Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 75 of 173
Found at i:23130690 original size:16 final size:17
Alignment explanation
Indices: 23130669--23130702 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23130659 AATAATATGG
*
23130669 GCAAAATTGT-AATTTT
1 GCAAAAGTGTGAATTTT
23130685 GCAAAAGTGTGAATTTT
1 GCAAAAGTGTGAATTTT
23130702 G
1 G
23130703 GATTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (17 bp):
GCAAAAGTGTGAATTTT
Found at i:23136766 original size:79 final size:81
Alignment explanation
Indices: 23136630--23136814 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
23136620 TTGAATGATG
* *
23136630 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
23136694 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
23136709 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23136771 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
23136789 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23136815 AATGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:23136828 original size:40 final size:40
Alignment explanation
Indices: 23136631--23136814 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
23136621 TGAATGATGT
* * * *
23136631 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
23136671 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
23136711 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
23136749 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23136790 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23136815 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23136836 original size:79 final size:79
Alignment explanation
Indices: 23136683--23136847 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
23136673 GGACTAAGAT
* * **
23136683 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
23136748 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
23136762 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
23136825 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23136841 CCGAAGG
1 CCGAAGG
23136848 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23146628 original size:137 final size:138
Alignment explanation
Indices: 23146229--23146647 Score: 644
Period size: 138 Copynumber: 3.0 Consensus size: 138
23146219 TAGAAAAATG
* * *
23146229 AATTATATTCTTTCCAAAAGAATATTAGTTTACT-TGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTTCAAAATAATATTAATTT-CTATGTCTTTTATATTTTGACCGAAATTAATTA
* * * *
23146293 ATATAATTGTTTATATTAATAAATTTGTTAAAATATATACAATTAATATTTTGTATGAATTAAAT
65 ATATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
23146358 TCATATATT
130 TCATATATT
* * *
23146367 AATTATATTCTTTTCAAAATAATATTAATTTCCATGTCTTTTATAATTTGATCGAAATTAATTAA
1 AATTATATTCTTTTCAAAATAATATTAATTTCTATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
23146432 TATAACTTTTTATATTAATAATTTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
23146497 CATATATT
131 CATATATT
* * *
23146505 AATTATATTATTTTCAAAATAATATTAATTTCTATGTTTTTTAT-TTTTGACCTAAATTAATTAA
1 AATTATATTCTTTTCAAAATAATATTAATTTCTATGTCTTTTATATTTTGACCGAAATTAATTAA
* **
23146569 TATAACTACTTATATTAATAAATTCCATAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
23146634 CATATATT
131 CATATATT
23146642 AATTAT
1 AATTAT
23146648 GTTCATGTTC
Statistics
Matches: 257, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
137 91 0.35
138 166 0.65
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (138 bp):
AATTATATTCTTTTCAAAATAATATTAATTTCTATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:23148078 original size:45 final size:44
Alignment explanation
Indices: 23148015--23148214 Score: 172
Period size: 45 Copynumber: 4.5 Consensus size: 44
23148005 GATGTCATGG
* * * * *
23148015 TATCTTCCAACCATGGTCTTATGTATTTCCGAAGTAGTGCCATAG
1 TATCTTTCAACTATGGTCTTATGTATTT-CGAATTAATGCCATAA
23148060 TATCTTTCAACTATGGTCTTATTCGTA--TCGAATTTAATGCCATAA
1 TATCTTTCAACTATGGTCTTA-T-GTATTTCGAA-TTAATGCCATAA
* *** ** * ** *
23148105 CATCTTTCAACTATGGTCTTACACATTTTCGGTTTAGTGTTATAT
1 TATCTTTCAACTATGGTCTTATGTA-TTTCGAATTAATGCCATAA
**
23148150 TATCTTTCAACTATGGTCTTAT-TCATTTCGGTTTAATGCCATAA
1 TATCTTTCAACTATGGTCTTATGT-ATTTCGAATTAATGCCATAA
23148194 TATCTTTCAACTATGGTCTTA
1 TATCTTTCAACTATGGTCTTA
23148215 CTCTTTTTGG
Statistics
Matches: 126, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
43 1 0.01
44 40 0.32
45 78 0.62
46 4 0.03
47 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (44 bp):
TATCTTTCAACTATGGTCTTATGTATTTCGAATTAATGCCATAA
Found at i:23148243 original size:89 final size:90
Alignment explanation
Indices: 23148052--23148258 Score: 258
Period size: 89 Copynumber: 2.3 Consensus size: 90
23148042 TCCGAAGTAG
*
23148052 TGCCATAGTATCTTTCAACTATGGTCTTATTCGTATCGAATTTAATGCCATAACATCTTTCAACT
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAACATCTTTCAACT
** *
23148117 ATGGTCTTACACATTTTCGGTTTAG
66 ATGGTCTTACACATTTTCGGTAAAA
** * * * *
23148142 TGTTATATTATCTTTCAACTATGGTCTTATTCATTTCG-GTTTAATGCCATAATATCTTTCAACT
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAACATCTTTCAACT
* * *
23148206 ATGGTCTTACTCTTTTTGGGTAAAA
66 ATGGTCTTACACATTTTCGGTAAAA
23148231 TGCCAT-GATATCTTTCAA-TCATGGTCTT
1 TGCCATAG-TATCTTTCAACT-ATGGTCTT
23148259 TCTTGTCTCT
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
88 1 0.01
89 65 0.66
90 33 0.33
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (90 bp):
TGCCATAGTATCTTTCAACTATGGTCTTATTCATATCGAATTTAATGCCATAACATCTTTCAACT
ATGGTCTTACACATTTTCGGTAAAA
Found at i:23148248 original size:45 final size:44
Alignment explanation
Indices: 23148052--23148258 Score: 218
Period size: 45 Copynumber: 4.6 Consensus size: 44
23148042 TCCGAAGTAG
* * * * *
23148052 TGCCATAGTATCTTTCAACTATGGTCTTATTCGTATCGAATTTAA
1 TGCCATAATATCTTTCAACTATGGTCTTACTCTTTTCG-GTTTAA
* * *
23148097 TGCCATAACATCTTTCAACTATGGTCTTACACATTTTCGGTTTAG
1 TGCCATAATATCTTTCAACTATGGTCTTACTC-TTTTCGGTTTAA
** * * *
23148142 TGTTATATTATCTTTCAACTATGGTCTTATTCATTTCGGTTTAA
1 TGCCATAATATCTTTCAACTATGGTCTTACTCTTTTCGGTTTAA
* **
23148186 TGCCATAATATCTTTCAACTATGGTCTTACTCTTTTTGGGTAAAA
1 TGCCATAATATCTTTCAACTATGGTCTTACTC-TTTTCGGTTTAA
*
23148231 TGCCATGATATCTTTCAA-TCATGGTCTT
1 TGCCATAATATCTTTCAACT-ATGGTCTT
23148259 TCTTGTCTCT
Statistics
Matches: 134, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
44 39 0.29
45 91 0.68
46 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (44 bp):
TGCCATAATATCTTTCAACTATGGTCTTACTCTTTTCGGTTTAA
Found at i:23152692 original size:25 final size:25
Alignment explanation
Indices: 23152664--23152712 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
23152654 ACCGATTCTT
23152664 AGCTAGAAAGAGCTTACCAATATTC
1 AGCTAGAAAGAGCTTACCAATATTC
* * * *
23152689 AGCTAGCATGAGTTTACCATTATT
1 AGCTAGAAAGAGCTTACCAATATT
23152713 TAGTTTAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (25 bp):
AGCTAGAAAGAGCTTACCAATATTC
Found at i:23167266 original size:19 final size:21
Alignment explanation
Indices: 23167236--23167281 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
23167226 GTGTGATCCC
*
23167236 TGTTTCCCAAATTTTC-ATTT
1 TGTTTCCAAAATTTTCTATTT
23167256 T-TTTCCAAAATTTTCTATTT
1 TGTTTCCAAAATTTTCTATTT
23167276 TGTTTC
1 TGTTTC
23167282 AAATTTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 13 0.57
20 6 0.26
21 4 0.17
ACGTcount: A:0.20, C:0.17, G:0.04, T:0.59
Consensus pattern (21 bp):
TGTTTCCAAAATTTTCTATTT
Found at i:23167285 original size:19 final size:18
Alignment explanation
Indices: 23167242--23167287 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
23167232 TCCCTGTTTC
23167242 CCAAATTTTCATTTTTTT
1 CCAAATTTTCATTTTTTT
23167260 CCAAAATTTTCTATTTTGTTT
1 CC-AAATTTTC-ATTTT-TTT
23167281 -CAAATTT
1 CCAAATTT
23167288 AATCCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 6 0.24
21 3 0.12
ACGTcount: A:0.26, C:0.15, G:0.02, T:0.57
Consensus pattern (18 bp):
CCAAATTTTCATTTTTTT
Found at i:23168780 original size:288 final size:289
Alignment explanation
Indices: 23168260--23169128 Score: 1163
Period size: 288 Copynumber: 3.0 Consensus size: 289
23168250 AATCTCGTCT
* *
23168260 AAAAATTCTACTCATGTAGTCTTCACTAAAATGGTCATAACTTGAGATCCCAAAATCAAAA-GTG
1 AAAAATTCTACTCACGCAGTCTTCACTAAAATGGTCATAACTTGAGATCCCAAAATCAAAATG-G
* ** * * *
23168324 AGTGGTTTAAG-GTGCATTGCGAAGGTATGAAACAGATCTTCAATCGATGTGCAGACATATTGTC
65 AGTGGTTTCAGAGTGCATTGCGAAGGTAAAAAATAAATCTTCAATCGATATGCAGACATATTGTC
* * * *
23168388 CCAAAAGTGTTTGGATCCATTCCACAAATGCACTGCAAGTCGACTGAATATAATATGACTAAGCG
130 CCAAAAATGCTTGGATCCATTCCACAAATGCACTGCAAGTTGACTGAATATAACATGACTAAGCG
* * * ** * ***
23168453 TGTGGGATTGATTAGGGTCCTTGATGTGTAATGCCTAAGCTTATTAACATCTTCCAAATGAAATT
195 TGTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTT
*
23168518 GTCATCATGGATTGATATTTGAAGTCCACG
260 GTCATCATGGATTGATATTTTAAGTCCACG
*
23168548 AAAAATTCTACTCACGCAGTCTTCACTAAAATGGTCATAACTTGAGATCCCAAATTCAAAATGGA
1 AAAAATTCTACTCACGCAGTCTTCACTAAAATGGTCATAACTTGAGATCCCAAAATCAAAATGGA
*
23168613 GTGGTTTCAGAGTGCGTTGCGAAGGTAAAAAATAAATCTTCAATCGATATGCAGACATATTGTCC
66 GTGGTTTCAGAGTGCATTGCGAAGGTAAAAAATAAATCTTCAATCGATATGCAGACATATTGTCC
* * ** * * *
23168678 CAAAAATACTTGGATCCATTCCAAAAATGCACCACAAGTTGACTAAATAT-ACATGGCTAAGTGT
131 CAAAAATGCTTGGATCCATTCCACAAATGCACTGCAAGTTGACTGAATATAACATGACTAAGCGT
*
23168742 GTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTTCACATGGGCTTG
196 GTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTTG
* *
23168807 TTATCATGGATTGATATTTTAAGTCCACA
261 TCATCATGGATTGATATTTTAAGTCCACG
** * * * * *
23168836 AAAAATTCTACTTGCGCAGTCTTCACTACAATGGTCATAACTTGACATCCCAAACTCGAAATCGA
1 AAAAATTCTACTCACGCAGTCTTCACTAAAATGGTCATAACTTGAGATCCCAAAATCAAAATGGA
* * * * * *
23168901 ATGG-TTCAAAGTGCATTACAAAGGTAAAAAATAAATCTTCAATCGATATGCAAACATATTCTCC
66 GTGGTTTCAGAGTGCATTGCGAAGGTAAAAAATAAATCTTCAATCGATATGCAGACATATTGTCC
* * * * *
23168965 AAAAAATGCTTGGATCCATTCGACAAATGCATTGCAAGTTTACTGAATATAACATTACTAAGCGT
131 CAAAAATGCTTGGATCCATTCCACAAATGCACTGCAAGTTGACTGAATATAACATGACTAAGCGT
* * *
23169030 GTAGGCTTGATTGGAGTCCTTGAAGTGTAACACCTAAGCTTCTTAACATCTTCCACATGGGCTTG
196 GTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTTG
* * *
23169095 TCATCAAT-GATTAATATTTTAATTCCATG
261 TCATC-ATGGATTGATATTTTAAGTCCACG
23169124 AAAAA
1 AAAAA
23169129 AAATTTCCCT
Statistics
Matches: 508, Mismatches: 69, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
287 95 0.19
288 320 0.63
289 93 0.18
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (289 bp):
AAAAATTCTACTCACGCAGTCTTCACTAAAATGGTCATAACTTGAGATCCCAAAATCAAAATGGA
GTGGTTTCAGAGTGCATTGCGAAGGTAAAAAATAAATCTTCAATCGATATGCAGACATATTGTCC
CAAAAATGCTTGGATCCATTCCACAAATGCACTGCAAGTTGACTGAATATAACATGACTAAGCGT
GTGGGCTTGATTGGGGTCCTTGAAGTGTAACACCTAAGCTTATTAACATCTTCCACATGGGCTTG
TCATCATGGATTGATATTTTAAGTCCACG
Found at i:23170753 original size:26 final size:26
Alignment explanation
Indices: 23170720--23170801 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 26
23170710 TAAAATGTGG
* *
23170720 GAAGTCCATCAGGACTGTCTTTTGTA
1 GAAGTCCATCAGGACTATCTTTGGTA
*
23170746 GAAGTCCATTAGGACTATCTTTGGTA
1 GAAGTCCATCAGGACTATCTTTGGTA
* *
23170772 GAAAGTCCATCAGTATTATCTTCT-GTA
1 G-AAGTCCATCAGGACTATCTT-TGGTA
23170799 GAA
1 GAA
23170802 AGTTTGTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 26 0.54
27 21 0.44
28 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (26 bp):
GAAGTCCATCAGGACTATCTTTGGTA
Found at i:23170791 original size:27 final size:26
Alignment explanation
Indices: 23170721--23170804 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
23170711 AAAATGTGGG
*
23170721 AAGTCCATCAGGACTGTCTTTTGTAG-
1 AAGTCCATCAGGACTATC-TTTGTAGA
*
23170747 AAGTCCATTAGGACTATCTTTGGTAGA
1 AAGTCCATCAGGACTATCTTT-GTAGA
* *
23170774 AAGTCCATCAGTATTATCTTCTGTAGA
1 AAGTCCATCAGGACTATCTT-TGTAGA
23170801 AAGT
1 AAGT
23170805 TTGTCAAGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.06
26 20 0.40
27 26 0.52
28 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (26 bp):
AAGTCCATCAGGACTATCTTTGTAGA
Found at i:23170832 original size:26 final size:26
Alignment explanation
Indices: 23170801--23170871 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
23170791 CTTCTGTAGA
*
23170801 AAGTTTGTCAAGACTATCTTTAGGGG
1 AAGTTTGTGAAGACTATCTTTAGGGG
* * *
23170827 AAGTTTGTGAGGACTATCTTTTGTGG
1 AAGTTTGTGAAGACTATCTTTAGGGG
*
23170853 AAGTCTGTGAAGACTATCT
1 AAGTTTGTGAAGACTATCT
23170872 AAAATGGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (26 bp):
AAGTTTGTGAAGACTATCTTTAGGGG
Found at i:23176788 original size:27 final size:27
Alignment explanation
Indices: 23176758--23177110 Score: 344
Period size: 27 Copynumber: 13.2 Consensus size: 27
23176748 GGTATAAAAA
* * *
23176758 TCATTTTACACTATGGGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
**
23176785 TCATTTTACCCTTTGAGGGTATTTCAA
1 TCATTTTACCCTTTGAGGGTATTTCGG
23176812 TCA--TT--CCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
23176835 TCAATTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
** *
23176862 TCATTTTACCCTTCAAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
23176889 TCATTTTACCCTTTAAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
23176916 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
23176943 TCATTTTACCCTTTTG-GGGTATTTCAG
1 TCATTTTACCC-TTTGAGGGTATTTCGG
* * * *
23176970 CCATTTTACCCATCGAGGGTATTTTGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
23176997 TTATTTTACCTTTTGAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
23177024 TCATTTTACCCTGT-AGGGGTATTTTAG
1 TCATTTTACCCTTTGA-GGGTATTTCGG
* *
23177051 TTATTTTACCCTAT-AGGGGTATTTCGG
1 TCATTTTACCCTTTGA-GGGTATTTCGG
* *
23177078 TCATTTTACCCTATCG-GGGTATTTCGA
1 TCATTTTACCCT-TTGAGGGTATTTCGG
23177105 TCATTT
1 TCATTT
23177111 ATTTACCTCT
Statistics
Matches: 272, Mismatches: 45, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
23 19 0.07
25 4 0.01
26 3 0.01
27 243 0.89
28 3 0.01
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTTGAGGGTATTTCGG
Found at i:23176935 original size:81 final size:81
Alignment explanation
Indices: 23176774--23177110 Score: 396
Period size: 81 Copynumber: 4.2 Consensus size: 81
23176764 TACACTATGG
* * *
