 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24363557 ATAATTATAG
*
24363567 TATTGAATTAATATTTTA
1 TATTAAATTAATATTTTA
24363585 TATTAAATTAATATTTT
1 TATTAAATTAATATTTT
24363602 TTAAAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTAAATTAATATTTTA
Found at i:24364676 original size:15 final size:16
Alignment explanation
Indices: 24364656--24364696 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
24364646 GAATACACAT
24364656 GAATTTATATATAT-A
1 GAATTTATATATATAA
*
24364671 GAATTTAGAT-TATAA
1 GAATTTATATATATAA
*
24364686 AAATTTATATA
1 GAATTTATATA
24364697 AACAAAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
GAATTTATATATATAA
Found at i:24366579 original size:44 final size:42
Alignment explanation
Indices: 24366516--24366855 Score: 156
Period size: 44 Copynumber: 7.8 Consensus size: 42
24366506 TTTCTGGTTC
* * * *
24366516 TAATCCGCTCCATTGCAACTTCAAGGAGATAGGATTATTGGCTT
1 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT-TT-ACTT
*
24366560 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTT
1 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTT--A-CTT
* *
24366605 CAGTCTGC-CTCACTGCAACTTC-AGGAGGATAAGACTTGCTTAC-T
1 TAATCTGCTC-CACTGCAACTTCAAGGA-GATAAGA-TT--TTACTT
* * * ** *
24366649 TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA-TG
1 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTTACTT
** * * *** *
24366690 CGATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCCAAAGTTT
1 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT-TTTA-CTT
* * * * *
24366733 TAATCCGCTCCACTGCAACTTCAGGGAGATACGGTTTGCAATCTT
1 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTT--TA-CTT
* **
24366778 TAGTCTGC-CTCACTGTGACTTC-AGGAGGATAAGACTTGCTTAC-T
1 TAATCTGCTC-CACTGCAACTTCAAGGA-GATAAGA-TT--TTACTT
* * *
24366822 TAGTCTGCTCCACTGCAACTTCAGGGAGACAAGA
1 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
24366856 CTAGATGGGA
Statistics
Matches: 224, Mismatches: 49, Indels: 46
0.70 0.15 0.14
Matches are distributed among these distances:
40 21 0.09
41 9 0.04
43 10 0.04
44 112 0.50
45 63 0.28
46 6 0.03
48 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTTACTT
Found at i:24366626 original size:45 final size:44
Alignment explanation
Indices: 24366563--24367247 Score: 263
Period size: 44 Copynumber: 15.8 Consensus size: 44
24366553 TTGGCTTTAA
*
24366563 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTCCATACTT-AG
* *
24366608 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTCCATACTTAG
** * *
24366652 TCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TAGATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATACTTAG
* ** * * *
24366693 TCTGCT-CTCTGCAACTTCAAAGAGATAAGA--TCCAAAGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATA--CTTAG
* * ** *
24366736 TCCGCTCCACTGCAACTTCAGGGAGATACGGTTTGCA-ATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATA-C-TTAG
** * *
24366781 TCTGC-CTCACTGTGACTTCA-GGAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTCCATACTTAG
* * **
24366825 TCTGCTCCACTGCAACTTCAGGGAGACAAGAC-T--AGA-TGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATACTTAG
* * * * *
24366865 ATCTACT-CTCTGCAACTTCAGAGAGATAAGA--TCCA-AGGTTTTAA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATA---CTTAG
* * * *
24366909 TCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCA-ATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATA-CTT-AG
* * * * * *
24366954 TTTGC-CTCACTGTAACTTTA-GGAGGATAAAACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTCCATACTTAG
* * **
24366998 TCTACTCCACTGCAACTTCAGGGAGATAAGAC-T--AGA-TGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATACTTAG
* * ** *
24367038 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGA--TCCAATGTTTTAA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCC-AT-ACTTAG
* * * * *
24367082 TCCGCTCCACTGCAACTTTAGGGAGATAGGA-TT--ATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCAT--AC-TTAG
* * ** *
24367126 CCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCA-ATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATA-CTT-AG
* * * *
24367171 TCTGC-CTCACTACAACTTCA-GGAGGATAAAACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTCCATACTTAG
* * *
24367215 TCTGCTCCCCTACAACTTTAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
24367248 AGATGGGATC
Statistics
Matches: 485, Mismatches: 101, Indels: 109
0.70 0.15 0.16
Matches are distributed among these distances:
39 4 0.01
40 69 0.14
41 19 0.04
42 5 0.01
43 20 0.04
44 223 0.46
45 134 0.28
46 10 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCCATACTTAG
Found at i:24366663 original size:89 final size:89
Alignment explanation
Indices: 24366563--24367028 Score: 419
Period size: 89 Copynumber: 5.3 Consensus size: 89
24366553 TTGGCTTTAA
* *
24366563 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
24366628 GGAGGATAAGACTTGCTTACTTAG
66 GGAGGATAAGACTTGCTTACTTAG
* * * *
24366652 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTG-CTCTCTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAG-TCTGCCTCACTGCAACTTC
* ** *
24366711 A-AAGAGATAAGATCCAAAG-TT--TTAA
65 AGGAG-GATAAGA--C-TTGCTTACTTAG
* * * * **
24366736 TCCGCTCCACTGCAACTTCAGGGAGATACGGTTTGCAATCTTTAGTCTGCCTCACTGTGACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
24366801 GGAGGATAAGACTTGCTTACTTAG
66 GGAGGATAAGACTTGCTTACTTAG
* * * *** * *
24366825 TCTGCTCCACTGCAACTTCAGGGAGACAAGACTAG--AT-GGGA-TCT-ACTCTCTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
** * *
24366885 -GAGAGATAAGATCCAAGGTT--TTAA
66 GGAG-GATAAGA--CTTGCTTACTTAG
* * * * *
24366909 TCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTTTGCCTCACTGTAACTTTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
*
24366974 GGAGGATAAAACTTGCTTACTTAG
66 GGAGGATAAGACTTGCTTACTTAG
*
24366998 TCTACTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
24367029 CTAGATGGGA
Statistics
Matches: 290, Mismatches: 61, Indels: 52
0.72 0.15 0.13
Matches are distributed among these distances:
83 5 0.02
84 107 0.37
85 9 0.03
86 12 0.04
87 12 0.04
88 7 0.02
89 133 0.46
90 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (89 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTTCA
GGAGGATAAGACTTGCTTACTTAG
Found at i:24366751 original size:84 final size:84
Alignment explanation
Indices: 24366655--24367109 Score: 345
Period size: 84 Copynumber: 5.3 Consensus size: 84
24366645 TACTTAGTCT
24366655 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATA
*
24366720 AGATCCAAAGTTTTAATCC
66 AGATCCAATGTTTTAATCC
* ** * * * ** *
24366739 GCTCCACTGCAACTTCAGGGAGATACGGTTTGCAAT-CTTTAGTCTGCCTCACTGTGACTTC-AG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTG-CTCTCTGCAACTTCAAA
* * *
24366802 GAGGATAAGA--C-TTGCTTACTTAGTCT
60 GA-GATAAGATCCAATG-TT--TTAATCC
* * * *
24366828 GCTCCACTGCAACTTCAGGGAGACAAGACTAGATGGGATCTACTCTCTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATA
*
24366893 AGATCCAAGGTTTTAATCC
66 AGATCCAATGTTTTAATCC
* * * * * * * * *
24366912 GCTCCACTGCAACTTTAGGGAGATAAGATTTGCAAT-CTTCAGTTTGCCTCACTGTAACTT-TAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTG-CTCTCTGCAACTTCAAA
* * * *
24366975 GAGGATAA-A-AC-TTGCTTACTTAGTCT
60 GA-GATAAGATCCAATG-TT--TTAATCC
* * *
24367001 ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGGGATCTGCTCTCTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATA
24367066 AGATCCAATGTTTTAATCC
66 AGATCCAATGTTTTAATCC
*
24367085 GCTCCACTGCAACTTTAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
24367110 GGATTATCGG
Statistics
Matches: 275, Mismatches: 66, Indels: 60
0.69 0.16 0.15
Matches are distributed among these distances:
84 123 0.45
85 12 0.04
86 14 0.05
87 15 0.05
88 12 0.04
89 99 0.36
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATA
AGATCCAATGTTTTAATCC
Found at i:24366818 original size:173 final size:173
Alignment explanation
Indices: 24366558--24367114 Score: 925
Period size: 173 Copynumber: 3.2 Consensus size: 173
24366548 GATTATTGGC
* * * *
24366558 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGTAA
24366623 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
* *
24366688 TGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGT
131 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAAGT
* * * *
24366731 TTTAATCCGCTCCACTGCAACTTCAGGGAGATACGGTTTGCAATCTTTAGTCTGCCTCACTGTGA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGTAA
*
24366796 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACTAGA
66 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
* *
24366861 TGGGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
