Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007765.1 Hibiscus syriacus cultivar Beakdansim tig00110037_pilon, whole genome shotgun sequence
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: 517223
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:14646 original size:29 final size:29
Alignment explanation
Indices: 14612--14668 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
14602 TCTATTATTC
14612 TTTTACTCAACAGTGTTTAACCGTTCATA
1 TTTTACTCAACAGTGTTTAACCGTTCATA
14641 TTTTACTCAACAGTGTTTAACCGTTCAT
1 TTTTACTCAACAGTGTTTAACCGTTCAT
14669 CTAACTGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (29 bp):
TTTTACTCAACAGTGTTTAACCGTTCATA
Found at i:14755 original size:68 final size:68
Alignment explanation
Indices: 14664--14987 Score: 461
Period size: 68 Copynumber: 4.8 Consensus size: 68
14654 TGTTTAACCG
* *
14664 TTCATCTAACTGACATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
14729 CCT
66 CCT
* * * ** * *
14732 TTTATCTAACTGGCATAAATGACACATTTCTATCAAATACACAAATAGGTCTCAAAGGCAGTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
14797 CCT
66 CCT
* * * * *
14800 TTTATCTAACTGACATAAATGAAATC-TTTCTGTCAAATACACAGTTAGACCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAAATGACA-CATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
14864 GCCT
65 GCCT
* *
14868 TTCATCTGACTGGCATAAATGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
14933 CCT
66 CCT
* * *
14936 TCCATCTAACTGGCATAAATGACACATTTTTGTCAAATGCACAGTTAAGCCT
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCT
14988 ATTAATCTTT
Statistics
Matches: 226, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
67 1 0.00
68 224 0.99
69 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:15291 original size:55 final size:54
Alignment explanation
Indices: 15171--15321 Score: 198
Period size: 55 Copynumber: 2.8 Consensus size: 54
15161 TTCCTATACT
* * * * * *
15171 GAAATTCATACACTTGGCATGAATTT-TTA-TTTCGCATACATAGTGCCCATAC
1 GAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
15223 GAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATATA
1 G-AAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATA-A
15279 GAAATTCATACACTTAGTATGAATTTCTTAAGTTTTTGCACAC
1 GAAATTCATACACTTAGTATGAATTTCTT-AG-TTTTGCACAC
15322 TTAGTGCCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
52 1 0.01
53 23 0.26
54 3 0.03
55 47 0.54
56 3 0.03
57 10 0.11
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (54 bp):
GAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
Found at i:17466 original size:54 final size:54
Alignment explanation
Indices: 17384--17825 Score: 428
Period size: 54 Copynumber: 8.1 Consensus size: 54
17374 TATATGTTGA
** *
17384 AATTTCTGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATG
1 AATTTCTGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGTTTATG
* * * **
17438 AATTTCTGTATTGGTACTGTGTGTGCAACCTAAGAAATTCATAATTTGTTTATG
1 AATTTCTGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGTTTATG
*
17492 AATTTCCGTATTGGCACTATGTGTGCAACCCACA-AAATTCATAATGAGTTTATG
1 AATTTCTGTATTGGCACTATGTGTGCAACCCA-AGAAATTCATAATGAGTTTATG
* *
17546 AATTT-TCGTATTGGAACTATGTGTGCAATCCCATGAAATTCATAATGAGTTTATG
1 AATTTCT-GTATTGGCACTATGTGTGCAA-CCCAAGAAATTCATAATGAGTTTATG
* *
17601 AATTT-TCGTATTGGCACTA--TGTGCAACCCCACGAAATTCATAATGAGTTTATA
1 AATTTCT-GTATTGGCACTATGTGTGCAA-CCCAAGAAATTCATAATGAGTTTATG
* ** *
17654 AATTTCTGTATTGGCACTATGTGTGCAACCTAAGTAACTCATAAATAATGAGTTTGTG
1 AATTTCTGTATTGGCACTATGTGTGCAACCCAAG-AA---ATTCATAATGAGTTTATG
** * *** * *
17712 AATTATC-GTATTGGCACTATGTGTATAACCTACTTAATTCACAATGAGTTTGTG
1 AATT-TCTGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGTTTATG
** * * * * * * * * *
17766 AATGACCGTATCGACACTATATGTGCACCCCAAGGATTTCAAAATGAGTTTGTG
1 AATTTCTGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGTTTATG
17820 AATTTC
1 AATTTC
17826 CATATTGGTA
Statistics
Matches: 327, Mismatches: 48, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
53 49 0.15
54 182 0.56
55 52 0.16
57 1 0.00
58 41 0.13
59 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (54 bp):
AATTTCTGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGTTTATG
Found at i:24123 original size:12 final size:12
Alignment explanation
Indices: 24106--24139 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
24096 ATTTTATCAT
24106 TGAGTTCAATTA
1 TGAGTTCAATTA
24118 TGAGTTCAATTA
1 TGAGTTCAATTA
*
24130 TGGGTTCAAT
1 TGAGTTCAAT
24140 AAATTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAGTTCAATTA
Found at i:26054 original size:14 final size:14
Alignment explanation
Indices: 26035--26063 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26025 AATTAAACCC
26035 ATGAAATATTACAT
1 ATGAAATATTACAT
26049 ATGAAATATTACAT
1 ATGAAATATTACAT
26063 A
1 A
26064 AAAGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
ATGAAATATTACAT
Found at i:32193 original size:109 final size:111
Alignment explanation
Indices: 31963--32193 Score: 260
Period size: 109 Copynumber: 2.1 Consensus size: 111
31953 TAATCACTAT
* * *
31963 AGGTGACCAAAATGTAAAAAAACACTTAAATAAGAGGGACTAAACAACAAATGTTCCAATAAATA
1 AGGTGTCCAAAATGCAAAAAAACACTTAAATAAGAGGGACTAAACAACAAATATTCCAATAAATA
* *
32028 TATAACGTACATGAAAAACGGGTAAGTAACATATTTGGTCATCGTC
66 TATAACATACATGAAAAACGGGTAAATAACATATTTGGTCATCGTC
** * *
32074 --GTAGAT-CAAAATGCAAAAACTCGCTTAAATAAGAGGGAC-ACAA-AACAAATATTCCGATAA
1 AGGT-G-TCCAAAATGCAAAAAAACACTTAAATAAGAGGGACTA-AACAACAAATATTCCAATAA
* * * *
32134 ATATATAACATACATGATAAAGGGGTAAATAGCA-ATTTTGGTCCTCG-C
63 ATATATAACATACATGAAAAACGGGTAAATAACATA-TTTGGTCATCGTC
32182 AGGTGTCCAAAA
1 AGGTGTCCAAAA
32194 CCAAAATGCA
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
108 3 0.03
109 63 0.63
110 34 0.34
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (111 bp):
AGGTGTCCAAAATGCAAAAAAACACTTAAATAAGAGGGACTAAACAACAAATATTCCAATAAATA
TATAACATACATGAAAAACGGGTAAATAACATATTTGGTCATCGTC
Found at i:32620 original size:2 final size:2
Alignment explanation
Indices: 32615--32671 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
32605 TTTTCTTTAA
32615 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32656 -T A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
32672 TTCAAATTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.06
2 49 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:33151 original size:3 final size:3
Alignment explanation
Indices: 33145--33238 Score: 154
Period size: 3 Copynumber: 31.7 Consensus size: 3
33135 AATATATTTT
* *
33145 ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA GTA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
33192 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33239 TGGAAAATGG
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34169 original size:219 final size:219
Alignment explanation
Indices: 33868--34278 Score: 648
Period size: 220 Copynumber: 1.9 Consensus size: 219
33858 CATATGGCCT
* ** *
33868 GAAGAACTTATCATCTTGCTTTAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCTTGA
1 GAAGAACTTACCATCTTGCTCAAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCTCGA
* * *
33933 AAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAGAAACTTTGGAAATGATTTTCTTAC-TTT
66 AAGACTTACTAATGGCCCGAAGGACTTA-GAAGTAAGAAACTTTGGAAATCATTTTCTTACTTTT
* * *
33997 TC-AAAATAATTAATTTTAAGAAATGATTTAAATGAGAAACTTTGGAAATCTTTTTCTCATTTTT
130 TCAAAAAAAATCAATTTTAAGAAAAGATTTAAATGAGAAACTTTGGAAATC--TTTCTCATTTTT
34061 TTGAAAATCATGTGAAAAATCCTACCC
193 TTGAAAATCATGTGAAAAATCCTACCC
* *
34088 GAAGGACTTACCATCTTGCTCAAAAGGCTTA-AGATGACCCGAAGGATTTAGGCATCATTCTCGA
1 GAAGAACTTACCATCTTGCTCAAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCTCGA
*
34152 AAGACTTACTAATGGCCCGAAGGACTTAGAAGTAAGAAACTTTGGAAATCTTTTTCTTACTTTTT
66 AAGACTTACTAATGGCCCGAAGGACTTAGAAGTAAGAAACTTTGGAAATCATTTTCTTACTTTTT
*
34217 CAAAAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCTTTCTCATTTTT
131 CAAAAAAAATCAATTTTAAGAAAAGATTTAAATGAGAAACTTTGGAAATCTTTCTCATTTTT
34279 GGAATCATAT
Statistics
Matches: 175, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
218 41 0.23
219 63 0.36
220 71 0.41
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (219 bp):
GAAGAACTTACCATCTTGCTCAAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCTCGA
AAGACTTACTAATGGCCCGAAGGACTTAGAAGTAAGAAACTTTGGAAATCATTTTCTTACTTTTT
CAAAAAAAATCAATTTTAAGAAAAGATTTAAATGAGAAACTTTGGAAATCTTTCTCATTTTTTTG
AAAATCATGTGAAAAATCCTACCC
Found at i:34636 original size:233 final size:233
Alignment explanation
Indices: 34085--34648 Score: 755
Period size: 233 Copynumber: 2.4 Consensus size: 233
34075 AAAAATCCTA
* *
34085 CCCGAAGGACTTACCATCTTGCTCAAAAGGCTTA-AGATGACCCGAAGGATTTAGGCATCATTCT
1 CCCGAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCT
* * *
34149 CGAAAGACTTACTAATGGCCCGAAGGACTTAGAAGTAAGAAACTTTGGAAATCTTTTTCTTACTT
66 CGAAAGACTTACTGATGGCCCGAA-GACTTAGAAGCAAGAAACTTTGGAAATCGTTTTCTTAC-T
*
34214 TTTCAAAAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCTTTCTCATTTTT
129 TTT-AAAAAAAATCAATTTTAAGAAAAGATTTAAATGAGAAACTTTGGAAATCTTTCTCATTTTT
34279 GGAATCATATGAAACATCTTGCCCGAAGGTCTTATAGATGG
193 GGAATCATATGAAACATCTTGCCCGAAGGTCTTATAGATGG
* * * *
34320 TCCGAAGGACTTATTATCTTGCTCAAAAGGCTTATAGATGATCTGAAGGATTTAGGCATCATGCT
1 CCCGAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCT
* *
34385 CAAAAGACTTACTGATGGCTCG-A-ACTTAGTAAGCAAGAAACTTTGGAAATCGTTTTCTTAC-T
66 CGAAAGACTTACTGATGGCCCGAAGACTTAG-AAGCAAGAAACTTTGGAAATCGTTTTCTTACTT
* *
34447 TT-AAAAAAATCAATTTTAAGAAAATATTTAAATGAGAAAGTTTGGAAATCGCTTTCTCATTCTT
130 TTAAAAAAAATCAATTTTAAGAAAAGATTTAAATGAGAAACTTTGGAAAT--CTTTCTCATT-TT
* ** * *
34511 TGAGAATCATGTGAAAACATCTTGTTCGATGGTCTTATGGA-GG
192 TG-GAATCATATG-AAACATCTTGCCCGAAGGTCTTATAGATGG
* * * * *
34554 CCCGAATGACTTATCATCTTGGT-TAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATGCT
1 CCCGAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCT
* *
34618 CGAAAGACTTATTGATGGCCTGAAGGACTTA
66 CGAAAGACTTACTGATGGCCCGAA-GACTTA
34649 CTCATCAAGA
Statistics
Matches: 287, Mismatches: 32, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
230 44 0.15
232 13 0.05
233 64 0.22
234 60 0.21
235 55 0.19
236 51 0.18
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (233 bp):
CCCGAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGACCCGAAGGATTTAGGCATCATGCT
CGAAAGACTTACTGATGGCCCGAAGACTTAGAAGCAAGAAACTTTGGAAATCGTTTTCTTACTTT
TAAAAAAAATCAATTTTAAGAAAAGATTTAAATGAGAAACTTTGGAAATCTTTCTCATTTTTGGA
ATCATATGAAACATCTTGCCCGAAGGTCTTATAGATGG
Found at i:34795 original size:56 final size:56
Alignment explanation
Indices: 34650--34795 Score: 147
Period size: 56 Copynumber: 2.6 Consensus size: 56
34640 AAGGACTTAC
* * * **
34650 TCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAAACCTTCATTTATAGTTA
1 TCATCAAGAAACCCTTGAAAATC-AGGTTAGCTTCTTAAAAA-CTTCATTGATAGCAA
*
34708 TCATCAAGAAA-CCTCT-AAAATTAGGCTTAGCTTCTTTAAAAA-TTCATTGGA-AGCAA
1 TCATCAAGAAACCCT-TGAAAATCAGG-TTAGCTTC-TTAAAAACTTCATT-GATAGCAA
*
34764 TCATCAAGAAACCCTTGAAAATCAGGGTAGCT
1 TCATCAAGAAACCCTTGAAAATCAGGTTAGCT
34796 CATTCAAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
56 28 0.38
57 27 0.36
58 19 0.26
