Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 79 of 126
Found at i:23694662 original size:16 final size:17
Alignment explanation
Indices: 23694641--23694679 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
23694631 TTTTTTTTTT
23694641 TTTTTTCAA-ACTTT-GA
1 TTTTTTCAATA-TTTCGA
23694657 TTTTTTCAATATTTCGA
1 TTTTTTCAATATTTCGA
23694674 TTTTTT
1 TTTTTT
23694680 TCTTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTTTCAATATTTCGA
Found at i:23696243 original size:215 final size:214
Alignment explanation
Indices: 23695865--23696828 Score: 1140
Period size: 215 Copynumber: 4.5 Consensus size: 214
23695855 TGACACTTAG
* * **
23695865 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTT-TCTCTTGGTCCTCAGC
1 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGC
* * * * * * *
23695929 CTAACTTCTTAACTTGTCAAACTTTTACAATTTCTTTTATAACTTTGGATCCTTAAAGTTTTCAA
66 CAAACTTC-AAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * * *
23695994 TATGATCCATTCT-TTCGAGCAATTTTCCGAACATTCCATGCTCAGGTAATCGCATCATTTGGTC
130 GACGATCCATT-TATTCGAGCAATTTTCTGAACATTCCATGCTC-GGAAATCGCATCATTTGGTC
*
23696058 TAAAAAGTTTGTCATTTTGTAA
193 TAAATAGTTTGTCATTTTGTAA
* * *
23696080 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCGCTCTTGGTTCATGGC
1 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGC
* *
23696145 CAAAATTCAAACTTGTCAAACTTTT-CGGAGTTCTTTTATTACTTCGGTTCCTTAAAGTATTCAA
66 CAAACTTCAAACTTGTCAAACTTTTAC-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * * * * *
23696209 TACGATCCATTTATTTGAGCAATTTTCTGAACATTACATGATCGGGAAATCAG-ATCATTTTGCC
130 GACGATCCATTTATTCGAGCAATTTTCTGAACATTCCATGCTC-GGAAATC-GCATCATTTGGTC
23696273 TAAATAGTTTGTCATTTTGTAA
193 TAAATAGTTTGTCATTTTGTAA
* * **
23696295 ACTAAATTTT-GTCTTTGAATTAAAAACTTATTTACATGAGTGTTGTTTCTCTCTTGGTTCTTGG
1 AC-AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * * * *
23696359 CCGAACTTTCGAACTTGTCAAACTTTTATGTGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCA
65 CCAAAC-TTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
*
23696424 AGACGATCC----ATTC---C----TTC-GAACAATCCATGCTCGCGAAATCGCATCATTTGGTC
129 AGACGATCCATTTATTCGAGCAATTTTCTGAACATTCCATGCTCG-GAAATCGCATCATTTGGTC
*
23696477 TAAATAGTTTTTTCATTTTGTAA
193 TAAATAG-TTTGTCATTTTGTAA
*
23696500 ACAACTTTTGGTCTTTGAATTAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGCTTCTTGG
1 ACAACTTTTGGTCTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * * * *
23696565 TCGAACTTTCGAACCTGTCAAACTTTTACGAGTT-TGTTTATAACTTCGCTTCCTTTAAAGTATT
65 CCAAAC-TTCAAACTTGTCAAACTTTTACGAGTTCT-TTTATAACTTCGGTTCC-TTAAAGTATT
** * * *
23696629 CAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTTCATGCTTTGGAAATCGCATCATTTGG
127 CAAGACGATCCATTTATTCGAGCAATTTTCTGAACATTCCATGC-TCGGAAATCGCATCATTTGG
23696694 TCTAAATAGTTTGTCATTTTGTAA
191 TCTAAATAGTTTGTCATTTTGTAA
* * *
23696718 ATAACTTTTGGTCTTTGAATT-AAAACTTATTTACGTGAGAATTGTTTATCTCTTGGTTCTTGGT
1 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGC
* * *
23696782 CGAACTTCCAATCTTGTCAAACTTTTACGAATT-TATTTATAACTTCG
66 CAAACTT-CAAACTTGTCAAACTTTTACGAGTTCT-TTTATAACTTCG
23696829 TGATGTGAGC
Statistics
Matches: 650, Mismatches: 71, Indels: 55
0.84 0.09 0.07
Matches are distributed among these distances:
203 2 0.00
204 40 0.06
205 31 0.05
206 84 0.13
207 21 0.03
209 1 0.00
211 3 0.00
212 3 0.00
214 3 0.00
215 223 0.34
216 164 0.25
218 36 0.06
219 37 0.06
220 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (214 bp):
ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGC
CAAACTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
ACGATCCATTTATTCGAGCAATTTTCTGAACATTCCATGCTCGGAAATCGCATCATTTGGTCTAA
ATAGTTTGTCATTTTGTAA
Found at i:23696586 original size:206 final size:207
Alignment explanation
Indices: 23696253--23696828 Score: 747
Period size: 206 Copynumber: 2.7 Consensus size: 207
23696243 TACATGATCG
* * *
23696253 GGAAATCAG-ATCATTTTGCCTAAATAGTTTGTCATTTTGTAAACTAAATTTT-GTCTTTGAATT
1 GGAAATC-GCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC-AACTTTTGGTCTTTGAATT
* ** *
23696316 AAAAACTTATTTACATGAGTGTTGTTTCTCTCTTGGTTCTTGGCCGAACTTTCGAACTTGTCAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGAACTTGTCAAA
* * * *
23696381 CTTTTATGTGTTCT-TTTATAACTTTGGTTCC-TTAAAGTATTCAAGACGATCCATTCCTTCGAA
129 CTTTTACGAGTT-TGTTTATAACTTCGCTTCCTTTAAAGTATTCAAGACGATCCATTCCTTCGAA
23696444 CAA-T-C-CATGCTC
193 CAATTACTCATGCTC
*
23696456 GCGAAATCGCATCATTTGGTCTAAATAGTTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATT
1 G-GAAATCGCATCATTTGGTCTAAATAG-TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT
* *
23696521 AAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGCTTCTTGGTCGAACTTTCGAACCTGTCAA
64 -AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGAACTTGTCAA
*
23696586 ACTTTTACGAGTTTGTTTATAACTTCGCTTCCTTTAAAGTATTCAAGACGATCCATTCCTTCGAG
128 ACTTTTACGAGTTTGTTTATAACTTCGCTTCCTTTAAAGTATTCAAGACGATCCATTCCTTCGAA
*
23696651 CAATTTTTTGAACATTTCATGCTTT
193 CAA----TT--AC---TCATGC-TC
*
23696676 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAATAACTTTTGGTCTTTGAATT-A
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
* *
23696740 AAACTTATTTACGTGAGAATTGTTTATCTCTTGGTTCTTGGTCGAAC-TTCCAATCTTGTCAAAC
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGAA-CTTGTCAAAC
* *
23696804 TTTTACGAATTTATTTATAACTTCG
130 TTTTACGAGTTTGTTTATAACTTCG
23696829 TGATGTGAGC
Statistics
Matches: 328, Mismatches: 24, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
203 2 0.01
204 28 0.09
205 28 0.09
206 84 0.26
207 34 0.10
212 1 0.00
215 6 0.02
216 78 0.24
218 34 0.10
219 31 0.09
220 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (207 bp):
GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGAACTTGTCAAACT
TTTACGAGTTTGTTTATAACTTCGCTTCCTTTAAAGTATTCAAGACGATCCATTCCTTCGAACAA
TTACTCATGCTC
Found at i:23697257 original size:50 final size:50
Alignment explanation
Indices: 23697178--23697333 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 50
23697168 TGATATCCAT
* * *
23697178 TAACTCTCATGATTAGTTAAGTTTTCATCATAAATAATGACATGCATTAAG
1 TAACTCACATG-TTAGTTAAATTTGCATCATAAATAATGACATGCATTAAG
* * ** *
23697229 TAACTTACATGTTAGTTAAATATGCATCATAAATCCT-ATCATGCATTATG
1 TAACTCACATGTTAGTTAAATTTGCATCATAAATAATGA-CATGCATTAAG
* * *
23697279 TAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATCAA-GTCATGCATTTAG
1 TAACTCACATGTTAGTTAAA-TTTGCATCA-TAAAT-AATGACATGCATTAAG
23697331 TAA
1 TAA
23697334 TCAATTAGTT
Statistics
Matches: 84, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
49 1 0.01
50 49 0.58
51 17 0.20
52 17 0.20
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (50 bp):
TAACTCACATGTTAGTTAAATTTGCATCATAAATAATGACATGCATTAAG
Found at i:23698860 original size:216 final size:215
Alignment explanation
Indices: 23698465--23699645 Score: 1335
Period size: 215 Copynumber: 5.5 Consensus size: 215
23698455 AGCTCACATC
* * * ** *
23698465 ACTTTGGTTCCATAAAGTATTCAAAACGATCCATTCCTTCGAGCAATTTGCCGAACATTTCATGC
1 ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC
* * * * * *
23698530 TTTCGAAATCCCATCATTTGGTCTAAATTGTTAGTCATTTTGTAAACAACTTTTGGTTTTTAAAT
66 TCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAAT
* * *
23698595 TAAAATCTTATTTACGTAAGAAATGTTTCTCTCTTGTTCTTTG-ACGAACTTCTGAACTTGTCAA
131 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTC-TTGCACGAACTTCTGAACTTGTCAA
**
23698659 AATTTTATTAGTTCTTTTATA
195 AATTTTACGAGTTCTTTTATA
* * * *
23698680 ACTTCAGTTCATTAAAAGTATTCAAGACGATCCATTTCTTCGAGTAATTTTTCGAACATTCCATG
1 ACTTCGGTTCCTT-AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATG
* * * * * *
23698745 CTCTAGAAATCGCATCATTTGGACTAAATAATTTGTCCTTTTGTAAACAAATTTTAGTC-TTATA
65 CTCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTA-A
* *
23698809 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTCTTGCACGAACTTCTGAACTTCTTA
129 ATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTCTTGCACGAACTTCTGAACTTGTCA
* * *
23698874 CATTTTTACGATTTCTTTTATA
194 AAATTTTACGAGTTCTTTTATA
* * * * * * *
23698896 ACTTTGATTCCTTAAAGTATTCAAGATGATCCAGTCCTTTGAGCAATTTTCCAAACATTCCATGC
1 ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC
* * * *
23698961 ACGGGAAATCGCATAATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGTCTTTAAAT
66 TCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAAT
* * * * * * * *
23699026 TAATAACTTATTTATGTTAGAA---TTTCTCT-TGGTTCATGGACAAACTT-TCGAACTAGTCAA
131 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTCTTGCACGAACTTCT-GAACTTGTCAA
23699086 ACA-TTTACGAGTTCTTTTATA
195 A-ATTTTACGAGTTCTTTTATA
* * * *
23699107 ACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCAAGCAATTTTTCGAACAATCCTTGC
1 ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC
* * *
23699172 TCGGGAAATCGCATCATTTGGTCTATATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAAT
66 TCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAAT
* * * *
23699237 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTCCT-CGACCTAACTTCTTAACTTGTCA
131 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTCTTGC-A-CGAACTTCTGAACTTGTCA
* * * *