131 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAAGT
* *
24366904 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTTTGCCTCACTGTAA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGTAA
* * *
24366969 CTTTAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
*
24367034 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGT
131 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAAGT
* *
24367077 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATT
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
24367115 ATCGGCTTTA
Statistics
Matches: 358, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
173 358 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (173 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGTAA
CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAAGT
Found at i:24367000 original size:217 final size:216
Alignment explanation
Indices: 24366825--24367326 Score: 577
Period size: 217 Copynumber: 2.3 Consensus size: 216
24366815 GCTTACTTAG
* * * * *
24366825 TCTGCTCCACTGCAACTTCAGGGAGACAAGA-CTAGATG-GGATCTACT-CTCTGCAACTTCAGA
1 TCTGCT-CACTGCAACTTCAGAGAGACAAGATCCA-ATGTGAATCCACTCCACTGCAACTTCAGA
*
24366887 GAGATAAGATCCA-AGGTTTTAATCC-GCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCT
64 GAGATAAGAT-CATAGGCTTTAA-CCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCT
* ** * *
24366950 TCAGTTTGCCTCACTGTAACTTTAGGAGGATAAAACTTGCTTACTTAGTCT-ACTCCACTGCAAC
127 TCAGTCTGCCTCACTACAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCCTCCACTGCAAC
*
24367014 TTCAGGGAGATAAGACTAGATGGGA
192 TTCAGGGAGATAAGACTAGATGAGA
* * * * * *
24367039 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAATCCGCTCCACTGCAACTTTAGG
1 TCTGCTCACTGCAACTTCAGAGAGACAAGATCCAATG--TGAATCCACTCCACTGCAACTTCAGA
* * * *
24367104 GAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCAATCTTC
64 GAGATAAGATCATAGGCTTTAACCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTC
* *
24367169 AGTCTGCCTCACTACAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTG-CTCCCCTACAACTT
129 AGTCTGCCTCACTACAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCCTCCACTGCAACTT
* *
24367233 TAGGGAGATAAGACTAGATGGGA
194 CAGGGAGATAAGACTAGATGAGA
* * * * * * * *
24367256 TCTGCTCTCTACAACTTTAGAAAGATAAGATCCAATGGTTTAATCCACTCCACTGCGACTTCAGG
1 TCTGCTCACTGCAACTTCAGAGAGACAAGATCCAAT-G-TGAATCCACTCCACTGCAACTTCAGA
24367321 GAGATA
64 GAGATA
24367327 GGATTATTGG
Statistics
Matches: 250, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
213 24 0.10
214 8 0.03
216 8 0.03
217 209 0.84
218 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (216 bp):
TCTGCTCACTGCAACTTCAGAGAGACAAGATCCAATGTGAATCCACTCCACTGCAACTTCAGAGA
GATAAGATCATAGGCTTTAACCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAG
TCTGCCTCACTACAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCCTCCACTGCAACTTCA
GGGAGATAAGACTAGATGAGA
Found at i:24367175 original size:346 final size:346
Alignment explanation
Indices: 24366558--24367192 Score: 942
Period size: 346 Copynumber: 1.8 Consensus size: 346
24366548 GATTATTGGC
* * *
24366558 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAA
* *
24366623 CTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGA
24366688 TGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACT
131 TGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACT
* ** ** *
24366753 TCAGGGAGATACGGTTTGCAATCTTTAGTCTGCCTCACTGTGACTTCAGGAGGATAAGACTTGCT
196 TCAGGGAGATACGGTTTGCAAGCTTTAACCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCA
*
24366818 TACTTAGTCTG-CTCCACTGCAACTTCAGGGAGACAAGACTAGATGGGATCTACTCTCTGCAACT
261 TACTTAGTCTGCCT-CACTACAACTTCAGGGAGACAAGACTAGATGGGATCTACTCTCTGCAACT
24366882 TCAGAGAGATAAGATCCAAGGT
325 TCAGAGAGATAAGATCCAAGGT
* * *
24366904 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTTTGCCTCACTGTAA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAA
*
24366969 CTTTAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGA
* * *
24367034 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAATCCGCTCCACTGCAACT
131 TGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACT
* * * **
24367099 TTAGGGAGATA-GGATTAT-C-GGCTTTAACCTG-CTCCACTGCAACTTTAGG-GAGATAAGGTT
196 TCAGGGAGATACGG-TT-TGCAAGCTTTAACCTGCCT-CACTGCAACTTCAGGAG-GATAAGACT
24367159 TGCA-ATCTTCAGTCTGCCTCACTACAACTTCAGG
257 TGCATA-CTT-AGTCTGCCTCACTACAACTTCAGG
24367193 AGGATAAAAC
Statistics
Matches: 258, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
344 4 0.02
345 35 0.14
346 216 0.84
347 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (346 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAA
CTTCAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGA
TGCGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACT
TCAGGGAGATACGGTTTGCAAGCTTTAACCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCA
TACTTAGTCTGCCTCACTACAACTTCAGGGAGACAAGACTAGATGGGATCTACTCTCTGCAACTT
CAGAGAGATAAGATCCAAGGT
Found at i:24367243 original size:44 final size:45
Alignment explanation
Indices: 24367127--24367243 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 45
24367117 CGGCTTTAAC
* ***
24367127 CTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCAATCTTCAGT
1 CTGCTCCACTACAACTTTAGGGAGATAAAACTTGCAATCTTCAGT
* *
24367172 CTGC-CTCACTACAACTTCA-GGAGGATAAAACTTGC-TTACTT-AGT
1 CTGCTC-CACTACAACTTTAGGGA-GATAAAACTTGCAAT-CTTCAGT
*
24367216 CTGCTCCCCTACAACTTTAGGGAGATAA
1 CTGCTCCACTACAACTTTAGGGAGATAA
24367244 GACTAGATGG
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
44 28 0.47
45 31 0.53
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (45 bp):
CTGCTCCACTACAACTTTAGGGAGATAAAACTTGCAATCTTCAGT
Found at i:24367284 original size:346 final size:345
Alignment explanation
Indices: 24366561--24367286 Score: 819
Period size: 346 Copynumber: 2.1 Consensus size: 345
24366551 TATTGGCTTT
* * * ** * *
24366561 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTT
1 AATCCGCTCCACTACAACTTTAGAAAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTT
* *
24366626 CAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
66 CAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
24366691 GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACTTCA
131 GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACTTCA
* ** ** *
24366756 GGGAGATACGGTTTGCAATCTTTAGTCTGCCTCACTGTGACTTCAGGAGGATAAGACTTGCTTAC
196 GGGAGATACGGTTTGCAAGCTTTAACCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATAC
* * * * *
24366821 TTAGTCTGCTCCACTGCAACTTCAGGGAGACAAGACTAGATGGGATCTACTCTCTGCAACTTCAG
261 TTAGTCTGCTCCACTACAACTTCAGGGAGACAAAACTAGATGAGATCTACTCCCTACAACTTCAG
* **
24366886 AGAGATAAGATCCAAGGTTTT
326 AGAGATAAGA-CCAAGGATGG
* ** * *
24366907 AATCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTTTGCCTCACTGTAACTT
1 AATCCGCTCCACTACAACTTTAGAAAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTT
* *
24366972 TAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGG
66 CAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
* * *
24367037 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAATCCGCTCCACTGCAACTTTA
131 GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACTTCA
* * **
24367102 GGGAGATA-GGATTAT-C-GGCTTTAACCTG-CTCCACTGCAACTTTAGG-GAGATAAGGTTTGC
196 GGGAGATACGG-TT-TGCAAGCTTTAACCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGC
* * * *
24367162 A-ATCTTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAAACTTGCTTACTTAG-TCTGCTCC
257 ATA-CTT-AGTCTGCTC-CACTACAACTTCAGGGA-GACAAAACTAG---A-TGAGATCTACT-C
* * *
24367223 CCTACAACTTTAGGGAGATAAGA-CTA-GATGG
313 CCTACAACTTCAGAGAGATAAGACCAAGGATGG
* * *
24367254 GATCTGCT-CTCTACAACTTTAGAAAGATAAGAT
1 AATCCGCTCCACTACAACTTTAGAAAGATAAGAT
24367287 CCAATGGTTT
Statistics
Matches: 323, Mismatches: 44, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
344 4 0.01
345 39 0.12
346 241 0.75
347 9 0.03
348 2 0.01
349 6 0.02
350 22 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (345 bp):
AATCCGCTCCACTACAACTTTAGAAAGATAAGATTTGCAATCTTCAGTCTGCCTCACTGCAACTT
CAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAAAGTTTTAATCCGCTCCACTGCAACTTCA
GGGAGATACGGTTTGCAAGCTTTAACCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATAC
TTAGTCTGCTCCACTACAACTTCAGGGAGACAAAACTAGATGAGATCTACTCCCTACAACTTCAG
AGAGATAAGACCAAGGATGG
Found at i:24367327 original size:217 final size:217
Alignment explanation
Indices: 24366904--24367333 Score: 700
Period size: 217 Copynumber: 2.0 Consensus size: 217
24366894 GATCCAAGGT
* **
24366904 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTTTGCCTCACTGTAA
1 TTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTACAA
* *
24366969 CTTTAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTACAACTTCAGGGAGATAAGACTAGA