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (56 bp):
TCATCAAGAAACCCTTGAAAATCAGGTTAGCTTCTTAAAAACTTCATTGATAGCAA
Found at i:34971 original size:111 final size:111
Alignment explanation
Indices: 34815--35168 Score: 447
Period size: 111 Copynumber: 3.2 Consensus size: 111
34805 GTTCATCATG
* *
34815 TCAAGAAACCTT-TGAAAATTAGAC-TTAGTTTCTTTGAAAACTCATTTAAAACTCATCAAGAAA
1 TCAAGAAA-CTTCTGAAAATCAGACTTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAA
* * * *
34878 CTTCTAAAAATTAGACTTAGTTTCTTTGTAAA-CTCATTTAAAAATTA
65 CTTCTAAAAATCAGACTTACTTTCTTTG-AAAGGTCATTTAAAAATCA
34925 TCAAGAAACTTCTGAAAATCAGACTTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAAC
1 TCAAGAAACTTCTGAAAATCAGACTTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAAC
* * * *
34990 TTTTGAAAATCAGACTTATTTTCTTTGAAAGGTAATTTAAAAATCA
66 TTCTAAAAATCAGACTTACTTTCTTTGAAAGGTCATTTAAAAATCA
* * * **
35036 TCAAGAAACTTCT-TAAACCAGA-TTTAG-TTATTTG-AAGGTCATTTAAAAAATCATCAAGAAA
1 TCAAGAAACTTCTGAAAATCAGACTTTAGTTTCTTTGAAAACTCATTT-AAAAATCATCAAGAAA
*
35097 CTTCTAAAAATCAGAC--ACTTTCTTTGAAAGGTCATTTAAGAATCA
65 CTTCTAAAAATCAGACTTACTTTCTTTGAAAGGTCATTTAAAAATCA
** *
35142 TCAAGAAACTTCCAAAAATCAAACTTT
1 TCAAGAAACTTCTGAAAATCAGACTTT
35169 TTTTCGAAAC
Statistics
Matches: 215, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
106 38 0.18
107 14 0.07
108 39 0.18
109 8 0.04
110 29 0.13
111 87 0.40
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (111 bp):
TCAAGAAACTTCTGAAAATCAGACTTTAGTTTCTTTGAAAACTCATTTAAAAATCATCAAGAAAC
TTCTAAAAATCAGACTTACTTTCTTTGAAAGGTCATTTAAAAATCA
Found at i:34975 original size:56 final size:55
Alignment explanation
Indices: 34815--35167 Score: 412
Period size: 55 Copynumber: 6.5 Consensus size: 55
34805 GTTCATCATG
* * *
34815 TCAAGAAACCTT-TGAAAATTAGACTTAGTTTCTTTGAAAACTCATTTAAAACTCA
1 TCAAGAAA-CTTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * *
34870 TCAAGAAACTTCTAAAAATTAGACTTAGTTTCTTTGTAAACTCATTTAAAAATTA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
*
34925 TCAAGAAACTTCTGAAAATCAGACTTTAGTTTCTTTGAAAACTCATTTAAAAATCA
1 TCAAGAAACTTCTAAAAATCAGAC-TTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * ** *
34981 TCAAGAAACTTTTGAAAATCAGACTTATTTTCTTTGAAAGGTAATTTAAAAATCA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* * * * **
35036 TCAAGAAACTTCT-TAAACCAGATTTAG-TTATTTG-AAGGTCATTTAAAAAATCA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTT-AAAAATCA
* ** *
35089 TCAAGAAACTTCTAAAAATCAGAC--ACTTTCTTTGAAAGGTCATTTAAGAATCA
1 TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
* *
35142 TCAAGAAACTTCCAAAAATCAAACTT
1 TCAAGAAACTTCTAAAAATCAGACTT
35168 TTTTTCGAAA
Statistics
Matches: 262, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
52 10 0.04
53 62 0.24
54 30 0.11
55 108 0.41
56 52 0.20
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (55 bp):
TCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATCA
Found at i:35269 original size:52 final size:54
Alignment explanation
Indices: 35182--35282 Score: 138
Period size: 52 Copynumber: 1.9 Consensus size: 54
35172 TCGAAACTTA
* *
35182 TTTGAAAGTTATCAAGAAACCCTTGAAAATTAGGCTTAGTTTC-TATAAATTCT
1 TTTGAAAGTCATCAAGAAACCCTTGAAAATCAGGCTTAGTTTCTTATAAATTCT
35235 TTTGAAAG-CATCAAGAATACCC-T-AACAATCAGGCTTAGTTTCTTATAA
1 TTTGAAAGTCATCAAGAA-ACCCTTGAA-AATCAGGCTTAGTTTCTTATAA
35283 GAAATGTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 2 0.05
52 24 0.56
53 17 0.40
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (54 bp):
TTTGAAAGTCATCAAGAAACCCTTGAAAATCAGGCTTAGTTTCTTATAAATTCT
Found at i:42283 original size:45 final size:45
Alignment explanation
Indices: 42222--42457 Score: 262
Period size: 45 Copynumber: 5.2 Consensus size: 45
42212 ATGGGTGGCT
* * *
42222 CCTTTTATGCCTATAATGCACTATTATGCCTTTTC-TTAAGTGACA
1 CCTTTTATGCCGATAATGCACTGTTATGCATTTTCATT-AGTGACA
* * * *
42267 CATTTTATACCGATAATGTACCGTTATGCATTTTCATTAGTGACA
1 CCTTTTATGCCGATAATGCACTGTTATGCATTTTCATTAGTGACA
* * *
42312 CCTTTTATGTCGATAATGGATTGTTATGCATTTTCATTAGTGACA
1 CCTTTTATGCCGATAATGCACTGTTATGCATTTTCATTAGTGACA
* **
42357 CCTTTTTATGTCG-TAATGCA-TCGTTATGCATTTTCATTAGTGGTA
1 CC-TTTTATGCCGATAATGCACT-GTTATGCATTTTCATTAGTGACA
* * * * *
42402 CTTTTTATGCCAATAATGCACCGTTATGCATTTTTATTAGTGGCA
1 CCTTTTATGCCGATAATGCACTGTTATGCATTTTCATTAGTGACA
42447 CCTTTTATGCC
1 CCTTTTATGCC
42458 TTCATTTTAG
Statistics
Matches: 163, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.06
45 142 0.87
46 12 0.07
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (45 bp):
CCTTTTATGCCGATAATGCACTGTTATGCATTTTCATTAGTGACA
Found at i:46689 original size:29 final size:28
Alignment explanation
Indices: 46639--46700 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
46629 ACAAAGCACA
*
46639 AGAAAAAACAAAAGGAAATCAAGTTAGT
1 AGAAAAAACAAAAAGAAATCAAGTTAGT
46667 AGAAACAATACAAAAAG-AATCAAGTTAGT
1 AGAAA-AA-ACAAAAAGAAATCAAGTTAGT
*
46696 TGAAA
1 AGAAA
46701 TGATTATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 18 0.60
30 7 0.23
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (28 bp):
AGAAAAAACAAAAAGAAATCAAGTTAGT
Found at i:49142 original size:110 final size:110
Alignment explanation
Indices: 48930--49169 Score: 324
Period size: 110 Copynumber: 2.2 Consensus size: 110
48920 CAATCACTAC
* *
48930 ATGTTACCAAAATGCAAAAACACACTTAAATATAAGGGACTAAACAACAAATATTCCAATAAATA
1 ATGTTACCAAAATGCAAAAACACACTTAAATATAAGGAACAAAACAACAAATATTCCAATAAATA
* * * *
48995 TATAACGTACATGAGCAAGGGGTAAATAATAGATTTGGTCCTTGCA
66 TATAACATACATGAACAAGGGGTAAATAATAGATTTGGTACTCG-A
* * *
49041 A-GTTAACAAAATGCAAAAACACACTTAAATA-AGAGGAACAAAACAATAAATATTCCAATAAGT
1 ATGTTACCAAAATGCAAAAACACACTTAAATATA-AGGAACAAAACAACAAATATTCCAATAAAT
* *
49104 ATATAGCATACATGAACAAGGGGTAAATAGTA-ATTTTGGTACTCGA
65 ATATAACATACATGAACAAGGGGTAAATAATAGA-TTTGGTACTCGA
*
49150 ATGTGACCAAAATGCAAAAA
1 ATGTTACCAAAATGCAAAAA
49170 TGCATTTATA
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
109 4 0.04
110 108 0.96
111 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (110 bp):
ATGTTACCAAAATGCAAAAACACACTTAAATATAAGGAACAAAACAACAAATATTCCAATAAATA
TATAACATACATGAACAAGGGGTAAATAATAGATTTGGTACTCGA
Found at i:59060 original size:6 final size:6
Alignment explanation
Indices: 59049--59079 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
59039 TATGGCTTAG
*
59049 TCATCT TCATCT GCATCT TCATCT TCATCT T
1 TCATCT TCATCT TCATCT TCATCT TCATCT T
59080 TAGTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.03, T:0.48
Consensus pattern (6 bp):
TCATCT
Found at i:61520 original size:8 final size:8
Alignment explanation
Indices: 61507--61622 Score: 54
Period size: 8 Copynumber: 13.4 Consensus size: 8
61497 ATTTTTACCC
61507 AAAAAGAA
1 AAAAAGAA
*
61515 AAAAAGGA
1 AAAAAGAA
*
61523 AAAAGGAA
1 AAAAAGAA
61531 AAAGAAGAAA
1 AAA-AAG-AA
61541 GAAAAAGAA
1 -AAAAAGAA
**
61550 ATTTTGAAGAA
1 A---AAAAGAA
61561 AAAAA-ATA
1 AAAAAGA-A
*
61569 AAAAAGTGA
1 AAAAAG-AA
***
61578 AAAAACCC
1 AAAAAGAA
61586 AAAAAGAA
1 AAAAAGAA
61594 AAAAAGAAAA
1 AAAAAG--AA
61604 AAAAAGAA
1 AAAAAGAA
*
61612 AAATAGAA
1 AAAAAGAA
61620 AAA
1 AAA
61623 TGGTTGTTTG
Statistics
Matches: 81, Mismatches: 16, Indels: 22
0.68 0.13 0.18
Matches are distributed among these distances:
7 1 0.01
8 48 0.59
9 10 0.12
10 13 0.16
11 9 0.11
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.06
Consensus pattern (8 bp):
AAAAAGAA
Found at i:61607 original size:18 final size:18
Alignment explanation
Indices: 61586--61622 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
61576 GAAAAAACCC
61586 AAAAAGAAAAAAAGAAAA
1 AAAAAGAAAAAAAGAAAA
*
61604 AAAAAGAAAAATAGAAAA
1 AAAAAGAAAAAAAGAAAA
61622 A
1 A
61623 TGGTTGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAAAAAGAAAA
Found at i:61683 original size:20 final size:20
Alignment explanation
Indices: 61655--61699 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
61645 TAAATATTTG
*
61655 GTTGTTTCATTTGTCTTGTT
1 GTTGCTTCATTTGTCTTGTT
*
61675 GTTGCTTCATTTGTTTTGTT
1 GTTGCTTCATTTGTCTTGTT
61695 -TTGCT
1 GTTGCT
61700 CGTGGACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.04, C:0.11, G:0.20, T:0.64
Consensus pattern (20 bp):
GTTGCTTCATTTGTCTTGTT
Found at i:65919 original size:47 final size:47
Alignment explanation
Indices: 65863--65970 Score: 180
Period size: 47 Copynumber: 2.3 Consensus size: 47
65853 GTTCATTTGT
* *
65863 GTTCATTTACGTTCGTTTATTGTATTCATTTATGTTCATTTACATTC
1 GTTCGTTTACGTTCGTTTATTGTATTCATTAATGTTCATTTACATTC
*
65910 GTTCGTTTACGTTTGTTTATTGTATTCATTAATGTTCATTTACATTC
1 GTTCGTTTACGTTCGTTTATTGTATTCATTAATGTTCATTTACATTC
*
65957 GTTCGTTTATGTTC
1 GTTCGTTTACGTTC
65971 ATTCATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.18, C:0.14, G:0.13, T:0.56
Consensus pattern (47 bp):
GTTCGTTTACGTTCGTTTATTGTATTCATTAATGTTCATTTACATTC
Found at i:76169 original size:23 final size:23
Alignment explanation
Indices: 76143--76186 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
76133 ATTATATATT
76143 TAAATATTT-TAAATATATTATCC
1 TAAA-ATTTATAAATATATTATCC
*
76166 TAAAATTTATAAATTTATTAT
1 TAAAATTTATAAATATATTAT
76187 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAAATTTATAAATATATTATCC
Found at i:99413 original size:18 final size:17
Alignment explanation
Indices: 99378--99431 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
99368 AATTATATTT
*
99378 TAGTATTTTATAAAATA
1 TAGTATTTTATAATATA
*
99395 TAGTATTTATATATTATA
1 TAGTATTT-TATAATATA
* *
99413 TAATATTTGTATAGTATA
1 TAGTATTT-TATAATATA
99431 T
1 T
99432 TATATATAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 8 0.26
18 23 0.74
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (17 bp):
TAGTATTTTATAATATA
Found at i:99436 original size:18 final size:18
Alignment explanation
Indices: 99392--99436 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
99382 ATTTTATAAA
* *
99392 ATATAGTATTTATATATT
1 ATATAATATTTATATAGT
*
99410 ATATAATATTTGTATAGT
1 ATATAATATTTATATAGT
*
99428 ATATTATAT
1 ATATAATAT
99437 ATAGTATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
ATATAATATTTATATAGT
Found at i:99461 original size:23 final size:23
Alignment explanation
Indices: 99386--99461 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
99376 TTTAGTATTT
99386 TATAAAATATAGTAT-TTATATA
1 TATAAAATATAGTATGTTATATA
*
99408 TTATATAATAT--T-TG-TATAGTA
1 -TATAAAATATAGTATGTTATA-TA
* * *
99429 TATTATATATAGTATGTTCTATA
1 TATAAAATATAGTATGTTATATA
99452 TATAAAATAT
1 TATAAAATAT
99462 TTGAAAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 12 0.30
21 3 0.08
22 1 0.03
23 21 0.52
24 3 0.08
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (23 bp):
TATAAAATATAGTATGTTATATA
Found at i:99532 original size:39 final size:38
Alignment explanation
Indices: 99480--99571 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
99470 ATAAATAATT
* *
99480 TTTTAATATTATATATATATATA-TAAGT-GTATATATTA
1 TTTTAAAAATATATATATATATAGT-AGTAG-ATATATTA
*
99518 TTTTAGAAAATATATATATATATAGTAGTAGGTATATTA
1 TTTTA-AAAATATATATATATATAGTAGTAGATATATTA
99557 TTTTAAAAATA-ATAT
1 TTTTAAAAATATATAT
99572 TTTTTATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 4 0.08
38 11 0.23
39 31 0.65
40 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.48