23176774 GGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCAATCA--TT--CCTTTGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCGG
*
23176835 TCAATTTACCCTTCGA
66 TCATTTTACCCTTCGA
* * *
23176851 GGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCAG
1 GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCGG
23176916 TCATTTTACCCTTCGA
66 TCATTTTACCCTTCGA
* ** * * ** *
23176932 GGGTATTTCGATCATTTTACCCTTTTGGGGTATTTCAGCCATTTTACCCATCGAGGGTATTTTGG
1 GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCGG
* * *
23176997 TTATTTTACCTTTTGA
66 TCATTTTACCCTTCGA
* * * * * * *
23177013 GGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTTAGTTATTTTACCCTATAGGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCGG
23177078 TCATTTTACCCTATCG-
66 TCATTTTACCCT-TCGA
*
23177094 GGGTATTTCGATCATTT
1 GGGTATTTCGGTCATTT
23177111 ATTTACCTCT
Statistics
Matches: 216, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
77 37 0.17
79 2 0.01
81 175 0.81
82 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (81 bp):
GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCGG
TCATTTTACCCTTCGA
Found at i:23178570 original size:14 final size:14
Alignment explanation
Indices: 23178551--23178580 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23178541 AGTGAGAGAG
*
23178551 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
23178565 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
23178579 GA
1 GA
23178581 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:23191227 original size:18 final size:19
Alignment explanation
Indices: 23191190--23191232 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
23191180 TTTAGTTTGG
*
23191190 TTATTTTACTTAG-TAGTT
1 TTATTTAACTTAGTTAGTT
**
23191208 TTATTTAACTTAGTTTTTT
1 TTATTTAACTTAGTTAGTT
23191227 TTATTT
1 TTATTT
23191233 TTTACAGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (19 bp):
TTATTTAACTTAGTTAGTT
Found at i:23194569 original size:23 final size:23
Alignment explanation
Indices: 23194539--23194613 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
23194529 ACCCTATTTG
*
23194539 GTGTGTTGGGTTGGTCAGAAATA
1 GTGTGTTGGGTTGGTCAGAGATA
*
23194562 GTGTGTTGGGTTGGTCAGAGATG
1 GTGTGTTGGGTTGGTCAGAGATA
* *
23194585 GTGTGCTCGGTTGGTCAGAGATA
1 GTGTGTTGGGTTGGTCAGAGATA
23194608 GTGTGT
1 GTGTGT
23194614 AGCGGTTAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.16, C:0.07, G:0.43, T:0.35
Consensus pattern (23 bp):
GTGTGTTGGGTTGGTCAGAGATA
Found at i:23200853 original size:15 final size:15
Alignment explanation
Indices: 23200830--23200860 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23200820 GGTGATAAAA
23200830 TGACAAAAATACCCT
1 TGACAAAAATACCCT
*
23200845 TGACGAAAATACCCT
1 TGACAAAAATACCCT
23200860 T
1 T
23200861 AGGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.23
Consensus pattern (15 bp):
TGACAAAAATACCCT
Found at i:23204560 original size:246 final size:246
Alignment explanation
Indices: 23204086--23204577 Score: 797
Period size: 247 Copynumber: 2.0 Consensus size: 246
23204076 CTTCAGCTGG
* * *
23204086 ATTTTGTGTGAATCAGTGTTGAGAATGAGCCTGTTGGTTCAATGGTTAAGTGTCTGGCGATTACT
1 ATTTTGTGTAAATCAGTGTTGAGAATGAGCCTGTTGGTTCAATGGTTAAGTGTCTGCCCATTACT
23204151 AGTCCTGTGTTCGAGTCGCGATGTGCGCGATATGGAAATATTTTTGTTACTTGTCTAAATTTTGA
66 AGTCCTGTGTTCGAGTCGCGATGTGCGCGATATGGAAATATTTTTGTTACTTGTCTAAATTTTGA
*
23204216 ATCGATAATTTCTAAAGGAATTAAACGTCTTATTTCATGTCACTTTTCCTTTTTCGTACTTTTTC
131 ATCGATAATTTCTAAAGGAATTAAACGTCTTATTTCATGTCACTTTTCCTTTTTCATACTTTTTC
** *
23204281 TTCTTTTTTTCTTTTTCATTTTTATTATTCTTCTCTTCCTTTCGTTTCTTT
196 TTCTTTTTTTCACTTTCAATTTTATTATTCTTCTCTTCCTTTCGTTTCTTT
* *
23204332 ATTTTGTGTAAATTAGTGTTGAGAATGAGCCTGTTGGTTCAATGGTTACGTGTCTGCCCCATTAC
1 ATTTTGTGTAAATCAGTGTTGAGAATGAGCCTGTTGGTTCAATGGTTAAGTGTCTG-CCCATTAC
* * * *
23204397 TAGTCCTGTGTTCGAGTCGCGTTGTGCGCGATATGGAAATATTTTTGTTACTTGTCTGACTTTTT
65 TAGTCCTGTGTTCGAGTCGCGATGTGCGCGATATGGAAATATTTTTGTTACTTGTCTAAATTTTG
* * *
23204462 AATCGATAGTTTCTAAAGGAATTAAACGTCTTATTTCCTGTCTCTTTTCCTTTTTCATACTTTTT
130 AATCGATAATTTCTAAAGGAATTAAACGTCTTATTTCATGTCACTTTTCCTTTTTCATACTTTTT
* * *
23204527 -TTCTTTTTTTCACTTTCAATTTTATTCTTCTTCTCTTTCTTTCTTTTCTTT
195 CTTCTTTTTTTCACTTTCAATTTTATTATTCTTCTCTTCCTTTCGTTTCTTT
23204578 TCATTTTGGG
Statistics
Matches: 226, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
246 98 0.43
247 128 0.57
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (246 bp):
ATTTTGTGTAAATCAGTGTTGAGAATGAGCCTGTTGGTTCAATGGTTAAGTGTCTGCCCATTACT
AGTCCTGTGTTCGAGTCGCGATGTGCGCGATATGGAAATATTTTTGTTACTTGTCTAAATTTTGA
ATCGATAATTTCTAAAGGAATTAAACGTCTTATTTCATGTCACTTTTCCTTTTTCATACTTTTTC
TTCTTTTTTTCACTTTCAATTTTATTATTCTTCTCTTCCTTTCGTTTCTTT
Found at i:23214442 original size:102 final size:102
Alignment explanation
Indices: 23214256--23214488 Score: 378
Period size: 102 Copynumber: 2.3 Consensus size: 102
23214246 TTATCCGTTA
* * * *
23214256 TCGGTGGATTCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAA
1 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
* * *
23214321 CCACCAATGATTCGTGGAATCAGTACTTAGCAACCCC
66 CCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
*
23214358 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATTAGCACTTAGCAA
1 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
23214423 CCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
66 CCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
*
23214460 T-TGGGGAATCAGCACTTAGCAACCCCCTT
1 TCGGGGGAATCAGCACTTAGCAACCCCCTT
23214489 TATATTCAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 27 0.22
102 95 0.78
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (102 bp):
TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
CCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
Found at i:23214465 original size:26 final size:26
Alignment explanation
Indices: 23214436--23214485 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
23214426 CCAATGAGTC
23214436 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
23214462 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
23214486 CTTTATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTT
Found at i:23214605 original size:51 final size:49
Alignment explanation
Indices: 23214503--23214694 Score: 197
Period size: 51 Copynumber: 3.8 Consensus size: 49
23214493 TTCAAAGATA
* * * *
23214503 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CA-AACTAT
* * *
23214554 CCGATACACGTAGTAGCCTGTACATAGTACTTCACACGTGATCAAAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CAAA-CTAT
* * * * **
23214605 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTA-TCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAAACT-A-T
*
23214655 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
23214695 TCCATCACTT
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 39 0.34
51 75 0.65
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAAACTAT
Found at i:23214691 original size:101 final size:101
Alignment explanation
Indices: 23214494--23214694 Score: 298
Period size: 101 Copynumber: 2.0 Consensus size: 101
23214484 CCCTTTATAT
* *
23214494 TCAAAGATACCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGAT
1 TCAAAGATACCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGAT
* *
23214559 ACACGTAGTAGCCTGTACATAGTACTTCACACGTGA
66 ACACGTAGTAGCCTGCACATAGTACTACACACGTGA
* * *
23214595 TCAAAGCTATCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTG
1 TCAAAGATA-CCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCG
*
23214658 GTACACGTAGTAGCCTGCACATAGTACTACACACGTG
64 ATACACGTAGTAGCCTGCACATAGTACTACACACGTG
23214695 TCCATCACTT
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 45 0.50
102 41 0.46
103 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
TCAAAGATACCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGAT
ACACGTAGTAGCCTGCACATAGTACTACACACGTGA
Found at i:23216747 original size:26 final size:26
Alignment explanation
Indices: 23216713--23216772 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
23216703 ATAAGTGAGC
*
23216713 CTTTGTGGCTATCTCTAAATAAACAT
1 CTTTATGGCTATCTCTAAATAAACAT
* ** *
23216739 CTTTATGGCTATCTCTGAATGGACGT
1 CTTTATGGCTATCTCTAAATAAACAT
23216765 CTTTATGG
1 CTTTATGG
23216773 TGATCTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (26 bp):
CTTTATGGCTATCTCTAAATAAACAT
Found at i:23216883 original size:29 final size:29
Alignment explanation
Indices: 23216794--23216975 Score: 136
Period size: 29 Copynumber: 6.3 Consensus size: 29
23216784 ATAAGGAAGA
* * * *
23216794 CTTTGTGGCTATCTCAATTAAATGAAAGC
1 CTTTGTGGCTATCTTAGTTAAATGGATGC
* *
23216823 CTATGTGGCAATCTCT-GTTAAAAT-GATGC
1 CTTTGTGGCTATCT-TAGTT-AAATGGATGC
*
23216852 CTTTGTGGCTATCTTAGTTAAATGAATGC
1 CTTTGTGGCTATCTTAGTTAAATGGATGC
* * * * *
23216881 CTTTGAGGCTCTCTTAGGTAAAAGGATTC
1 CTTTGTGGCTATCTTAGTTAAATGGATGC
* ** * *
23216910 CTTTATTTCTATCTCTATTTAAA-GGATGT
1 CTTTGTGGCTATCT-TAGTTAAATGGATGC
* * *
23216939 CTTTGTGGCTATCTTCGTTAAAAGGATGT
1 CTTTGTGGCTATCTTAGTTAAATGGATGC
23216968 CTTTGTGG
1 CTTTGTGG
23216976 TCATCTCTGT
Statistics
Matches: 118, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
28 11 0.09
29 97 0.82
30 10 0.08
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (29 bp):
CTTTGTGGCTATCTTAGTTAAATGGATGC
Found at i:23216903 original size:58 final size:57
Alignment explanation
Indices: 23216794--23216975 Score: 161
Period size: 58 Copynumber: 3.1 Consensus size: 57
23216784 ATAAGGAAGA
* * * *
23216794 CTTTGTGGCTATCTCAATTAAATGAAAGCCTATGTGGCAATCTC-TGTTAAAATGATGC
1 CTTTGTGGCTATCTTAATTAAATGAATGCCTTTGTGGC--TCTCTTGTTAAAAGGATGC
* * * *
23216852 CTTTGTGGCTATCTTAGTTAAATGAATGCCTTTGAGGCTCTCTTAGGTAAAAGGATTC
1 CTTTGTGGCTATCTTAATTAAATGAATGCCTTTGTGGCTCTCTT-GTTAAAAGGATGC
* ** * * * * *
23216910 CTTTATTTCTATCTCTATTTAAA-GGATGTCTTTGTGGCTATCTTCGTTAAAAGGATGT
1 CTTTGTGGCTATCT-TAATTAAATGAATGCCTTTGTGGCTCTCTT-GTTAAAAGGATGC
23216968 CTTTGTGG
1 CTTTGTGG
23216976 TCATCTCTGT
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
56 4 0.04
57 1 0.01
58 86 0.88
59 7 0.07
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (57 bp):
CTTTGTGGCTATCTTAATTAAATGAATGCCTTTGTGGCTCTCTTGTTAAAAGGATGC
Found at i:23216981 original size:29 final size:28
Alignment explanation
Indices: 23216738--23217003 Score: 109
Period size: 29 Copynumber: 9.3 Consensus size: 28
23216728 TAAATAAACA
* * *
23216738 TCTTTATGGCTATCTCTG--AATGGACG
1 TCTTTGTGGCTATCTCTGTTAAAGGATG
* * * *
23216764 TCTTTATGG-TGATCTATATTATAAGGAAG
1 TCTTTGTGGCT-ATCTCTGTTA-AAGGATG
* ** * *
23216793 ACTTTGTGGCTATCTCAATTAAATGAAAG
1 TCTTTGTGGCTATCTCTGTTAAA-GGATG
* * * *
23216822 CCTATGTGGCAATCTCTGTTAAAATGATG
1 TCTTTGTGGCTATCTCTGTT-AAAGGATG
* *
23216851 CCTTTGTGGCTATCT-TAGTTAAATGAATG
1 TCTTTGTGGCTATCTCT-GTTAAA-GGATG
* * * *
23216880 CCTTTGAGGCTCTCT-TAGGTAAAAGGAT-
1 TCTTTGTGGCTATCTCT--GTTAAAGGATG
* ** *
23216908 TCCTTTATTTCTATCTCTATTTAAAGGATG
1 T-CTTTGTGGCTATCTCT-GTTAAAGGATG
23216938 TCTTTGTGGCTATCT-TCGTTAAAAGGATG
1 TCTTTGTGGCTATCTCT-GTT-AAAGGATG
23216967 TCTTTGTGG-TCATCTCTGTTAAAGGAATG
1 TCTTTGTGGCT-ATCTCTGTTAAAGG-ATG
23216996 TC-TTGTGG
1 TCTTTGTGG
23217004 AAACCTCTGC
Statistics
Matches: 183, Mismatches: 40, Indels: 32
0.72 0.16 0.13
Matches are distributed among these distances:
25 1 0.01
26 14 0.08
28 22 0.12
29 134 0.73
30 12 0.07
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (28 bp):
TCTTTGTGGCTATCTCTGTTAAAGGATG
Found at i:23216982 original size:58 final size:59
Alignment explanation
Indices: 23216826--23217003 Score: 156
Period size: 58 Copynumber: 3.1 Consensus size: 59
23216816 TGAAAGCCTA
* * * * *
23216826 TGTGGCAATC-TCTGTTAAAATGATGCCTTTGTGG-CTATCT-TAGTTAAATGAATGCCTT
1 TGTGGCTATCTTC-GTTAAAAGGATGTCTTTGTGGTCTATCTCTAGTTAAA-GGATGTCTT
* * * * * * *
23216884 TGAGGCTCTCTTAGGTAAAAGGAT-TCCTTTAT-TTCTATCTCTATTTAAAGGATGTCTT
1 TGTGGCTATCTTCGTTAAAAGGATGT-CTTTGTGGTCTATCTCTAGTTAAAGGATGTCTT
23216942 TGTGGCTATCTTCGTTAAAAGGATGTCTTTGTGGTC-ATCTCT-GTTAAAGGAATGTC-T
1 TGTGGCTATCTTCGTTAAAAGGATGTCTTTGTGGTCTATCTCTAGTTAAAGG-ATGTCTT
23216999 TGTGG
1 TGTGG
23217004 AAACCTCTGC
Statistics
Matches: 94, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
57 13 0.14
58 70 0.74
59 11 0.12
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (59 bp):
TGTGGCTATCTTCGTTAAAAGGATGTCTTTGTGGTCTATCTCTAGTTAAAGGATGTCTT
Found at i:23217019 original size:29 final size:29
Alignment explanation
Indices: 23216957--23217021 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
23216947 CTATCTTCGT
** *
23216957 TAAAAGG-ATGTCTTTGTGGTCATCTCTG
1 TAAAAGGAATGTCTTTGTGGAAACCTCTG
*
23216985 TTAAAGGAATGTC-TTGTGGAAACCTCTG
1 TAAAAGGAATGTCTTTGTGGAAACCTCTG
23217013 CTAAAAGGA
1 -TAAAAGGA
23217022 CGTCTTCATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (29 bp):
TAAAAGGAATGTCTTTGTGGAAACCTCTG
Found at i:23220902 original size:39 final size:41
Alignment explanation
Indices: 23220801--23220984 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
23220791 TTGAATGATG
* *
23220801 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
23220841 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
23220881 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
23220920 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
23220959 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23220985 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:23220937 original size:79 final size:80
Alignment explanation
Indices: 23220801--23220984 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
23220791 TTGAATGATG
*
23220801 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
23220865 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
23220880 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23220942 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
23220959 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23220985 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:23221007 original size:78 final size:79
Alignment explanation
Indices: 23220854--23221017 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
23220844 GGACTAAGAT
* **
23220854 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
23220919 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