23699301 AACTTTTACAAGTTCATTTACA
194 AAATTTTACGAGTTCTTTTATA
* * ** * * *
23699323 ACTTTGGATATTTAAAGT-TTCAATACGATCTAGTCCTTCGAGCAATTTTTCGAACATTCCATGC
1 ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC
* * * * * * * *
23699387 TCTGGAAATCACATCATTTTGCCGAAATAGTTTGTCATTTTGTGAACTATTTTTGGTCTTTGAAT
66 TCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAAT
* * *
23699452 TAAAAACTTATTTACGTTG-GTATTGTTTCTCTCTTGGTTTTTGGC-CGAACTTTTGAACTTGTC
131 TAAAAACTTATTTACG-TGAGAATTGTTTCTCTCTT-GTTCTT-GCACGAACTTCTGAACTTGTC
*
23699515 AAACTTTTACGAGTTCTTTTATA
193 AAAATTTTACGAGTTCTTTTATA
** * * **
23699538 ACAACGGTTCCTTAAAGTATCCAAGACGATCCATTCCTTTGAATAATTTTTCGAACATTCCATGC
1 ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC
* *
23699603 T-TGGGAAATTGCATCATTTGGTCTAAATAGTTTTTCATTTTGT
66 TCT-GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
23699646 TTAGGGGTGT
Statistics
Matches: 805, Mismatches: 141, Indels: 39
0.82 0.14 0.04
Matches are distributed among these distances:
210 1 0.00
211 174 0.22
212 7 0.01
214 7 0.01
215 311 0.39
216 303 0.38
217 1 0.00
218 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (215 bp):
ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC
TCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAAT
TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTCTTGCACGAACTTCTGAACTTGTCAAA
ATTTTACGAGTTCTTTTATA
Found at i:23719823 original size:14 final size:16
Alignment explanation
Indices: 23719799--23719835 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
23719789 GCCTGAACTT
*
23719799 GACCTAATTTA-CCAA
1 GACCCAATTTACCCAA
23719814 -ACCCAATTTACCCAA
1 GACCCAATTTACCCAA
23719829 GACCCAA
1 GACCCAA
23719836 CAAGCCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 9 0.47
15 4 0.21
16 6 0.32
ACGTcount: A:0.41, C:0.35, G:0.05, T:0.19
Consensus pattern (16 bp):
GACCCAATTTACCCAA
Found at i:23720332 original size:63 final size:66
Alignment explanation
Indices: 23720245--23720387 Score: 193
Period size: 63 Copynumber: 2.2 Consensus size: 66
23720235 ATGTACATAT
* * **
23720245 ATATATATATATACACATAGATATACATCTTGATTTTTTTTTTATTATTTTATA-TACGTACG-A
1 ATATATATATATAAACATAAATATACATCTTGATTTCATTTTTATTATTTTATATTACGTACGTA
23720308 -
66 C
* * *
23720308 ATATATATATATAAATATAAATATACATTTTGATTTCATTTTTATTATTTTATATTTACGTATGT
1 ATATATATATATAAACATAAATATACATCTTGATTTCATTTTTATTATTTTATA-TTACGTACGT
23720373 AC
65 AC
23720375 ATATATATATATA
1 ATATATATATATA
23720388 TATAGATAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
63 48 0.70
65 7 0.10
66 1 0.01
67 13 0.19
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (66 bp):
ATATATATATATAAACATAAATATACATCTTGATTTCATTTTTATTATTTTATATTACGTACGTA
C
Found at i:23720389 original size:63 final size:61
Alignment explanation
Indices: 23720249--23720418 Score: 166
Period size: 63 Copynumber: 2.7 Consensus size: 61
23720239 ACATATATAT
* * * * * *
23720249 ATATATATACACATAGATATACATCTTGATTTTTTTTTTATTATTTTATATACGTACGAATAT
1 ATATATATAAATATAAATATACATTTTGA-TTTATTTTTATTATTTTATATACGTACG-ATAC
*
23720312 ATATATATAAATATAAATATACATTTTGATTTCATTTTTATTATTTTATATTTACGTATG-TAC
1 ATATATATAAATATAAATATACATTTTGATTT-ATTTTTATTATTTTATA--TACGTACGATAC
* * * *
23720375 ATATATATATATATATAGATAGATTTT-A-TTATTTTTATATATTT
1 ATATATATAAATATAAATATACATTTTGATTTATTTTTAT-TATTT
23720419 AAAATAGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
60 8 0.09
61 7 0.08
62 4 0.04
63 66 0.72
65 7 0.08
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.52
Consensus pattern (61 bp):
ATATATATAAATATAAATATACATTTTGATTTATTTTTATTATTTTATATACGTACGATAC
Found at i:23721163 original size:21 final size:21
Alignment explanation
Indices: 23721117--23721166 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
23721107 TTTTGGTTTT
**
23721117 ATTTTTTAAAATCTTCTCATT
1 ATTTTTTAAAATCTTCTCAGC
*
23721138 TTTTTTTAAAAT-TTGCTCAGC
1 ATTTTTTAAAATCTT-CTCAGC
23721159 ATTTTTTA
1 ATTTTTTA
23721167 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTTTTAAAATCTTCTCAGC
Found at i:23721355 original size:12 final size:12
Alignment explanation
Indices: 23721338--23721362 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23721328 TAAATATGTG
23721338 TATATTATTTTT
1 TATATTATTTTT
23721350 TATATTATTTTT
1 TATATTATTTTT
23721362 T
1 T
23721363 CATTCCCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:23729295 original size:123 final size:123
Alignment explanation
Indices: 23728980--23729432 Score: 622
Period size: 123 Copynumber: 3.7 Consensus size: 123
23728970 TTTGGTCTAG
* ** * * * *