Consensus pattern (38 bp):
TTTTAAAAATATATATATATATAGTAGTAGATATATTA
Found at i:99534 original size:37 final size:37
Alignment explanation
Indices: 99490--99571 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 37
99480 TTTTAATATT
99490 ATATATATATATATAAGT-GTA-TATATTATTTTAGAAA
1 ATATATATATATAT-AGTAGTAGTATATTATTTTA-AAA
99527 ATATATATATATATAGTAGTAGGTATATTATTTTAAAA
1 ATATATATATATATAGTAGTA-GTATATTATTTTAAAA
99565 ATA-ATAT
1 ATATATAT
99572 TTTTTATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
36 3 0.07
37 21 0.50
38 6 0.14
39 12 0.29
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (37 bp):
ATATATATATATATAGTAGTAGTATATTATTTTAAAA
Found at i:99628 original size:10 final size:10
Alignment explanation
Indices: 99611--99650 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
99601 TATACTTAAG
99611 AATATATATT
1 AATATATATT
*
99621 AGTATATATT
1 AATATATATT
99631 AATATATA-T
1 AATATATATT
99640 -ATAT-TATT
1 AATATATATT
99648 AAT
1 AAT
99651 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 2 0.08
8 5 0.19
9 3 0.12
10 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (10 bp):
AATATATATT
Found at i:103024 original size:22 final size:25
Alignment explanation
Indices: 102996--103042 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
102986 CATATAGTTT
102996 TATTTTT-TAG-A-ATGATTTAAAG
1 TATTTTTCTAGAATATGATTTAAAG
*
103018 TATTTTTCTTGAATATGATTTAAAG
1 TATTTTTCTAGAATATGATTTAAAG
103043 CTCTCCCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
24 1 0.05
25 11 0.52
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (25 bp):
TATTTTTCTAGAATATGATTTAAAG
Found at i:105894 original size:108 final size:108
Alignment explanation
Indices: 105724--106555 Score: 489
Period size: 108 Copynumber: 7.4 Consensus size: 108
105714 GATGGGGTCA
** *
105724 TAGAAATCCGACGA-AA-ATAAGATAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATAT
1 TAGAAATCCGACGATAACAT-A-ATAGGTTAATTACTTAATTTGTTATCACCATAATCAACATAT
* *
105787 TAGGTAACGCCTAAAATGTTACTAAATTTTAAGTTAATGGAACCT
64 TAGGTAACGCCTAAAATGTTACTAAATTTTAAGCTGATGGAACCT
* *
105832 TAGAAATCCAACGATAACATAACT-GGTTAATTACTAAATTTGTTATCAACCATAAT-AACATAT
1 TAGAAATCCGACGATAACATAA-TAGGTTAATTACTTAATTTGTTATC-ACCATAATCAACATAT
* * * * * ** *
105895 TATGTAACACTTATGTAACATAATAGGTAGTACTTTTTTAAAGTTGATGGAACCT
64 TAGGTAACGC----CT-A-A-AAT-GTTACTA-AATTTT-AAGCTGATGGAACCT
* * ** *
105950 TAGAAATCCGATGATAA-TTAAATAGG-TAATTACTTAATTTGTTATCAGTATTATCAACATATT
1 TAGAAATCCGACGATAACAT-AATAGGTTAATTACTTAATTTGTTATCACCATAATCAACATATT
* * * *
106013 AGGTAATGCCTAAAATGTTACCAAAAGTTTAAGCTGATGGAGCCT
65 AGGTAACGCCTAAAATGTTA-CTAAATTTTAAGCTGATGGAACCT
* * * * * *
106058 TAAAAATTCGACGATAACATAATCGATTAATTAATTGATTTGTTATCAACCATAAT-AACATATT
1 TAGAAATCCGACGATAACATAATAGGTTAATTACTTAATTTGTTATC-ACCATAATCAACATATT
** * ** * * * * **
106122 AAATAGCGTTTATGTAACGTAATAGATAGTGTATTTTTAAAGCTGATGGGCCCT
65 AGGTAACG----CCTAA---AAT-GTTACT-AAATTTT-AAGCTGATGGAACCT
* * * * ** *
106176 TAGAAATCTGACGATAATAAAATAGGTTAATTACTTAATTTGCTATCAGTATTATCAACATATTA
1 TAGAAATCCGACGATAACATAATAGGTTAATTACTTAATTTGTTATCACCATAATCAACATATTA
* * * * * *
106241 GATAACG-TTGAAAATGTTACCAAAGTTTAAGCTGATAGAGCCT
66 GGTAACGCCT-AAAATGTTACTAAATTTTAAGCTGATGGAACCT
* * *
106284 TAGAAATCCGATGATAACATAATCGGTTAATTACTTGATTTGTTATCAACCATAAT-AACATATT
1 TAGAAATCCGACGATAACATAATAGGTTAATTACTTAATTTGTTATC-ACCATAATCAACATATT
* * * * * * *
106348 AGGTAGCGCTTATGTAACGTAATAGGTAGCACCTTTTTAAAACTGAT-GAGACCT
65 AGGTAACGCCTA--AAATGT--TA-CTA--A--ATTTT-AAGCTGATGGA-ACCT
* * * * * ** *
106402 TAGAAATCTGACGATAACAAAATATGTTAATTACTTAATTTATTATTAGTATTATCAACATATTA
1 TAGAAATCCGACGATAACATAATAGGTTAATTACTTAATTTGTTATCACCATAATCAACATATTA
* * * * *
106467 GGTAACGCCTAAAATGTTACCAAAATTTAAGCTAATTGAGCCT
66 GGTAACGCCTAAAATGTTACTAAATTTTAAGCTGATGGAACCT
* * * *
106510 TAGAAATCTGAAGATAACATAATCA-GTTAATTATTTGATTTGTTAT
1 TAGAAATCCGACGATAACATAAT-AGGTTAATTACTTAATTTGTTAT
106556 TAACCTAAAA
Statistics
Matches: 546, Mismatches: 129, Indels: 98
0.71 0.17 0.13
Matches are distributed among these distances:
108 197 0.36
109 63 0.12
110 18 0.03
111 5 0.01
112 4 0.01
113 8 0.01
114 5 0.01
115 4 0.01
116 17 0.03
117 61 0.11
118 164 0.30
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (108 bp):
TAGAAATCCGACGATAACATAATAGGTTAATTACTTAATTTGTTATCACCATAATCAACATATTA
GGTAACGCCTAAAATGTTACTAAATTTTAAGCTGATGGAACCT
Found at i:106122 original size:226 final size:225
Alignment explanation
Indices: 105621--106560 Score: 1135
Period size: 226 Copynumber: 4.2 Consensus size: 225
105611 ATATTGAGTT
* **** * *
105621 TAACATAATCGATTAATTACTAGAAACATTATCAATCATAATAACATATTAGTTAGCGCTTATAT
1 TAACATAATCGATTAATTACTTGATTTGTTATCAACCATAATAACATATTAG-TAGCGCTTATGT
* * *** * * *
105686 AACATAATATGTACCGTC-TTTTT-AAGTTGATGGGGTCATAGAAATCCGACGAAAATAAGATAG
65 AACATAATAGGTA--GTCTTTTTTAAAGCTGATGGAACCTTAGAAATCCGACGATAATAAAATAG
*
105749 GTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTA-CTAAA
128 GTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAA
* * * *
105813 TTTTAAGTTAATGGAACCTTAGAAATCCAACGA
193 GTTTAAGCTAATGGAGCCTTAGAAATCCGACGA
* ** * *
105846 TAACATAA-CTGGTTAATTACTAAATTTGTTATCAACCATAATAACATATTATGTAACACTTATG
1 TAACATAATC-GATTAATTACTTGATTTGTTATCAACCATAATAACATATTA-GTAGCGCTTATG
* * *
105910 TAACATAATAGGTAGTACTTTTTTAAAGTTGATGGAACCTTAGAAATCCGATGATAATTAAATAG
64 TAACATAATAGGTAGT-CTTTTTTAAAGCTGATGGAACCTTAGAAATCCGACGATAATAAAATAG
*
105975 G-TAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAATGCCTAAAATGTTACCAAAA
128 GTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAA
* * *
106039 GTTTAAGCTGATGGAGCCTTAAAAATTCGACGA
193 GTTTAAGCTAATGGAGCCTTAGAAATCCGACGA
* * *
106072 TAACATAATCGATTAATTAATTGATTTGTTATCAACCATAATAACATATTAAATAGCGTTTATGT
1 TAACATAATCGATTAATTACTTGATTTGTTATCAACCATAATAACATATT-AGTAGCGCTTATGT
* * * ** *
106137 AACGTAATAGATAGTGTATTTTTAAAGCTGATGGGCCCTTAGAAATCTGACGATAATAAAATAGG
65 AACATAATAGGTAGTCT-TTTTTAAAGCTGATGGAACCTTAGAAATCCGACGATAATAAAATAGG
* * *
106202 TTAATTACTTAATTTGCTATCAGTATTATCAACATATTAGATAACG-TTGAAAATGTTACC-AAA
129 TTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCT-AAAATGTTACCAAAA
* * *
106265 GTTTAAGCTGATAGAGCCTTAGAAATCCGATGA
193 GTTTAAGCTAATGGAGCCTTAGAAATCCGACGA
*
106298 TAACATAATCGGTTAATTACTTGATTTGTTATCAACCATAATAACATATTAGGTAGCGCTTATGT
1 TAACATAATCGATTAATTACTTGATTTGTTATCAACCATAATAACATATTA-GTAGCGCTTATGT
* * * * * * *
106363 AACGTAATAGGTAGCACCTTTTTAAAACTGAT-GAGACCTTAGAAATCTGACGATAACAAAATAT
65 AACATAATAGGTAG-TCTTTTTTAAAGCTGATGGA-ACCTTAGAAATCCGACGATAATAAAATAG
* *
106427 GTTAATTACTTAATTTATTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAA
128 GTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAA
* * *
106492 -TTTAAGCTAATTGAGCCTTAGAAATCTGAAGA
193 GTTTAAGCTAATGGAGCCTTAGAAATCCGACGA
* *
106524 TAACATAATC-AGTTAATTATTTGATTTGTTATTAACC
1 TAACATAATCGA-TTAATTACTTGATTTGTTATCAACC
106561 TAAAATTAAG
Statistics
Matches: 620, Mismatches: 78, Indels: 33
0.85 0.11 0.05
Matches are distributed among these distances:
223 2 0.00
224 2 0.00
225 127 0.20
226 430 0.69
227 59 0.10
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (225 bp):
TAACATAATCGATTAATTACTTGATTTGTTATCAACCATAATAACATATTAGTAGCGCTTATGTA
ACATAATAGGTAGTCTTTTTTAAAGCTGATGGAACCTTAGAAATCCGACGATAATAAAATAGGTT
AATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAAGTT
TAAGCTAATGGAGCCTTAGAAATCCGACGA
Found at i:106192 original size:118 final size:116
Alignment explanation
Indices: 106043--106447 Score: 373
Period size: 118 Copynumber: 3.5 Consensus size: 116
106033 CCAAAAGTTT
* * *
106043 AAGCTGATGGAGCCTTAAAAAT-TCGACGATAACATAATCGATTAATTAATTGATTTGTTATCAA
1 AAGCTGAT-GAGCCTTAGAAATCT-GACGATAACATAATCGGTTAATTACTTGATTTGTTATCAA
* ***
106107 CCATAATAACATATTAAATAGCGTTTATGTAACGTAATAGATAGTGTATTTTTA
64 CCATAATAACATATTAGATAGCG-TTATGTAACGTAATAGATAGCAAATTTTTA
* * * * * * *
106161 AAGCTGATGGGCCCTTAGAAATCTGACGATAATAAAATAGGTTAATTACTTAATTTGCTATC-AG
1 AAGCTGATGAG-CCTTAGAAATCTGACGATAACATAATCGGTTAATTACTTGATTTGTTATCAAC
* * * * * *
106225 TATTATCAACATATTAGATAACG-T-TG-AA---AAT-GTTACCAAA-GTTT-
65 CATAAT-AACATATTAGATAGCGTTATGTAACGTAATAGATAGCAAATTTTTA
* *
106269 AAGCTGATAGAGCCTTAGAAATCCGATGATAACATAATCGGTTAATTACTTGATTTGTTATCAAC
1 AAGCTGAT-GAGCCTTAGAAATCTGACGATAACATAATCGGTTAATTACTTGATTTGTTATCAAC
* * **
106334 CATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCACCTTTTTA
65 CATAATAACATATTAGATAGCG-TTATGTAACGTAATAGATAGCAAATTTTTA
* * ** * *
106387 AAACTGATGAGACCTTAGAAATCTGACGATAACAAAATATGTTAATTACTTAATTTATTAT
1 AAGCTGATGAG-CCTTAGAAATCTGACGATAACATAATCGGTTAATTACTTGATTTGTTAT
106448 TAGTATTATC
Statistics
Matches: 225, Mismatches: 46, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
108 65 0.29
109 10 0.04
110 5 0.02
111 5 0.02
112 2 0.01
114 2 0.01
115 5 0.02
116 6 0.03
117 13 0.06
118 111 0.49
119 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (116 bp):
AAGCTGATGAGCCTTAGAAATCTGACGATAACATAATCGGTTAATTACTTGATTTGTTATCAACC
ATAATAACATATTAGATAGCGTTATGTAACGTAATAGATAGCAAATTTTTA
Found at i:107420 original size:229 final size:229
Alignment explanation
Indices: 107019--107469 Score: 672
Period size: 229 Copynumber: 2.0 Consensus size: 229
107009 AGTAAAACGG
* * *
107019 TTTCCTTCAAAGAAATGAGAGTAGTCTCTACTACAAGTATCGATACATTTATATAACCTACAATA
1 TTTCCTTCAAAGAAATGAGAATAGTCTCTACTACAAGTATCGATACATTTATACAACATACAATA
* *
107084 TCATTTTGTACCTATAATATTATATAAAAGTATTAATATTTATTTTCTACCTAAAATATCACTTT
66 TCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAAAATATCACTTT
* *
107149 CTAACTCTAATCGGTCTCAAATTATTCTTTACTTCAAAAACCCCAAACCCATAAACATAATCCCT
131 ATAACTCTAATCGGTCTCAAATTATTCTTTACTTCAAAAACCCCAAACCCATAAACATAACCCCT
*
107214 ATTTTTGAATATTGTAATACTAAAAAAAATACGA
196 ATTTTTGAATACTGTAATACTAAAAAAAATACGA
* * * *
107248 TTTCCTTCAAAGGAATGAGAATATTCTCTACTACAAGTA-CTGGTACCTTTATACAACATACAAT
1 TTTCCTTCAAAGAAATGAGAATAGTCTCTACTACAAGTATC-GATACATTTATACAACATACAAT
* *
107312 ATCATTTTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTCTACCTATAATATCACTT
65 ATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAAAATATCACTT
* * * * * *
107377 TATAATTGTAGTCGGTCTCAAA-TATTTCTTTACTTCGAAAACCCCAAACTCATAAACCTAACCC
130 TATAACTCTAATCGGTCTCAAATTA-TTCTTTACTTCAAAAACCCCAAACCCATAAACATAACCC
* *
107441 CTATTTTTTATTACTGTAATACTAAAAAA
194 CTATTTTTGAATACTGTAATACTAAAAAA
107470 TAGGGTTTCG
Statistics
Matches: 198, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
228 3 0.02
229 195 0.98
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (229 bp):
TTTCCTTCAAAGAAATGAGAATAGTCTCTACTACAAGTATCGATACATTTATACAACATACAATA
TCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAAAATATCACTTT
ATAACTCTAATCGGTCTCAAATTATTCTTTACTTCAAAAACCCCAAACCCATAAACATAACCCCT
ATTTTTGAATACTGTAATACTAAAAAAAATACGA
Found at i:107902 original size:21 final size:21
Alignment explanation
Indices: 107876--107927 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
107866 TATATGTCAT
*
107876 GTATCGATACATGTGTCTAAG
1 GTATCGATACATGTGTCTAAA
107897 GTATCGATACATGTGTCTAAA
1 GTATCGATACATGTGTCTAAA
107918 GTATCGATAC
1 GTATCGATAC
107928 TTTGTAGGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTGTCTAAA
Found at i:108179 original size:19 final size:19
Alignment explanation