* * * *
24367034 TGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAATCCGCTCCACTGCAACT
131 TGGGATCTGCTCTCTACAACTTCAGAAAGATAAGATCCAATGGTTTAATCCACTCCACTGCAACT
*
24367099 TTAGGGAGATAGGATTATCGGC
196 TCAGGGAGATAGGATTATCGGC
*
24367121 TTTAA-CCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTACA
1 TTTAATCC-GCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTACA
* * *
24367185 ACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCCCTACAACTTTAGGGAGATAAGACTAG
65 ACTTCAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTACAACTTCAGGGAGATAAGACTAG
* *
24367250 ATGGGATCTGCTCTCTACAACTTTAGAAAGATAAGATCCAATGGTTTAATCCACTCCACTGCGAC
130 ATGGGATCTGCTCTCTACAACTTCAGAAAGATAAGATCCAATGGTTTAATCCACTCCACTGCAAC
24367315 TTCAGGGAGATAGGATTAT
195 TTCAGGGAGATAGGATTAT
24367334 TGGCCATGGA
Statistics
Matches: 196, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
216 2 0.01
217 194 0.99
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
TTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTTGCAATCTTCAGTCTGCCTCACTACAA
CTTCAGGAGGATAAAACTTGCTTACTTAGTCTACTCCACTACAACTTCAGGGAGATAAGACTAGA
TGGGATCTGCTCTCTACAACTTCAGAAAGATAAGATCCAATGGTTTAATCCACTCCACTGCAACT
TCAGGGAGATAGGATTATCGGC
Found at i:24375603 original size:2 final size:2
Alignment explanation
Indices: 24375598--24375623 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24375588 ATTATCCATA
24375598 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
24375624 GAGAGGCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24381197 original size:27 final size:27
Alignment explanation
Indices: 24381166--24381218 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24381156 GGAGGTGGTG
* *
24381166 CCTATCTGGTAGGCGCTATTGGTGACC
1 CCTATCTGGTAGGCGCCACTGGTGACC
24381193 CCTATCTGGTAGGCGCCACTGGTGAC
1 CCTATCTGGTAGGCGCCACTGGTGAC
24381219 TAGAGGTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.26
Consensus pattern (27 bp):
CCTATCTGGTAGGCGCCACTGGTGACC
Found at i:24381435 original size:11 final size:11
Alignment explanation
Indices: 24381421--24381446 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24381411 ATTTTTTTAA
24381421 TTTTAAAATAT
1 TTTTAAAATAT
24381432 TTTTAAAATAT
1 TTTTAAAATAT
24381443 TTTT
1 TTTT
24381447 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:24381467 original size:20 final size:20
Alignment explanation
Indices: 24381429--24381468 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24381419 AATTTTAAAA
**
24381429 TATTTTTAAAATATTTTTTT
1 TATTTTTAAAATAAATTTTT
24381449 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
24381469 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATAAATTTTT
Found at i:24384998 original size:44 final size:42
Alignment explanation
Indices: 24384948--24385035 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 42
24384938 AATTATAATT
*
24384948 TTAAATTCTAATTATTTTTAAATGTGTAATTACCACAACTTCTA
1 TTAAATTCTAATTATTTTTAAA--TATAATTACCACAACTTCTA
* * *
24384992 TTAAATTTTAATTATTTTTAAATATATTTATCACAACTTCTA
1 TTAAATTCTAATTATTTTTAAATATAATTACCACAACTTCTA
24385034 TT
1 TT
24385036 TTATTTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 19 0.47
44 21 0.52
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (42 bp):
TTAAATTCTAATTATTTTTAAATATAATTACCACAACTTCTA
Found at i:24400894 original size:25 final size:25
Alignment explanation
Indices: 24400866--24400920 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24400856 AAGCTCTTTT
*
24400866 GAGCTAAATAAT-GGTAAGCTCATAC
1 GAGCTAAAT-ATCGGTAAGCTCATAA
* *
24400891 GAGCTAAGTATCGTTAAGCTCATAA
1 GAGCTAAATATCGGTAAGCTCATAA
24400916 GAGCT
1 GAGCT
24400921 GGAATCGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (25 bp):
GAGCTAAATATCGGTAAGCTCATAA
Found at i:24403489 original size:19 final size:19
Alignment explanation
Indices: 24403462--24403500 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24403452 AAAGGAAGAA
*
24403462 GAGAGAGGTAAATTTCATG
1 GAGAAAGGTAAATTTCATG
*
24403481 GAGAAAGGTAAATTTTATG
1 GAGAAAGGTAAATTTCATG
24403500 G
1 G
24403501 TTGATTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.28
Consensus pattern (19 bp):
GAGAAAGGTAAATTTCATG
Found at i:24403637 original size:33 final size:33
Alignment explanation
Indices: 24403595--24403661 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
24403585 TTTTTTAAGT
* *
24403595 CTTAAATTGAAAATGAATTTTATACAGGGTGAG
1 CTTAAATTGAAAATGAATTTTATAAAGGGGGAG
* *
24403628 CTTATATTGAAAATGACTTTTATAAAGGGGGAG
1 CTTAAATTGAAAATGAATTTTATAAAGGGGGAG
24403661 C
1 C
24403662 AATTTATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (33 bp):
CTTAAATTGAAAATGAATTTTATAAAGGGGGAG
Found at i:24403843 original size:20 final size:18
Alignment explanation
Indices: 24403815--24403868 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
24403805 AAAATGATAA
*
24403815 AATCTAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT--TTTC
*
24403835 AATTAAGTTAAACATTTTC
1 AATCAAGTTAAA-ATTTTC
*
24403854 AATCATGTTAAAATT
1 AATCAAGTTAAAATT
24403869 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 10 0.34
21 2 0.07
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTC
Found at i:24410701 original size:22 final size:22
Alignment explanation
Indices: 24410676--24410718 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24410666 CCAATATATG
* *
24410676 AGAGTCTTTTATGGGATGTATA
1 AGAGCCTTTTATGGGACGTATA
24410698 AGAGCCTTTTATGGGACGTAT
1 AGAGCCTTTTATGGGACGTAT
24410719 GAAAGCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (22 bp):
AGAGCCTTTTATGGGACGTATA
Found at i:24410725 original size:22 final size:22
Alignment explanation
Indices: 24410672--24410730 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
24410662 CGCACCAATA
* * *
24410672 TATGAGAGTCTTTTATGGGATG
1 TATGAAAGCCTTTTATGGGACG
24410694 TAT-AAGAGCCTTTTATGGGACG
1 TATGAA-AGCCTTTTATGGGACG
*
24410716 TATGAAAGCCATTTA
1 TATGAAAGCCTTTTA
24410731 AGGGTAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (22 bp):
TATGAAAGCCTTTTATGGGACG
Found at i:24413101 original size:72 final size:72
Alignment explanation
Indices: 24412984--24413185 Score: 255
Period size: 72 Copynumber: 2.8 Consensus size: 72
24412974 GGATTTCATG
* * *
24412984 ATCGATGACTTGAGATCTAACATGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATC-GAAT
1 ATCGATGGCTTGAGATCCAACATGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
24413048 CAT-TGATT
66 -ATCT-ATT
* * *
24413056 ATCGATGGCTTGAGATCCAGCATGTGTTGCGGATTCTCTAAAGCTTGTGTGAGCAACATCAAAAT
1 ATCGATGGCTTGAGATCCAACATGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
*
24413121 ATCTTTT
66 ATCTATT
* * * * * *
24413128 ACCGATGGCTTGAGATTCATCACGTGTTGTGAATTCTCTAAAGTTTGTGTGAGCAGCA
1 ATCGATGGCTTGAGATCCAACATGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCA
24413186 CCAGGTAAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
72 109 0.96
73 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (72 bp):
ATCGATGGCTTGAGATCCAACATGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
ATCTATT
Found at i:24414190 original size:19 final size:21
Alignment explanation
Indices: 24414143--24414192 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
24414133 CTGGACTAAA
24414143 GTATCGATACTCTATATTAAG
1 GTATCGATACTCTATATTAAG
*
24414164 GTACCGATACT-T-TA-TAAGG
1 GTATCGATACTCTATATTAA-G
24414183 GTATCGATAC
1 GTATCGATAC
24414193 ATTGGACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 3 0.12
19 12 0.46
20 1 0.04
21 10 0.38
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (21 bp):
GTATCGATACTCTATATTAAG
Found at i:24420457 original size:62 final size:61
Alignment explanation
Indices: 24420382--24420599 Score: 233
Period size: 62 Copynumber: 3.5 Consensus size: 61
24420372 GGTTCACACG
* *
24420382 GCCAAGGACACGGGCATGTGTCTAGGCCGTGTAACTCACTATTTGTGGTATAAGACCACAA
1 GCCAAGGACACGGGCATGTGCCTAGGCCGTGTAACTCACTGTTTGTGGTATAAGACCACAA
**
24420443 GCCCAAGGACACGGGCATGTGCCT-GAGCTATGTAACTCACTGTTTGTGGTATAAGACCACACA
1 G-CCAAGGACACGGGCATGTGCCTAG-GCCGTGTAACTCACTGTTTGTGGTATAAGACCACA-A
* * ** * * * * *
24420506 GCCAAGGACACAGGCGTGTGTTTGGGTCGTGTAACTCGA-TGTTTGTGGTGTAAAACCACATG
1 GCCAAGGACACGGGCATGTGCCTAGGCCGTGTAACTC-ACTGTTTGTGGTATAAGACCACA-A
* * *
24420568 GCCAGGGACATGGGCATGTGCCCAGGCCGTGT
1 GCCAAGGACACGGGCATGTGCCTAGGCCGTGT
24420600 GAACGACATA
Statistics
Matches: 128, Mismatches: 24, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
61 2 0.02
62 122 0.95
63 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (61 bp):
GCCAAGGACACGGGCATGTGCCTAGGCCGTGTAACTCACTGTTTGTGGTATAAGACCACAA
Found at i:24426776 original size:34 final size:34
Alignment explanation