23220933 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
23220995 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23221011 CCGAAGG
1 CCGAAGG
23221018 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23228836 original size:79 final size:81
Alignment explanation
Indices: 23228700--23228884 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
23228690 TTGAATGATG
* *
23228700 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
23228764 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
23228779 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23228841 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
23228859 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23228885 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:23228898 original size:40 final size:40
Alignment explanation
Indices: 23228701--23228884 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
23228691 TGAATGATGT
* * * *
23228701 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
23228741 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
23228781 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
23228819 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23228860 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23228885 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23228906 original size:79 final size:79
Alignment explanation
Indices: 23228753--23228917 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
23228743 GGACTAAGAT
* * **
23228753 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
23228818 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
23228832 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
23228895 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23228911 CCGAAGG
1 CCGAAGG
23228918 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23230336 original size:21 final size:22
Alignment explanation
Indices: 23230307--23230348 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23230297 TATTTTCTTT
23230307 TAGGATA-TTTTAAGTTTATTA
1 TAGGATATTTTTAAGTTTATTA
* *
23230328 TAGGTTATTTTTAATTTTATT
1 TAGGATATTTTTAAGTTTATT
23230349 TTTATTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (22 bp):
TAGGATATTTTTAAGTTTATTA
Found at i:23232082 original size:11 final size:11
Alignment explanation
Indices: 23232043--23232104 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
23232033 ACAACCGAAA
* *
23232043 CACCACTATAT
1 CACCACCATAG
*
23232054 CACCACAATA-
1 CACCACCATAG
23232064 CAACCACCATAG
1 C-ACCACCATAG
* *
23232076 CACCACCACAC
1 CACCACCATAG
23232087 CACCACCATAG
1 CACCACCATAG
23232098 CACCACC
1 CACCACC
23232105 GTATCACTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
10 1 0.02
11 41 0.95
12 1 0.02
ACGTcount: A:0.39, C:0.48, G:0.03, T:0.10
Consensus pattern (11 bp):
CACCACCATAG
Found at i:23232091 original size:22 final size:22
Alignment explanation
Indices: 23232043--23232104 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
23232033 ACAACCGAAA
* * * *
23232043 CACCACTATATCACCACAATAC
1 CACCACCATAGCACCACCACAC
*
23232065 AACCACCATAGCACCACCACAC
1 CACCACCATAGCACCACCACAC
23232087 CACCACCATAGCACCACC
1 CACCACCATAGCACCACC
23232105 GTATCACTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.39, C:0.48, G:0.03, T:0.10
Consensus pattern (22 bp):
CACCACCATAGCACCACCACAC
Found at i:23255141 original size:10 final size:10
Alignment explanation
Indices: 23255086--23255157 Score: 51
Period size: 10 Copynumber: 7.4 Consensus size: 10
23255076 AAAATTATTA
*
23255086 TTTTAGAGTT
1 TTTTAGAATT
**
23255096 TTTTTTAA-T
1 TTTTAGAATT
*
23255105 TTTTA-ACTT
1 TTTTAGAATT
*
23255114 TTTTATATATT
1 TTTTAGA-ATT
*
23255125 CTTTAGAATT
1 TTTTAGAATT
23255135 TTTTAGAA-T
1 TTTTAGAATT
*
23255144 TTTTATAATT
1 TTTTAGAATT
23255154 TTTT
1 TTTT
23255158 TTTATTTTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
8 1 0.02
9 19 0.40
10 21 0.44
11 7 0.15
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:23255148 original size:19 final size:19
Alignment explanation
Indices: 23255086--23255167 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
23255076 AAAATTATTA
* *
23255086 TTTTAGAGTTTTTTTTAAT
1 TTTTAGAATTTTTTATAAT
*
23255105 TTTTA-ACTTTTTTATATAT
1 TTTTAGAATTTTTTATA-AT
*
23255124 TCTTTAGAATTTTTTAGAAT
1 T-TTTAGAATTTTTTATAAT
* * *
23255144 TTTTATAATTTTTTTTTAT
1 TTTTAGAATTTTTTATAAT
23255163 TTTTA
1 TTTTA
23255168 TAAATATTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
18 9 0.17
19 27 0.52
20 7 0.13
21 9 0.17
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTAGAATTTTTTATAAT
Found at i:23255168 original size:19 final size:19
Alignment explanation
Indices: 23255094--23255214 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 19
23255084 TATTTTAGAG
* *
23255094 TTTTTTTTAATTTTTA-AC
1 TTTTTTTTTATTTTTATAA
* *
23255112 TTTTTTATATATTCTTTAGAA
1 TTTTTT-TTTATT-TTTATAA
***
23255133 TTTTTTAGAATTTTTATAA
1 TTTTTTTTTATTTTTATAA
23255152 TTTTTTTTTATTTTTATAA
1 TTTTTTTTTATTTTTATAA
* * * *
23255171 ATATTTTGTA-TTTTAGAAA
1 TTTTTTTTTATTTTTA-TAA
*
23255190 TTATTTTATTT-TTTTTGTAA
1 TT-TTTT-TTTATTTTTATAA
23255210 TTTTT
1 TTTTT
23255215 ATTGAGAAAA
Statistics
Matches: 77, Mismatches: 19, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
18 11 0.14
19 39 0.51
20 14 0.18
21 13 0.17
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTTTTTTATTTTTATAA
Found at i:23255177 original size:18 final size:17
Alignment explanation
Indices: 23255155--23255202 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
23255145 TTTATAATTT
23255155 TTTTTTATTTTTATAAA
1 TTTTTTATTTTTATAAA
*
23255172 TATTTTGTA-TTTTAGAAA
1 T-TTTT-TATTTTTATAAA
23255190 TTATTTTATTTTT
1 TT-TTTTATTTTT
23255203 TTTGTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.15
18 20 0.77
19 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
TTTTTTATTTTTATAAA
Found at i:23256840 original size:3 final size:3
Alignment explanation
Indices: 23256832--23256859 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23256822 AAATTCACAT
23256832 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23256860 AGTTGATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23267671 original size:2 final size:2
Alignment explanation
Indices: 23267664--23267719 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
23267654 TAATGCATCA
23267664 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23267706 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
23267720 CAGCCAATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:23274070 original size:29 final size:30
Alignment explanation
Indices: 23274017--23274212 Score: 132
Period size: 29 Copynumber: 6.8 Consensus size: 30
23274007 CACGAAGGCA
* * *
23274017 TCCTTTTAA-AAAAATAGC-CACAAAGCAT
1 TCCTTTTAACAGAGATAGCTCATAAAGCAT
* *
23274045 TCCTTTTAACAAAGATAGCTGA-AAAGGC-T
1 TCCTTTTAACAGAGATAGCTCATAAA-GCAT
* *
23274074 TCCTTTTAACAGATATAAC-CATAAAGGCAT
1 TCCTTTTAACAGAGATAGCTCATAAA-GCAT
*
23274104 T-CTTTTAACAGAGATCA-C-CACAAAGGC-T
1 TCCTTTTAACAGAGAT-AGCTCATAAA-GCAT
* *
23274132 TCCTTATAACAAAGATAGC-CATAAAGACAT
1 TCCTTTTAACAGAGATAGCTCATAAAG-CAT
* *
23274162 T-CATTTAACAGAGATAGCT-ATAAA-AAT
1 TCCTTTTAACAGAGATAGCTCATAAAGCAT
23274189 ATCCTTTTAACAGAGATAGC-CATA
1 -TCCTTTTAACAGAGATAGCTCATA
23274213 GAGGCATTTA
Statistics
Matches: 138, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
27 2 0.01
28 15 0.11
29 113 0.82
30 8 0.06
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (30 bp):
TCCTTTTAACAGAGATAGCTCATAAAGCAT
Found at i:23274129 original size:58 final size:58
Alignment explanation
Indices: 23274067--23274176 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
23274057 AGATAGCTGA
* * * * *
23274067 AAAGGCTTCCTTTTAACAGATATAACCATAAAGGCATTCTTTTAACAGAGATCACCAC
1 AAAGGCTTCCTTATAACAAAGATAACCATAAAGACATTCATTTAACAGAGATCACCAC
*
23274125 AAAGGCTTCCTTATAACAAAGATAGCCATAAAGACATTCATTTAACAGAGAT
1 AAAGGCTTCCTTATAACAAAGATAACCATAAAGACATTCATTTAACAGAGAT
23274177 AGCTATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (58 bp):
AAAGGCTTCCTTATAACAAAGATAACCATAAAGACATTCATTTAACAGAGATCACCAC
Found at i:23274169 original size:87 final size:87
Alignment explanation
Indices: 23274034--23274205 Score: 197
Period size: 87 Copynumber: 2.0 Consensus size: 87
23274024 AAAAAAATAG
* * * * *
23274034 CCACAAAGCATTCCTTTTAACAAAGATAGCTGAAAAGGCTTCCTTTTAACAGATATAACCATAAA
1 CCACAAAGCATTCCTTATAACAAAGATAGCTCAAAAGACTTCCATTTAACAGAGATAACCATAAA
** *
23274099 GGCATTCTTTTAACAGAGATCA
66 AACATCCTTTTAACAGAGATCA
* *
23274121 CCACAAAGGC-TTCCTTATAACAAAGATAGC-CATAAAGACATT-CATTTAACAGAGATAGCTAT
1 CCACAAA-GCATTCCTTATAACAAAGATAGCTCA-AAAGAC-TTCCATTTAACAGAGATAACCAT
*
23274183 AAAAATATCCTTTTAACAGAGAT
63 AAAAACATCCTTTTAACAGAGAT
23274206 AGCCATAGAG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
86 1 0.01
87 66 0.93
88 4 0.06
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (87 bp):
CCACAAAGCATTCCTTATAACAAAGATAGCTCAAAAGACTTCCATTTAACAGAGATAACCATAAA
AACATCCTTTTAACAGAGATCA
Found at i:23278034 original size:15 final size:16
Alignment explanation
Indices: 23278008--23278038 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23277998 AATTAATCAA
23278008 ATTTTAATAAAAAAAT
1 ATTTTAATAAAAAAAT
23278024 ATTTT-ATAAAAAAAT
1 ATTTTAATAAAAAAAT
23278039 CTTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTTTAATAAAAAAAT
Found at i:23281361 original size:24 final size:24
Alignment explanation
Indices: 23281317--23281363 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23281307 TTTATTTTTA
*
23281317 AAATAATTAATTTTATTTAATATT
1 AAATAATTAATTTTATCTAATATT
23281341 AAATAATTATATTTTA-CTAATAT
1 AAATAATTA-ATTTTATCTAATAT
23281364 CATATTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATAATTAATTTTATCTAATATT
Found at i:23284495 original size:2 final size:2
Alignment explanation
Indices: 23284488--23284516 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23284478 CTTGTCAAGA
23284488 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23284517 TTATGCCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23284965 original size:48 final size:48
Alignment explanation
Indices: 23284906--23285000 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
23284896 ACAGTAAATT
* **
23284906 TTTTGAAAGTCTAAAAATTATTAAAAATCAGAAATGTATATAAAAAAA
1 TTTTCAAAGTCTAAAAATTATTAAAAATCAGAAAAATATATAAAAAAA
23284954 TTTTCAAAGTCTAAAAATTATTAAAAATCAGAAAAATATATAAAAAA
1 TTTTCAAAGTCTAAAAATTATTAAAAATCAGAAAAATATATAAAAAA
23285001 TATATATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (48 bp):
TTTTCAAAGTCTAAAAATTATTAAAAATCAGAAAAATATATAAAAAAA
Found at i:23285135 original size:120 final size:120
Alignment explanation
Indices: 23285001--23285523 Score: 841
Period size: 120 Copynumber: 4.4 Consensus size: 120
23284991 ATATAAAAAA
* ** * *
23285001 TATATATTTTTATTAACTTATATTTAATAATAATTATTTTAAATTATATTTTATACTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATA
* *
23285066 TTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
66 TTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAAT
* * *
23285121 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATACTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATA
*
23285186 TTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
66 TTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAAT
* *
23285241 CATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATACTATCATAT
*
23285305 ATTATAATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
65 ATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAAT
* *
23285361 CATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATA
* * * * *
23285426 TTATGATTTGAGTAAAATAATATAAGAATATTGATTATTAAGAATTTTATTAAAT
66 TTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAAT
23285481 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
23285524 ATATGATTAA
Statistics
Matches: 386, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 2 0.01
120 382 0.99
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATA
TTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAAT
Found at i:23285486 original size:61 final size:59
Alignment explanation
Indices: 23285058--23285488 Score: 223
Period size: 61 Copynumber: 7.2 Consensus size: 59
23285048 ATTTTATACT
* *
23285058 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTAT-ATTTTAGTAAATTAATATAAGAATA-TTATTATTAAGAATTTTATTAA
* * * * * *
23285119 A-T-TATA-TAT-TTTTATTAAATTATATTTAATAATAATTATGT-TAAATTATATTTTA-TACT
1 ATTATATATTATATTTTAGTAAATTA-ATATAAGAAT-ATTAT-TATTAA-GA-ATTTTATTA-A
* *
23285178 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTAT-ATTTTAGTAAATTAATATAAGAATA-TTATTATTAAGAATTTTATTAA
* * * * * * * *
23285239 ATCATATATTTTA-ATTA--AAA-TATATTTAATAATAATTATT-TCAAATTATATTTTA-TAGT
1 ATTATATATTATATTTTAGTAAATTA-ATATAAGAAT-ATTATTAT-TAA-GA-ATTTTATTA-A
* *
23285298 ATCATATATTATAATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATATATTAT-ATTTTAGTAAATTAATATAAGAATATT-ATTATTAAGAATTTTATTAA
* * * * * * * *
23285359 ATCATATATTTTA-ATTA--AAA-TATATTTAATAATAATTATGT-TAAATTATATTTTA-TAGT
1 ATTATATATTATATTTTAGTAAATTA-ATATAAGAAT-ATTAT-TATTAA-GA-ATTTTATTA-A
* * *
23285418 ATCATATATTATGATTTGAGTAAAATAATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATATATTAT-ATTTTAGTAAATTAATATAAGAATATT-ATTATTAAGAATTTTATTAA
23285479 ATTATATATT
1 ATTATATATT
23285489 TTAATTAAAA
Statistics
Matches: 277, Mismatches: 51, Indels: 84
0.67 0.12 0.20
Matches are distributed among these distances:
56 14 0.05
57 47 0.17
58 19 0.07
59 51 0.18
60 6 0.02
61 58 0.21
62 21 0.08
63 46 0.17
64 15 0.05
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (59 bp):
ATTATATATTATATTTTAGTAAATTAATATAAGAATATTATTATTAAGAATTTTATTAA
Found at i:23285497 original size:18 final size:17
Alignment explanation
Indices: 23285469--23285503 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23285459 ATTATTAAGA
*
23285469 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23285486 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23285504 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23292357 original size:6 final size:6
Alignment explanation