23728980 TTCTCTATACCTCACCAAGAAGATGACTGCTTCATTGTCTGA-CTCACTTCTCTATATCTTACCA
1 TTCTCTATATCTCACCAAGAAGATGACCACTTCATTGTTTGACCT-ACTTCTCTGTACCTCACCA
* * * *
23729044 GGAAGATGGGGTTTAAAGTTTCACTCACATTTGAGCTTCACCTCATTATTTTTGTACAC
65 GGAAGATGGGGTCTGAAGTTTCACTCACATTTGAGCTTCTCCTCATTATTTTGGTACAC
* * * *
23729103 TT-TTTATATCTCACCAGGAAGATGACCACTTCATTGTTTGACGTACTTCTCTGTACCTCATCAG
1 TTCTCTATATCTCACCAAGAAGATGACCACTTCATTGTTTGACCTACTTCTCTGTACCTCACCAG
* * *
23729167 GAAGATAGGGTTTGAAGTTTCACTCACATTTGAGCTTCTTCTCATTATTTTGGTACAC
66 GAAGATGGGGTCTGAAGTTTCACTCACATTTGAGCTTCTCCTCATTATTTTGGTACAC
* * *
23729225 TTCTCTGTATCTCACTAAGAAGATGACCACATCATTGTTTGACCTACTTCTCTGTACCTCACCAG
1 TTCTCTATATCTCACCAAGAAGATGACCACTTCATTGTTTGACCTACTTCTCTGTACCTCACCAG
* *
23729290 AAAGATGGGGTCTGAAGTTTAACTCACATTTGAGCTTCTCCTCATTATTTTGGTACAC
66 GAAGATGGGGTCTGAAGTTTCACTCACATTTGAGCTTCTCCTCATTATTTTGGTACAC
* * * * * *
23729348 TTCTCTGTATCTCACCAGGAAGATGATCACTTTATTGTTTGACCTACTTCTCTGTACCTTACCAT
1 TTCTCTATATCTCACCAAGAAGATGACCACTTCATTGTTTGACCTACTTCTCTGTACCTCACCAG
23729413 GAAGATGGGGTCTGAAGTTT
66 GAAGATGGGGTCTGAAGTTT
23729433 TAACTTCATT
Statistics
Matches: 292, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
122 104 0.36
123 188 0.64
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (123 bp):
TTCTCTATATCTCACCAAGAAGATGACCACTTCATTGTTTGACCTACTTCTCTGTACCTCACCAG
GAAGATGGGGTCTGAAGTTTCACTCACATTTGAGCTTCTCCTCATTATTTTGGTACAC
Found at i:23729676 original size:49 final size:49
Alignment explanation
Indices: 23729623--23729718 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
23729613 AGGTACTAGG
* * *
23729623 TTTGTCGTTGCGACCTCAACCTTTC-CTTTTATATTTTCATGGTACCGAA
1 TTTGTCATTGCGACCTCAACCTTTCTC-TTCATATCTTCATGGTACCGAA
* *
23729672 TTTGTCATTGCGGCCTCAATCTTTCTCTTCATATCTTCATGGTACCG
1 TTTGTCATTGCGACCTCAACCTTTCTCTTCATATCTTCATGGTACCG
23729719 GGTTCACCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 40 0.98
50 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.43
Consensus pattern (49 bp):
TTTGTCATTGCGACCTCAACCTTTCTCTTCATATCTTCATGGTACCGAA
Found at i:23729772 original size:50 final size:50
Alignment explanation
Indices: 23729679--23730210 Score: 463
Period size: 50 Copynumber: 10.7 Consensus size: 50
23729669 GAATTTGTCA
* * *
23729679 TTGCGGCCTCAATCTTTCTCTTCATATCTTC-ATGGTACCGGGTTCACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
* * * *
23729728 TTGCAGG-TTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTCATTC-
1 TTGC-GGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCA-CCG
** * * *
23729778 TTGCAACCGT-AACCTTTCCCTTCATATCTTTTAAGGTATCGGGTTCGCCG
1 TTGCGGCC-TCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
* * *
23729828 TTGCGGCCTCAACCTTTCTCTTCATATCTTC-ATGGTACCGGATTCACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
** * * * * *
23729877 TTGTTGCCTCAATCTTTCCCATCACATCTTCTAAGGTACTGGGCTT-GCCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGG-TTCACCG
* * * * * **
23729927 TTGCGGCCTTAATCTTTCCCTTCATATCTTC-ATGGTACTGGATTCGTCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
* * * * * * *
23729976 TTGCAGCCTCAATCTTTCCCATCACATCTTCTAAAGTATCGGATTCACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
* * * * * ***
23730026 TTGCAGCCTCAACCTTTCCTTTCATATCTTC-ATGGTATCGGATTCGTTG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
* * * * *
23730075 TTGCGGCTTCAACCTTTCCCATCACATCTTCTAAGGCATCGGGTTCACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
** *
23730125 TTGCGGCCTCAACCTTTCCCTTCATATCTT-TATAGGTATAGGGTTTACCG
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTA-AGGTACCGGGTTCACCG
* *
23730175 TTGCGGCCTTAACCTTTCCCTTCATAT-TTCCAAGGT
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGT
23730211 GTTAGATTCA
Statistics
Matches: 389, Mismatches: 80, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
48 2 0.01
49 150 0.39
50 233 0.60
51 4 0.01
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (50 bp):
TTGCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCGGGTTCACCG
Found at i:23730201 original size:149 final size:148
Alignment explanation
Indices: 23729679--23730194 Score: 511
Period size: 149 Copynumber: 3.5 Consensus size: 148
23729669 GAATTTGTCA
* * * *
23729679 TTGCGGCCTCAATCTTTCTCTTCATATCTTCATGGTACCGGGTTCACCGTTGCAGG-TTCAACCT
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTGC-GGCCTCAACCT
* * * * ** *
23729743 TTCCCATCACATCTTCTAAGGTACCGGGTTCATTCTTGCAACCGTAACCTTTCCCTTCATATCTT
65 TTCCCATCACATCTTCTAAGGTATCGGATTCGTTGTTGC-GGCTTAACCTTTCCCTTCATATCTT
*
23729808 TTAAGGTATCGGGTTCGCCG