Indices: 24426733--24426803 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
24426723 TACGCTTAGG
24426733 AAAACTCAGTGATATTTCTATAATCCAAACATTT
1 AAAACTCAGTGATATTTCTATAATCCAAACATTT
* *
24426767 AAAACTCAGTGATATTTCTATAATTCGAACATTT
1 AAAACTCAGTGATATTTCTATAATCCAAACATTT
24426801 AAA
1 AAA
24426804 GACAAGAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (34 bp):
AAAACTCAGTGATATTTCTATAATCCAAACATTT
Found at i:24428309 original size:16 final size:16
Alignment explanation
Indices: 24428288--24428318 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24428278 GCATGGCTTT
24428288 CTATTTCTTTTATTAC
1 CTATTTCTTTTATTAC
*
24428304 CTATTTGTTTTATTA
1 CTATTTCTTTTATTA
24428319 TAGTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (16 bp):
CTATTTCTTTTATTAC
Found at i:24430858 original size:14 final size:14
Alignment explanation
Indices: 24430839--24430865 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24430829 GGAACCCTAC
24430839 AATAAAAAAACAAA
1 AATAAAAAAACAAA
24430853 AATAAAAAAACAA
1 AATAAAAAAACAA
24430866 GGTGGGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AATAAAAAAACAAA
Found at i:24431514 original size:18 final size:19
Alignment explanation
Indices: 24431472--24431514 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24431462 GGAGAGGAGG
*
24431472 ATTGACAAGGAAGTGCAAC
1 ATTGAGAAGGAAGTGCAAC
* *
24431491 AGTGAGAAGGAGGTG-AAC
1 ATTGAGAAGGAAGTGCAAC
24431509 ATTGAG
1 ATTGAG
24431515 CAGCCAGTGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.40, C:0.09, G:0.35, T:0.16
Consensus pattern (19 bp):
ATTGAGAAGGAAGTGCAAC
Found at i:24434606 original size:43 final size:43
Alignment explanation
Indices: 24434558--24434940 Score: 475
Period size: 43 Copynumber: 8.9 Consensus size: 43
24434548 AAGCGCCGCA
* * *
24434558 ATAGACTATGGTCTTTAGCGGCGCTTACACAAAAAACGTCGCT
1 ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCCACT
* * *
24434601 ATAGACCATAGTCTTTCGCGGCGC-TATACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCCACT
* * ** *
24434643 ATAGATCATGGTCTTTTAGCGGCGTTTGTACATAAAACGCCACT
1 ATAGACCATGGTC-TTTAGCGGCGCTTACACAAAAAACGCCACT
** *
24434687 ATAGACCATGGTCTTTAGCGGCGCTTGGACAAAAAACGCAACT
1 ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCCACT
* * * **
24434730 ATAGACCGTGTTCTTTAGCGGCGATTGGACAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCCACT
* *
24434773 ATAGACCATGGTCTTTAGCGGCGCTTAGAC-AAAAATGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCCACT
24434815 ATAGACCATGGTCTTTAGCGGCGCTTAGC-CAAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTA-CACAAAAAACGCCACT
* * *
24434858 ATAGACCATGGTCTTTAACGGCGCTTATACGAAAAACGCCACT
1 ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCCACT
* * * *
24434901 ATAGGCCGTGTTCTTTAGCGGCGCTTACCCAAAAAACGCC
1 ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCC
24434941 GCTAATTTTG
Statistics
Matches: 297, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
42 65 0.22
43 204 0.69
44 28 0.09
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (43 bp):
ATAGACCATGGTCTTTAGCGGCGCTTACACAAAAAACGCCACT
Found at i:24434934 original size:128 final size:128
Alignment explanation
Indices: 24434558--24434940 Score: 491
Period size: 128 Copynumber: 3.0 Consensus size: 128
24434548 AAGCGCCGCA
* * * * *
24434558 ATAGACTATGGTCTTTAGCGGCGCTTA-CACAAAAAACGTCGCTATAGACCATAGTCTTTCGCGG
1 ATAGACCATGGTCTTTAGCGGCGCTTAGC-CAAAAAACGCCACTATAGACCATGGTCTTTAGCGG
* * **
24434622 CGC-TATACAAAAAACGCCACTATAGATCATGGTCTTTTAGCGGCGTTTGTACATAAAACGCCAC
65 CGCTTATACAAAAAACGCCACTATAGACCATGGTC-TTTAGCGGCGCTTACACA-AAAACGCCAC
24434686 T
128 T
* * * * *
24434687 ATAGACCATGGTCTTTAGCGGCGCTTGGACAAAAAACGCAACTATAGACCGTGTTCTTTAGCGGC
1 ATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTCTTTAGCGGC
* ** * *
24434752 GATTGGACAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAATGCCACT
66 GCTTATACAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTACACAAAAACGCCACT
*
24434815 ATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTCTTTAACGGC
1 ATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTCTTTAGCGGC
* * * * *
24434880 GCTTATACGAAAAACGCCACTATAGGCCGTGTTCTTTAGCGGCGCTTACCCAAAAAACGCC
66 GCTTATACAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTACAC-AAAAACGCC
24434941 GCTAATTTTG
Statistics
Matches: 217, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
128 111 0.51
129 78 0.36
130 28 0.13
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (128 bp):
ATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTCTTTAGCGGC
GCTTATACAAAAAACGCCACTATAGACCATGGTCTTTAGCGGCGCTTACACAAAAACGCCACT
Found at i:24435278 original size:21 final size:21
Alignment explanation
Indices: 24435252--24435305 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
24435242 GCTGTTCTGC
24435252 TTCCCTCGTTGCAGCCTCTAA
1 TTCCCTCGTTGCAGCCTCTAA
* * **
24435273 TTCCCTTGCTGCAGCCTCTGC
1 TTCCCTCGTTGCAGCCTCTAA
*
24435294 TTCTCTCGTTGC
1 TTCCCTCGTTGC
24435306 TGCATCTGCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.07, C:0.39, G:0.17, T:0.37
Consensus pattern (21 bp):
TTCCCTCGTTGCAGCCTCTAA
Found at i:24435463 original size:87 final size:87
Alignment explanation
Indices: 24435286--24435469 Score: 264
Period size: 87 Copynumber: 2.1 Consensus size: 87
24435276 CCTTGCTGCA
* *
24435286 GCCTCTGCTTCTCTCGTTGCTGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTG
1 GCCTCTGCTTCTCTCGTTGCCGCATCTACTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTG
*
24435351 AACCTCAGCTTCTCTCGCTGCT
66 AACCTCAGCTTCTCTCGATGCT
* * *
24435373 GCCTCTGCTTCTTTCGTTGCCGCATCTACTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-TT
1 GCCTCTGCTTCTCTCGTTGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGT
*
24435436 TGAACCTCAGCTTCTCTCGATGTT
64 TGAACCTCAGCTTCTCTCGATGCT
*
24435460 GCCTCCGCTT
1 GCCTCTGCTT
24435470 TAAGTTATGT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 82 0.94
88 4 0.05
ACGTcount: A:0.11, C:0.29, G:0.18, T:0.41
Consensus pattern (87 bp):
GCCTCTGCTTCTCTCGTTGCCGCATCTACTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTG
AACCTCAGCTTCTCTCGATGCT
Found at i:24441008 original size:9 final size:9
Alignment explanation
Indices: 24440969--24441333 Score: 222
Period size: 9 Copynumber: 42.8 Consensus size: 9
24440959 TATATATTAA
*
24440969 GTAAATTAT
1 GTAAGTTAT
24440978 GTAAGTTAT
1 GTAAGTTAT
*
24440987 GTACGTGTA-
1 GTAAGT-TAT
24440996 -TAAGTTAT
1 GTAAGTTAT
*
24441004 GTAAGTCAT
1 GTAAGTTAT
*
24441013 GT-A-TTAA
1 GTAAGTTAT
*
24441020 GTAAGCTAT
1 GTAAGTTAT
*
24441029 GTAAGTTGT
1 GTAAGTTAT
24441038 GT-A-TTAT
1 GTAAGTTAT
*
24441045 GTAACTTAT
1 GTAAGTTAT
24441054 GTAAGTTAT
1 GTAAGTTAT
** *
24441063 CAAAGTAAT
1 GTAAGTTAT
*
24441072 GTATGTTAT
1 GTAAGTTAT
24441081 GTAAG-T-T
1 GTAAGTTAT
24441088 GTAAGTTAT
1 GTAAGTTAT
24441097 GT-A-TTAT
1 GTAAGTTAT
*
24441104 GTAACTTAT
1 GTAAGTTAT
24441113 GTAAGTTA-
1 GTAAGTTAT
** *
24441121 CCAAATTAAT
1 GTAAGTT-AT
*
24441131 GTATGTTAT
1 GTAAGTTAT
24441140 GTAAG-T-T
1 GTAAGTTAT
24441147 GTAAGTTAT
1 GTAAGTTAT
24441156 GT-A-TTAT
1 GTAAGTTAT
*
24441163 GTAACTTAT
1 GTAAGTTAT
24441172 GTAAGTTAT
1 GTAAGTTAT
* *
24441181 -CAAATTAAT
1 GTAAGTT-AT
*
24441190 GTATGTTAT
1 GTAAGTTAT
24441199 GTAAG-T-T
1 GTAAGTTAT
24441206 GTAAGTTAT
1 GTAAGTTAT
*
24441215 -TATGTATTAT
1 GTAAG--TTAT
24441225 GTAAGTTAT
1 GTAAGTTAT
*
24441234 ATAAGTTAT
1 GTAAGTTAT
24441243 GT-A-TTAT
1 GTAAGTTAT
*
24441250 GTAGGTTAT
1 GTAAGTTAT
*
24441259 GTAAGTTGT
1 GTAAGTTAT
* *
24441268 GTAGGATAT
1 GTAAGTTAT
* *
24441277 TTAATTTAT
1 GTAAGTTAT
*
24441286 GTAAGTTTT
1 GTAAGTTAT
24441295 GT-A-TTAT
1 GTAAGTTAT
24441302 GTAAGTTAT
1 GTAAGTTAT
* * *
24441311 TTATGCTAT
1 GTAAGTTAT
24441320 GT-A-TTAT
1 GTAAGTTAT
24441327 GTAAGTT
1 GTAAGTT
24441334 TATATAAAAA
Statistics
Matches: 266, Mismatches: 60, Indels: 60
0.69 0.16 0.16
Matches are distributed among these distances:
7 57 0.21
8 33 0.12
9 161 0.61
10 12 0.05
11 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:24441074 original size:59 final size:58
Alignment explanation
Indices: 24440996--24441270 Score: 316
Period size: 59 Copynumber: 4.8 Consensus size: 58
24440986 TGTACGTGTA
** * *
24440996 TAAGTTATGTAAGTCATGTA-TTAAGTAAGCTATGTAAGTTGTGTATTATGTAACTTATG
1 TAAGTTATCAAAGTAATGTAGTTATGTAAG-T-TGTAAGTTGTGTATTATGTAACTTATG
*
24441055 TAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATG
1 TAAGTTATCAAAGTAATGTA-GTTATGTAAGTTGTAAGTTGTGTATTATGTAACTTATG
* * *
24441114 TAAGTTACCAAATTAATGTATGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATG
1 TAAGTTATCAAAGTAATGTA-GTTATGTAAGTTGTAAGTTGTGTATTATGTAACTTATG
*
24441173 TAAGTTATCAAATTAATGTATGTTATGTAAGTTGTAA---GT-TATTATGT-A-TTATG