Indices: 23292346--23292391 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
23292336 TAAAAAATAG
* *
23292346 AAAATT AAAATT AAAATT AAAATT --AATT AGAATA AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
23292392 TGTAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 4 0.11
6 31 0.89
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:23292373 original size:22 final size:22
Alignment explanation
Indices: 23292348--23292391 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23292338 AAAAATAGAA
*
23292348 AATTAAAATTAAAATTAAAATT
1 AATTAAAATAAAAATTAAAATT
*
23292370 AATTAGAATAAAAATTAAAATT
1 AATTAAAATAAAAATTAAAATT
23292392 TGTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AATTAAAATAAAAATTAAAATT
Found at i:23292383 original size:16 final size:16
Alignment explanation
Indices: 23292339--23292387 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
23292329 TAAAATATAA
23292339 AAAATAGAAAATTAAAATT
1 AAAATA-AAAATT--AATT
*
23292358 AAAATTAAAATTAATT
1 AAAATAAAAATTAATT
*
23292374 AGAATAAAAATTAA
1 AAAATAAAAATTAA
23292388 AATTTGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 16 0.59
18 6 0.22
19 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AAAATAAAAATTAATT
Found at i:23298760 original size:22 final size:22
Alignment explanation
Indices: 23298732--23298778 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
23298722 TTGATGAATG
23298732 AATGAACATAGTAGCCCCTATT
1 AATGAACATAGTAGCCCCTATT
23298754 AATGAACATAGTAGCCCCTATT
1 AATGAACATAGTAGCCCCTATT
23298776 AAT
1 AAT
23298779 ACTCGTGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (22 bp):
AATGAACATAGTAGCCCCTATT
Found at i:23306049 original size:124 final size:125
Alignment explanation
Indices: 23305624--23306049 Score: 561
Period size: 126 Copynumber: 3.4 Consensus size: 125
23305614 ATGATTTATC
* * * * * *
23305624 AGAAGGATTTTTGAAGTCGCGCTCACGTGAACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* *
23305689 TTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAA-CAACGCTGCAAGCAGGATTCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATC-A-GCTGCAAGCAGGATGCTATTTG
* * * *
23305750 AGAAGAATTTGTGAAATCGTGTCCACGTGGACGCACTTTTGCTACAGTAGGTCTTGAAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* * * *
23305815 TTTCGAGTTGACGTTTCGGAGCAGATAGTATAAAATAAAGCTGCAAGTAGGATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAT-CAGCTGCAAGCAGGATGCTATTTG
* * *
23305876 AGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGTTACAGTAGGTCCTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
* * * * * *
23305941 TTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCA-CTTCTACCAGAATGCT-TTATA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCAGCTGCAAGCAGGATGCTATT-TG
*
23306000 AGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGTAG
1 AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
23306050 CATGTTTGGG
Statistics
Matches: 261, Mismatches: 36, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
123 2 0.01
124 59 0.23
125 1 0.00
126 198 0.76
127 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (125 bp):
AGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCAGCTGCAAGCAGGATGCTATTTG
Found at i:23309127 original size:53 final size:53
Alignment explanation
Indices: 23309058--23309161 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
23309048 ATATTTTTTC
* * * *
23309058 AATTATTAATTGATAATTGTATTAATTGTTAGTAAAATTATCAAATTATATCA
1 AATTATTAACTAATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATATCA
23309111 AATTATTAACTAATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATAT
1 AATTATTAACTAATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATAT
23309162 TTAAGTTAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (53 bp):
AATTATTAACTAATAATTGTATTAATGGTTAGTAAAATTAGCAAATTATATCA
Found at i:23309235 original size:43 final size:43
Alignment explanation
Indices: 23309161--23309440 Score: 357
Period size: 43 Copynumber: 6.5 Consensus size: 43
23309151 GCAAATTATA
* *
23309161 TTTAAGTTAAGGG-TTAGGGTTTTTTATTTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTT
* * **
23309203 TTAAAGTTAAGGGTTTAGGATTTTTATTTTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTT
* * *
23309246 TTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTT
* * * *
23309289 TTTAAGTTAAGGATTTATGATTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTATGGTT
*
23309333 TTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTATGGTT
* * * *
23309376 TTTAAGTTAATGATTTAGGGTTTTTAATTTAAAGGTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTT
*
23309419 TTTAAATTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
23309441 AGGGTTTTTA
Statistics
Matches: 205, Mismatches: 30, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
42 12 0.06
43 156 0.76
44 37 0.18
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTATGGTT
Found at i:23309313 original size:65 final size:65
Alignment explanation
Indices: 23309161--23309440 Score: 332
Period size: 65 Copynumber: 4.3 Consensus size: 65
23309151 GCAAATTATA
* * * * * * *
23309161 TTTAAGTTAAGGG-TTAGGGTTTTTTA-TTTAAGGGTTATGGTTTTAAAGTTAAGGGTTTAGGAT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGT
23309224 T
65 T
** *
23309225 TTTATTTTAAGGG-TTATGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
23309289 TTTAAGTTAAGGATTTATGATTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * * * *
23309354 TTTAGGTTAAGGGTTTATGGTTTTTAAGTTAATGATTTAGGGTTTTTAATTTAAAGGTTATGGTT
1 TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
23309419 TTTAAATTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTATGGTT
23309441 AGGGTTTTTA
Statistics
Matches: 185, Mismatches: 29, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
64 39 0.21
65 146 0.79
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (65 bp):
TTTAAGTTAAGGGTTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:23309440 original size:22 final size:22
Alignment explanation
Indices: 23309161--23309440 Score: 320
Period size: 22 Copynumber: 13.0 Consensus size: 22
23309151 GCAAATTATA
23309161 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
23309182 TTTTATTTAAGGG-TTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
23309203 TTAAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
** *
23309225 TTTATTTTAAGGG-TTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23309246 TTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23309268 TTTAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
23309289 TTTAAGTTAAGGATTTATGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23309311 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
23309333 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
23309354 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
23309376 TTTAAGTTAATGATTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
23309398 TTTAATTTAAAGG-TTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
23309419 TTTAAATTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
23309441 AGGGTTTTTA
Statistics
Matches: 215, Mismatches: 39, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
21 100 0.47
22 115 0.53
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:23309446 original size:28 final size:28
Alignment explanation
Indices: 23309409--23309463 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
23309399 TTAATTTAAA
*
23309409 GGTTATGGTTTTTAAATTAAGGGTTTAG
1 GGTTAGGGTTTTTAAATTAAGGGTTTAG
**
23309437 GGTTAGGGTTTTTAGGTTAAGGGTTTA
1 GGTTAGGGTTTTTAAATTAAGGGTTTA
23309464 ATTGTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (28 bp):
GGTTAGGGTTTTTAAATTAAGGGTTTAG
Found at i:23309722 original size:21 final size:21
Alignment explanation
Indices: 23309698--23309745 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23309688 CTTTGTCCAG
23309698 CTTCCGGCGGCGG-TTGTGGTT
1 CTTCCGGCGG-GGATTGTGGTT
* *
23309719 CTTCTGGCGGGGATTTTGGTT
1 CTTCCGGCGGGGATTGTGGTT
23309740 CTTCCG
1 CTTCCG
23309746 ATAGGACATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.23, G:0.38, T:0.38
Consensus pattern (21 bp):
CTTCCGGCGGGGATTGTGGTT
Found at i:23310028 original size:18 final size:18
Alignment explanation
Indices: 23310002--23310040 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23309992 AACTCGAAAA
* *
23310002 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
23310020 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
23310038 AGG
1 AGG
23310041 TAACGCACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.31, T:0.18
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:23311876 original size:11 final size:11
Alignment explanation
Indices: 23311862--23311938 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
23311852 TTATATATGG
23311862 ATTTGAGAGAA
1 ATTTGAGAGAA
*
23311873 ATTTG-GAAGGA
1 ATTTGAG-AGAA
23311884 ATTTGAGAGTAA
1 ATTTGAGAG-AA
23311896 A-TTGAGAGGAA
1 ATTTGAGA-GAA
23311907 ATTT-AGAGGAA
1 ATTTGAGA-GAA
*
23311918 A-ATGAGATGAA
1 ATTTGAGA-GAA
23311929 ATTTGAGAGA
1 ATTTGAGAGA
23311939 GGATTAATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 2 0.04
11 41 0.76
12 11 0.20
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:23311924 original size:33 final size:35
Alignment explanation
Indices: 23311862--23311937 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 35
23311852 TTATATATGG
* **
23311862 ATTTGAGA-GAAATTTGGAAGGAATTTGAGA-GTAA
1 ATTTGAGAGGAAATTTAGAAGGAAAATGAGATG-AA
23311896 A-TTGAGAGGAAATTTAG-AGGAAAATGAGATGAA
1 ATTTGAGAGGAAATTTAGAAGGAAAATGAGATGAA
23311929 ATTTGAGAG
1 ATTTGAGAG
23311938 AGGATTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 19 0.53
34 17 0.47
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.26
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAAATGAGATGAA
Found at i:23312157 original size:40 final size:40
Alignment explanation
Indices: 23312113--23312189 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
23312103 ACGTGGACAC
* * *
23312113 AAATCGCGCTTACGTGGACGCGATTTGCTGCCACGTCAAA
1 AAATCGCGCTGACGTGAACGCGATTTGCTGACACGTCAAA
*
23312153 AAATCGCGCTGACGTGAACGCTATTTGCTGACACGTC
1 AAATCGCGCTGACGTGAACGCGATTTGCTGACACGTC
23312190 CCTTGACATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (40 bp):
AAATCGCGCTGACGTGAACGCGATTTGCTGACACGTCAAA
Found at i:23313325 original size:21 final size:20
Alignment explanation
Indices: 23313297--23313340 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
23313287 AAATTCATTC
*
23313297 GAAGAATATATAAAAAAACT
1 GAAGAATATAAAAAAAAACT
*
23313317 GAAGAAATATAAAAAAAAATT
1 GAAG-AATATAAAAAAAAACT
23313338 GAA
1 GAA
23313341 AACCCTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.18
Consensus pattern (20 bp):
GAAGAATATAAAAAAAAACT
Found at i:23313334 original size:20 final size:20
Alignment explanation
Indices: 23313297--23313333 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
23313287 AAATTCATTC
23313297 GAAGAATATATAAAAAAACT
1 GAAGAATATATAAAAAAACT
23313317 GAAGAA-ATATAAAAAAA
1 GAAGAATATATAAAAAAA
23313334 AATTGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.70, C:0.03, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAGAATATATAAAAAAACT
Found at i:23315207 original size:21 final size:21
Alignment explanation
Indices: 23315168--23315209 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23315158 ATATAACATG
***
23315168 GGTGCTTAAAATTTTATTTTT
1 GGTGCTTAAAATGAAATTTTT
23315189 GGTGCTTAAAATGAAATTTTT
1 GGTGCTTAAAATGAAATTTTT
23315210 TGATAATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.50
Consensus pattern (21 bp):
GGTGCTTAAAATGAAATTTTT
Found at i:23316118 original size:22 final size:22
Alignment explanation
Indices: 23316074--23316119 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23316064 TAGAAGATAG
*
23316074 AAGAGAAAGAAAGAAGAAGGAA
1 AAGAGAAAGAAAGAAGAAAGAA
*
23316096 AAGAGAAGGAAA-AAGAAAAGAA
1 AAGAGAAAGAAAGAAG-AAAGAA
23316118 AA
1 AA
23316120 ACACATAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
AAGAGAAAGAAAGAAGAAAGAA
Found at i:23316434 original size:13 final size:13
Alignment explanation
Indices: 23316416--23316440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23316406 TTTATTTATT
23316416 TATTTTTGTAAGG
1 TATTTTTGTAAGG
23316429 TATTTTTGTAAG
1 TATTTTTGTAAG
23316441 AAATATAGGT
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:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
TATTTTTGTAAGG
Found at i:23318543 original size:21 final size:23
Alignment explanation
Indices: 23318517--23318564 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
23318507 AAATTTATCA
*
23318517 ATTTAA-GTTTTAAAA-CCAATG
1 ATTTAAGGTTTTAAAATCCAAAG
23318538 ATTTAAGTGTTTTAAAATCCAAAG
1 ATTTAAG-GTTTTAAAATCCAAAG
23318562 ATT
1 ATT
23318565 ATGCATGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
23 9 0.39
24 8 0.35
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (23 bp):
ATTTAAGGTTTTAAAATCCAAAG
Found at i:23318900 original size:199 final size:199
Alignment explanation
Indices: 23318655--23319054 Score: 669
Period size: 199 Copynumber: 2.0 Consensus size: 199
23318645 ACAATCCCAA
*
23318655 AAGAGTTTTAAAAACTTTATTTTAAAATGAATCTGAGAATCTCCTCCAATTGT-TGCATCCAAGT
1 AAGAGTTTTAAAAACTTTATTTTAAAATAAATCTGAGAATCTCCTCCAATT-TCTGCATCCAAGT
* *
23318719 TCTATCCTTGAGTGTTATCTGAAAAGTTTTAAGAAAACT-AAAGCAGTGAGCTAATATGCCCAGT
65 CCTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAG-AGTGAGCTAATATGCCCAGT
* * *
23318783 GTGAATTTTATATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATGAAACAAAAATATTATTAA
129 GCGAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATAAAACAAAAATATTATTAA
23318848 GCACAT
194 GCACAT
* * * *
23318854 AAGATTTTTAAATACTTTATTTTAAAATAAATTTGAGAATCTCCTCCAATTTCTGTATCCAAGTC
1 AAGAGTTTTAAAAACTTTATTTTAAAATAAATCTGAGAATCTCCTCCAATTTCTGCATCCAAGTC
*
23318919 CTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCTAGTGC
66 CTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCCAGTGC
23318984 GAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATAAAACAAAAATATTATTAAGC
131 GAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATAAAACAAAAATATTATTAAGC
23319049 ACAT