Indices: 108149--108203 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
108139 ATAGCTCTTT
108149 ACCGGTTTTGTCAAATTT-CA
1 ACCGG-TTTGTC-AATTTCCA
108169 ACCGGTTTGTCAATTTCCA
1 ACCGGTTTGTCAATTTCCA
108188 ATCC-GTTTGTCCAATT
1 A-CCGGTTTGT-CAATT
108204 CATTAACTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.16
19 15 0.47
20 12 0.38
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (19 bp):
ACCGGTTTGTCAATTTCCA
Found at i:109875 original size:20 final size:22
Alignment explanation
Indices: 109834--110112 Score: 96
Period size: 21 Copynumber: 12.9 Consensus size: 22
109824 CCCCCAAAAA
109834 ATACTTTAT-TTA-ATACTTAT
1 ATACTTTATATTATATACTTAT
*
109854 AT-TTTTATATTATATA-TTAT
1 ATACTTTATATTATATACTTAT
*
109874 ATACTTTATA-TATATGCTTAT
1 ATACTTTATATTATATACTTAT
* * *
109895 ACACTTTAGTCTT-TATA-AT-T
1 ATACTTTA-TATTATATACTTAT
* *
109915 ATACTATATATATATATA-TAAT
1 ATACTTTATAT-TATATACTTAT
*
109937 ATAC-TTATATTTTATA-TTAT
1 ATACTTTATATTATATACTTAT
* *
109957 -TA-TATATGTATATATACTT-T
1 ATACTTTATAT-TATATACTTAT
** * *
109977 ATACTAAATCTTTATAAACCTATAT
1 ATACTTTAT-ATTATATA-CT-TAT
*
110002 ATA-TATATATATATATACTT-T
1 ATACTTTATAT-TATATACTTAT
* *
110023 ATAGTTTATATACATATA-TATAT
1 ATACTTTATAT-TATATACT-TAT
110046 ATACATACTTATACTT-TATA--TAT
1 ATAC-T--TTATA-TTATATACTTAT
* *
110069 ATA-TGTACACTTTATATACTTAT
1 ATACTTTATA--TTATATACTTAT
110092 ATACTTTATACTTATATACTT
1 ATACTTTATA-TTATATACTT
110113 TAGTCTTTAT
Statistics
Matches: 194, Mismatches: 34, Indels: 59
0.68 0.12 0.21
Matches are distributed among these distances:
19 16 0.08
20 40 0.21
21 44 0.23
22 32 0.16
23 33 0.17
24 15 0.08
25 8 0.04
26 5 0.03
27 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (22 bp):
ATACTTTATATTATATACTTAT
Found at i:109969 original size:40 final size:38
Alignment explanation
Indices: 109858--110072 Score: 142
Period size: 40 Copynumber: 5.5 Consensus size: 38
109848 ACTTATATTT
* * * *
109858 TTATATTATATATTATATACTTTATATATATGCTTATACAC
1 TTATATTTTATATTATATA-TATATATATAT--ATATATAC
109899 TT-TAGTCTTTATAATTATACTATATATATATATATAATATAC
1 TTATA-T-TTTAT-ATTATA-TATATATATATATAT-ATATAC
* *
109941 TTATATTTTATATTATTATATATGTATATATACTTTATAC
1 TTATATTTTATATTA-TATATATATATATATA-TATATAC
* *
109981 -TAAATCTTTATA-AACCTATATATATATATATATATATAC
1 TTATAT-TTTATATTA--TATATATATATATATATATATAC
* *
110020 TT-TA---TAGT-TTATATACATATATATATATACATAC
1 TTATATTTTA-TATTATATATATATATATATATATATAC
*
110054 TTATACTTTATA-TATATAT
1 TTATATTTTATATTATATAT
110073 GTACACTTTA
Statistics
Matches: 140, Mismatches: 16, Indels: 40
0.71 0.08 0.20
Matches are distributed among these distances:
34 23 0.16
35 4 0.03
36 2 0.01
37 7 0.05
38 2 0.01
39 12 0.09
40 46 0.33
41 12 0.09
42 12 0.09
43 18 0.13
44 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (38 bp):
TTATATTTTATATTATATATATATATATATATATATAC
Found at i:110086 original size:2 final size:2
Alignment explanation
Indices: 109914--110072 Score: 78
Period size: 2 Copynumber: 78.5 Consensus size: 2
109904 TCTTTATAAT
*
109914 TA TA CTA TA TA TA TA TA TA TA -A TA TA CT- TA TA T- TT TA TA T-
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * * * **
109954 TA T- TA TA TA TG TA TA TA TA CTT TA TA CTA AA TC TT TA TA AA CC
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * *
109997 TA TA TA TA TA TA TA TA TA TA TA CTT TA TA GTT TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* *
110041 TA TA TA TA CA TA CT- TA TA CTT TA TA TA TA TA T
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA T
110073 GTACACTTTA
Statistics
Matches: 118, Mismatches: 25, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
1 6 0.05
2 102 0.86
3 10 0.08
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110092 original size:23 final size:23
Alignment explanation
Indices: 110066--110112 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
110056 ATACTTTATA
110066 TATATA-TGTACACTTTATATACT
1 TATATACTGTACAC-TTATATACT
* *
110089 TATATACTTTATACTTATATACT
1 TATATACTGTACACTTATATACT
110112 T
1 T
110113 TAGTCTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATACTGTACACTTATATACT
Found at i:110093 original size:8 final size:8
Alignment explanation
Indices: 110080--110112 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
110070 TATGTACACT
110080 TTATATAC
1 TTATATAC
110088 TTATATAC
1 TTATATAC
110096 TT-TATAC
1 TTATATAC
110103 TTATATAC
1 TTATATAC
110111 TT
1 TT
110113 TAGTCTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (8 bp):
TTATATAC
Found at i:110112 original size:15 final size:15
Alignment explanation
Indices: 110083--110114 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
110073 GTACACTTTA
110083 TATACTTATATACTT
1 TATACTTATATACTT
110098 TATACTTATATACTT
1 TATACTTATATACTT
110113 TA
1 TA
110115 GTCTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
TATACTTATATACTT
Found at i:110996 original size:25 final size:25
Alignment explanation
Indices: 110962--111020 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
110952 CATCCCTAGG
110962 GAGAGGGAGAGAGGGGTAGGGGAAC
1 GAGAGGGAGAGAGGGGTAGGGGAAC
110987 GAGAGGGAGAGAGGGGTAGGGGAAC
1 GAGAGGGAGAGAGGGGTAGGGGAAC
111012 GAGAGGGAG
1 GAGAGGGAG
111021 GGGAAGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.61, T:0.03
Consensus pattern (25 bp):
GAGAGGGAGAGAGGGGTAGGGGAAC
Found at i:112557 original size:20 final size:21
Alignment explanation
Indices: 112532--112570 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
112522 TGATCATGAT
112532 TTGATT-CAAAGAAAATAAAA
1 TTGATTACAAAGAAAATAAAA
*
112552 TTGATTACAAAGAACATAA
1 TTGATTACAAAGAAAATAA
112571 GTAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (21 bp):
TTGATTACAAAGAAAATAAAA
Found at i:114237 original size:20 final size:22
Alignment explanation
Indices: 114214--114263 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
114204 GGTTGCAACC
114214 TGATTTT-TCA-TATGAAAACA
1 TGATTTTATCATTATGAAAACA
*
114234 TGATTTTATTATTATGAAAAC-
1 TGATTTTATCATTATGAAAACA
114255 TAGATTTTA
1 T-GATTTTA
114264 GGGTGGATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
21 3 0.12
22 16 0.62
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (22 bp):
TGATTTTATCATTATGAAAACA
Found at i:119812 original size:16 final size:15
Alignment explanation
Indices: 119793--119858 Score: 53
Period size: 16 Copynumber: 4.3 Consensus size: 15
119783 ATTAAATTTC
119793 AAAAAAGTAAAATAAT
1 AAAAAA-TAAAATAAT
* *
119809 AAAATATAAAAATGAT
1 AAAAAAT-AAAATAAT
* *
119825 AAAAGATAAAATAAA
1 AAAAAATAAAATAAT
*
119840 AATAAAACAAAATAA-
1 AA-AAAATAAAATAAT
119855 AAAA
1 AAAA
119859 GAAGTGGGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.05
15 11 0.27
16 28 0.68
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAATAAT
Found at i:119813 original size:53 final size:52
Alignment explanation
Indices: 119709--119814 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 52
119699 AATTAAATTA
* * * * *
119709 AAATAAATCAAAGAAGGAAATATTAAATTTTAAAAATGTTATATAAAAAAAT
1 AAATAAATCAAAGAAGAAAATATTAAATTTCAAAAAAGTAAAATAAAAAAAT
*
119761 AAATAAAAT-AAATGAAGAAAATATTAAATTTCAAAAAAGTAAAATAATAAAAT
1 AAAT-AAATCAAA-GAAGAAAATATTAAATTTCAAAAAAGTAAAATAAAAAAAT
119814 A
1 A
119815 TAAAAATGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 7 0.15
53 39 0.85
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (52 bp):
AAATAAATCAAAGAAGAAAATATTAAATTTCAAAAAAGTAAAATAAAAAAAT
Found at i:119819 original size:23 final size:22
Alignment explanation
Indices: 119793--119841 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
119783 ATTAAATTTC
119793 AAAAAAG-TAAAATAATAAAATA
1 AAAAAAGATAAAA-AATAAAATA
* *
119815 TAAAAATGATAAAAGATAAAATA
1 -AAAAAAGATAAAAAATAAAATA
119838 AAAA
1 AAAA
119842 TAAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 14 0.61
24 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (22 bp):
AAAAAAGATAAAAAATAAAATA
Found at i:121573 original size:200 final size:200
Alignment explanation
Indices: 121021--121692 Score: 956
Period size: 200 Copynumber: 3.4 Consensus size: 200
121011 ACCATATGGC
* * * * *
121021 TCGAGCTTAATGGAATAGAACTCG-AAGTTTTTTGTTGACAGGTAGCCCTTCTCGTCTTGAGCTA
1 TCGAGCTGAATGGAATTGAACTCGAAAG--TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTA
* * * * * * *
121085 TGCTGTAAATTCGACTAGGAGATAGTTTCTTGTTGCTAAATCGCAGTCAATCTAGGTCATATTCT
64 TGCTGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCT
*
121150 TGACTTAAAGACCTCAGTTTAAACTTCAACCGAAAAGTAGTTCCTCGTTGCTACCATGCAATTGA
129 TGACTTAAAGACCTCAGTTTAAACTTCAACCGGAAAGTAGTTCCTCGTTGCTACCATGCAATTGA
121215 TATGCCT
194 TATGCCT
* * * *
121222 TCG-GTCTGAATGGAATTGAACTCAAAAGTTTTGTTGACAGAT-AGCTTTCTCACCTTGAGCTAT
1 TCGAG-CTGAATGGAATTGAACTCGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
* * *
121285 GTTGTAAATTCGGCTGGGAGATAGTTCCTCT-TTGCTAAATCTCAACCAACCTAGGTCTTCTTCT
65 GCTGTAAATTCGGCTGGGAGATAGTTCCT-TGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCT
* * * *
121349 TGACTTAAAAACCTCAGTTTAAACTTTAACCGGAAAGTAGTTCCTTGTTGCTACCATGCAGTTGA
129 TGACTTAAAGACCTCAGTTTAAACTTCAACCGGAAAGTAGTTCCTCGTTGCTACCATGCAATTGA
121414 TATGCCT
194 TATGCCT
* *
121421 TCGAGCTGAATGGAATTGAACTCGAAAGTTTTGTTGACAGATAACCCTTCTTGCCTTGAGATATG
1 TCGAGCTGAATGGAATTGAACTCGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
121486 CTGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAATCGCAGCCAACCTAGGTTTTCTTCTTG
66 CTGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTTG
** *
121551 ACTTAAAGACCTCAGTTTAAACTTCAACTAGAAAGTAGTTCCTCATTGCTACCATGCAATTGATA
131 ACTTAAAGACCTCAGTTTAAACTTCAACCGGAAAGTAGTTCCTCGTTGCTACCATGCAATTGATA
*
121616 TACCT
196 TGCCT
* * * * *
121621 TCAAGCTGAATGAAATCGAACTCGAAAGTTTTGTTGACAAATAACCCTTCCCGCCTTGAGCTATG
1 TCGAGCTGAATGGAATTGAACTCGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
121686 CTGTAAA
66 CTGTAAA
121693 CGGTTCCTCT
Statistics
Matches: 416, Mismatches: 49, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
199 175 0.42
200 219 0.53
201 19 0.05
202 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (200 bp):
TCGAGCTGAATGGAATTGAACTCGAAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
CTGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTTG
ACTTAAAGACCTCAGTTTAAACTTCAACCGGAAAGTAGTTCCTCGTTGCTACCATGCAATTGATA
TGCCT
Found at i:124696 original size:37 final size:38
Alignment explanation
Indices: 124616--124696 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 38
124606 AACAAGTTGG
*
124616 AAAATATTTATATATTTTCTTTAAAAAAATTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAAAATTAAAATCAT
*
124655 -AAAATTTATATAATTTT-TTT-ATAAAATTGAAAAT-AT
1 AAAAATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCAT
124691 AAAAAT
1 AAAAAT
124697 GGTTTAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 9 0.24
37 20 0.54
38 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAAAAATTAAAATCAT
Found at i:142643 original size:49 final size:49
Alignment explanation
Indices: 142585--142750 Score: 242
Period size: 49 Copynumber: 3.4 Consensus size: 49
142575 AAGAATCATA
*
142585 GGTGCATTTCGGCATAAAAGGTGCCACAAATGAAAGTTAAATGCATAAC
1 GGTGCATTTCGACATAAAAGGTGCCACAAATGAAAGTTAAATGCATAAC
*
142634 AGTGCATTTCGACATAAAAGGTGCCACAAATGAAAGTTAAATGCATAAC