1 TAAGTTATCAAAGTAATGTA-GTTATGTAAGTTGTAAGTTGTGTATTATGTAACTTATG
* *
24441226 TAAGTTAT-ATAAGTTATGTA-TTATGTAGGTTATGTAAGTTGTGTA
1 TAAGTTATCA-AAGTAATGTAGTTATGTAAG-T-TGTAAGTTGTGTA
24441271 GGATATTTAA
Statistics
Matches: 195, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
51 8 0.04
52 2 0.01
53 26 0.13
54 1 0.01
55 8 0.04
56 3 0.02
57 2 0.01
59 136 0.70
60 1 0.01
61 8 0.04
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (58 bp):
TAAGTTATCAAAGTAATGTAGTTATGTAAGTTGTAAGTTGTGTATTATGTAACTTATG
Found at i:24441086 original size:18 final size:17
Alignment explanation
Indices: 24440975--24441332 Score: 129
Period size: 16 Copynumber: 21.1 Consensus size: 17
24440965 TTAAGTAAAT
*
24440975 TATGTAAGTTATGTACG
1 TATGTAAGTTATGTAAG
* *
24440992 TGTATAAGTTATGTAAG
1 TATGTAAGTTATGTAAG
*
24441009 TCATGT-A-TTAAGTAAG
1 T-ATGTAAGTTATGTAAG
* *
24441025 CTATGTAAGTTGTGT-AT
1 -TATGTAAGTTATGTAAG
*
24441042 TATGTAACTTATGTAAG
1 TATGTAAGTTATGTAAG
** * *
24441059 TTATCAAAGTAATGTATG
1 -TATGTAAGTTATGTAAG
24441077 TTATGTAAG-T-TGTAAG
1 -TATGTAAGTTATGTAAG
*
24441093 TTATGT-A-TTATGTAACT
1 -TATGTAAGTTATGTAA-G
*** *
24441110 TATGTAAGTTACCAAAT
1 TATGTAAGTTATGTAAG
*
24441127 TAATGTATGTTATGTAAG
1 T-ATGTAAGTTATGTAAG
*
24441145 T-TGTAAGTTATGT-AT
1 TATGTAAGTTATGTAAG
*
24441160 TATGTAACTTATGTAAG
1 TATGTAAGTTATGTAAG
* * *
24441177 TTAT-CAAATTAATGTATG
1 -TATGTAAGTT-ATGTAAG
24441195 TTATGTAAG-T-TGTAAG
1 -TATGTAAGTTATGTAAG
*
24441211 TTAT-TATGTATTATGTAAG
1 -TATGTAAG--TTATGTAAG
* *
24441230 TTATATAAGTTATGT-AT
1 -TATGTAAGTTATGTAAG
*
24441247 TATGTAGGTTATGTAAG
1 TATGTAAGTTATGTAAG
* * * * *
24441264 TTGTGTAGGATATTTAATT
1 -TATGTAAGTTATGTAA-G
* *
24441283 TATGTAAGTTTTGT-AT
1 TATGTAAGTTATGTAAG
* *
24441299 TATGTAAGTTATTTATG
1 TATGTAAGTTATGTAAG
24441316 CTATGT-A-TTATGTAAG
1 -TATGTAAGTTATGTAAG
24441332 T
1 T
24441333 TTATATAAAA
Statistics
Matches: 253, Mismatches: 61, Indels: 56
0.68 0.16 0.15
Matches are distributed among these distances:
15 8 0.03
16 108 0.43
17 32 0.13
18 90 0.36
19 12 0.05
20 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (17 bp):
TATGTAAGTTATGTAAG
Found at i:24441150 original size:118 final size:117
Alignment explanation
Indices: 24441028--24441267 Score: 365
Period size: 118 Copynumber: 2.0 Consensus size: 117
24441018 AAGTAAGCTA
*
24441028 TGTAAGTTGTGTATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAG
1 TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAG
* *
24441093 -TTATGTATTATGTAACTTATGTAAGTTACCAAATTAATGTATGTTATGTAAGT
66 TTTATGTATTATGTAACTTATATAAGTTA-CAAATT-ATGTAGGTTATGTAAGT
*
24441146 TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAATTAATGTATGTTATGTAAGTTGTAAG
1 TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAG
* ***
24441211 TTATTATGTATTATGTAAGTTATATAAGTTATGTATTATGTAGGTTATGTAAGT
66 -T-TTATGTATTATGTAACTTATATAAGTTACAAATTATGTAGGTTATGTAAGT
24441265 TGT
1 TGT
24441268 GTAGGATATT
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
118 63 0.57
119 19 0.17
120 3 0.03
121 26 0.23
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.46
Consensus pattern (117 bp):
TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGTTGTAAG
TTTATGTATTATGTAACTTATATAAGTTACAAATTATGTAGGTTATGTAAGT
Found at i:24441219 original size:19 final size:19
Alignment explanation
Indices: 24441195--24441233 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24441185 TTAATGTATG
24441195 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
24441214 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
24441233 T
1 T
24441234 ATAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:24441331 original size:25 final size:25
Alignment explanation
Indices: 24440958--24441333 Score: 191
Period size: 25 Copynumber: 14.7 Consensus size: 25
24440948 GTTACATAAT
* * *
24440958 TTATATATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
24440983 TTATGTACGTGTATAAGTTATGTAAG
1 TTATGTA-TTATGTAAGTTATGTAAG
* * *
24441009 TCATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
24441034 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
24441059 TTATCAAAGTAATGTATGTTATGTAAGTTGTAAG
1 TTAT----GT-AT-TATG-TAAGTTA--TGTAAG
*
24441093 TTATGTATTATGTAACTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*** *
24441118 TTACCAAATTAATGTATGTTATGTAAG
1 TTA-TGTATT-ATGTAAGTTATGTAAG
*
24441145 -T-TGTAAGTTATGT-A-TTATGTAAC
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * *
24441168 TTATGTAAGTTAT-CAAATTAATGTATG
1 TTATGT-A-TTATGTAAGTT-ATGTAAG
*
24441195 TTATGTAAGT-TGTAAG---T-T-A-
1 TTATGT-ATTATGTAAGTTATGTAAG
*
24441214 TTATGTATTATGTAAGTTATATAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
24441239 TTATGTATTATGTAGGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * * *
24441264 TTGTGTAGGATATTTAATTTATGTAAG
1 TTATGTA--TTATGTAAGTTATGTAAG
* * *
24441291 TTTTGTATTATGTAAGTTATTTATG
1 TTATGTATTATGTAAGTTATGTAAG
*
24441316 CTATGTATTATGTAAGTT
1 TTATGTATTATGTAAGTT
24441334 TATATAAAAA
Statistics
Matches: 265, Mismatches: 57, Indels: 58
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.01
19 12 0.05
21 1 0.00
22 2 0.01
23 9 0.03
24 2 0.01
25 126 0.48
26 30 0.11
27 51 0.19
28 4 0.02
29 4 0.02
30 4 0.02
31 4 0.02
32 4 0.02
34 10 0.04
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:24441404 original size:13 final size:15
Alignment explanation
Indices: 24441385--24441425 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
24441375 CATATAAGTT
24441385 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
24441399 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
24441413 TTATGTAAGTTAT
1 -TATGTAAGTTAT
24441426 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:24441420 original size:16 final size:16
Alignment explanation
Indices: 24441384--24441462 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
24441374 ACATATAAGT
24441384 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
24441399 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
24441413 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
24441431 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
24441447 TTAAGTAAGTCATGTA
1 TTATGTAAGTTATGTA
24441463 GGCTATGTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 12 0.24
14 1 0.02
16 25 0.49
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:24441536 original size:19 final size:20
Alignment explanation
Indices: 24441514--24441560 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
24441504 TTTTTCAAAT
* *
24441514 ATATATAAAATTTTA-ATAA
1 ATATATAAAACTGTATATAA
24441533 ATATATTAAAACTGTATATAA
1 ATATA-TAAAACTGTATATAA
24441554 ATATATA
1 ATATATA
24441561 TATCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATATAAAACTGTATATAA
Found at i:24441536 original size:21 final size:22
Alignment explanation
Indices: 24441510--24441562 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
24441500 TAAATTTTTC
* *
24441510 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAACTGTATAT
24441531 AAATATAT-TAAAACTGTATAT
1 AAATATATATAAAACTGTATAT
24441552 AAATATATATA
1 AAATATATATA
24441563 TCAAAGATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATATAAAACTGTATAT
Found at i:24443499 original size:11 final size:11
Alignment explanation
Indices: 24443483--24443509 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24443473 TTACTCAACC
24443483 AGTAATATGAA
1 AGTAATATGAA
24443494 AGTAATATGAA
1 AGTAATATGAA
24443505 AGTAA
1 AGTAA
24443510 ATTAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (11 bp):
AGTAATATGAA
Found at i:24444436 original size:27 final size:27
Alignment explanation
Indices: 24444388--24444439 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24444378 TCTTACATTT
* *
24444388 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
**
24444415 AAATAAATAATTACTTACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
24444440 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:24446316 original size:14 final size:14
Alignment explanation
Indices: 24446297--24446364 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
24446287 ATGAACGTTG
24446297 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
24446311 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
24446326 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
24446339 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
24446352 AAACCTTAAATCT
1 AAACCCTAAATCT
24446365 ATACTCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:24446320 original size:15 final size:15
Alignment explanation
Indices: 24446300--24446337 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
24446290 AACGTTGAAA
24446300 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