196 ACAT
23319053 AA
1 AA
23319055 TAATCAAACA
Statistics
Matches: 188, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
198 1 0.01
199 183 0.97
200 4 0.02
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (199 bp):
AAGAGTTTTAAAAACTTTATTTTAAAATAAATCTGAGAATCTCCTCCAATTTCTGCATCCAAGTC
CTATCATTGAGTGTTATCTGAAAAGTTTTAAGAAAACTAAAAGAGTGAGCTAATATGCCCAGTGC
GAATTTTACATCAAGCTTAAATAAAATAAGAAATTAGTTTAGATAAAACAAAAATATTATTAAGC
ACAT
Found at i:23321485 original size:26 final size:24
Alignment explanation
Indices: 23321439--23321490 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
23321429 TAGTTTATTA
*
23321439 ATATTTTAATTTGATTTTTAAATT
1 ATATTTTAATTTGATTATTAAATT
* *
23321463 ATATTTTATTATTTTATTATTAATTT
1 ATATTTTA--ATTTGATTATTAAATT
23321489 AT
1 AT
23321491 TTAGTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
ATATTTTAATTTGATTATTAAATT
Found at i:23327021 original size:100 final size:100
Alignment explanation
Indices: 23326848--23327356 Score: 739
Period size: 100 Copynumber: 5.1 Consensus size: 100
23326838 AACTTTTTGA
** * * * *
23326848 AAGTAAGATTCGCCCTTGTAGCTTCAATCTTATTAACTGCAATGTCGGGGAAGCAAGATTTGTCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
*
23326913 TTGTGGCTTTAATCTGTTCCACTGCACCGTCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * * * *
23326948 AAGTAAGATTCGCCGTTGTAGCTTCAATTTTTTTAATTGCAATGTCGGGGAAGCATGATTCGCCA
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* *
23327013 TTGTGGCTTCAATCTGTTCCACTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
** * *
23327048 AAGTAAGATTCATTGTTGTAGCTTTAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTTGCCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
*
23327113 TTGTGGCTTTAATCTGTTCCACCGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * *
23327148 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCGAGGAAGCAAGATTCGACG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* *
23327213 TTGTGGCTTTAGTCTGTTCCACTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* ** *
23327248 AAGTAAGATACGCTGTTGTAGCTTTAATCTTTTTAACTATAATGTCGGGGAAGCAAGATTCGCTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
*
23327313 TTGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
23327348 AAGTAAGAT
1 AAGTAAGAT
23327357 CTGTAATTTT
Statistics
Matches: 367, Mismatches: 42, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 367 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
Found at i:23327349 original size:50 final size:50
Alignment explanation
Indices: 23326895--23327356 Score: 326
Period size: 50 Copynumber: 9.2 Consensus size: 50
23326885 TGCAATGTCG
* * *
23326895 GGGAAGCAAGATTTG-TCGTTGTGGCTTTAATCTGTTCCACTGCACCGTCT
1 GGGAAGCAAGATTCGCT-GTTGTGGCTTTAATCTGTTCCACTGCATCGCCT
* * * * * * ** * * *
23326945 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATTTTTTTAATTGCAAT-GTCG
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGC-ATCGCCT
* ** * * *
23326995 GGGAAGCATGATTCGCCATTGTGGCTTCAATCTGTTCCACTACACCGCCT
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCATCGCCT
* ** * * ** *
23327045 GGGAAGTAAGATTCATTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GCCG
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGC-ATCGCCT
* * * *
23327095 GGGAAGCAAGATTTGCCGTTGTGGCTTTAATCTGTTCCACCGCACCGCCT
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCATCGCCT
* * * * ** * *
23327145 GGGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGTAAT-GTC-
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTG-CATCGCCT
* * *
23327194 GAGGAAGCAAGATTCGAC-GTTGTGGCTTTAGTCTGTTCCACTACACCGCCT
1 G-GGAAGCAAGATTCG-CTGTTGTGGCTTTAATCTGTTCCACTGCATCGCCT
* * * * ** ** * *
23327245 GGGAAGTAAGATACGCTGTTGTAGCTTTAATCTTTTTAACTATAAT-GTCG
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACT-GCATCGCCT
23327295 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCATCGCCT
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCATCGCCT
*
23327345 GGGAAGTAAGAT
1 GGGAAGCAAGAT
23327357 CTGTAATTTT
Statistics
Matches: 302, Mismatches: 97, Indels: 26
0.71 0.23 0.06
Matches are distributed among these distances:
49 7 0.02
50 289 0.96
51 6 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCATCGCCT
Found at i:23327551 original size:131 final size:130
Alignment explanation
Indices: 23327411--23327982 Score: 914
Period size: 131 Copynumber: 4.4 Consensus size: 130
23327401 TTACAACCTT
* * *
23327411 CAACTTATTCCACTGCTGACTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGG
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
* * * * *
23327476 GAAAGATATGATTTGCCGTATTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAATTT
66 G-AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
23327541 C
130 C
* *
23327542 CAACCTATTCCACT-CTTGACCAGGGAGATAGGACTTGTGGCTTAAATTTTCTTCCCTACTCCTG
1 CAACCTATTCCACTGC-TGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTG
*
23327606 GCGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
65 G-GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
23327671 TC
129 TC
*
23327673 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGACTTAAATCTGCTTCCCTACTCCTAG
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCT-G
* * * *
23327738 GGAAGATAAGATTCGTCGTCTTGGACCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTT
65 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
23327803 C
130 C
23327804 CAACCTATTCCACTGCTGACC-GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCT-G
* *
23327868 GGAAGATAAGATTCGCCGTCTTCCATCTGCTCCACTACTGCTTAGGGAGATAAGAGCTGTAATTT
65 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
23327933 C
130 C
*
23327934 CAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTAAATCT
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCT
23327983 TCCCCAGATA
Statistics
Matches: 410, Mismatches: 26, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
130 122 0.30
131 284 0.69
132 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (130 bp):
CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC
Found at i:23327660 original size:44 final size:44
Alignment explanation
Indices: 23327610--23327922 Score: 143
Period size: 44 Copynumber: 7.2 Consensus size: 44
23327600 CTCCTGGCGA
*
23327610 AGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * ** * *
23327654 AGATAAGA-TCTGTAAT-TTCCAACCTATTCCACTGCTGAC-CAGGG
1 AGATAAGATTC-GTCGTCTT-CAATCTGCTCCACTACTG-CTTAGGG
* * * *
23327698 AGATAGGACTT-GT-GACTTAAATCTGCTTCC-CTACT-CCTAGGG
1 AGATAAGA-TTCGTCGTCTTCAATCTGC-TCCACTACTGCTTAGGG
** * *
23327740 AAGATAAGATTCGTCGTCTTGGACCTGCTCCACTACTACTTAGGG
1 -AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * ** * *
23327785 AGATAAGA-TCTGTAAT-TTCCAACCTATTCCACTGCTGAC--CGGG
1 AGATAAGATTC-GTCGTCTT-CAATCTGCTCCACTACTG-CTTAGGG
* * * * *
23327828 AGATAGGACTT-GT-GGCTTAAATCTGCTTCC-CTACT-CCTGGGG
1 AGATAAGA-TTCGTCGTCTTCAATCTGC-TCCACTACTGCTTAGGG
* *
23327870 AAGATAAGATTCGCCGTCTTCCATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
23327915 AGATAAGA
1 AGATAAGA
23327923 GCTGTAATTT
Statistics
Matches: 194, Mismatches: 48, Indels: 54
0.66 0.16 0.18
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 19 0.10
43 56 0.29
44 102 0.53
45 14 0.07
46 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:23327932 original size:261 final size:262
Alignment explanation
Indices: 23327411--23327982 Score: 925
Period size: 261 Copynumber: 2.2 Consensus size: 262
23327401 TTACAACCTT
* * *
23327411 CAACTTATTCCACTGCTGACTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTCCTGG
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
* * * * *
23327476 GAAAGATATGATTTGCCGTATTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAATTT
66 GAAAGATAAGATTCGCCGTATTCGACCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATTT
* *
23327541 CCAACCTATTCCACTCTTGACCAGGGAGATAGGACTTGTGGCTTAAATTTTCTTCCCTACTCCTG
131 CCAACCTATTCCACTCTTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTG
* * *
23327606 GCGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
196 GCGAAGATAAGATTCGCCGTCTTCCATCTGCTCCACTACTGCTTAGGGAGATAAGAGCTGTAATT
23327671 TC
261 TC
*
23327673 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGACTTAAATCTGCTTCCCTACTCCTAG
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCT-G
* * * *
23327738 GG-AAGATAAGATTCGTCGTCTTGGACCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATT
65 GGAAAGATAAGATTCGCCGTATTCGACCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATT
23327802 TCCAACCTATTCCACTGC-TGACC-GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCC
130 TCCAACCTATTCCACT-CTTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCC
*
23327865 TGGGGAAGATAAGATTCGCCGTCTTCCATCTGCTCCACTACTGCTTAGGGAGATAAGAGCTGTAA
194 TGGCGAAGATAAGATTCGCCGTCTTCCATCTGCTCCACTACTGCTTAGGGAGATAAGAGCTGTAA
23327930 TTTC
259 TTTC
*
23327934 CAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTAAATCT
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCT
23327983 TCCCCAGATA
Statistics
Matches: 287, Mismatches: 21, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
261 150 0.52
262 133 0.46
263 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (262 bp):
CAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
GAAAGATAAGATTCGCCGTATTCGACCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATTT
CCAACCTATTCCACTCTTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTG
GCGAAGATAAGATTCGCCGTCTTCCATCTGCTCCACTACTGCTTAGGGAGATAAGAGCTGTAATT
TC
Found at i:23329262 original size:11 final size:13
Alignment explanation
Indices: 23329234--23329288 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 13
23329224 TATTTTTTGG
* *
23329234 TTTTTTCATTTTGT
1 TTTTTT-ATTTCGA
23329248 TTTTTTA-TT-GA
1 TTTTTTATTTCGA
23329259 TTTTTTATTTCGA
1 TTTTTTATTTCGA
23329272 TTTTTTTTATTTCGA
1 --TTTTTTATTTCGA
23329287 TT
1 TT
23329289 GTGAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
11 8 0.22
12 4 0.11
13 5 0.14
14 6 0.17
15 13 0.36
ACGTcount: A:0.13, C:0.05, G:0.07, T:0.75
Consensus pattern (13 bp):
TTTTTTATTTCGA
Found at i:23329262 original size:25 final size:27
Alignment explanation
Indices: 23329167--23329279 Score: 91
Period size: 25 Copynumber: 4.3 Consensus size: 27
23329157 TTTCCTTTTC
23329167 TTTTATCTTTTTG-TTATTTTCATTTTGA
1 TTTTAT-TTTTTGATT-TTTTCATTTTGA
23329195 TTTTGATTTTTTGA-TTTTTC-TTTT--
1 TTTT-ATTTTTTGATTTTTTCATTTTGA
*
23329219 TTCTCTATTTTTTGGTTTTTTCATTTTG-
1 TT-T-TATTTTTTGATTTTTTCATTTTGA
* *
23329247 TTTT-TTTATTGATTTTTT-ATTTCGA
1 TTTTATTTTTTGATTTTTTCATTTTGA
23329272 TTTT-TTTT
1 TTTTATTTT
23329280 ATTTCGATTG
Statistics
Matches: 72, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
24 7 0.10
25 28 0.39
26 12 0.17
27 10 0.14
28 13 0.18
29 2 0.03
ACGTcount: A:0.11, C:0.06, G:0.08, T:0.75
Consensus pattern (27 bp):
TTTTATTTTTTGATTTTTTCATTTTGA
Found at i:23329262 original size:33 final size:33
Alignment explanation
Indices: 23329195--23329268 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
23329185 TTCATTTTGA
* *
23329195 TTTTGATTTTTTGATTTTTCTTTTTTCTCTATT
1 TTTTGATTTTTTCATTTTTCTTTTTTATCTATT
*
23329228 TTTTGGTTTTTTCATTTTGT-TTTTTTAT-TGATT
1 TTTTGATTTTTTCATTTT-TCTTTTTTATCT-ATT
23329261 TTTT-ATTT
1 TTTTGATTT
23329269 CGATTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 4 0.11
33 30 0.86
34 1 0.03
ACGTcount: A:0.09, C:0.05, G:0.08, T:0.77
Consensus pattern (33 bp):
TTTTGATTTTTTCATTTTTCTTTTTTATCTATT
Found at i:23329279 original size:15 final size:15
Alignment explanation
Indices: 23329259--23329288 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23329249 TTTTTATTGA
23329259 TTTTTTATTTCGATT
1 TTTTTTATTTCGATT
23329274 TTTTTTATTTCGATT
1 TTTTTTATTTCGATT
23329289 GTGAATTTTT
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:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
TTTTTTATTTCGATT
Found at i:23329313 original size:20 final size:22
Alignment explanation
Indices: 23329271--23329313 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
23329261 TTTTATTTCG
* *
23329271 ATTTTTTTTATTTCGATTGTGA
1 ATTTTTTTTATTTCGAATCTGA
23329293 ATTTTTTTTA-TT-GAATCTGA
1 ATTTTTTTTATTTCGAATCTGA
23329313 A
1 A
23329314 CTCATAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (22 bp):
ATTTTTTTTATTTCGAATCTGA
Found at i:23341668 original size:42 final size:44
Alignment explanation
Indices: 23341573--23341674 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 44
23341563 GTGTTTCAAG
* * *
23341573 TCAGTGAGTTACATGGCCTAGCACACACGGGCATGTGTGGCAACA
1 TCAGTGAGTTACACGACCTAG-ACACACGGGCATGTGGGGCAACA
* * *
23341618 T-AGAGAGTTACACGACCTAG-CACACGGGCGTGTGGGGTAAC-
1 TCAGTGAGTTACACGACCTAGACACACGGGCATGTGGGGCAACA
23341659 TCAGTGAGTTACACGA
1 TCAGTGAGTTACACGA
23341675 GTGAAGATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 31 0.63
44 16 0.33
45 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (44 bp):
TCAGTGAGTTACACGACCTAGACACACGGGCATGTGGGGCAACA
Found at i:23342342 original size:21 final size:21
Alignment explanation
Indices: 23342308--23342347 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23342298 TGAAGTTGAT
* * *
23342308 TTAATGCTTTGTGTGAACATG
1 TTAATGCCTAGTGTAAACATG
23342329 TTAATGCCTAGTGTAAACA
1 TTAATGCCTAGTGTAAACA
23342348 CCATTAGGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (21 bp):
TTAATGCCTAGTGTAAACATG
Found at i:23344021 original size:19 final size:18
Alignment explanation
Indices: 23343978--23344017 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23343968 AGAAATTGTG
23343978 AAAAGAGAAAAATGAAAA
1 AAAAGAGAAAAATGAAAA
* * *
23343996 GAAAGAGGAAATTGAAAA
1 AAAAGAGAAAAATGAAAA
23344014 AAAA
1 AAAA
23344018 AGAGTGCGAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAGAAAAATGAAAA
Found at i:23347459 original size:26 final size:25
Alignment explanation
Indices: 23347418--23347466 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 25
23347408 TAAAATCTGT
23347418 AAAAATAAAAAATTCA-AAATTTAA
1 AAAAATAAAAAATTCATAAATTTAA
23347442 AAAAATATAAAAAGTTCATAAATTT
1 AAAAATA-AAAAA-TTCATAAATTT
23347467 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 4 0.18
27 6 0.27
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAATAAAAAATTCATAAATTTAA
Found at i:23349742 original size:27 final size:27
Alignment explanation
Indices: 23349712--23349764 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
23349702 CTGGACTTTG
*
23349712 GACATCATTAA-AACATGTAATAAAATT
1 GACA-CATTAATAACATGCAATAAAATT
*
23349739 GACACATTAATAACATGCATTAAAAT
1 GACACATTAATAACATGCAATAAAAT
23349765 AAAACACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (27 bp):
GACACATTAATAACATGCAATAAAATT
Found at i:23360607 original size:17 final size:16
Alignment explanation
Indices: 23360585--23360619 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
23360575 ATATAGTGTT
23360585 AAAAATATTATTTTTAA
1 AAAAATA-TATTTTTAA
23360602 AAAAATATATTTTTAA
1 AAAAATATATTTTTAA
23360618 AA
1 AA
23360620 TTTTTAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAAATATATTTTTAA
Found at i:23361484 original size:31 final size:32
Alignment explanation
Indices: 23361449--23361509 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
23361439 AAAATGAATC
23361449 TAGACAATAATTTG-TCCTG-TTCATTTTAATT
1 TAGACAATAATTTGTTCC-GATTCATTTTAATT
*
23361480 TAGACAATCATTTGTTCCGATTCATTTTAA
1 TAGACAATAATTTGTTCCGATTCATTTTAA
23361510 ATGCATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.46
Consensus pattern (32 bp):
TAGACAATAATTTGTTCCGATTCATTTTAATT
Found at i:23361813 original size:7 final size:7
Alignment explanation
Indices: 23361801--23361831 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
23361791 AAATTATAAA
23361801 AAATATT
1 AAATATT
23361808 AAATATT
1 AAATATT
23361815 AAATATT
1 AAATATT
23361822 AAATATT
1 AAATATT
23361829 AAA
1 AAA
23361832 AAATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:23361873 original size:9 final size:9
Alignment explanation
Indices: 23361790--23361961 Score: 78
Period size: 9 Copynumber: 19.4 Consensus size: 9
23361780 AAAATCATAA
*
23361790 AAAATTATA
1 AAAATTATT
*
23361799 AAAAATATT
1 AAAATTATT
23361808 -AAA-TATT
1 AAAATTATT
23361815 -AAA-TATT
1 AAAATTATT
23361822 -AAA-TATT
1 AAAATTATT
*
23361829 AAAA--AAT
1 AAAATTATT
*
23361836 AAAATAAATT
1 AAAAT-TATT
*
23361846 AAAATTGACAT
1 AAAATT-A-TT
*
23361857 AAACTTATT
1 AAAATTATT
23361866 AAAATTATAT
1 AAAATTAT-T
*
23361876 AATATTA-T
1 AAAATTATT
23361884 AAATATTA-T
1 AAA-ATTATT
23361893 AAAATTA-T
1 AAAATTATT
*
23361901 AAAATAATAT
1 AAAATTAT-T
*
23361911 AAAATTAAT
1 AAAATTATT
23361920 AAAATTTATTT
1 AAAA-TTA-TT
**
23361931 AAAATTAAA
1 AAAATTATT
**
23361940 AAAATTAAA
1 AAAATTATT
23361949 AAAATTATT
1 AAAATTATT
23361958 AAAA
1 AAAA
23361962 AATAAAAAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
7 24 0.18
8 20 0.15
9 48 0.36
10 29 0.22
11 11 0.08
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATTATT
Found at i:23361883 original size:19 final size:19
Alignment explanation
Indices: 23361790--23362009 Score: 115
Period size: 20 Copynumber: 11.7 Consensus size: 19
23361780 AAAATCATAA
*
23361790 AAAATTATA-AAAAATATT
1 AAAATTATATAAAATTATT
*
23361808 AAATATTAAATATTAAA-TATT
1 AAA-ATT--ATATAAAATTATT
*
23361829 AAAA--A-ATAAAATAAATT
1 AAAATTATATAAAAT-TATT
* *
23361846 AAAATTGACATAAACTTATT
1 AAAATT-ATATAAAATTATT
*
23361866 AAAATTATATAATATTA-T
1 AAAATTATATAAAATTATT
23361884 -AAA-TATTATAAAATTA-T
1 AAAATTA-TATAAAATTATT
* *
23361901 AAAATAATATAAAATTAAT
1 AAAATTATATAAAATTATT
* **
23361920 AAAATTTATTTAAAATTAAA
1 AAAA-TTATATAAAATTATT
*
23361940 AAAATTA-AAAAAATTATT
1 AAAATTATATAAAATTATT
* *
23361958 AAAA-AATAAAAAAATTTATT
1 AAAATTAT-ATAAAA-TTATT
* *
23361978 AAAATTGATATAAACTTA-G
1 AAAATT-ATATAAAATTATT
23361997 AAAATTATA-AAAA
1 AAAATTATATAAAA
23362010 AAAGATCAAA
Statistics
Matches: 159, Mismatches: 23, Indels: 41
0.71 0.10 0.18
Matches are distributed among these distances:
15 5 0.03
16 3 0.02
17 24 0.15
18 31 0.19
19 32 0.20
20 39 0.25
21 20 0.13
22 5 0.03
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAATTATATAAAATTATT
Found at i:23361895 original size:27 final size:27
Alignment explanation
Indices: 23361855--23361970 Score: 96
Period size: 27 Copynumber: 4.2 Consensus size: 27
23361845 TAAAATTGAC
* * * *
23361855 ATAAACTTATTAAAATTATATAATATT
1 ATAAAATTAATAAAATTATAAAATAAT
23361882 ATAAATATT-ATAAAATTATAAAATAAT
1 ATAAA-ATTAATAAAATTATAAAATAAT
23361909 ATAAAATTAATAAAATTTATTTAAAATTAA-
1 ATAAAATTAATAAAA-TTA--TAAAA-TAAT
*
23361939 A-AAAATTAAAAAAATTATTAAAA-AAT
1 ATAAAATTAATAAAATTA-TAAAATAAT
*
23361965 AAAAAA
1 ATAAAA
23361971 ATTTATTAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 16
0.78 0.05 0.16
Matches are distributed among these distances:
25 2 0.03
26 4 0.05
27 41 0.54
28 8 0.11
29 12 0.16
30 6 0.08
31 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
ATAAAATTAATAAAATTATAAAATAAT
Found at i:23361942 original size:28 final size:28
Alignment explanation
Indices: 23361911--23362008 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 28
23361901 AAAATAATAT
23361911 AAAATTAATAAAATTTATTTAAAATTAAA
1 AAAATTAATAAAATTTATTTAAAATT-AA
* * *
23361940 AAAATTAA-AAAAATTATTAAAAAATAAA
1 AAAATTAATAAAATTTATT-TAAAATTAA
* * * * *
23361968 AAAATTTATTAAAATTGATATAAACTTAG
1 AAAA-TTAATAAAATTTATTTAAAATTAA
23361997 AAAATT-ATAAAA
1 AAAATTAATAAAA
23362009 AAAAGATCAA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 5 0.09
28 17 0.31
29 25 0.46
30 7 0.13
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATTAATAAAATTTATTTAAAATTAA
Found at i:23361970 original size:9 final size:9
Alignment explanation
Indices: 23361931--23361973 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
23361921 AAATTTATTT
23361931 AAAATTAAA
1 AAAATTAAA
23361940 AAAATTAAA
1 AAAATTAAA
23361949 AAAATTATTAA
1 AAAATTA--AA
23361960 AAAA-TAAA
1 AAAATTAAA
23361968 AAAATT
1 AAAATT
23361974 TATTAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.19
9 17 0.55
10 2 0.06
11 6 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAATTAAA
Found at i:23362495 original size:29 final size:28
Alignment explanation
Indices: 23362427--23362497 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
23362417 CCAGTTAAAG
* ** *
23362427 TTTTTATGATTTTTTTACTTTTTATAAC
1 TTTTTATAATTTTAATACTTTGTATAAC
* *
23362455 TTTATATCAATTTTAATACTTTGTATAATT
1 TTTTTAT-AATTTTAATACTTTGTATAA-C
23362485 TTTTTATAATTTT
1 TTTTTATAATTTT
23362498 TTATGATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 6 0.18
29 22 0.65
30 6 0.18
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTTATAATTTTAATACTTTGTATAAC
Found at i:23362527 original size:20 final size:19
Alignment explanation
Indices: 23362485--23362570 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 19
23362475 TTGTATAATT
* *
23362485 TTTTTATAATTTTTTATGA
1 TTTTTATAAATTTTAATGA
*
23362504 TTTTTATAGAATTTTAATGG
1 TTTTTATA-AATTTTAATGA
* *
23362524 TTTTGATAAAATTTTAAATTA
1 TTTTTAT-AAATTTT-AATGA
*
23362545 TGTTTTATTAATTTTATAT-A
1 T-TTTTATAAATTTTA-ATGA
23362565 TTTTTA
1 TTTTTA
23362571 ATTTATTAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 13 0.24
20 23 0.43
21 13 0.24
22 5 0.09
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTATAAATTTTAATGA
Found at i:23362569 original size:10 final size:10
Alignment explanation
Indices: 23362485--23362658 Score: 52
Period size: 9 Copynumber: 18.3 Consensus size: 10
23362475 TTGTATAATT
23362485 TTTTTATA-A
1 TTTTTATATA
23362494 TTTTT-TATGA
1 TTTTTATAT-A
*
23362504 TTTTTATAGA
1 TTTTTATATA
* *
23362514 ATTTTA-ATGG
1 TTTTTATAT-A
* *
23362524 TTTTGATAAA
1 TTTTTATATA
* *
23362534 ATTTTAAATTA
1 TTTTTATA-TA
23362545 TGTTTTAT-TA
1 T-TTTTATATA
*
23362555 ATTTTATATA
1 TTTTTATATA
23362565 TTTTTA-AT-
1 TTTTTATATA
* *
23362573 TTATTAGAT-
1 TTTTTATATA
23362582 TCTTTTATAT-
1 T-TTTTATATA
23362592 TTTTTATA-A
1 TTTTTATATA
* *
23362601 TATTTAGA-A
1 TTTTTATATA
*
23362610 TTTTTATATG
1 TTTTTATATA
*
23362620 TTTATAT-TA
1 TTTTTATATA
* *
23362629 ATTTT-CATA
1 TTTTTATATA
*
23362638 TTTTTA-ATT
1 TTTTTATATA
23362647 TTTTTA-ATA
1 TTTTTATATA
23362656 TTT
1 TTT
23362659 AATAATTTGT
Statistics
Matches: 119, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
8 7 0.06
9 60 0.50
10 43 0.36
11 4 0.03
12 5 0.04
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.63
Consensus pattern (10 bp):
TTTTTATATA
Found at i:23362578 original size:24 final size:26
Alignment explanation
Indices: 23362548--23362595 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
23362538 TAAATTATGT
23362548 TTTATTA-ATT-TTATATATTTTTAA
1 TTTATTAGATTCTTATATATTTTTAA
*
23362572 TTTATTAGATTCTTTTATATTTTT
1 TTTATTAGATTCTTATATATTTTT
23362596 TATAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTATTAGATTCTTATATATTTTTAA
Found at i:23362604 original size:27 final size:28
Alignment explanation
Indices: 23362556--23362677 Score: 69
Period size: 26 Copynumber: 4.5 Consensus size: 28
23362546 GTTTTATTAA
*
23362556 TTTTATATATTTTTAATTTA-TTAG-AT
1 TTTTATATATTTTTAATATATTTAGAAT
*
23362582 TCTTT-TATATTTTTTATAATATTTAGAAT
1 T-TTTATATATTTTTAAT-ATATTTAGAAT
* * * **
23362611 TTTTATATGTTTATATTA-ATTTTCATAT
1 TTTTATATATTTTTAATATATTTAGA-AT
* * *
23362639 TTTTA-ATTTTTTTAATAT-TTAATAAT
1 TTTTATATATTTTTAATATATTTAGAAT
*
23362665 TTGTATA-ATTTTT
1 TTTTATATATTTTT
23362678 TGATTATTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 16
0.69 0.15 0.15
Matches are distributed among these distances:
26 23 0.32
27 23 0.32
28 15 0.21
29 11 0.15
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTATATATTTTTAATATATTTAGAAT
Found at i:23362606 original size:18 final size:18
Alignment explanation
Indices: 23362585--23362673 Score: 60
Period size: 18 Copynumber: 4.9 Consensus size: 18
23362575 ATTAGATTCT
23362585 TTTATATTTTTTATAATA
1 TTTATATTTTTTATAATA
* * *
23362603 TTTAGAATTTTTAT-ATG
1 TTTATATTTTTTATAATA
*
23362620 TTTATATTAATTTTCAT-ATT
1 TTTATATT--TTTT-ATAATA
23362640 TTTA-ATTTTTT-TAATA
1 TTTATATTTTTTATAATA
* *
23362656 TTTAATAATTTGTATAAT
1 TTT-ATATTTTTTATAAT
23362674 TTTTTGATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
15 1 0.02
16 5 0.09
17 13 0.24
18 17 0.31
19 11 0.20
20 8 0.15
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTTATAATA
Found at i:23366488 original size:22 final size:22
Alignment explanation
Indices: 23366460--23366503 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23366450 GTATGATTGT
*
23366460 ACATAGCCAAAGACGACTTTGA
1 ACATAGCCAAAGACGACGTTGA
23366482 ACATAGCCAAAGACGACGTTGA
1 ACATAGCCAAAGACGACGTTGA
23366504 GCTATTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (22 bp):
ACATAGCCAAAGACGACGTTGA
Found at i:23376418 original size:22 final size:20
Alignment explanation
Indices: 23376393--23376447 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
23376383 AAAAAAATTC
*
23376393 AACAAAAAGAAATATGAAATAT
1 AACAAAAAGAAA-AT-AAAAAT
*
23376415 AACATAAAGAAAATAAAAAT
1 AACAAAAAGAAAATAAAAAT
23376435 AA-AAATAAGAAAA
1 AACAAA-AAGAAAA
23376448 AAAGAAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.48
21 2 0.07
22 11 0.38
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (20 bp):
AACAAAAAGAAAATAAAAAT
Found at i:23386875 original size:481 final size:485
Alignment explanation
Indices: 23385974--23394595 Score: 6819
Period size: 516 Copynumber: 17.3 Consensus size: 485
23385964 GGGTCTCAAC
* * *
23385974 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAACTGTCGAGAATACACAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* *
23386039 GCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCTA-TTTTCCTTTTTATAACCATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
*
23386103 TCACTTCCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
131 TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
23386168 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
196 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
23386233 AATTTGCAACATCATCATATACATGC-TCC-CA-CATC-CATTCATATTTATCAAGTAG-TTCTT
261 AATTTGCAACATCATCATATACATGCATCCACATCATCTCATTCATATTTATCAAGTAGTTTCTT
23386293 ATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATA
326 ATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATA
23386358 TATACAAAAACACAATTAAAATATAACACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAA
391 TATACAAAAACACAATTAAAATATAACACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAA
23386423 AATGGCAACTAGAAAGTTTCAGGGACTAAT
456 AATGGCAACTAGAAAGTTTCAGGGACTAAT
* * * * * *
23386453 AATCACAGATTTCTATATAATGATCCGATACTACTCATTCGAGCTTTCGAGAATCCATAATTTGC
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* * **
23386518 GCTGGATCTCTACCATAGAAGAAATCTCTAATCACGATTCCCATTTTTTCCTTTTTATAACCATA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCA-TTTTTCCTTTTTATAACCATA
* * *
23386583 ATCACTTTCCATTCTTATCTAAACCATTAGTTAAATTCATACAGGTACTTTTACCGATTTCGTAT
130 ATCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTAT
23386648 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTT
195 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTT
23386713 AAATTTGCAACATCATCATATACATGC-TCC-CA-CATC-CATTCATATTTATCAAGTAGTTT-T
260 AAATTTGCAACATCATCATATACATGCATCCACATCATCTCATTCATATTTATCAAGTAGTTTCT
*
23386773 TATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTAAATAT
325 TATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATAT
* * **
23386838 ATGTACAAAAACACAATTAAAATATAATACGAAAATGCAGTAACTTCCATATGAACAAACCTAGA
390 ATATACAAAAACACAATTAAAATATAACACGAAAATGCAGTAACTTCCATATGAACTTACCTAGA
*
23386903 AAATGGCAACTAGAAAGTTTTAGGGACTAAT
455 AAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * * *
23386934 CATCATAGATTGCTATATAATTATCCGATACTGCTCACTCGAGCTGTCGAGAATACACAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* * * *
23386999 GCTGGATCTCAACCATCAAATAAATCTATAATCACGATTCCCATTTTTCCTTTTTCTAACCATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
* ** *
23387064 TCACTTTCCATTCGTATCTAAACCATTTGTTAAATTCATACAGGTAATTTTACCAATTTCGTCTC
131 TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
*
23387129 ATTTCAAACTCTTTAATTGTATACACACATTAGTTTTTTTGAATAACAATTCTCTATACATTTTA
196 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
**
23387194 AATTTTTAACATCATCATATACATGCTATCCAACAACATACCATTCTCACATCCATTCAATGTCA
261 AATTTGCAACATCATCATATACATG----------------CA-TC-CACAT-CA-TC----TC-
23387259 TGAATCTCTTCATATTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