1 GGTGCATTTCGACATAAAAGGTGCCACAAATGAAAGTTAAATGCATAAC
* * * * * * **
142683 GGTGTATTTTGGCATTAAAGGCGCCTCAAATGAAAGTTAAACACATAAC
1 GGTGCATTTCGACATAAAAGGTGCCACAAATGAAAGTTAAATGCATAAC
142732 GGTGCATTTCGACATAAAA
1 GGTGCATTTCGACATAAAA
142751 ATTGCCACTC
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 102 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (49 bp):
GGTGCATTTCGACATAAAAGGTGCCACAAATGAAAGTTAAATGCATAAC
Found at i:146250 original size:4 final size:4
Alignment explanation
Indices: 146234--146275 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
146224 AAATGAAACA
* *
146234 AAAT AAGT AAAT AAAT AAAT AAAT -AAT AAAT ATAAT ATAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AA
146276 TGTAAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
5 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:146273 original size:7 final size:7
Alignment explanation
Indices: 146243--146375 Score: 77
Period size: 7 Copynumber: 19.1 Consensus size: 7
146233 AAAATAAGTA
*
146243 AATAAAT
1 AATATAT
146250 AA-ATA-
1 AATATAT
146255 AATA-AT
1 AATATAT
146261 AA-ATAT
1 AATATAT
146267 AATATAT
1 AATATAT
*
146274 AATGTA-
1 AATATAT
146280 AA-ATAT
1 AATATAT
146286 -A-ATAT
1 AATATAT
146291 AATATAT
1 AATATAT
*
146298 ACCATATAA
1 A--ATATAT
146307 AACTATAAT
1 AA-TAT-AT
146316 AATATAT
1 AATATAT
146323 AATATAT
1 AATATAT
146330 AATATAT
1 AATATAT
*
146337 -ATAGTGT
1 AATA-TAT
146344 AAGTATAT
1 AA-TATAT
146352 AGTATATAT
1 A--ATATAT
*
146361 ACTATAT
1 AATATAT
*
146368 ACTATAT
1 AATATAT
146375 A
1 A
146376 CTTACACTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 32
0.72 0.06 0.23
Matches are distributed among these distances:
5 11 0.11
6 15 0.15
7 48 0.47
8 10 0.10
9 17 0.17
10 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (7 bp):
AATATAT
Found at i:146285 original size:12 final size:12
Alignment explanation
Indices: 146246--146339 Score: 65
Period size: 12 Copynumber: 8.0 Consensus size: 12
146236 ATAAGTAAAT
146246 AAATA-AATA-A
1 AAATATAATATA
146256 ATAATA-AATATA
1 A-AATATAATATA
* *
146268 ATATATAATGTA
1 AAATATAATATA
146280 AAATATAATATA
1 AAATATAATATA
*
146292 ATATATACCATATA
1 AAATATA--ATATA
146306 AAACTAT-A-ATA
1 AAA-TATAATATA
*
146317 ATATATAATATA
1 AAATATAATATA
*
146329 TAATAT-ATATA
1 AAATATAATATA
146340 GTGTAAGTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
10 4 0.06
11 22 0.33
12 31 0.46
14 7 0.10
15 3 0.04
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (12 bp):
AAATATAATATA
Found at i:146376 original size:7 final size:7
Alignment explanation
Indices: 146356--146388 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
146346 GTATATAGTA
146356 TATATAC
1 TATATAC
146363 TATATAC
1 TATATAC
146370 TATATAC
1 TATATAC
*
146377 T-TACAC
1 TATATAC
146383 TATATA
1 TATATA
146389 ATATGCTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (7 bp):
TATATAC
Found at i:147126 original size:51 final size:50
Alignment explanation
Indices: 147065--147160 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
147055 TGTGTCCAAA
* *
147065 TTGAACGTTCTTCTGAGCT-AGATATCTTTCATTGTGAAGTTGAAATCTAAC
1 TTGAACGTTCTT-TGAGCTCA-ATATCCTTCACTGTGAAGTTGAAATCTAAC
* * *
147116 TTGAATGTTCTTTGAGTTCAATATCCTTCGCTGTGAAGTTGAAAT
1 TTGAACGTTCTTTGAGCTCAATATCCTTCACTGTGAAGTTGAAAT
147161 TGATTTTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 27 0.69
51 12 0.31
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (50 bp):
TTGAACGTTCTTTGAGCTCAATATCCTTCACTGTGAAGTTGAAATCTAAC
Found at i:163051 original size:18 final size:20
Alignment explanation
Indices: 163030--163067 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
163020 AAAAAAGAAA
163030 TTAAA-AAACTAAA-ATACG
1 TTAAACAAACTAAATATACG
*
163048 TTAAACAAAGTAAATATACG
1 TTAAACAAACTAAATATACG
163068 GTGATAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (20 bp):
TTAAACAAACTAAATATACG
Found at i:170196 original size:28 final size:27
Alignment explanation
Indices: 170164--170240 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 27
170154 AAAATTTCCC
*
170164 TAAAATAAATCAAATTAATAATAAACAA
1 TAAAATAAATAAAATTAA-AATAAACAA
170192 TAAAATAAATTAAAA-T-AAATAAACAA
1 TAAAATAAA-TAAAATTAAAATAAACAA
170218 TATCAAATAAATAAAAATTAAAA
1 TA--AAATAAAT-AAAATTAAAA
170241 GAGAATTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
26 11 0.26
27 2 0.05
28 21 0.50
29 5 0.12
30 3 0.07
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (27 bp):
TAAAATAAATAAAATTAAAATAAACAA
Found at i:170281 original size:15 final size:15
Alignment explanation
Indices: 170232--170281 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
170222 AAATAAATAA
170232 AAATTAAAAGAGAATT
1 AAATTAAAA-AGAATT
170248 CAAATTAAAAAGGAA-T
1 -AAATTAAAAA-GAATT
*
170264 AAATTGAAAAGAATT
1 AAATTAAAAAGAATT
170279 AAA
1 AAA
170282 AATCAAGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.10
15 13 0.43
16 2 0.07
17 12 0.40
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (15 bp):
AAATTAAAAAGAATT
Found at i:171456 original size:15 final size:15
Alignment explanation
Indices: 171432--171463 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
171422 ATAGTTGTGA
*
171432 CAAATTTAATTTTGT
1 CAAATATAATTTTGT
171447 CAAATATAATTTTGT
1 CAAATATAATTTTGT
171462 CA
1 CA
171464 CCGTTAGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAATATAATTTTGT
Found at i:172058 original size:37 final size:37
Alignment explanation
Indices: 172008--172082 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
171998 CTGTCACTGA
172008 TCACATGTATTAGATTATGTGGAAAGTAGTTGGTTGG
1 TCACATGTATTAGATTATGTGGAAAGTAGTTGGTTGG
*
172045 TCACATGTATTAGATTGTGTGGAAAGTAGTTGGTTGG
1 TCACATGTATTAGATTATGTGGAAAGTAGTTGGTTGG
172082 T
1 T
172083 TGCACATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.05, G:0.31, T:0.39
Consensus pattern (37 bp):
TCACATGTATTAGATTATGTGGAAAGTAGTTGGTTGG
Found at i:172874 original size:32 final size:30
Alignment explanation
Indices: 172832--172891 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
172822 GAAACATGGA
172832 AGACAAGACTGAATGTTAAAGCAAAGCTAGGG
1 AGACAAGACTGAATG-TAAA-CAAAGCTAGGG
* *
172864 AGACACGACTGAATGTAAATAAAGCTAG
1 AGACAAGACTGAATGTAAACAAAGCTAG
172892 AGATTGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 4 0.15
32 14 0.54
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.17
Consensus pattern (30 bp):
AGACAAGACTGAATGTAAACAAAGCTAGGG
Found at i:173977 original size:32 final size:31
Alignment explanation
Indices: 173928--173990 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 31
173918 TTTATTTGTT
173928 ATTAATATAAAAATATAAAATATTATATATA
1 ATTAATATAAAAATATAAAATATTATATATA
173959 ATTAATATACAAAATATAAAATATTATATATA
1 ATTAATATA-AAAATATAAAATATTATATATA
173991 TATATCGGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
ATTAATATAAAAATATAAAATATTATATATA
Found at i:174627 original size:36 final size:36
Alignment explanation
Indices: 174571--174661 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 36
174561 ATAGGTATGT
* *
174571 CACATTCAGTGCCATGTGATT-CTACCGTAGATGTGA
1 CACATTCAGTGCCCTGTGATTGC-ACCGTAGATGCGA
* * *
174607 CACATTCAATGCCCTTTGATTGCACCGTAGATGCGT
1 CACATTCAGTGCCCTGTGATTGCACCGTAGATGCGA
174643 CACATTCAGTGCCCTGTGA
1 CACATTCAGTGCCCTGTGA
174662 ATGTACATAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 46 0.98
37 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (36 bp):
CACATTCAGTGCCCTGTGATTGCACCGTAGATGCGA
Found at i:178047 original size:29 final size:30
Alignment explanation
Indices: 177983--178054 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
177973 TCTACTCATT
*
177983 ATCTTATACAAATTTATGTTTTAGATCCACA
1 ATCTTATAC-AATTTATATTTTAGATCCACA
* **
178014 A-CTTATACAATTTGTATTTTAG-TCCTTA
1 ATCTTATACAATTTATATTTTAGATCCACA
178042 ATCTTA-ACAATTT
1 ATCTTATACAATTT
178055 TACAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.33
29 16 0.44
30 7 0.19
31 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (30 bp):
ATCTTATACAATTTATATTTTAGATCCACA
Found at i:180904 original size:19 final size:19
Alignment explanation
Indices: 180880--180933 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
180870 CTCAAAATCA
***
180880 TTTTTCAAAATTTCATTTT
1 TTTTTCAAAATCAAATTTT
180899 TTTTTCAAAATCAAATTTT
1 TTTTTCAAAATCAAATTTT
*
180918 TCTTTCAAAATCAAAT
1 TTTTTCAAAATCAAAT
180934 CATTTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTTCAAAATCAAATTTT
Found at i:185201 original size:31 final size:31
Alignment explanation
Indices: 185163--185222 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
185153 CTTTTAAAAC
185163 TTACAATACAATCCCCCAACATTTAGTCTGT
1 TTACAATACAATCCCCCAACATTTAGTCTGT
*** *
185194 TTACAATATGGTCCCCTAACATTTAGTCT
1 TTACAATACAATCCCCCAACATTTAGTCT
185223 ACTTGTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (31 bp):
TTACAATACAATCCCCCAACATTTAGTCTGT
Found at i:185233 original size:31 final size:31
Alignment explanation
Indices: 185174--185238 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
185164 TACAATACAA
**
185174 TCCCCCAACATTTAGTCTGTTTACAATATGG
1 TCCCCCAACATTTAGTCTACTTACAATATGG
* **
185205 TCCCCTAACATTTAGTCTACTTGTAATATGG
1 TCCCCCAACATTTAGTCTACTTACAATATGG
185236 TCC
1 TCC
185239 TCGACATAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCTACTTACAATATGG
Found at i:187757 original size:31 final size:30
Alignment explanation
Indices: 187690--187767 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
187680 CAGTTATGTC
* *
187690 GGGGAACATATTGCAAACGGACTAAATGTTA
1 GGGG-ACATATTGCAAACAGACTAAATATTA
*
187721 GGGGACCATATTGCAAACAGACTAAATATTT
1 GGGGA-CATATTGCAAACAGACTAAATATTA
*
187752 TGGGACATTATTGCAA
1 GGGGACA-TATTGCAA
187768 GTTTTAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 3 0.07
31 38 0.93
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (30 bp):
GGGGACATATTGCAAACAGACTAAATATTA
Found at i:192463 original size:24 final size:23
Alignment explanation
Indices: 192430--192476 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
192420 ATCACAAGGG
* *
192430 TATCGGTACTACTATATTTAGTAT
1 TATCGATACTACCAT-TTTAGTAT
192454 TATCGATACTACCATTTTAGTAT
1 TATCGATACTACCATTTTAGTAT
192477 ACTGGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.45
Consensus pattern (23 bp):
TATCGATACTACCATTTTAGTAT
Found at i:192637 original size:20 final size:20
Alignment explanation
Indices: 192600--192639 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
192590 AGCATTCTGT
* **
192600 CTTAATAGTATCGGTACTAC
1 CTTAACAGTATCAATACTAC
192620 CTTAACAGTATCAATACTAC
1 CTTAACAGTATCAATACTAC
192640 TTCATTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
CTTAACAGTATCAATACTAC
Found at i:200837 original size:21 final size:23
Alignment explanation
Indices: 200811--200872 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 23
200801 AACCAAAAAG
*
200811 GTAGTATCGGTACCAT-CGCTAA
1 GTAGTATCGGTACCATACACTAA
*
200833 G-AGTATCGGTACTACTACACTAA
1 GTAGTATCGGTACCA-TACACTAA
*
200856 GTAGTATCGATACCATA
1 GTAGTATCGGTACCATA
200873 TATGGTATCG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 12 0.36
22 2 0.06
23 8 0.24
24 11 0.33
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (23 bp):