24446315 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
24446330 CCCTAAAT
1 CCCTAAAT
24446338 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:24446875 original size:41 final size:40
Alignment explanation
Indices: 24446811--24447131 Score: 252
Period size: 41 Copynumber: 7.8 Consensus size: 40
24446801 TTTTGTTACT
* * *
24446811 ATTAGCGGCGCTTAGA-AACAAACGCCGCTAAAGGCAGGAGA
1 ATTAGCGGCGCTCAGATAA-AAACGCCGCTAAAGGC-CGAGC
* * * * *
24446852 ATTAGTGGCGCTCAGATAGAAACGTCACTAAAGATCCGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCGAGC
* * * *
24446893 ATTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCC-GAGC
* * * * *
24446934 ATTAGTGGCGCTGAGATAAAAATGCCACTAAAGCTCCGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCGAGC
* * * * *
24446975 CTTAGTGGCGCTTAGACAAAAACGCCGGTAAAGGCCAGAG-
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCC-GAGC
* * * *
24447015 ATTTAGCTGCGCTCATATAAAAACGCCGCTAAAGATCGGAGC
1 A-TTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCGAGC
* * *
24447057 ATTAGCGGCGC-CAAGATAAAAATGCCACTAAAGATCCGAGC
1 ATTAGCGGCGCTC-AGATAAAAACGCCGCTAAAG-GCCGAGC
* *
24447098 ATTAGCGGCGCACAAATAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
24447132 TTTAAAAATC
Statistics
Matches: 220, Mismatches: 50, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
40 5 0.02
41 208 0.95
42 7 0.03
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (40 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCGAGC
Found at i:24446951 original size:82 final size:82
Alignment explanation
Indices: 24446811--24447130 Score: 342
Period size: 82 Copynumber: 3.9 Consensus size: 82
24446801 TTTTGTTACT
* * *
24446811 ATTAGCGGCGCTTAGAAACAAACGCCGCTAAAGG-CAGGAGAATTAGTGGCGCTCAGATAGAAAC
1 ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCA-GAGGATTAGTGGCGCTCAGATAAAAAC
*
24446875 GTCACTAAAGATCCGAGC
65 GCCACTAAAGATCCGAGC
* * *
24446893 ATTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGGATTAGTGGCGCTGAGATAAAAATG
1 ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGGATTAGTGGCGCTCAGATAAAAACG
*
24446958 CCACTAAAGCTCCGAGC
66 CCACTAAAGATCCGAGC
* * * * *
24446975 CTTAGTGGCGCTTAGACAAAAACGCCGGTAAAGGCCAGA-GATTTAGCT-GCGCTCATATAAAAA
1 ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGGA-TTAG-TGGCGCTCAGATAAAAA
* *
24447038 CGCCGCTAAAGATCGGAGC
64 CGCCACTAAAGATCCGAGC
** * * * * * * * *
24447057 ATTAGCGGCGCCAAGATAAAAATGCCACTAAAGATCC-GAGCATTAGCGGCGCACAAATAAAAAC
1 ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG-GCCAGAGGATTAGTGGCGCTCAGATAAAAAC
*
24447121 GCCGCTAAAG
65 GCCACTAAAG
24447131 GTTTAAAAAT
Statistics
Matches: 200, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
81 2 0.01
82 192 0.96
83 6 0.03
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (82 bp):
ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGGATTAGTGGCGCTCAGATAAAAACG
CCACTAAAGATCCGAGC
Found at i:24447037 original size:123 final size:123
Alignment explanation
Indices: 24446910--24447131 Score: 309
Period size: 123 Copynumber: 1.8 Consensus size: 123
24446900 GCGCTTAGAA
* * * ** *
24446910 AAAAACGCCGCTAAAGGCCAGAGGATTAGTGGCGCTGAGATAAAAATGCCACTAAAGCTCCGAGC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCCAAGATAAAAATGCCACTAAAGATCCGAGC
* * ** * *
24446975 CTTAGTGGCGCTTAGACAAAAACGCCGGTAAAGGCCAGAGATTTAGCTGCGCTCATAT
66 ATTAGCGGCGCACAAACAAAAACGCCGCTAAAGGCCAGAGATTTAGCTGCGCTCATAT
* *
24447033 AAAAACGCCGCTAAAGATCGGAGCATTAGCGGCGCCAAGATAAAAATGCCACTAAAGATCCGAGC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCCAAGATAAAAATGCCACTAAAGATCCGAGC
*
24447098 ATTAGCGGCGCACAAATAAAAACGCCGCTAAAGG
66 ATTAGCGGCGCACAAACAAAAACGCCGCTAAAGG
24447132 TTTAAAAATC
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
123 84 1.00
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.15
Consensus pattern (123 bp):
AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCCAAGATAAAAATGCCACTAAAGATCCGAGC
ATTAGCGGCGCACAAACAAAAACGCCGCTAAAGGCCAGAGATTTAGCTGCGCTCATAT
Found at i:24454202 original size:84 final size:86
Alignment explanation
Indices: 24454054--24454219 Score: 219
Period size: 85 Copynumber: 2.0 Consensus size: 86
24454044 GATAAAAACA
* * ** * *
24454054 TTGCAGTTGCTACCACTTGTTGTGAGTAGTCAACATGGTTGCAGATTAAGGAAACTGCCACTAGG
1 TTGCAGTTACTACCACTTGTTGTGAGTAGACAACATAATTGCAGATTAAAGAAACTACCACTAGG
24454119 -TTTGTGGACGAGCCACATAT
66 TTTTGTGGACGAGCCACATAT
* * * *
24454139 TTGCAGTTACTGCCACTTGTTGTGAGT-GACAATATAATTGCATATTAAATAAACTACCACTAGG
1 TTGCAGTTACTACCACTTGTTGTGAGTAGACAACATAATTGCAGATTAAAGAAACTACCACTAGG
*
24454203 TTTTGTGGATGAGCCAC
66 TTTTGTGGACGAGCCAC
24454220 TAGTTGTTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
84 29 0.42
85 40 0.58
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (86 bp):
TTGCAGTTACTACCACTTGTTGTGAGTAGACAACATAATTGCAGATTAAAGAAACTACCACTAGG
TTTTGTGGACGAGCCACATAT
Found at i:24454747 original size:27 final size:27
Alignment explanation
Indices: 24454727--24454787 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
24454717 TAAAATTTTA
24454727 GGTAAAATTGTAAAATCTAAAAAATAG
1 GGTAAAATTGTAAAATCTAAAAAATAG
* *
24454754 GGTAAAATTGTAAAATTTGAAAAATAGG
1 GGTAAAATTGTAAAATCTAAAAAATA-G
24454782 GGTAAA
1 GGTAAA
24454788 GCTGTAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.26
Consensus pattern (27 bp):
GGTAAAATTGTAAAATCTAAAAAATAG
Found at i:24454777 original size:29 final size:28
Alignment explanation
Indices: 24454727--24455008 Score: 145
Period size: 28 Copynumber: 10.1 Consensus size: 28
24454717 TAAAATTTTA
*
24454727 GGTAAAATTGTAAAATCT-AAAAAATAG
1 GGTAAAATTGTAAAATTTGAAAAAATAG
24454754 GGTAAAATTGTAAAATTTG-AAAAATAGG
1 GGTAAAATTGTAAAATTTGAAAAAATA-G
** * *
24454782 GGTAAAGCTGTAAAGTTTGAAAATA-AG
1 GGTAAAATTGTAAAATTTGAAAAAATAG
* * * *
24454809 CGCT-AAATTGGAAATTTTGGAAAACATA-
1 -GGTAAAATTGTAAAATTT-GAAAAAATAG
* *
24454837 GGCAAAACTT-TAAATTTTGGAAAAAATAGG
1 GGTAAAA-TTGTAAAATTT-GAAAAAATA-G
*
24454867 GGTAAAATTGTAAAATTTTAAAAAATAAAG
1 GGTAAAATTGTAAAATTTGAAAAAAT--AG
* * * * *
24454897 GCT-AAACTATAAAATTTGGAAAAATAAA
1 GGTAAAATTGTAAAATTTGAAAAAAT-AG
* * * *
24454925 GGCAAAACTATAAAATTTG-AAAATTAG
1 GGTAAAATTGTAAAATTTGAAAAAATAG
* * *
24454952 TGG-AAAAGT-TATAAATTTTAAAACATAG
1 -GGTAAAATTGTA-AAATTTGAAAAAATAG
* * *
24454980 GGGAAAACTGTAAAATCT-AAAAAATAG
1 GGTAAAATTGTAAAATTTGAAAAAATAG
24455007 GG
1 GG
24455009 ACTAAACTAT
Statistics
Matches: 201, Mismatches: 35, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
26 2 0.01
27 60 0.30
28 71 0.35
29 51 0.25
30 16 0.08
31 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.27
Consensus pattern (28 bp):
GGTAAAATTGTAAAATTTGAAAAAATAG
Found at i:24455615 original size:319 final size:319
Alignment explanation
Indices: 24455036--24455669 Score: 1052
Period size: 319 Copynumber: 2.0 Consensus size: 319
24455026 GGAAAGCCGG
*
24455036 GGCAAAAAGTAAAATCTAAAAAATAAAGGACACACGACCATCTGACTAAATCGTGTGGAAAGCCC
1 GGCAAAAAGTAAAATCTAAAAAATAAAGGACACAAGACCATCTGACTAAATCGTGTGGAAAGCCC
24455101 TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
66 TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
*
24455166 AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGTCGTGTACCTTATCCTAGGC
131 AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGTCGTGTACCCTATCCTAGGC
* *
24455231 ACAGTTTTGCCTGATTTACTTGTAAAAGAACACACACATGTTACAAAGATCTTGAACGACATTCC
196 ACAATTTTGCCTGATTTACTTGTAAAAGAACACACACATATTACAAAGATCTTGAACGACATTCC
* * *
24455296 TCACGTTGGAATCTGGTCTGGGGTACCTAAATCGGGTCCTTCAAACGATATTTATCCTA
261 TCACGTTGGAATCTAGTCTGGGGTACCTAAATCAGGTCCTTCAAACAATATTTATCCTA
* ** * ** *
24455355 GGCAAAATGTAAAATCTAAAAAATAGGGGACACAAGACCATCTGATTGGATCGTGTGGAAAGCCT
1 GGCAAAAAGTAAAATCTAAAAAATAAAGGACACAAGACCATCTGACTAAATCGTGTGGAAAGCCC
* * *
24455420 TGGACCGTGTAGAGAGGTTATACGGTCGTGTGGCTGGATCATGTAATAGACTAAGGTTGTGTGAG
66 TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
* *
24455485 AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGTTGTGTGCCCTATCCTAGGC
131 AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGTCGTGTACCCTATCCTAGGC
* * * *
24455550 ACAATTTTGCCTGATTTACTTGTAAAAGAACACACTCCTATTACCAAGATCTTGAGCGACATTCC
196 ACAATTTTGCCTGATTTACTTGTAAAAGAACACACACATATTACAAAGATCTTGAACGACATTCC
*
24455615 TCACGTTTGAATCTAGTCTGGGGTACCTAAATCAGGTCCTTCAAACAATATTTAT
261 TCACGTTGGAATCTAGTCTGGGGTACCTAAATCAGGTCCTTCAAACAATATTTAT
24455670 ACACGGTTTA
Statistics
Matches: 291, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
319 291 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (319 bp):
GGCAAAAAGTAAAATCTAAAAAATAAAGGACACAAGACCATCTGACTAAATCGTGTGGAAAGCCC
TAGACCGTGTAGAGAGGTTACACGGTCGTGTGGCTAGATCATGTAATAGACTAAGGTTGTGTGAG