129 CTAAGGTATCGGGTTCGCCG
* ** *
23729828 TTGCGGCCTCAACCTTTCTCTTCATATCTTCATGGTACCGGATTCACCGTTGTTGCCTCAATCTT
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTGCGGCCTCAACCTT
* * ** *
23729893 TCCCATCACATCTTCTAAGGTACTGGGCTT-GCCGTTGCGGCCTTAATCTTTCCCTTCATATCTT
66 TCCCATCACATCTTCTAAGGTA-TCGGATTCGTTGTTGCGG-CTTAACCTTTCCCTTCATATCTT
* * *
23729957 C-ATGGTA-CTGGATTCGTCG
129 CTAAGGTATC-GGGTTCGCCG
* * * * ** * *
23729976 TTGCAGCCTCAATCTTTCCCATCACATCTTCTAAAGTATCGGATTCACCGTTGCAGCCTCAACCT
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGATTCACCGTTGCGGCCTCAACCT
** * * * *
23730041 TTCCTTTCATATCTTC-ATGGTATCGGATTCGTTGTTGCGGCTTCAACCTTTCCCATCACATCTT
65 TTCCCATCACATCTTCTAAGGTATCGGATTCGTTGTTGCGGCTT-AACCTTTCCCTTCATATCTT
* *
23730105 CTAAGGCATCGGGTTCACCG
129 CTAAGGTATCGGGTTCGCCG
* ** * * *
23730125 TTGCGGCCTCAACCTTTCCCTTCATATCTTTATAGGTATAGGGTTTACCGTTGCGGCCTTAACCT
1 TTGCGGCCTCAACCTTTCCCTTCATATCTTCAT-GGTACCGGATTCACCGTTGCGGCCTCAACCT
23730190 TTCCC
65 TTCCC
23730195 TTCATATTTC
Statistics
Matches: 296, Mismatches: 61, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
147 9 0.03
148 72 0.24
149 210 0.71
150 5 0.02
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (148 bp):
TTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCACCGTTGCGGCCTCAACCTT
TCCCATCACATCTTCTAAGGTATCGGATTCGTTGTTGCGGCTTAACCTTTCCCTTCATATCTTCT
AAGGTATCGGGTTCGCCG
Found at i:23730221 original size:99 final size:99
Alignment explanation
Indices: 23729628--23730243 Score: 492
Period size: 99 Copynumber: 6.2 Consensus size: 99
23729618 CTAGGTTTGT
* * * * * * *** * * *
23729628 CGTTGCGACCTCAACCTTTCCTTTTATATTTTCATGGTACCGAATTTGTCATTGCGGCCTCAATC
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGATTCACCGTTGCGGCCTTAACC
* * * * * *
23729693 TTTCTCTTCATATCTTC-ATGGTACCGGGTTCAC
66 TTTCCCATCACATCTTCTAAGGTATCGGATTCAC
* * * * * * * ** *
23729726 CGTTGCAGG-TTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTCATTC-TTGCAACCGTA
1 CGTTGC-GGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATCGGATTCA-CCGTTGCGGCCTTA
* * * * *
23729789 ACCTTTCCCTTCATATCTTTTAAGGTATCGGGTTCGC
63 ACCTTTCCCATCACATCTTCTAAGGTATCGGATTCAC
* * ** * *
23729826 CGTTGCGGCCTCAACCTTTCTCTTCATATCTTCATGGTACCGGATTCACCGTTGTTGCCTCAATC
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGATTCACCGTTGCGGCCTTAACC
* * *
23729891 TTTCCCATCACATCTTCTAAGGTACTGGGCTT-GC
66 TTTCCCATCACATCTTCTAAGGTA-TCGGATTCAC
* * ** * * *
23729925 CGTTGCGGCCTTAATCTTTCCCTTCATATCTTCATGGTA-CTGGATTCGTCGTTGCAGCCTCAAT
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATC-GGATTCACCGTTGCGGCCTTAAC
*
23729989 CTTTCCCATCACATCTTCTAAAGTATCGGATTCAC
65 CTTTCCCATCACATCTTCTAAGGTATCGGATTCAC
* * ***
23730024 CGTTGCAGCCTCAACCTTTCCTTTCATATCTTCATGGTATCGGATTCGTTGTTGCGG-CTTCAAC
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGATTCACCGTTGCGGCCTT-AAC
* *
23730088 CTTTCCCATCACATCTTCTAAGGCATCGGGTTCAC
65 CTTTCCCATCACATCTTCTAAGGTATCGGATTCAC
* * * *
23730123 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTTATAGGTATAGGGTTTACCGTTGCGGCCTTAAC
1 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT-GGTATCGGATTCACCGTTGCGGCCTTAAC
* * * * **
23730188 CTTTCCCTTCATAT-TTCCAAGGTGTTAGATTCAC
65 CTTTCCCATCACATCTTCTAAGGTATCGGATTCAC
* *
23730222 CATTGCGGCCTCAATC-TTCCCT
1 CGTTGCGGCCTCAACCTTTCCCT
23730244 ATCAAACCTG
Statistics
Matches: 424, Mismatches: 81, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
98 39 0.09
99 304 0.72
100 78 0.18
101 3 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (99 bp):
CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGATTCACCGTTGCGGCCTTAACC
TTTCCCATCACATCTTCTAAGGTATCGGATTCAC
Found at i:23730221 original size:198 final size:196
Alignment explanation
Indices: 23729628--23730235 Score: 615
Period size: 198 Copynumber: 3.1 Consensus size: 196
23729618 CTAGGTTTGT
* * * * * **
23729628 CGTTGCGACCTCAACCTTTCCTTTTATATTTTCATGGTACCGAATTTGTCATTGCGGCCTCAATC
1 CGTTGCGGCCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTTGTTGCGG-CTCAATC
* * * * * * *
23729693 TTTCTCTTCATATCTTC-ATGGTACCGGGTTCACCGTTGCAGG-TTCAACCTTTCCCATCACATC
65 TTTCCCATCACATCTTCTAAGGTA-CGGGTTCACCGTTGC-GGCCTCAACCTTTCCCTTCATATC
* * * *
23729756 TTCTA-AGGTACCGGGTTCATTC-TTGCAACCGTAACCTTTCCCTTCATATCTTTTAAGGTATCG
128 TT-TATAGGTA-TGGGTTCA-TCGTTGCAGCCTTAACCTTTCCCTTCATATCTTCTAAGGTATCG
* *
23729819 GGTTCGC
190 GATTCAC
23729826 CGTTGCGGCCTCAACCTTT-CTCTTCATATCTTCATGGTACCGGATTCACCGTTGTTGC--CTCA
1 CGTTGCGGCCTCAACCTTTCCT-TTCATATCTTCATGGTACCGGATT---CGTTGTTGCGGCTCA
* * *