GTAGTATCGGTACCATACACTAA
Found at i:206703 original size:31 final size:30
Alignment explanation
Indices: 206655--206732 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
206645 CAGTTACGTC
* * ** *
206655 AGGGAACATATTACAAACGGACTAAATGTT
1 AGGGGACATATTGCAAACAAACTAAATATT
206685 AGGGGACCATATTGCAAACAAACTAAATATT
1 AGGGGA-CATATTGCAAACAAACTAAATATT
*
206716 TGGGGACATTATTGCAA
1 AGGGGACA-TATTGCAA
206733 GTTTTAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 7 0.17
31 33 0.82
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (30 bp):
AGGGGACATATTGCAAACAAACTAAATATT
Found at i:211431 original size:24 final size:23
Alignment explanation
Indices: 211398--211444 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
211388 ATCACAAGGG
* *
211398 TATCGGTACTACTATATTTAGTAT
1 TATCGATACTACCAT-TTTAGTAT
211422 TATCGATACTACCATTTTAGTAT
1 TATCGATACTACCATTTTAGTAT
211445 ACTGGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.45
Consensus pattern (23 bp):
TATCGATACTACCATTTTAGTAT
Found at i:239119 original size:90 final size:89
Alignment explanation
Indices: 238965--239130 Score: 255
Period size: 90 Copynumber: 1.9 Consensus size: 89
238955 CCTAACACAA
* * *
238965 CCTTTTATAGCCAAGTTACCCTAATCATATTAGTGTTTTATGTTTTCAATTTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCAAATCATATTAGGGTTTTATGTTTTCAAATTAATTAAATCTATA
239030 TTTAATTAATTGGAATTTAAGAAT
66 TTTAATTAATTGGAATTTAAGAAT
*
239054 CCTTTTATA-TCAAGGTTACCCAAATCATATTAGGGATTTTAT-TATTTCAAATTAATTAAATCT
1 CCTTTTATAGCCAA-GTTACCCAAATCATATTAGGG-TTTTATGT-TTTCAAATTAATTAAATCT
239117 ATATTTAATTAATT
63 ATATTTAATTAATT
239131 AAAATTAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
88 3 0.04
89 29 0.41
90 38 0.54
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCAAATCATATTAGGGTTTTATGTTTTCAAATTAATTAAATCTATA
TTTAATTAATTGGAATTTAAGAAT
Found at i:246364 original size:16 final size:15
Alignment explanation
Indices: 246334--246382 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
246324 TATATTTGAA
*
246334 AATAAA-ATAAAAAT
1 AATAAATATAATAAT
246348 AATAAATGATAATAAT
1 AATAAAT-ATAATAAT
*
246364 AA-AAATATTATAA-
1 AATAAATATAATAAT
246377 AATAAA
1 AATAAA
246383 CGAAACGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 15 0.50
15 4 0.13
16 9 0.30
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAAATATAATAAT
Found at i:246381 original size:22 final size:19
Alignment explanation
Indices: 246332--246382 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 19
246322 GATATATTTG
246332 AAAATAAAATAAAAATAAT
1 AAAATAAAATAAAAATAAT
246351 AAATGATAATAATAAAAATATTAT
1 AAA--ATAA-AATAAAAATA--AT
246375 AAAATAAA
1 AAAATAAA
246383 CGAAACGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 3 0.11
21 5 0.19
22 14 0.52
24 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATAAAATAAAAATAAT
Found at i:248524 original size:23 final size:25
Alignment explanation
Indices: 248498--248544 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
248488 CAATCATGCC
248498 AACTTATAATTTT-CA-AACATGTA
1 AACTTATAATTTTCCATAACATGTA
*
248521 AACTTCTAATTTTCCATAACATGT
1 AACTTATAATTTTCCATAACATGT
248545 GATTCAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 2 0.10
25 7 0.33
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (25 bp):
AACTTATAATTTTCCATAACATGTA
Found at i:250078 original size:26 final size:26
Alignment explanation
Indices: 250042--250100 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
250032 ACTGAAGTTC
*
250042 TAATACACAT-AAGATCGTGCCCACCA
1 TAATACACATAAAG-TCATGCCCACCA
250068 TAATACACATAAAGTCATGCCCACCA
1 TAATACACATAAAGTCATGCCCACCA
250094 T-ATACAC
1 TAATACAC
250101 TTAGCGCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 6 0.19
26 22 0.71
27 3 0.10
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (26 bp):
TAATACACATAAAGTCATGCCCACCA
Found at i:252774 original size:23 final size:23
Alignment explanation
Indices: 252746--252794 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
252736 TCGAGTATCC
252746 AAAGCTTTATGCAAAGAATTCCA
1 AAAGCTTTATGCAAAGAATTCCA
252769 AAAGCTTTATGCAAAGAATTCCA
1 AAAGCTTTATGCAAAGAATTCCA
252792 AAA
1 AAA
252795 TCTTGATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (23 bp):
AAAGCTTTATGCAAAGAATTCCA
Found at i:258328 original size:23 final size:23
Alignment explanation
Indices: 258298--258344 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
258288 ATGTATTCAA
258298 CCTCTGTTGTAGAATCAGCTACT
1 CCTCTGTTGTAGAATCAGCTACT
258321 CCTCTGTTGTAGAATCAGCTACT
1 CCTCTGTTGTAGAATCAGCTACT
258344 C
1 C
258345 TTCCTTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (23 bp):
CCTCTGTTGTAGAATCAGCTACT
Found at i:267124 original size:31 final size:29
Alignment explanation
Indices: 267075--267140 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
267065 CATATTACAT
*
267075 AACTTTTTAAAATTATACTTTAGTCC-CTA
1 AACTTTTTAAAATTATACTTTA-ACCACTA
*
267104 AACTTTTATAAAGTTTATACTTTAACCACTA
1 AACTTTT-TAAA-ATTATACTTTAACCACTA
267135 AACTTT
1 AACTTT
267141 CAAAACTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.22
30 6 0.19
31 19 0.59
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (29 bp):
AACTTTTTAAAATTATACTTTAACCACTA
Found at i:269201 original size:23 final size:24
Alignment explanation
Indices: 269146--269211 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
269136 CATAATATAT
269146 AAAATAAAATAAAAAATTAAAATGA
1 AAAATAAAAT-AAAAATTAAAATGA
* * *
269171 GACA-AAAATTAAAATTAAAAT-A
1 AAAATAAAATAAAAATTAAAATGA
* *
269193 AAAATAAAATCAATATTAA
1 AAAATAAAATAAAAATTAA
269212 TATTTATGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.09
23 23 0.70
24 5 0.15
25 2 0.06
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (24 bp):
AAAATAAAATAAAAATTAAAATGA
Found at i:271608 original size:183 final size:183
Alignment explanation
Indices: 271222--271608 Score: 654
Period size: 183 Copynumber: 2.1 Consensus size: 183
271212 ATTAAATTTT
* *
271222 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAAAATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
*
271287 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
271352 TATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
*
271405 AAATATTAAATATATTATATATAAAATATGGG-TTAAGCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAAAATATGGGCTCAA-CCCAAACCATTTAAAACCCAATTAATA
*
271469 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAATT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATT
271534 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT-AATTAAA
* *
271589 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
271609 AATTAGAAAA
Statistics
Matches: 193, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
182 3 0.02
183 123 0.64
184 67 0.35
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAAAATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTAATTAAA
Found at i:274158 original size:20 final size:21
Alignment explanation
Indices: 274119--274163 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
274109 CTCAGTATAT
*
274119 ATACACTTACTCAGGGTATCA
1 ATACACTTACACAGGGTATCA
* *
274140 ATACACTT-CACATGGTATCG
1 ATACACTTACACAGGGTATCA
274160 ATAC
1 ATAC
274164 TCTCATGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (21 bp):
ATACACTTACACAGGGTATCA
Found at i:274274 original size:20 final size:21
Alignment explanation
Indices: 274251--274289 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
274241 TCGATACTGA
*
274251 ATGAAC-AGTTTCAATACCCT
1 ATGAACAAGTATCAATACCCT
274271 ATGAACAAGTATCAATACC
1 ATGAACAAGTATCAATACC
274290 ACCAGCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (21 bp):
ATGAACAAGTATCAATACCCT
Found at i:275884 original size:35 final size:34
Alignment explanation
Indices: 275789--275888 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 34
275779 AAACAAACAT
* * *
275789 ATAAGTAAATATGAAAGTTTAGGATGAATATGAAGC
1 ATAAGTAAATATGAATGGTTA-GATGAA-ATGAAAC
* *
275825 ATAAATAAATATGTATGGTT---TGAAATGAAAC
1 ATAAGTAAATATGAATGGTTAGATGAAATGAAAC
*
275856 ATAAGTAAATATGCATGGTTAAGATGAAATGAA
1 ATAAGTAAATATGAATGGTT-AGATGAAATGAA
275889 TGCTAAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
31 24 0.45
32 4 0.08
35 9 0.17
36 16 0.30
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.29
Consensus pattern (34 bp):
ATAAGTAAATATGAATGGTTAGATGAAATGAAAC
Found at i:276103 original size:170 final size:170
Alignment explanation
Indices: 275815--276156 Score: 639
Period size: 170 Copynumber: 2.0 Consensus size: 170
275805 GTTTAGGATG
*
275815 AATATGAAGCATAAATAAATATGTATGGTTTGAAATGAAACATAAGTAAATATGCATGGTTAAGA
1 AATATAAAGCATAAATAAATATGTATGGTTTGAAATGAAACATAAGTAAATATGCATGGTTAAGA
275880 TGAAATGAATGCTAAAATACAGATATGATCATAGATTATATCAAATGTTAATATGAAACATTTTA
66 TGAAATGAATGCTAAAATACAGATATGATCATAGATTATATCAAATGTTAATATGAAACATTTTA
*
275945 TATAACCTATTGTGTAAAGTTTCTTCAATATAGGTATTAA
131 TATAACCTATTGTGTAAAGTTTATTCAATATAGGTATTAA
*
275985 AATATAAAGCATAAATAAATATGTATGGTTTGAAATGGAACATAAGTAAATATGCATGGTTAAGA
1 AATATAAAGCATAAATAAATATGTATGGTTTGAAATGAAACATAAGTAAATATGCATGGTTAAGA
*
276050 TGAAATGAATGCTAAAATACAGATTTGATCATAGATTATATCAAATGTTAATATGAAACATTTTA
66 TGAAATGAATGCTAAAATACAGATATGATCATAGATTATATCAAATGTTAATATGAAACATTTTA
*
276115 TATAACCTATTGTGTAAATTTTATTCAATATAGGTATTAA
131 TATAACCTATTGTGTAAAGTTTATTCAATATAGGTATTAA
276155 AA
1 AA
276157 ATATGAGCAT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 167 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (170 bp):
AATATAAAGCATAAATAAATATGTATGGTTTGAAATGAAACATAAGTAAATATGCATGGTTAAGA
TGAAATGAATGCTAAAATACAGATATGATCATAGATTATATCAAATGTTAATATGAAACATTTTA
TATAACCTATTGTGTAAAGTTTATTCAATATAGGTATTAA
Found at i:283553 original size:62 final size:62
Alignment explanation
Indices: 283470--283604 Score: 234
Period size: 62 Copynumber: 2.2 Consensus size: 62
283460 CTAATTAAGG
* *
283470 GTATCGATACTACCTAATCTTCACAATTTCTAATAGCATTTAATATCGATACCCATAGGGGA
1 GTATCGATACTACCTAATCTTCACAATTTCTAACAGCATTTAATATCGATACCCACAGGGGA
* *
283532 GTATCGATACTACCTATTCTTCATAATTTCTAACAGCATTTAATATCGATACCCACAGGGGA
1 GTATCGATACTACCTAATCTTCACAATTTCTAACAGCATTTAATATCGATACCCACAGGGGA
283594 GTATCGATACT
1 GTATCGATACT
283605 TAGGAGTCAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (62 bp):
GTATCGATACTACCTAATCTTCACAATTTCTAACAGCATTTAATATCGATACCCACAGGGGA
Found at i:301122 original size:36 final size:35
Alignment explanation
Indices: 300969--301132 Score: 208
Period size: 35 Copynumber: 4.6 Consensus size: 35
300959 TTGAATCTGA
* * *
300969 CCTTCACAGAGGAGTAGTGAAGTC-ATTCGAACTC-AG
1 CCTTCACAAAAGAGTAGTGAAG-CAATGC-AA-TCAAG
301005 CCTTCACAAAAGAGTAGTGAAGCAATGCAATCAAG
1 CCTTCACAAAAGAGTAGTGAAGCAATGCAATCAAG
* * *
301040 CCTTCAGAAAAGAGTAGTGAAGTAGTGCAATCAAG
1 CCTTCACAAAAGAGTAGTGAAGCAATGCAATCAAG
301075 CCTTCACAAAAGAGTAGTGAAGCAATGCAAATCCAA-
1 CCTTCACAAAAGAGTAGTGAAGCAATGC-AAT-CAAG
301111 CCTTCACAAAAGAGTAGTGAAG
1 CCTTCACAAAAGAGTAGTGAAG
301133 GATCAAATCA
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
34 2 0.02
35 62 0.54
36 48 0.42
37 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.19
Consensus pattern (35 bp):
CCTTCACAAAAGAGTAGTGAAGCAATGCAATCAAG