AATCGAAAAACCTAGGGTTTCAGGGGAACATGTTTGTGTGAGGGGTCGTGTACCCTATCCTAGGC
ACAATTTTGCCTGATTTACTTGTAAAAGAACACACACATATTACAAAGATCTTGAACGACATTCC
TCACGTTGGAATCTAGTCTGGGGTACCTAAATCAGGTCCTTCAAACAATATTTATCCTA
Found at i:24456810 original size:94 final size:94
Alignment explanation
Indices: 24456645--24456820 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 94
24456635 ATTACAAGAA
* * *
24456645 GTGAGCTATGAGAGTATTTTCTAGTCAATATGGGATTAAAATTAACTTTTTAATGAAATAGTAAA
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAATAGTAAA
*
24456710 AAAAATTGTCACTTATTTATAAGGTAAAT
66 AAAAATTGACACTTATTTATAAGGTAAAT
* *
24456739 GTGAGATATGAGAGTATTCTCTAGTCAATGTGAGATTAAAGTTAA-TCTTTTAATGAAAATAGT-
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACT-TTTTAATG-AAATAGTA
* *
24456802 GAAGAAATTGACACTTATT
64 AAAAAAATTGACACTTATT
24456821 GTAAGCATGA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 64 0.89
95 7 0.10
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (94 bp):
GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAATAGTAAA
AAAAATTGACACTTATTTATAAGGTAAAT
Found at i:24456971 original size:21 final size:22
Alignment explanation
Indices: 24456930--24456971 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24456920 TAGCCAATGT
24456930 GGGATTAAAATTAACTTTTTAA
1 GGGATTAAAATTAACTTTTTAA
24456952 GGGATTAAAATTAA-TTTTTA
1 GGGATTAAAATTAACTTTTTA
24456972 CTGAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
GGGATTAAAATTAACTTTTTAA
Found at i:24457087 original size:69 final size:68
Alignment explanation
Indices: 24456953--24457123 Score: 220
Period size: 69 Copynumber: 2.5 Consensus size: 68
24456943 ACTTTTTAAG
* * * * * *
24456953 GGATTAAAATTAA-TTTTTACTGAAAATATGAAGAAGAGAGCTATGAGAATATTTTTTAGTCAAT
1 GGATTAAAATTAACTTTTTAATGAAAATATGAAGAAGAGAACTATAAGAATATTCTCTAATCAAT
24457017 GT-
66 GTA
* *
24457019 GAGATTAAAATTAACTTTTTAATGAAAATATTGAAGAAGTGAACTATAAGAGTATTCTCTAATCA
1 G-GATTAAAATTAACTTTTTAATGAAAATA-TGAAGAAGAGAACTATAAGAATATTCTCTAATCA
24457084 ATGTA
64 ATGTA
*
24457089 GGATTAAAAATAACTTTTTAATGAAAATAATGAAG
1 GGATTAAAATTAACTTTTTAATGAAAAT-ATGAAG
24457124 GAATTATCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
66 1 0.01
67 12 0.13
68 14 0.15
69 62 0.68
70 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (68 bp):
GGATTAAAATTAACTTTTTAATGAAAATATGAAGAAGAGAACTATAAGAATATTCTCTAATCAAT
GTA
Found at i:24457450 original size:22 final size:22
Alignment explanation
Indices: 24457419--24457460 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24457409 TAATTTTAAA
24457419 AATAAAATATAATTTAAAATAT
1 AATAAAATATAATTTAAAATAT
* * *
24457441 AATAATATATTATTTTAAAT
1 AATAAAATATAATTTAAAAT
24457461 TGATTTATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAAAATATAATTTAAAATAT
Found at i:24460251 original size:19 final size:19
Alignment explanation
Indices: 24460184--24460254 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 19
24460174 TATATAAACT
* *
24460184 TATAAAAATTATTTAAAAA
1 TATATAAATTATTAAAAAA
* ** *
24460203 T-TTTAAAAAATTAAAAAG
1 TATATAAATTATTAAAAAA
*
24460221 TATTTAAA--ATTAAAAAA
1 TATATAAATTATTAAAAAA
24460238 TATATAAATTATTAAAA
1 TATATAAATTATTAAAA
24460255 TTTCATAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 15 0.37
18 12 0.29
19 14 0.34
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (19 bp):
TATATAAATTATTAAAAAA
Found at i:24469185 original size:15 final size:15
Alignment explanation
Indices: 24469165--24469194 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24469155 TAGGCATTCA
24469165 AAGTGGAGGAATTTT
1 AAGTGGAGGAATTTT
24469180 AAGTGGAGGAATTTT
1 AAGTGGAGGAATTTT
24469195 TGGAAATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (15 bp):
AAGTGGAGGAATTTT
Found at i:24469278 original size:20 final size:21
Alignment explanation
Indices: 24469245--24469291 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
24469235 GAGACAATTG
*
24469245 AATC-AATTTGATTAAAATCA
1 AATCAAATTTGATTAAAATAA
*
24469265 AATCAAATTT-ATTAGAATAA
1 AATCAAATTTGATTAAAATAA
24469285 AAT-AAAT
1 AATCAAAT
24469292 CAGAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (21 bp):
AATCAAATTTGATTAAAATAA
Found at i:24474522 original size:13 final size:13
Alignment explanation
Indices: 24474504--24474528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24474494 TTAGAAGGAG
24474504 ATTAAATTAATTA
1 ATTAAATTAATTA
24474517 ATTAAATTAATT
1 ATTAAATTAATT
24474529 TCAATATTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTAATTA
Found at i:24479217 original size:31 final size:33
Alignment explanation
Indices: 24479182--24479314 Score: 125
Period size: 31 Copynumber: 4.1 Consensus size: 33
24479172 AAATCATAAA
24479182 ATTTTTTTAGAGGAGT-AAAAT-TAAATTATAT
1 ATTTTTTTAGAGGAGTAAAAATATAAATTATAT
* ** * ** *
24479213 A--TTTTTACAATAATAAAAATATAAAAAAGTGCAA
1 ATTTTTTTAGAGGAGTAAAAATATAAATTA-T--AT
*
24479247 ATTCTTTTAGAGGAGT-AAAAT-TAAATTATAT
1 ATTTTTTTAGAGGAGTAAAAATATAAATTATAT
24479278 ATTTTTTTAGAGGAGTAAAAATATAAATTATAT
1 ATTTTTTTAGAGGAGTAAAAATATAAATTATAT
24479311 ATTT
1 ATTT
24479315 ATAAAAAAGT
Statistics
Matches: 77, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
29 9 0.12
30 5 0.06
31 22 0.29
32 6 0.08
33 15 0.19
34 7 0.09
35 5 0.06
36 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.41
Consensus pattern (33 bp):
ATTTTTTTAGAGGAGTAAAAATATAAATTATAT
Found at i:24479753 original size:16 final size:16
Alignment explanation
Indices: 24479732--24479766 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
24479722 GGTTCGCAAG
24479732 AATGGAATAGAGGCGT
1 AATGGAATAGAGGCGT
*
24479748 AATGGAATAGATGCGT
1 AATGGAATAGAGGCGT
24479764 AAT
1 AAT
24479767 AGCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (16 bp):
AATGGAATAGAGGCGT
Found at i:24480020 original size:18 final size:17
Alignment explanation
Indices: 24479999--24480033 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24479989 TTATTATTAA
*
24479999 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24480017 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24480034 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24480983 original size:41 final size:41
Alignment explanation
Indices: 24480925--24481033 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
24480915 CTTAATTTAA
*
24480925 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
24480967 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
24481008 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
24481034 ACGTATAGTC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 61 0.94
42 4 0.06
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:24483053 original size:18 final size:17
Alignment explanation
Indices: 24483032--24483066 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24483022 TTATTATTAA
*
24483032 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24483050 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24483067 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24483078 original size:15 final size:16
Alignment explanation
Indices: 24483058--24483087 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24483048 ATATATAATT
24483058 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
24483073 TAATAAATATTCTTA
1 TAATAAATATTCTTA
24483088 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:24483171 original size:59 final size:59
Alignment explanation
Indices: 24482988--24483186 Score: 208
Period size: 59 Copynumber: 3.3 Consensus size: 59
24482978 CAAAAATCAT
24482988 AATATATGATATTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATATTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
* * * * * * * ** * *
24483047 AATATATAAT-TTAATAAAATTCTTAATAAT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATATT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTTAATTAA
*
24483108 AATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATATTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
24483167 AATATATGAT-TTAATAAAAT
1 AATATATGATATT-ATAAAAT
24483187 TTAAAATAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
58 4 0.04
59 51 0.48
60 16 0.15
61 34 0.32
62 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (59 bp):
AATATATGATATTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
Found at i:24483173 original size:18 final size:17
Alignment explanation
Indices: 24483150--24483186 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
24483140 AATTATTATT
24483150 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
24483166 AAATATATGATTTAATA
1 AAATATATGATTTAATA
24483183 AAAT
1 AAAT
24483187 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:24483195 original size:120 final size:120