23729888 ATCTTTCCCATCACATCTTCTAAGGTACTGGGCTT-GCCGTTGCGGCCTTAATCTTTCCCTTCAT
62 ATCTTTCCCATCACATCTTCTAAGGTAC-GGG-TTCACCGTTGCGGCCTCAACCTTTCCCTTCAT
* * * * * * * *
23729952 ATCTTCAT-GGTACTGGATTCGTCGTTGCAGCCTCAATCTTTCCCATCACATCTTCTAAAGTATC
125 ATCTTTATAGGTA-TGGGTTCATCGTTGCAGCCTTAACCTTTCCCTTCATATCTTCTAAGGTATC
23730016 GGATTCAC
189 GGATTCAC
* * *
23730024 CGTTGCAGCCTCAACCTTTCCTTTCATATCTTCATGGTATCGGATTCGTTGTTGCGGCTTCAACC
1 CGTTGCGGCCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTTGTTGCGGC-TCAATC
*
23730089 TTTCCCATCACATCTTCTAAGGCATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCT
65 TTTCCCATCACATCTTCTAAGGTA-CGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCT
* * * * * **
23730154 TTATAGGTATAGGGTTTACCGTTGCGGCCTTAACCTTTCCCTTCATAT-TTCCAAGGTGTTAGAT
129 TTATAGGTAT-GGGTTCATCGTTGCAGCCTTAACCTTTCCCTTCATATCTTCTAAGGTATCGGAT
23730218 TCAC
193 TCAC
*
23730222 CATTGCGGCCTCAA
1 CGTTGCGGCCTCAA
23730236 TCTTCCCTAT
Statistics
Matches: 337, Mismatches: 55, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
195 9 0.03
197 7 0.02
198 245 0.73
199 68 0.20
200 2 0.01
201 6 0.02
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (196 bp):
CGTTGCGGCCTCAACCTTTCCTTTCATATCTTCATGGTACCGGATTCGTTGTTGCGGCTCAATCT
TTCCCATCACATCTTCTAAGGTACGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTT
ATAGGTATGGGTTCATCGTTGCAGCCTTAACCTTTCCCTTCATATCTTCTAAGGTATCGGATTCA
C
Found at i:23731928 original size:9 final size:9
Alignment explanation
Indices: 23731911--23731946 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
23731901 TTCGTCTTGA
*
23731911 CTTTCCTTT
1 CTTTTCTTT
23731920 CTTTTCTTT
1 CTTTTCTTT
23731929 CTTTTCTTT
1 CTTTTCTTT
23731938 CTTTTCTTT
1 CTTTTCTTT
23731947 GGATAACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:23737828 original size:15 final size:15
Alignment explanation
Indices: 23737808--23737851 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23737798 ACAAAAGACA
* *
23737808 AAGAAAAAGACAGAG
1 AAGAAAAAAACAAAG
23737823 AAGAAAAAAACAAAG
1 AAGAAAAAAACAAAG
* *
23737838 AACAAAAGAACAAA
1 AAGAAAAAAACAAA
23737852 ATATGTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.75, C:0.09, G:0.16, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAACAAAG
Found at i:23738106 original size:67 final size:67
Alignment explanation
Indices: 23738035--23738170 Score: 191
Period size: 67 Copynumber: 2.0 Consensus size: 67
23738025 ATGTACATAT
* * *
23738035 ATATATATCTTGATTTTATTTTTATTATTTTTTATATACGTATGAATATATATATATATAAATAT
1 ATATACATCTTGATTTCATTTTTATTATTTTTTATATACGTATGAACATATATATATATAAATAT
23738100 AG
66 AG
* * ** * *
23738102 ATATACATTTTGATTTCATTTTTATTATTTTTTATATATGTATGTGCATATATATATATAGATCT
1 ATATACATCTTGATTTCATTTTTATTATTTTTTATATACGTATGAACATATATATATATAAATAT
23738167 AG
66 AG
23738169 AT
1 AT
23738171 TTTATTATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (67 bp):
ATATACATCTTGATTTCATTTTTATTATTTTTTATATACGTATGAACATATATATATATAAATAT
AG
Found at i:23756233 original size:23 final size:24
Alignment explanation
Indices: 23756199--23756243 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
23756189 CCAACAAGAG
23756199 AATTATTGTTTAG-ATTTAATTCT
1 AATTATTGTTTAGAATTTAATTCT
23756222 AATTATCT-TTTAGAATTTAATT
1 AATTAT-TGTTTAGAATTTAATT
23756244 TAGATCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (24 bp):
AATTATTGTTTAGAATTTAATTCT
Found at i:23759064 original size:13 final size:13
Alignment explanation
Indices: 23759046--23759083 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23759036 ACAATATATT
23759046 TCTTTTCTTTTTC
1 TCTTTTCTTTTTC
*
23759059 TCTTTTCTTCTTC
1 TCTTTTCTTTTTC
23759072 T-TTTT-TTTTTC
1 TCTTTTCTTTTTC
23759083 T
1 T
23759084 TTTATTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 6 0.26
12 4 0.17
13 13 0.57
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TCTTTTCTTTTTC
Found at i:23759496 original size:20 final size:20
Alignment explanation
Indices: 23759464--23759509 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
23759454 ACATGGTTTA
*
23759464 AATTAAGTATAAATA-GATTT
1 AATTAAGTATAAAAATGA-TT
23759484 AATTAAG-ATTAAAAATGATT
1 AATTAAGTA-TAAAAATGATT
23759504 AATTAA
1 AATTAA
23759510 AGCTTAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 20 0.87
21 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (20 bp):
AATTAAGTATAAAAATGATT
Found at i:23776917 original size:80 final size:80
Alignment explanation
Indices: 23776784--23776938 Score: 202
Period size: 80 Copynumber: 1.9 Consensus size: 80
23776774 TTAAATCATT
* * * * * * * * *