Found at i:301336 original size:16 final size:16
Alignment explanation
Indices: 301315--301347 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
301305 TTATAAGTAT
301315 TATAATAATATTATTA
1 TATAATAATATTATTA
*
301331 TATAATATTATTATTA
1 TATAATAATATTATTA
301347 T
1 T
301348 TATATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATAATATTATTA
Found at i:301366 original size:27 final size:27
Alignment explanation
Indices: 301312--301367 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
301302 TCATTATAAG
*
301312 TATTATAATAATATTATTATATAATAT
1 TATTATAATAATATTATAATATAATAT
* *
301339 TATTATTATTATATTATAAT-TAATTAT
1 TATTATAATAATATTATAATATAA-TAT
301366 TA
1 TA
301368 CAATTTTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTATAATAATATTATAATATAATAT
Found at i:303883 original size:12 final size:12
Alignment explanation
Indices: 303866--303892 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
303856 TTTGTGTGTG
303866 TATGTATGTATA
1 TATGTATGTATA
303878 TATGTATGTATA
1 TATGTATGTATA
303890 TAT
1 TAT
303893 ATATATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (12 bp):
TATGTATGTATA
Found at i:303885 original size:16 final size:16
Alignment explanation
Indices: 303864--303896 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
303854 TATTTGTGTG
*
303864 TGTATGTATGTATATA
1 TGTATGTATATATATA
303880 TGTATGTATATATATA
1 TGTATGTATATATATA
303896 T
1 T
303897 ATGATATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:308165 original size:37 final size:37
Alignment explanation
Indices: 308115--308198 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
308105 GAATCATATT
308115 ATTTGAAAATAATAAACAAAAATAATTTGTAAACCTG
1 ATTTGAAAATAATAAACAAAAATAATTTGTAAACCTG
308152 ATTTGAAAATAATAAACAAAAATAATTTGTAAACCTG
1 ATTTGAAAATAATAAACAAAAATAATTTGTAAACCTG
308189 ATTTGAAAAT
1 ATTTGAAAAT
308199 TGACAAAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (37 bp):
ATTTGAAAATAATAAACAAAAATAATTTGTAAACCTG
Found at i:308946 original size:56 final size:56
Alignment explanation
Indices: 308802--309460 Score: 627
Period size: 56 Copynumber: 11.8 Consensus size: 56
308792 ATCAATAATG
* * * ** ***
308802 TTGTAATGTTTAACTTATCCAAGTTTTTACAATCAAATATCAAAGTTTAAATATTG
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * * *
308858 TTGTAATGTCTTAACTTATCCAAGTTATTACATTCAAAGATGGAAGTCTGAATAACA
1 TTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * **
308915 TTGTAATGTTTAGCTTATCCAAGTTATTACATTCACTGATGGAAGTTTAAATAGCA
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * * * *
308971 TTGT-ATAGTTTAACTTATCCAATTTGTTACATTAAAATATGGAAGTTTGAATATCA
1 TTGTAAT-GTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * *
309027 TTGTAGA-GTTTAACTTATCCAACTTGTTACATTCACAA-ATGGAAGTTTGAATAGCG
1 TTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCA-AAGATGGAAGTTTAAATAGCA
* * * *
309083 TTGTAGA-GTTTAACTTATCCAAGTTGTTACATTTAAATAAGGAAGTTTAAATAGAA
1 TTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * * *
309139 TTGTAATGTATAACTTATCCAAG-TGTTACATTCAAAAATGAAAGTTTAAATAGTA
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * * * * **
309194 TTGTAATTTCTTAACTTATCCAAGTTTTTACAATCAAATATGGAAGTTTGAATAGTG
1 TTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * * *
309251 CTATAGA-GTTTAACTTATCCAAGTTGTTACATTCAAA-ATTGAAAGTTTACATAGCA
1 TTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCAAAGA-TGGAAGTTTAAATAGCA
* * * * **
309307 TTGTAATGTCTTAACATATCCAA---GTTACATTCAAAGATAGAGGTTTGAATAAAA
1 TTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* * * ** * **
309361 TTTTAATGTTTAACTTATCCAAGTTGTTACATTAAAAAATACAAGATTAAATAGTG
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
* *
309417 TTGTAAAGTCTTAACTTATCCAAGTTGTTGCATTCAAAGATGGA
1 TTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGA
309461 TAAGTTAAAA
Statistics
Matches: 498, Mismatches: 87, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
53 12 0.02
54 30 0.06
55 43 0.09
56 292 0.59
57 119 0.24
58 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (56 bp):
TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAGCA
Found at i:309038 original size:112 final size:113
Alignment explanation
Indices: 308802--309460 Score: 698
Period size: 112 Copynumber: 5.9 Consensus size: 113
308792 ATCAATAATG
* * * ***
308802 TTGTAATGTTTAACTTATCCAAGTTTTTACAATCA-AATATCAAAGTTTAAATATTGTTGTAATG
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCACAA-ATGAAAGTTTAAATAGCATTGTAATG
* * *
308866 TCTTAACTTATCCAAGTTATTACATTCAAAGATGGAAGTCTGAATAACA
65 TCTTAACTTATCCAAGTTGTTACATTCAAATATGGAAGTTTGAATAACA
* * ** *
308915 TTGTAATGTTTAGCTTATCCAAGTTATTACATTCACTGATGGAAGTTTAAATAGCATTGT-ATAG
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCACAAATGAAAGTTTAAATAGCATTGTAAT-G
* * *
308979 T-TTAACTTATCCAATTTGTTACATTAAAATATGGAAGTTTGAATATCA
65 TCTTAACTTATCCAAGTTGTTACATTCAAATATGGAAGTTTGAATAACA
* * * *
309027 TTGTAGA-GTTTAACTTATCCAACTTGTTACATTCACAAATGGAAGTTTGAATAGCGTTGTAGA-
1 TTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCACAAATGAAAGTTTAAATAGCATTGTA-AT
* * *
309090 GT-TTAACTTATCCAAGTTGTTACATTTAAATAAGGAAGTTTAAATAGA-A
64 GTCTTAACTTATCCAAGTTGTTACATTCAAATATGGAAGTTTGAATA-ACA
* * * *
309139 TTGTAATGTATAACTTATCCAAG-TGTTACATTCAAAAATGAAAGTTTAAATAGTATTGTAATTT
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCACAAATGAAAGTTTAAATAGCATTGTAATGT
* * ***
309203 CTTAACTTATCCAAGTTTTTACAATCAAATATGGAAGTTTGAATAGTG
66 CTTAACTTATCCAAGTTGTTACATTCAAATATGGAAGTTTGAATAACA
* * *
309251 CTATAGA-GTTTAACTTATCCAAGTTGTTACATTCA-AAATTGAAAGTTTACATAGCATTGTAAT
1 TTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCACAAA-TGAAAGTTTAAATAGCATTGTAAT
* * * * *
309314 GTCTTAACATATCCAA---GTTACATTCAAAGATAGAGGTTTGAATAAAA
64 GTCTTAACTTATCCAAGTTGTTACATTCAAATATGGAAGTTTGAATAACA
* * * * ** *
309361 TTTTAATGTTTAACTTATCCAAGTTGTTACATTAAAAAAT-ACAAGATTAAATAGTGTTGTAAAG
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCACAAATGA-AAGTTTAAATAGCATTGTAATG
* *
309425 TCTTAACTTATCCAAGTTGTTGCATTCAAAGATGGA
65 TCTTAACTTATCCAAGTTGTTACATTCAAATATGGA
309461 TAAGTTAAAA
Statistics
Matches: 458, Mismatches: 69, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
109 2 0.00
110 86 0.19
111 37 0.08
112 216 0.47
113 116 0.25
114 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (113 bp):
TTGTAATGTTTAACTTATCCAAGTTGTTACATTCACAAATGAAAGTTTAAATAGCATTGTAATGT
CTTAACTTATCCAAGTTGTTACATTCAAATATGGAAGTTTGAATAACA
Found at i:311049 original size:16 final size:15
Alignment explanation
Indices: 311007--311051 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
310997 ATGAGAATGA
311007 TATAAGCTATGTGAC
1 TATAAGCTATGTGAC
*
311022 TATAAGCTATGTGAG
1 TATAAGCTATGTGAC
311037 TATAAGTCTATGTGA
1 TATAAG-CTATGTGA
311052 TGATCTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (15 bp):
TATAAGCTATGTGAC
Found at i:311257 original size:44 final size:43
Alignment explanation
Indices: 311194--311289 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 43
311184 GTTCTATGCT
* * * *
311194 GTCCTTCGAGACATATATGTGGTCCTTCGGGACAATTCTACGTG
1 GTCCTTCGGGAAATATATGTGATCCTTCGAGAC-ATTCTACGTG
* * *
311238 GTCCTTCGGGAAATCTATGTGATTCTTCGAGACATTCTATGTG
1 GTCCTTCGGGAAATATATGTGATCCTTCGAGACATTCTACGTG
311281 G-CACTTCGG
1 GTC-CTTCGG
311290 TGCAATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 16 0.36
44 27 0.61
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (43 bp):
GTCCTTCGGGAAATATATGTGATCCTTCGAGACATTCTACGTG
Found at i:311288 original size:22 final size:22
Alignment explanation
Indices: 311185--311281 Score: 92
Period size: 21 Copynumber: 4.5 Consensus size: 22
311175 GAGTCGAGGG
311185 TTCTATGCT-GTCCTTCGAGACA
1 TTCTATG-TGGTCCTTCGAGACA
* *
311207 -TATATGTGGTCCTTCGGGACAA
1 TTCTATGTGGTCCTTCGAGAC-A
* *
311229 TTCTACGTGGTCCTTCGGGA-A
1 TTCTATGTGGTCCTTCGAGACA
* * *
311250 ATCTATGTGATTCTTCGAGACA
1 TTCTATGTGGTCCTTCGAGACA
311272 TTCTATGTGG
1 TTCTATGTGG
311282 CACTTCGGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.53
22 10 0.17
23 17 0.28
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (22 bp):
TTCTATGTGGTCCTTCGAGACA
Found at i:316394 original size:13 final size:13
Alignment explanation
Indices: 316376--316401 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
316366 ATAGTTTTCA
316376 AGGCTAAAACATT
1 AGGCTAAAACATT
316389 AGGCTAAAACATT
1 AGGCTAAAACATT
316402 CGGTCATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
AGGCTAAAACATT
Found at i:317491 original size:40 final size:40
Alignment explanation
Indices: 317436--317519 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
317426 CGCTAAGTGT
317436 ATATGGTGGGCACAACCTTATGTGTAATGTACTTCGATGC
1 ATATGGTGGGCACAACCTTATGTGTAATGTACTTCGATGC
* *
317476 ATATGGTGGGCACAACTTTATGTGTAATGTACTTCGGTGC
1 ATATGGTGGGCACAACCTTATGTGTAATGTACTTCGATGC
317516 ATAT
1 ATAT
317520 ATTACTGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (40 bp):
ATATGGTGGGCACAACCTTATGTGTAATGTACTTCGATGC
Found at i:320055 original size:12 final size:12
Alignment explanation
Indices: 320038--320069 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
320028 TACGAGAATA
320038 TCCAGAGGTGTT
1 TCCAGAGGTGTT
320050 TCCAGAGGTGTT
1 TCCAGAGGTGTT
*
320062 TCTAGAGG
1 TCCAGAGG
320070 AGCTACCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (12 bp):
TCCAGAGGTGTT
Found at i:329520 original size:19 final size:19
Alignment explanation
Indices: 329496--329541 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
329486 TTCTTGAGTA
*
329496 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAAAAAGTC
***
329515 TAGCCTTGTTTAAAAAGTC
1 TAGCCTTGAGCAAAAAGTC
329534 TAGCCTTG
1 TAGCCTTG
329542 TTTCTCACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (19 bp):
TAGCCTTGAGCAAAAAGTC
Found at i:333794 original size:20 final size:20
Alignment explanation
Indices: 333769--333841 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
333759 AAAAAACTGA
333769 GTGCATCGATGCATGGTATT
1 GTGCATCGATGCATGGTATT
333789 GTGCATCGATGCATGGTATT
1 GTGCATCGATGCATGGTATT
333809 GTGCATCGATGCATGGTA-T
1 GTGCATCGATGCATGGTATT
333828 GTGCATCGATGCAT
1 GTGCATCGATGCAT
333842 AAAATGCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 15 0.28
20 38 0.72
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATGGTATT
Found at i:333894 original size:20 final size:20
Alignment explanation
Indices: 333869--333906 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
333859 TGAAAAATTA
333869 ATTGGTACATCGATGCATGG
1 ATTGGTACATCGATGCATGG
* *
333889 ATTGGTGCATCGGTGCAT
1 ATTGGTACATCGATGCAT
333907 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTACATCGATGCATGG
Found at i:336046 original size:21 final size:21
Alignment explanation
Indices: 335988--336058 Score: 92
Period size: 23 Copynumber: 3.3 Consensus size: 21
335978 CTACGCAGTC
*
335988 CTTC-GGACATATATGTGGTT
1 CTTCGGGACATCTATGTGGTT
336008 CTTCGGGACAATTCTATGTGGTT
1 CTTCGGGAC-A-TCTATGTGGTT
336031 CTTCGGGACATCTATGTGG-T
1 CTTCGGGACATCTATGTGGTT
336051 CTATCGGG
1 CT-TCGGG
336059 GCATTTTATG
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
20 7 0.15
21 18 0.39
22 2 0.04
23 19 0.41
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (21 bp):
CTTCGGGACATCTATGTGGTT