301 ---A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
*
23387323 CATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAA
359 CATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAA
*
23387388 ATGCAGAAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
424 ATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
23387450 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
*
23387515 GCTGGATCTCAACCATCGAATAAATCTCTAATCACGATTCCCATTTTTCC-TTTTATAACCATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
23387579 TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACC-ATTTCGTATC
131 TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
23387643 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
196 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
23387708 AATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCA
261 AATTTGCAACATCATCATATACATG----------------CA-T-CCACAT-CA-TC----TC-
*
23387773 TGAATCTCTTCATATTTATCAAGTA-TTTCTTATTTTAAGATTTGATCCATTTTATATAAAAAGC
301 ---A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
* * * * *
23387837 CATTCAATCAAAAAGTA-ATTATATTTAATATATATACAAAAACACAATTAAAATATAATACGAA
359 CATTAAATCTACAATTATA-TATATTTAATATATATACAAAAACACAATTAAAATATAACACGAA
23387901 AATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
423 AATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * *
23387964 CATCACAGATTGCTATATAATGATCCGATACTGCTCAGTCGAGCTGTCGGGAATCCACAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* *
23388029 GCTGGATC-AAACCATCGAATAAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
*
23388093 TCACTTTCCATT-TTGATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTCCCAATTTCGTAT
131 TCACTTTCCATTCTT-ATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTAT
23388157 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTT
195 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTT
23388222 AAATTTGCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTC
260 AAATTTGCAACATCATCATATACATG----------------CA-T-CCACAT-CA-TC----TC
23388287 ATGAATCTCTTCATATTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATATAAAAAG
301 ----A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAG
23388351 CCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAA
358 CCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAA
*
23388416 AATGCAATAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
423 AATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * * * * * *
23388479 CATCACAGATTGCTATATAATGATCTGA-ATTTG-T-GCT-G-GATCTC-A-ACATCGAATAA-A
1 CATCACAGATTGCTATATAATGATCCGATA-CTGCTCACTCGAGCTGTCGAGA-ATC-CATAATT
* * * ** ** * * * * ** * *
23388536 TCT-CT--A-ATC-ACGATTCCCATTTTTCCTTTTTATAACCA-TAACA-CTTTCCATTCTTATC
63 TGTGCTGGATCTCAACCA-TCGAATTAAT-C-TCTAATCACGATTCCCATTTTTCC-TT-TT-TA
** * * * * * * ***
23388594 TAAACCATTTGTTAAATTCATACAGGTTCTT-T-T--ACCATTTCGTATCATTTCAAACTCTTTA
122 T-AACCA--TAATCACTT--TCCA--TTCTTATCTAAACCATTT-GT-TAAATTCATACAGGTT-
* * ** *** * * * *
23388655 ATTGTATACACACA-TTAGT-T-ATTTTGAA-T-AACAATTCTCT--ATACATT--TTAAATTTG
177 CTT-T-TAC-CA-ATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTT-ATTTTG
* * ***** * * * **
23388711 -A-AAC-ATTATCATATACATTCT-ATCCAACAACATACCATTCCCACATCCATTCAGT-GTCAT
237 AATAACAATTCTC-TATACATTTTAAATTTGCAACAT--CA-T--CATATACATGCA-TCCACAT
*
23388771 GAATCTC-TTCATATTTATC-AGTAG-TTCTTATTTTACGA-TTGATCCATTTTATATAAAAAGC
295 -CATCTCATTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
23388832 CATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAA
359 CATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAA
* * *
23388897 ATGCAATAGCTCCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
424 ATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * * * * * * *
23388959 CATCACAGATTGCTATATAATGATCTGA-ATTTG-T-GCT-G-GATCTCAAGCATCGAATAA---
1 CATCACAGATTGCTATATAATGATCCGATA-CTGCTCACTCGAGCTGTCGAGAATC-CATAATTT
* * *** * * ****
23389016 AT-C----TCT-AATCA-CG-A-T--TC-C----CATTTTTTCC-TTTTT-ATAACCATAACCAC
64 GTGCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCA-
* * * * * * * *
23389063 T-TTC-CATT-CTTATCTAAAC--CAT---TTGTTAAATTCATACAGGTTCTTTTACCGATTTCG
128 TAATCACTTTCCAT-TCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCG
23389120 TATCATTTCAAACTCTTTAATTGTATACACACATTAGTTA-TTTGAA-AACAATTCTCTATACAT
192 TATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACAT
*
23389183 TTT-AATTTGCAACATCATCATATGCATGCTATCCAACAACATACCATTCTCACATCCATTCAAT
257 TTTAAATTTGC-A-A-CATC--AT-CA---TAT------ACAT-GCA-TC-CACAT-CA-TC---
23389247 GTCATGAATCTCTTCATATTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATATAAA
299 -TC----A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAA
* *
23389311 AAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATAAAATAC
355 AAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACAC
* *
23389376 GAAAATGCAGAAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGCGACTAA
420 GAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAA
23389441 T
485 T
23389442 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
*
23389507 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCA-TTTTCCTTTTTATAACGATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
*
23389571 TTACTTTCCATT-TTATCTAAACCATTTGTTAAATTCATACA-GTTCTTTTACCAATTTCGTATC
131 TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
23389634 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
196 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
*
23389699 AATTTGCAACATTATCATATACATTCTATCCAACAACATACCATTCCCACATCCATTCAGTGTCA
261 AATTTGCAAC---ATC--AT-CA---TAT------ACAT-GCA-T-CCACAT-CA-TC----TC-
23389764 TGAATCTCTTCATATTTATCAAGTAG-TTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
301 ---A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
23389828 CATTAAATCTACAATTATATATATTTAATATATATACAAAAA-ACAATTAAAATATAACACGAAA
359 CATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAA
* *
23389892 ATGCAATAACTCCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
424 ATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * * * * * * * *
23389954 CATCACAGATTGCTATATAATGATCTGA-ATTTG-T-GCT-G-GATCTCAAGCATCGAATAA-AT
1 CATCACAGATTGCTATATAATGATCCGATA-CTGCTCACTCGAGCTGTCGAGAATC-CATAATTT
* * * ** ** * * * * ** * *
23390013 CT-CT--A-ATC-ACGATTCCCATTTTTCCTTTTTATAACCATAACCA--CTTCCATTCTTATCT
64 GTGCTGGATCTCAACCA-TCGAATTAAT-C-TCTAATCACGATTCCCATTTTTCC-TT-TT-TAT
** * * * * * * *** *
23390071 AAACCATTTGTTAAATTCTACAGGTTCTT-T-T--ACCGATTTCGTATCATTTCAAACTCTTTAA
123 -AACCA--TAATCACTT-TCCA--TTCTTATCTAAACC-ATTT-GT-TAAATTCATACAGGTT-C
* * * * * * *
23390132 TTGTATACACACA-TTAGT-T-ATTTTGAAA-AC---AATTCTCT--ATACATT--TTAAATTTG
178 TT-T-TAC-CA-ATTTCGTATCA-TTTCAAACTCTTTAATTGTATACACACATTAGTT-ATTTTG
* * *** *
23390186 CAACATCATCATATGCATGCTATCCAACAACATACCATTCT-C-ACATC--CAT-T-CAATGTCA
237 --A-AT-AACA-ATTC-T-CTAT---ACATTTTA-AATT-TGCAACATCATCATATAC-ATG-CA
*
23390245 T-GA-A-C--CTC-TTCATATTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATATA
288 TCCACATCATCTCATTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATA
* * *
23390303 AAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTGAAATAAAAT
353 AAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAAC
* * * *
23390368 ACGAAAATGCAGAAACTTCCACATGAACTTACCTAGAAAATGACAACTAGAAAGTTTCAGCGACT
418 ACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACT
23390433 AAT
483 AAT
*
23390436 CATCACAGATTGCTATATACTGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* *
23390501 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGGTTCCCATTTTTCCTTTTTATAACGATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
* * * *
23390566 TTACTTTCCATTTTTATCTAAACCATTT-TCTAAATTTATACAGGTTCTTTTTCCAATTTCGTAT
131 TCACTTTCCATTCTTATCTAAACCATTTGT-TAAATTCATACAGGTTCTTTTACCAATTTCGTAT
23390630 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTT
195 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTT
* *
23390695 AAATTTGAAACATTATCATATACATTCTATCCAACAACATACCATTCCCACATCGATTCAGTGTC
260 AAATTTG---CA--A-C--AT-CA-TC-AT---A-TACAT-GCA-T-CCACATC-A-TC----TC
* *
23390760 ATGAATCTCTTCATATTTATCAGGTAG-TTCTTATTTTACGAGTTGATCCATTTTATATAAAAAG
301 ----A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAG
23390824 CCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAA
358 CCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAA
* * *
23390889 AATGCAATAACTCCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGAACTAAT
423 AATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * ** * * * *
23390952 CATCACAGATTGCTATATACTGATCTGAATTTGTGTTGGATCTCAAGC-ATC--GAAT--A-AAT
1 CATCACAGATTGCTATATAATGATCCG-A-TACTGCT-CA-CTCGAGCTGTCGAGAATCCATAAT
* ** *** ** * * * * ** *
23391011 CTCTAAT-CACGAT-TC--CCAT-TTTTTCCT-TTTTATAACCATAACCA-CTTTCCATTCTTAT
62 -T-T-GTGCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCC-TT-TT-T
* ** * * * * * * * ***
23391069 CTAAACCATTTGTTAAATTCTGACAGGTTCTT-T-T--ACCGATTTCGTATCATTTGAAACTCTT
121 AT-AACCA--TAATCACTT-T-CCA--TTCTTATCTAAACC-ATTT-GT-TAAATTCATACAGGT
* * * * ** * * * *
23391130 TAATTGTATACACACA-TTAGT-TTATTTGAAAAGC---AATTCTCT--ATACATT--TTAAATT
176 T-CTT-T-TAC-CA-ATTTCGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTT-ATTT
* * * * *
23391186 TGCAACATCATCATATGCATGCTATCCAACAATATACCATTCT-C-ACATC--CAT-T-CAATGT
235 TG--A-AT-AACA-ATTC-T-CTAT---ACATTTTA-AATT-TGCAACATCATCATATAC-ATG-
*
23391245 CAT-GA-A-C--CTC-TTCATATTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATA
286 CATCCACATCATCTCATTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATA
*
23391303 TAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATAAA
351 TAAAAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATA
* * *
23391368 ATACGAAAATGCAGAAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGCGA
416 ACACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGA
23391433 CTAAT
481 CTAAT
*
23391438 CATCACAGATTGCTATATACTGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* **
23391503 GCTGGATCTCAACTATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACGTTAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
* * * *
23391568 TTACTTTCCATTTTTCTCTAAACCATTTGTTAAATTCATACAAGTTCTTTTACCAATTTCGTATC
131 TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
23391633 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
196 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
*
23391698 AATTTGCAACATTATCATATACATTCTATCCAACAACATACCATTCCCACATCCATTCAGTGTCA
261 AATTTGCAAC---ATC--AT-CA---TAT------ACAT-GCA-T-CCACAT-CA-TC----TC-
*
23391763 TAATCTCTTAATATTTATCAAGTA-TTTCTTATTTTACGAGTTGATCCATTTTATATAAAAAGCC
301 --AT-TC---ATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCC
23391827 ATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAAA
360 ATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAAA
* * * *
23391892 TGCAATAACTCCCATTTGAACTTACCTAGAAAATGGCAACAAGAAAGTTTCAGGGACTAAT
425 TGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * * * * * * *
23391953 CATCACAGATTGCTATATAATGATCTGA-ATTTG-T-GCT-G-GATCTCAAGCATCGAATAA---
1 CATCACAGATTGCTATATAATGATCCGATA-CTGCTCACTCGAGCTGTCGAGAATC-CATAATTT
* * * *** * * ****
23392010 AT-C----TCT-AATCA--GGA-T--TC-C----CATTTTTTCC-TTTTT-ATAACCATAACCAC
64 GTGCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCA-
* * * * * * * * * *
23392057 T-TTC-CATT-CTTATCTAAAC--CAT---TTGTTAAATTCATACACGTTCTTTTATCGATTTCG
128 TAATCACTTTCCAT-TCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCG
* * *
23392114 GATCATTTCAAACTCTTTAATTGTATACACACATTAGTTTTTTTGAATAGCAATTCTCTATACAT
192 TATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACAT
*
23392179 TTTAAATTTGCAACATCATCATATGCATGCTATCCAACAACATACCATTCTCACATCCATTCAAT
257 TTTAAATTTGC-A-A-CATC--AT-CA---TAT------ACAT-GCA-TC-CACAT-CA-TC---
23392244 GTCATGAATCTCTTCATATTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATATAAA
299 -TC----A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAA
* *
23392308 AAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATAAAATAC
355 AAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACAC
* * *
23392373 GAAAATGCAGAAACTTCCATATGAACTTACCTAGAAAATGACAACTAGAAAGTTTCAGCGACTAA
420 GAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAA
23392438 T
485 T
*
23392439 CATCACAGATTGCTATATAATGATCCGGTACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* *
23392504 GCTGGATCTCGACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACGATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
* * * *
23392569 TTACTTTCCATTTTTATCTAAACCATTTGCTAAATTCATACAGGTTCTTTTTCCAATTTCGTATC
131 TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
*
23392634 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTT
196 ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
*
23392699 AATTTGCAACATTATCATATACATTCTATCCAACAACATACCATTCCCACATCCATTCAGTGTCA
261 AATTTGCAAC---ATC--AT-CA---TAT------ACAT-GCA-T-CCACAT-CA-TC----TC-
*
23392764 TGAATCTCTTAATATTTATCAAGTA-TTTCTTATTTTACGAGTTGATCCATTTTATATAAAAAGC
301 ---AT-TC---ATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGC
23392828 CATTAAATCTACAATTATATATATTTAATATATATACAAAAAACACAATTAAAATATAACACGAA
359 CATTAAATCTACAATTATATATATTTAATATATATAC-AAAAACACAATTAAAATATAACACGAA
* *
23392893 AATGCAATAACTTCCATATGAAATTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
423 AATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
* * * * *
23392956 CATCACAGATTGCTATATAATGATCTGAATTTCTGCTGCATTTCAAGC-ATC--GAAT--A-AA-
1 CATCACAGATTGCTATATAATGATCCG-A-TACTGCT-CA-CTCGAGCTGTCGAGAATCCATAAT
* * ** * * ****
23393014 ---T-C----TCT-AATCA--GGA-T--TC-C-AAT---TTTTTCC-TTTTT-ATAACCATAACC
62 TTGTGCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACC
** * * * * * *
23393058 ACTTTTCA--TT-CTTATCTAAAC--CAT---TTGTTAAATTCATACAGGTTCTTTTACCGATTT
127 A-TAATCACTTTCCAT-TCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTT
* * * *
23393115 TGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTTTTTTGAGTAGCAATTCTCTATAC
190 CGTATCATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATAC
* *