23776784 TCGTCAACTCTTGGCACCCGGTGCCTAGCGGATAAATCGCGATTAGTGAGCCCAGCTCTAGTTGG
1 TCGTCAACTCATGGCACCCAGTGCCTAGCAGATAAACCGCGATAAATGAGCCCAGCTATAATTAG
23776849 ATTAACCAACGAAAC
66 ATTAACCAACGAAAC
* * *
23776864 TCGTCAATTCATGGCACCTAGTGCCTAGCAGATAAACCGTGATAAATGAGCCCAGCTATAATTAG
1 TCGTCAACTCATGGCACCCAGTGCCTAGCAGATAAACCGCGATAAATGAGCCCAGCTATAATTAG
23776929 ATTAACCAAC
66 ATTAACCAAC
23776939 TATATTGCGC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (80 bp):
TCGTCAACTCATGGCACCCAGTGCCTAGCAGATAAACCGCGATAAATGAGCCCAGCTATAATTAG
ATTAACCAACGAAAC
Found at i:23796997 original size:20 final size:20
Alignment explanation
Indices: 23796957--23796998 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23796947 GTGAGATCAA
* * *
23796957 GTCATGAACAGTGAAATTAT
1 GTCATGAACAATAAAAGTAT
23796977 GTCATGAACAATAAAAGTAT
1 GTCATGAACAATAAAAGTAT
23796997 GT
1 GT
23796999 ATAAATATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (20 bp):
GTCATGAACAATAAAAGTAT
Found at i:23798562 original size:30 final size:31
Alignment explanation
Indices: 23798498--23798565 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
23798488 AAGCCACCTA
*
23798498 GACTATTTTGTCACTTTTCAATAACTTTAGT
1 GACTATTTTGTCACTTTTCAATAACTTGAGT
* *
23798529 GACTATTTTGTCACATTTT-GA-AAGTTGAGT
1 GACTATTTTGTCAC-TTTTCAATAACTTGAGT
23798559 GACTATT
1 GACTATT
23798566 ATGTTAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 14 0.42
31 15 0.45
32 4 0.12
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (31 bp):
GACTATTTTGTCACTTTTCAATAACTTGAGT
Found at i:23805802 original size:34 final size:34
Alignment explanation
Indices: 23805755--23805826 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
23805745 TTCACCAATC
* **
23805755 GAAAGTCACGTTGATTGCTATCCTAAAAAAAAAA
1 GAAAGCCACGTTGATTGCTATCAAAAAAAAAAAA
* *
23805789 GAAAGCCATGTTGATTGCTCTCAAAAAAAAAAAA
1 GAAAGCCACGTTGATTGCTATCAAAAAAAAAAAA
23805823 GAAA
1 GAAA
23805827 AGAAAAAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (34 bp):
GAAAGCCACGTTGATTGCTATCAAAAAAAAAAAA
Found at i:23810054 original size:3 final size:3
Alignment explanation
Indices: 23810046--23810077 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23810036 TATATATATT
23810046 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
23810078 ATTATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:23810082 original size:3 final size:3
Alignment explanation
Indices: 23810076--23810101 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23810066 CTTCTTCTTC
23810076 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
23810102 TTTCCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23819205 original size:5 final size:5
Alignment explanation
Indices: 23819145--23819188 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
23819135 GAAAAAATGT
* *
23819145 TAAAC TAAAA TAAAA TGAAAA TAAAA T-AAA TAAAG TAAAA TAAA
1 TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAA
23819189 TCTTGTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:23828421 original size:15 final size:12
Alignment explanation
Indices: 23828413--23828437 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23828403 AAATTAATCT
23828413 AAGAAAAATTAA
1 AAGAAAAATTAA
23828425 AAGAAAAATTAA
1 AAGAAAAATTAA
23828437 A
1 A
23828438 TTCCAATGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAGAAAAATTAA
Found at i:23833412 original size:17 final size:17
Alignment explanation
Indices: 23833390--23833437 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
23833380 TGATAAATGG
**
23833390 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
*
23833407 AGATGCAATGACAATAA
1 AAATGCAATGACAATAA
23833424 AAATGCAATGACAA
1 AAATGCAATGACAA
23833438 AGGAAATGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:23833444 original size:17 final size:17
Alignment explanation
Indices: 23833377--23833445 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
23833367 TATTAACTTT
*
23833377 CAATGATAAATGGAAATG
1 CAATGACAAA-GGAAATG
* * *
23833395 CAATGACAATGTAGATG
1 CAATGACAAAGGAAATG
*
23833412 CAATGACAATA-AAAATG
1 CAATGACAA-AGGAAATG
23833429 CAATGACAAAGGAAATG
1 CAATGACAAAGGAAATG
23833446 TGGTGACAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
16 1 0.02
17 32 0.78
18 8 0.20
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.19
Consensus pattern (17 bp):
CAATGACAAAGGAAATG
Found at i:23835692 original size:26 final size:26
Alignment explanation
Indices: 23835662--23835712 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
23835652 CAAAAGAAAG