Found at i:337046 original size:56 final size:56
Alignment explanation
Indices: 336973--337187 Score: 229
Period size: 56 Copynumber: 3.8 Consensus size: 56
336963 GAAGTAAAGA
* * *
336973 GTTTAACATATCCAAGTTGTTACATTTAAAGATGGAAGTTT-AGATAGTGTTATAGAT
1 GTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGA-ATAGTGTTGTA-AT
* * * *
337030 -TTTAACTTATCGAAGTTGTTGCATTCAAAAATGGAAGTTTGAATAATGTTGTAAT
1 GTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGTGTTGTAAT
** * * *
337085 GTTTAACTTGCCCAAGTTGTTACATTCAAAGACT-GAAGCTTGTATAGTTTTGTAAT
1 GTTTAACTTATCCAAGTTGTTACATTCAAAGA-TGGAAGTTTGAATAGTGTTGTAAT
* ** * *
337141 GTTTAACTTGTCCAAGTTAATACATTAAAAGATGGAATTTTGAATAG
1 GTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAG
337188 CATTAAAATG
Statistics
Matches: 131, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
55 3 0.02
56 126 0.96
57 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (56 bp):
GTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGTGTTGTAAT
Found at i:337176 original size:112 final size:112
Alignment explanation
Indices: 336984--337186 Score: 252
Period size: 112 Copynumber: 1.8 Consensus size: 112
336974 TTTAACATAT
* * * **
336984 CCAAGTTGTTACATTTAAAGATGGAAGTTTAGATAGTGTTATAGATTTTAACTTATCGAAGTTGT
1 CCAAGTTGTTACATTCAAAGATGGAAGCTTAGATAGTGTTATAGATTTTAACTTATCCAAGTTAA
*
337049 TGCATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGC
66 TACATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGC
* * *
337096 CCAAGTTGTTACATTCAAAGACT-GAAGCTT-GTATAGTTTTGTA-ATGTTTAACTTGTCCAAGT
1 CCAAGTTGTTACATTCAAAGA-TGGAAGCTTAG-ATAGTGTTATAGAT-TTTAACTTATCCAAGT
*
337158 TAATACATT-AAAAGATGGAATTTTGAATA
63 TAATACATTCAAAA-ATGGAAGTTTGAATA
337187 GCATTAAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
111 7 0.09
112 69 0.90
113 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (112 bp):
CCAAGTTGTTACATTCAAAGATGGAAGCTTAGATAGTGTTATAGATTTTAACTTATCCAAGTTAA
TACATTCAAAAATGGAAGTTTGAATAATGTTGTAATGTTTAACTTGC
Found at i:337377 original size:56 final size:56
Alignment explanation
Indices: 337204--337712 Score: 569
Period size: 56 Copynumber: 9.1 Consensus size: 56
337194 AATGGCTTAA
* * * *
337204 CAAATATGAAAGTTTGAATAATGTTGTAAAGTTTAACTTATCCAAGTTGATACATT
1 CAAATATGGAAGTTTGAATAATATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * ** * *
337260 CAAAGATGGAAATTTGTATAGCATTGTAATGTCTTAACTTATCCAAATTTTTACATT
1 CAAATATGGAAGTTTGAATAATATTGTAATGT-TTAACTTATCCAAGTTGTTACATT
* * * *
337317 CAAATATGGAAGTTTTAATAACATTGTAATGTTTAATTTATCCCAGTTGTTACATT
1 CAAATATGGAAGTTTGAATAATATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
337373 CAAATATGAAAGTTTAAATAGTGTTGTAGAT-TTTAACTTATCCAAGTTGTTACATT
1 CAAATATGGAAGTTTGAATAATATTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * ** * *
337429 AAAATATGTAAGTTTGAATAGCATTATAGA-GTTTAACTTATCTAAGTTGTTACATT
1 CAAATATGGAAGTTTGAATAATATTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
* * *
337485 CAAAGATGGAAGTTTGAATAAAATT-TAAATGTTTAACTTATCCAAGTTGTTACAAT
1 CAAATATGGAAGTTTGAATAATATTGT-AATGTTTAACTTATCCAAGTTGTTACATT
* * * * *
337541 CAAATATGAAAGTTTTAATAGTATTGTAATGTTTAACTTATCTAAGTTGTTGCATT
1 CAAATATGGAAGTTTGAATAATATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * *
337597 CAAATATGGAAGTTTGAATAATATTGTAATGTTTTACTTATCCAATTTATTACATT
1 CAAATATGGAAGTTTGAATAATATTGTAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
337653 CAAATATGGAAATTTGAA-AAGAATTATAGA-GTTTAACTTATCCAAGTTGTTACTTT
1 CAAATATGGAAGTTTGAATAA-TATTGTA-ATGTTTAACTTATCCAAGTTGTTACATT
337709 CAAA
1 CAAA
337713 AAATGGAACA
Statistics
Matches: 381, Mismatches: 64, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
55 4 0.01
56 325 0.85
57 52 0.14
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (56 bp):
CAAATATGGAAGTTTGAATAATATTGTAATGTTTAACTTATCCAAGTTGTTACATT
Found at i:337536 original size:168 final size:168
Alignment explanation
Indices: 337204--337712 Score: 641
Period size: 168 Copynumber: 3.0 Consensus size: 168
337194 AATGGCTTAA
* * * * *
337204 CAAATATGAAAGTTTGAATAATGTTGTAAAGTTTAACTTATCCAAGTTGATACATTCAAAGATGG
1 CAAATATGAAAGTTTAAATAGTGTTGT-AATTTTAACTTATCCAAGTTGTTACATTCAAATATGG
* * * *
337269 AAATTTGTATAGCATTGTAATGTCTTAACTTATCCAAATTTTTACATTCAAATATGGAAGTTTTA
65 AAGTTTGAATAGCATTGTAATGT-TTAACTTATCCAAATTATTACATTCAAATATGGAAGTTTGA
* * * *
337334 ATAACATTGT-AATGTTTAATTTATCCCAGTTGTTACATT
129 ATAAAATTATAAATGTTTAACTTATCCAAGTTGTTACATT
* *
337373 CAAATATGAAAGTTTAAATAGTGTTGTAGATTTTAACTTATCCAAGTTGTTACATTAAAATATGT
1 CAAATATGAAAGTTTAAATAGTGTTGTA-ATTTTAACTTATCCAAGTTGTTACATTCAAATATGG
* * * * *
337438 AAGTTTGAATAGCATTATAGA-GTTTAACTTATCTAAGTTGTTACATTCAAAGATGGAAGTTTGA
65 AAGTTTGAATAGCATTGTA-ATGTTTAACTTATCCAAATTATTACATTCAAATATGGAAGTTTGA
*
337502 ATAAAATT-TAAATGTTTAACTTATCCAAGTTGTTACAAT
129 ATAAAATTATAAATGTTTAACTTATCCAAGTTGTTACATT
* * * *
337541 CAAATATGAAAGTTTTAATAGTATTGTAATGTTTAACTTATCTAAGTTGTTGCATTCAAATATGG
1 CAAATATGAAAGTTTAAATAGTGTTGTAAT-TTTAACTTATCCAAGTTGTTACATTCAAATATGG
** * * *
337606 AAGTTTGAATAATATTGTAATGTTTTACTTATCCAATTTATTACATTCAAATATGGAAATTTGAA
65 AAGTTTGAATAGCATTGTAATGTTTAACTTATCCAAATTATTACATTCAAATATGGAAGTTTGAA
* *
337671 -AAGAATTATAGA-GTTTAACTTATCCAAGTTGTTACTTT
130 TAA-AATTATAAATGTTTAACTTATCCAAGTTGTTACATT
337709 CAAA
1 CAAA
337713 AAATGGAACA
Statistics
Matches: 296, Mismatches: 37, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
167 6 0.02
168 212 0.72
169 77 0.26
170 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (168 bp):
CAAATATGAAAGTTTAAATAGTGTTGTAATTTTAACTTATCCAAGTTGTTACATTCAAATATGGA
AGTTTGAATAGCATTGTAATGTTTAACTTATCCAAATTATTACATTCAAATATGGAAGTTTGAAT
AAAATTATAAATGTTTAACTTATCCAAGTTGTTACATT
Found at i:337810 original size:56 final size:56
Alignment explanation
Indices: 337714--337858 Score: 193
Period size: 56 Copynumber: 2.6 Consensus size: 56
337704 ACTTTCAAAA
* * *
337714 AATGGAACAACTTGGATAATTTAAAC-TCTACAATGCTATTCAAAATTCCATATTTG
1 AATGTAACAACTTGGATAAGTTAAACAT-TACAACGCTATTCAAAATTCCATATTTG
* * * *
337770 AATGTATCAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATCTTTG
1 AATGTAACAACTTGGATAAGTTAAACATTACAACGCTATTCAAAATTCCATATTTG
*
337826 AATGTAACAACTTGGATAAGTTAAGAAATTACA
1 AATGTAACAACTTGGATAAGTTAA-ACATTACA
337859 TCACCTACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
56 70 0.90
57 8 0.10
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (56 bp):
AATGTAACAACTTGGATAAGTTAAACATTACAACGCTATTCAAAATTCCATATTTG
Found at i:341290 original size:46 final size:44
Alignment explanation
Indices: 341228--341343 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 44
341218 ATAACATCCA
* * *
341228 TTCATGTTTATGATGCACCATTATGAATTTTCAATTATAGCATACT
1 TTCATGTTGATAATGCACCA-TATGAA-TTTCAACTATAGCATACT
* * *
341274 TTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATCCT
1 TTCATGTTGATAATGCA-CCATATGAATTTCAACTATAGCATACT
* *
341319 TTCATGATGAAAATGCACCCATATG
1 TTCATGTTGATAATGCA-CCATATG
341344 CATTATTATT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
45 38 0.63
46 19 0.32
47 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (44 bp):
TTCATGTTGATAATGCACCATATGAATTTCAACTATAGCATACT
Found at i:341313 original size:45 final size:44
Alignment explanation
Indices: 341256--341437 Score: 161
Period size: 45 Copynumber: 4.0 Consensus size: 44
341246 CATTATGAAT
341256 TTTCAATTATAGCATACTTTTATGTTGATAATGCACCCATATGCA
1 TTTCAATTATAGCAT-CTTTTATGTTGATAATGCACCCATATGCA
* * * *
341301 TTTCAACTATAGCATCCTTTCATGATGAAAATGCACCCATATGCA
1 TTTCAATTATAGCAT-CTTTTATGTTGATAATGCACCCATATGCA
* * * *
341346 TTAT-TATTTTGGCATCTTTTCATGTCGATAATGCACCCATATGCA
1 TT-TCAATTATAGCATCTTTT-ATGTTGATAATGCACCCATATGCA
* * * * * * *
341391 TTAT-TATTTTGGCATCCTTTCATATCGATAATGAACCCATATGCA
1 TT-TCAATTATAGCAT-CTTTTATGTTGATAATGCACCCATATGCA
341436 TT
1 TT
341438 ATTATTTTGG
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
44 4 0.03
45 109 0.92
46 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (44 bp):
TTTCAATTATAGCATCTTTTATGTTGATAATGCACCCATATGCA
Found at i:341406 original size:90 final size:90
Alignment explanation
Indices: 341267--341447 Score: 251
Period size: 90 Copynumber: 2.0 Consensus size: 90
341257 TTCAATTATA
*
341267 GCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGCATCCTTTCATGAT-GAAA
1 GCATACTTTTATGTCGATAATGCACCCATATGCATTTCAACTATAGCATCCTTTCAT-ATCGAAA
*
341331 ATGCACCCATATGCATTATTATTTTG
65 ATGAACCCATATGCATTATTATTTTG
* * * * *
341357 GCAT-CTTTTCATGTCGATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCATATCGAT
1 GCATACTTTT-ATGTCGATAATGCACCCATATGCATT-TCAACTATAGCATCCTTTCATATCGAA
341420 AATGAACCCATATGCATTATTATTTTG
64 AATGAACCCATATGCATTATTATTTTG
341447 G
1 G
341448 AATTCGTTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
89 7 0.09
90 73 0.90
91 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (90 bp):
GCATACTTTTATGTCGATAATGCACCCATATGCATTTCAACTATAGCATCCTTTCATATCGAAAA
TGAACCCATATGCATTATTATTTTG
Found at i:341438 original size:45 final size:45
Alignment explanation
Indices: 341282--341447 Score: 228
Period size: 45 Copynumber: 3.7 Consensus size: 45
341272 CTTTTATGTT
* * * *
341282 GATAATGCACCCATATGCATT-TCAACTATAGCATCCTTTCATGAT-
1 GATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCAT-ATC
* * *
341327 GAAAATGCACCCATATGCATTATTATTTTGGCATCTTTTCATGTC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATATC
341372 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATATC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATATC
*
341417 GATAATGAACCCATATGCATTATTATTTTGG
1 GATAATGCACCCATATGCATTATTATTTTGG
341448 AATTCGTTTT
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.01
45 106 0.98
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (45 bp):
GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATATC
Found at i:341908 original size:19 final size:19
Alignment explanation
Indices: 341854--341922 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
341844 CTCCTCAGTG
*
341854 TCGATACCCCTACAATGATA
1 TCGATA-CCCTACTATGATA
341874 TCGATACTACCATACTATGATA
1 TCGATAC--CC-TACTATGATA
* *
341896 CCGATACCCTACTATGGTA
1 TCGATACCCTACTATGATA
341915 TCGATACC
1 TCGATACC
341923 ATTTTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 17 0.40
20 8 0.19
21 2 0.05
22 15 0.36
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.28
Consensus pattern (19 bp):
TCGATACCCTACTATGATA
Found at i:348018 original size:20 final size:22
Alignment explanation
Indices: 347979--348021 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
347969 ACTAAGCCTT
347979 TTAGTATTGGTACATTTGAGTA
1 TTAGTATTGGTACATTTGAGTA
*
348001 TTAGTATT-G-ACCTTTGAGTA
1 TTAGTATTGGTACATTTGAGTA
348021 T
1 T
348022 CATTACTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (22 bp):
TTAGTATTGGTACATTTGAGTA
Found at i:360198 original size:18 final size:18
Alignment explanation
Indices: 360175--360215 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
360165 ACGGTCAATA
360175 GGTCGGG-TCAACGGGTCG
1 GGTCGGGCT-AACGGGTCG
*
360193 GGTCGGGCTAATGGGTCG
1 GGTCGGGCTAACGGGTCG
360211 GGTCG
1 GGTCG
360216 AACCGGCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.10, C:0.20, G:0.51, T:0.20
Consensus pattern (18 bp):
GGTCGGGCTAACGGGTCG
Done.