23393180 ATTTTAAATTTGCAACATCATCATATGCATGTTATCCAACAACATACCATTCTCATATCCATTCA
255 ATTTTAAATTTGCAACATCATCATATACATG-CAT-C--C-ACAT--CA-TCTCAT-T-CA-T--
*
23393245 ATGTCATGAATCTCTTCATATTTATTAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAA
307 AT-T--T--A-----TC--A---AGT-AG--TTTCTTATTTTACGATTTGATCCATTTTATATAA
* * *
23393310 AAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTGAAATAAAATA
354 AAAGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACA
* * * *
23393375 CGAAAATGTAGAAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTTAGCGACTA
419 CGAAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTA
23393440 AT
484 AT
*
23393442 CATCACAGATTGCTATATAATGATCCGCTACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
*
23393507 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACGATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
* *
23393572 TTACTTTCCACTT-TTATCTAAACCATTTGTTAAATTCGTACAGGTTCTTTTACCAATTTCGTAT
131 TCACTTTCCA-TTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTAT
*
23393636 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATAAATTTT
195 CATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTT
* *
23393701 AAATTTGAAACATTATCATATACATTCTATCCAACAACATACCATTCCCACATCGATTCAGTGTC
260 AAATTTG---CA--A-C--AT-CA-TC-AT---A-TACAT-GCA-T-CCACATC-A-TC----TC
* *
23393766 ATGAATCTCTTCATATTTATCAGGTAG-TTCTTATTTTACGAGTTGATCCATTTTATATAAAAAG
301 ----A----TTCATATTTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAAAG
* *
23393830 CCATTGAATCTACAATTATATATATTTAATATATATACAAAAAAACAATTAAAATATAACACGAA
358 CCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAA
* * * **
23393895 AATACAATAACTCCCATATGAACTTACCTAGAAAATGGCAAGAAGAAAGTTTCAGGGACTAAT
423 AATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
23393958 CATCACAGATTGC----T-AT-AT---A-A-TG---A-T----C--T---G-------AATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* * *
23393992 GCTGGATCTCAAGCATCGAATAAATCTCT-ATCACGATTCCAATTTTTTCCTTTTTATAACCATA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCA-TTTTTCCTTTTTATAACCATA
* *
23394056 ACCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCGATTTCGTAT
130 ATCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTAT
23394121 CATTTCAAACTCTTTAATTGTATACACACATTAGTT-TATTTGAA-AAGCAATTCTCTATACATT
195 CATTTCAAACTCTTTAATTGTATACACACATTAGTTAT-TTTGAATAA-CAATTCTCTATACATT
*
23394184 TTAAATTTGCAACATCATCATATGCATGCTATCCAACAACATACCATTCTCACATCCATTCAATG
258 TTAAATTTGCAACATCATCATATACATGC-AT----C--C--A-CA---T--CAT-C--TC-AT-
23394249 TCATGAACCTTTTCATACTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATATAAAA
303 TC----A-----T-AT--TTATCAAGTAGTTTCTTATTTTACGATTTGATCCATTTTATATAAAA
* * **
23394313 AGCCATTAAATCTAAAATTATATATATTTAATATATATACAAAAACACAATTAAAATAAAATTCG
356 AGCCATTAAATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACG
* * *
23394378 AAAATGCAGAAACTTCCATATGAACTTACCTAGAAAATGACAACTAGAAAGTTTCAGCGACTAAT
421 AAAATGCAGTAACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAAT
*
23394443 CATCACAGATTGCTATATAATGATCCGATACTACTCACTCGAGCTGTCGAGAATCCATAATTTGT
1 CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
* * *
23394508 GCTGGATCTCGACCATCGAATTAATCTCTAATCACGTTTCCCATTTTTCCTTTTTATAACGATAA
66 GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
* *
23394573 TTACTTTCCATTTTTATCTAAAC
131 TCACTTTCCATTCTTATCTAAAC
23394596 TTTAAAAAAT
Statistics
Matches: 6747, Mismatches: 773, Indels: 1209
0.77 0.09 0.14
Matches are distributed among these distances:
446 1 0.00
447 5 0.00
448 4 0.00
449 7 0.00
450 3 0.00
451 16 0.00
452 2 0.00
453 13 0.00
454 19 0.00
455 12 0.00
456 4 0.00
457 4 0.00
458 3 0.00
459 2 0.00
460 1 0.00
461 5 0.00
462 1 0.00
464 4 0.00
465 5 0.00
466 6 0.00
467 7 0.00
468 5 0.00
469 3 0.00
470 4 0.00
471 8 0.00
472 9 0.00
473 4 0.00
474 10 0.00
475 16 0.00
476 19 0.00
477 6 0.00
478 16 0.00
479 126 0.02
480 381 0.06
481 606 0.09
482 176 0.03
483 215 0.03
484 56 0.01
485 539 0.08
486 550 0.08
487 207 0.03
488 26 0.00
489 22 0.00
490 39 0.01
491 29 0.00
492 20 0.00
493 15 0.00
494 21 0.00
495 18 0.00
496 8 0.00
497 12 0.00
498 20 0.00
499 6 0.00
500 14 0.00
501 6 0.00
502 6 0.00
503 21 0.00
504 15 0.00
505 26 0.00
506 32 0.00
507 25 0.00
508 38 0.01
509 50 0.01
510 105 0.02
511 92 0.01
512 167 0.02
513 243 0.04
514 493 0.07
515 654 0.10
516 1089 0.16
517 152 0.02
518 36 0.01
519 44 0.01
520 23 0.00
521 18 0.00
522 17 0.00
523 12 0.00
524 4 0.00
525 4 0.00
526 8 0.00
527 6 0.00
528 5 0.00
529 4 0.00
530 3 0.00
531 4 0.00
532 6 0.00
534 1 0.00
535 2 0.00
536 1 0.00
537 1 0.00
538 2 0.00
539 1 0.00
540 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (485 bp):
CATCACAGATTGCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGT
GCTGGATCTCAACCATCGAATTAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAA
TCACTTTCCATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATC
ATTTCAAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTA
AATTTGCAACATCATCATATACATGCATCCACATCATCTCATTCATATTTATCAAGTAGTTTCTT
ATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATCTACAATTATATATATTTAATATA
TATACAAAAACACAATTAAAATATAACACGAAAATGCAGTAACTTCCATATGAACTTACCTAGAA
AATGGCAACTAGAAAGTTTCAGGGACTAAT
Found at i:23388402 original size:515 final size:516
Alignment explanation
Indices: 23386751--23388503 Score: 3140
Period size: 514 Copynumber: 3.4 Consensus size: 516
23386741 CCCACATCCA
23386751 TTCATATTTATCAAGTAGTTT-TTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAAT
1 TTCATATTTATCAAGTA-TTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAAT
* *
23386815 CTACAATTATATATATTAAATATATGTACAAAAACACAATTAAAATATAATACGAAAATGCAGTA
65 CTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTA
** * *
23386880 ACTTCCATATGAACAAACCTAGAAAATGGCAACTAGAAAGTTTTAGGGACTAATCATCATAGATT
130 ACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATT
* * *
23386945 GCTATATAATTATCCGATACTGCTCACTCGAGCTGTCGAGAATACACAATTTGTGCTGGATCTCA
195 GCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGTGCTGGATCTCA
* * *
23387010 ACCATCAAATAAATCTATAATCACGATTCCCATTTTTCCTTTTTCTAACCATAATCACTTTCCAT
260 ACCATCGAATAAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAATCACTTTCCAT
* ** *
23387075 TCGTATCTAAACCATTTGTTAAATTCATACAGGTAATTTTACCAATTTCGTCTCATTTCAAACTC
325 TCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATCATTTCAAACTC
* **
23387140 TTTAATTGTATACACACATTAGTTTTTTTGAATAACAATTCTCTATACATTTTAAATTTTTAACA
390 TTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACA
*
23387205 TCATCATATACATGCTATCCAACAACATACCATTCTCACATCCATTCAATGTCATGAATCTC
455 TCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAATCTC
23387267 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
*
23387332 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGAAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
23387397 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
23387462 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGTGCTGGATCTCAA
196 CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGTGCTGGATCTCAA
23387527 CCATCGAATAAATCTCTAATCACGATTCCCATTTTTCC-TTTTATAACCATAATCACTTTCCATT
261 CCATCGAATAAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
23387591 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACC-ATTTCGTATCATTTCAAACTCT
326 CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATCATTTCAAACTCT
23387655 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
391 TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
23387720 CATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAATCTC
456 CATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAATCTC
* *
23387781 TTCATATTTATCAAGTATTTCTTATTTTAAGATTTGATCCATTTTATATAAAAAGCCATTCAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* * *
23387846 AAAAAGTA-ATTATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTA
66 TACAATTATA-TATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTA
23387910 ACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATT
130 ACTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATT
* * * *
23387975 GCTATATAATGATCCGATACTGCTCAGTCGAGCTGTCGGGAATCCACAATTTGTGCTGGATC-AA
195 GCTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGTGCTGGATCTCA
23388039 ACCATCGAATAAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAATCACTTTCCAT
260 ACCATCGAATAAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAATCACTTTCCAT
*
23388104 T-TTGATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTCCCAATTTCGTATCATTTCAAACT
325 TCTT-ATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATCATTTCAAACT
23388168 CTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAAC
389 CTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAAC
23388233 ATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAATCTC
454 ATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAATCTC
23388296 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
1 TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
* *
23388361 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAACACGAAAATGCAATAA
66 TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
23388426 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
131 CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
23388491 CTATATAATGATC
196 CTATATAATGATC
23388504 TGAATTTGTG
Statistics
Matches: 1192, Mismatches: 39, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
513 43 0.04
514 452 0.38
515 414 0.35
516 283 0.24
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (516 bp):
TTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAAATC
TACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACGAAAATGCAGTAA
CTTCCATATGAACTTACCTAGAAAATGGCAACTAGAAAGTTTCAGGGACTAATCATCACAGATTG
CTATATAATGATCCGATACTGCTCACTCGAGCTGTCGAGAATCCATAATTTGTGCTGGATCTCAA
CCATCGAATAAATCTCTAATCACGATTCCCATTTTTCCTTTTTATAACCATAATCACTTTCCATT
CTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATCATTTCAAACTCT
TTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTTGCAACAT
CATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAATCTC
Found at i:23395428 original size:45 final size:46
Alignment explanation
Indices: 23395330--23395536 Score: 341
Period size: 46 Copynumber: 4.6 Consensus size: 46
23395320 TTTGAGTACT
* *
23395330 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
23395376 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
23395421 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
23395467 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
*
23395512 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
23395537 ATCATACGTA
Statistics
Matches: 154, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 61 0.40
46 76 0.49
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTA
Found at i:23395485 original size:91 final size:91
Alignment explanation
Indices: 23395330--23395536 Score: 373
Period size: 91 Copynumber: 2.3 Consensus size: 91
23395320 TTTGAGTACT
23395330 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
*
23395395 GATAAGTGGTAGCCTAGCTACACTTA
66 GATAAGTGGTAGCCTAACTACACTTA
*
23395421 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
23395486 GATAAGTGGTAGCCTAACTACACTTA
66 GATAAGTGGTAGCCTAACTACACTTA
*
23395512 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
23395537 ATCATACGTA
Statistics
Matches: 113, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
89 12 0.11
90 5 0.04
91 96 0.85
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAACTACACTTA
Found at i:23396574 original size:21 final size:21
Alignment explanation
Indices: 23396550--23396663 Score: 129
Period size: 21 Copynumber: 5.4 Consensus size: 21
23396540 CAGTACATCG
*
23396550 TGAACAGAAGCTCGTACGAGC
1 TGAACAGAAGCTCGTAAGAGC
*
23396571 TGAACAGAAGCTCGTAAAAGC
1 TGAACAGAAGCTCGTAAGAGC
* *** *
23396592 TGAACAGAAACTTACAAGAGT
1 TGAACAGAAGCTCGTAAGAGC
* *
23396613 TGAACAGAAGCTTGAAAGAGC
1 TGAACAGAAGCTCGTAAGAGC
*
23396634 TGAATAGAAGCTCGTAAGAGC
1 TGAACAGAAGCTCGTAAGAGC
*
23396655 TTAACAGAA
1 TGAACAGAA
23396664 AGTAAAACAT
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
TGAACAGAAGCTCGTAAGAGC
Found at i:23398496 original size:16 final size:16
Alignment explanation
Indices: 23398451--23398498 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
23398441 CATCAATCAC
23398451 ATCAACATTTATTAACA
1 ATCAA-ATTTATTAACA
*
23398468 ATCAAATTAATTAACA
1 ATCAAATTTATTAACA
23398484 AT-AAATTTCATTAAC
1 ATCAAATTT-ATTAAC
23398499 GAGAAGGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCAAATTTATTAACA
Found at i:23403635 original size:26 final size:22
Alignment explanation
Indices: 23403587--23403630 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23403577 AAAAGAGATA
23403587 AAAAAAACCAGAACATAGCATT
1 AAAAAAACCAGAACATAGCATT
23403609 AAAAAAACCAGAACATAGCATT
1 AAAAAAACCAGAACATAGCATT
23403631 CATTACCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.18, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAAAAACCAGAACATAGCATT
Found at i:23415925 original size:50 final size:51
Alignment explanation
Indices: 23415837--23415969 Score: 135
Period size: 50 Copynumber: 2.6 Consensus size: 51
23415827 AAAGTGATGG
* * *** * *
23415837 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGT-ATAGA
* * * *
23415887 TCGCATGTGTTGTACTATGTGCAGGCTACTATACGTACCAGATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGTATAGA
*
23415938 TCACGTGTGTAGTACTATGTGCAGGCTACTAT
1 TCACATGTGTAGTACTATGTGCAGGCTACTAT
23415970 GTGAACCAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
50 34 0.51
51 32 0.48
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGTATAGA
Found at i:23416029 original size:44 final size:44
Alignment explanation
Indices: 23415979--23416063 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
23415969 TGTGAACCAA
* *
23415979 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCATCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATCG
23416023 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
23416064 CCGAGTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (44 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATCG
Done.