Alignment explanation
Indices: 24482980--24483196 Score: 391
Period size: 120 Copynumber: 1.8 Consensus size: 120
24482970 GGCTGTCACA
*
24482980 AAAATCATAATATATGATATTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATT
1 AAAATCATAATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATT
*
24483045 AAAATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACT
66 AAAATATATAATTTAATAAAATTCTAAATAATAAATATTCTTATATGAATTTACT
24483100 AAAATCATAATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATT
1 AAAATCATAATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATT
*
24483165 AAAATATATGATTTAATAAAATT-TAAAATAAT
66 AAAATATATAATTTAATAAAATTCT-AAATAAT
24483197 TATTACTAAT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
119 1 0.01
120 92 0.99
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (120 bp):
AAAATCATAATATATGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATT
AAAATATATAATTTAATAAAATTCTAAATAATAAATATTCTTATATGAATTTACT
Found at i:24483271 original size:15 final size:15
Alignment explanation
Indices: 24483228--24483281 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
24483218 TATGAATTTG
24483228 TATAATTTAA-AATA
1 TATAATTTAATAATA
* *
24483242 -ATTA-TTATTAA-A
1 TATAATTTAATAATA
24483254 TATAATTTAATAATA
1 TATAATTTAATAATA
*
24483269 TATAATTTCATAA
1 TATAATTTAATAA
24483282 AATTCTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
12 4 0.13
13 8 0.26
14 6 0.19
15 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATTTAATAATA
Found at i:24483298 original size:44 final size:44
Alignment explanation
Indices: 24483250--24483391 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 44
24483240 TAATTATTAT
24483250 TAAATATAATTTAAT-AATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAATATATAATTTCATAAAATTCTT-ATAA
* * * * *
24483294 TAAAT-T-TTCTTATATGAATTTGTATAATTT-A-AAATAAT-TTATAT
1 TAAATATAAT-TTA-AT-AA-ATATATAATTTCATAAA-ATTCTTATAA
24483338 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAA--ATATATAATTTCATAAAATTCTT-ATAA
24483385 TAAATAT
1 TAAATAT
24483392 TCTTATACGA
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
44 26 0.35
45 12 0.16
46 10 0.14
47 19 0.26
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (44 bp):
TAAATATAATTTAATAAATATATAATTTCATAAAATTCTTATAA
Found at i:24483301 original size:88 final size:90
Alignment explanation
Indices: 24483194--24483405 Score: 331
Period size: 88 Copynumber: 2.4 Consensus size: 90
24483184 AATTTAAAAT
* * *
24483194 AATTATTACTAATAAATTTTGTTATATGAATTTGTATAATTTAAAATAA-TTATTATTAAATATA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTA-TATTAAATATA
24483258 ATTTAAT-A-ATATATAATTTCATAA
65 ATTTAATAAGATATATAATTTCATAA
*
24483282 AATTCTTGATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAA
24483347 TTTAATAATGATATATAATTTCATAA
66 TTTAATAA-GATATATAATTTCATAA
* *
24483373 AATTCTTAATAATAAATATTCTTATACGAATTT
1 AATTCTTAATAATAAATTTTCTTATATGAATTT
24483406 ACTAAAACCA
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
88 63 0.56
89 4 0.04
91 46 0.41
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (90 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAA
TTTAATAAGATATATAATTTCATAA
Found at i:24483977 original size:43 final size:43
Alignment explanation
Indices: 24483929--24484027 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
24483919 GGAAAGTTTG
* **
24483929 ATGGTAGTTATAATAACGTTAAATGTCCAATTAA-GCAACACTA
1 ATGGTAGTTATAACAACACTAAATGTCCAATTAAGGC-ACACTA
* * * *
24483972 ATGGTAATCATAACCACACTAAATGTCTAATTAAGGCACACTA
1 ATGGTAGTTATAACAACACTAAATGTCCAATTAAGGCACACTA
24484015 ATGGTAGTTATAA
1 ATGGTAGTTATAA
24484028 GAGAGAGCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTAGTTATAACAACACTAAATGTCCAATTAAGGCACACTA
Found at i:24487933 original size:22 final size:22
Alignment explanation
Indices: 24487908--24487950 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24487898 TTTGAATGGT
24487908 TTACATTAT-TTTATTTGTTTAG
1 TTACATTATATTTATTT-TTTAG
* *
24487930 TTACTTTTTATTTATTTTTTA
1 TTACATTATATTTATTTTTTA
24487951 TTTTTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTACATTATATTTATTTTTTAG
Found at i:24493342 original size:119 final size:120
Alignment explanation
Indices: 24493207--24493434 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
24493197 AATACTTTTC
* ** * *
24493207 AAAATATATTGATACCTATTAAATTTTATCAATATTATCTTTTTAAATTAATACCACTTTTGCAT
1 AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAATCAATACCACTTTTGCAT
* *
24493272 TCTAACTTCGA-GACTTTT-GAACAATCACAAAAACTATAGATACTTTAAAAGAAA
66 TCTAACTT-GATGACTTTTCAAAAAATCACAAAAACTATAGATACTTTAAAAGAAA
** * * * *
24493326 AAAACATATTGATACCTATTTTATTTTATCTATACCGCCTTTTTATATCGATACCACTTTTGCAT
1 AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAATCAATACCACTTTTGCAT
* * * *
24493391 TCTGACTTGATGATTTTTCAAAAAATCACAAAAAGTATCGATAC
66 TCTAACTTGATGACTTTTCAAAAAATCACAAAAACTATAGATAC
24493435 CCATTAAAAA
Statistics
Matches: 90, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
118 2 0.02
119 67 0.74
120 21 0.23
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (120 bp):
AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAATCAATACCACTTTTGCAT
TCTAACTTGATGACTTTTCAAAAAATCACAAAAACTATAGATACTTTAAAAGAAA
Found at i:24494836 original size:13 final size:13
Alignment explanation
Indices: 24494818--24494842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24494808 TAATTAAGAT
24494818 TCAATCCAAATTA
1 TCAATCCAAATTA
24494831 TCAATCCAAATT
1 TCAATCCAAATT
24494843 TAACACCTGT
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
TCAATCCAAATTA
Found at i:24495576 original size:17 final size:17
Alignment explanation
Indices: 24495526--24495577 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
24495516 TCTGTAATAA
24495526 ACTTCGTACAATCACAT
1 ACTTCGTACAATCACAT
** * *
24495543 ACCCCGAACAATTACAT
1 ACTTCGTACAATCACAT
*
24495560 ACTTCGTACCATCACAT
1 ACTTCGTACAATCACAT
24495577 A
1 A
24495578 TAACCTGTAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.37, C:0.33, G:0.06, T:0.25
Consensus pattern (17 bp):
ACTTCGTACAATCACAT
Found at i:24496713 original size:13 final size:14
Alignment explanation
Indices: 24496689--24496720 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24496679 CCAAACACAC
24496689 CAGTATACAGTAAT
1 CAGTATACAGTAAT
24496703 CAGTA-ACAGTAAT
1 CAGTATACAGTAAT
24496716 -AGTAT
1 CAGTAT
24496721 TCAACACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 8 0.47
14 5 0.29
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (14 bp):
CAGTATACAGTAAT
Found at i:24496754 original size:45 final size:43
Alignment explanation
Indices: 24496698--24496840 Score: 147
Period size: 45 Copynumber: 3.3 Consensus size: 43
24496688 CCAGTATACA
* *
24496698 GTAATCAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAACC
1 GTAA-CAGTAACAGTAATAGTATTCGACACACAAAGTGCCGAA-C
*
24496743 TGTAACAGTAACGGTAACTA-TATTCGACACACAAAGTGCCG-A-
1 -GTAACAGTAACAGTAA-TAGTATTCGACACACAAAGTGCCGAAC
*
24496785 GT--CAGTAACAGTAACAGTATTCGACACAC--AGTGCCGAATC
1 GTAACAGTAACAGTAATAGTATTCGACACACAAAGTGCCGAA-C
24496825 AGTAACAGTAACAGTA
1 -GTAACAGTAACAGTA
24496841 GTCGGCACAT
Statistics
Matches: 84, Mismatches: 5, Indels: 19
0.78 0.05 0.18
Matches are distributed among these distances:
37 7 0.08
38 2 0.02
39 23 0.27
41 4 0.05
43 11 0.13
44 1 0.01
45 30 0.36
46 6 0.07
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (43 bp):
GTAACAGTAACAGTAATAGTATTCGACACACAAAGTGCCGAAC
Found at i:24496791 original size:39 final size:37
Alignment explanation
Indices: 24496748--24496867 Score: 136
Period size: 37 Copynumber: 3.2 Consensus size: 37
24496738 GAACCTGTAA
* *
24496748 CAGTAACGGTAACTA-TATTCGACACACAAAGTGCCGAGT
1 CAGTAACAGTAAC-AGTATTCGACACAC--AGTGCCGAAT
24496787 CAGTAACAGTAACAGTATTCGACACACAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCGACACACAGTGCCGAAT
* * *
24496824 CAGTAACAGTAACAGTAGTCGGCACATAAGTGCCTG-AT
1 CAGTAACAGTAACAGTATTCGACACA-CAGTGCC-GAAT
24496862 CAGTAA
1 CAGTAA
24496868 GCCGGCAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
37 33 0.45
38 15 0.21
39 25 0.34
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (37 bp):
CAGTAACAGTAACAGTATTCGACACACAGTGCCGAAT
Found at i:24497128 original size:39 final size:40
Alignment explanation
Indices: 24497044--24497128 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
24497034 TTCTTTACTT
* * * *
24497044 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
24497084 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
24497123 CAGTAT
1 CAGTAT
24497129 CCCATAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 18 0.46
40 21 0.54
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Done.