23835662 GACTTTATTCC-AGCAAAAATACTAAA
1 GACTTTATTCCTA-CAAAAATACTAAA
23835688 GACTTTATTCCTACAAAAATACTAA
1 GACTTTATTCCTACAAAAATACTAA
23835713 GGAAGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (26 bp):
GACTTTATTCCTACAAAAATACTAAA
Found at i:23848639 original size:30 final size:30
Alignment explanation
Indices: 23848603--23848663 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
23848593 AATTTAGGAT
23848603 GTTAAAATGCAAGTAAATGCATGTTGCTAA
1 GTTAAAATGCAAGTAAATGCATGTTGCTAA
23848633 GTTAAAATGCAAGTAAATGCATGTTGCTAA
1 GTTAAAATGCAAGTAAATGCATGTTGCTAA
23848663 G
1 G
23848664 CAATTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (30 bp):
GTTAAAATGCAAGTAAATGCATGTTGCTAA
Found at i:23860958 original size:20 final size:21
Alignment explanation
Indices: 23860933--23860971 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23860923 TGAATTTTTA
*
23860933 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTCAGTGACT
23860953 GCATTTTCTAACTCAGTGA
1 GCATTTTCTAACTCAGTGA
23860972 TGCTCGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGACT
Found at i:23870586 original size:43 final size:43
Alignment explanation
Indices: 23870520--23870638 Score: 184
Period size: 43 Copynumber: 2.8 Consensus size: 43
23870510 TTATCATGCT
* * *
23870520 CTCAATCAATCACATACTATCAATATTAGGAAACAATGTTCCA
1 CTCAATCGATCACATACTTTCAATATTAGAAAACAATGTTCCA
*
23870563 CTCAATCGATCACATACTTTCAATATTAGAAAACAATGTTCCT
1 CTCAATCGATCACATACTTTCAATATTAGAAAACAATGTTCCA
* *
23870606 CTCAATCGAACACATACTTTCAATATTAAAAAA
1 CTCAATCGATCACATACTTTCAATATTAGAAAA
23870639 TAGTGTTTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (43 bp):
CTCAATCGATCACATACTTTCAATATTAGAAAACAATGTTCCA
Found at i:23876495 original size:123 final size:122
Alignment explanation
Indices: 23876280--23876628 Score: 509
Period size: 122 Copynumber: 2.8 Consensus size: 122
23876270 TTAATATATT
* * * *
23876280 ATATTAAAATGGAAATATATATCTTTATAGAAATATATGGAACGTTTATTAAACCATTATATTCT
1 ATATTAAAATGGAAATAT-T-TCTTTAAAGAAATATATGGAAAGTTTATTAAAACATTATATCCT
* * *
23876345 TTCCAAAGGGATATTAACTTCCGTGTTTTTAATATTTAATTTCCTTTTCTAGAATATCTC
64 TTCCAAAAGGATATTAACTTCCATGTTTTTAATATTTAATTTCCTTTT-TAGAATATCTA
* *
23876405 ATATTAAAATGGAAATATTTCTTTAAAGAAATATATGGAAGGTTTATTAAAACATTACATCCTTT
1 ATATTAAAATGGAAATATTTCTTTAAAGAAATATATGGAAAGTTTATTAAAACATTATATCCTTT
* * *
23876470 CCAAAAAGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTTATAATATCTA
66 CCAAAAGGATATTAACTTCCATGTTTTTAATATTTAATTTCCTTTTTAGAATATCTA
* * * * *
23876527 ATATTAAAATAGAAATATTCCTTTAAAGAAATATATGAAAAATTTATTAAAACATTATATCATTT
1 ATATTAAAATGGAAATATTTCTTTAAAGAAATATATGGAAAGTTTATTAAAACATTATATCCTTT
*
23876592 CCAAAAGGATATTAACTTTCATGTTTTTAATATTTAA
66 CCAAAAGGATATTAACTTCCATGTTTTTAATATTTAA
23876629 CGAAATCATT
Statistics
Matches: 203, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
122 101 0.50
123 83 0.41
124 1 0.00
125 18 0.09
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (122 bp):
ATATTAAAATGGAAATATTTCTTTAAAGAAATATATGGAAAGTTTATTAAAACATTATATCCTTT
CCAAAAGGATATTAACTTCCATGTTTTTAATATTTAATTTCCTTTTTAGAATATCTA
Found at i:23876754 original size:106 final size:107
Alignment explanation
Indices: 23876569--23876771 Score: 354
Period size: 106 Copynumber: 1.9 Consensus size: 107
23876559 ATATGAAAAA
*
23876569 TTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTTAACGAAA
1 TTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTTAACAAAA
*
23876634 TCATTATAATTAATAATTATAATTACGTTAAATTAAGGAAAT
66 TCAGTATAATTAATAATTATAATTACGTTAAATTAAGGAAAT
* * *
23876676 TTTATTAAAATATTATATCCTTTCCAAAGGGATATTAACTTTCATG-TTTTAATATTTAACAAAA
1 TTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTTAACAAAA
23876740 TCAGTATAATTAATAATTATAATTACGTTAAA
66 TCAGTATAATTAATAATTATAATTACGTTAAA
23876772 CTATATTCAA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
106 48 0.53
107 43 0.47
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (107 bp):
TTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTTAACAAAA
TCAGTATAATTAATAATTATAATTACGTTAAATTAAGGAAAT
Found at i:23886232 original size:34 final size:33
Alignment explanation
Indices: 23886186--23886314 Score: 116
Period size: 34 Copynumber: 3.8 Consensus size: 33
23886176 GGCTGTTATG
* * *
23886186 CATACAGGGAAAGTTAGGAGGAGAAGTTAGAGTC
1 CATACAGAGAAAGTTA-TAGGAGAAGTTAAAGTC
* * *
23886220 TATACAGAGAAAGTTATTATGTGAAGTTAAAGTC
1 CATACAGAGAAAGTTA-TAGGAGAAGTTAAAGTC
* *
23886254 CATATAGAGAAAGTTATATGAAGAAGTTATAA-TC
1 CATACAGAGAAAGTTATA-GGAGAAGTTA-AAGTC
* *
23886288 CATACAGAGAAAGCTATATGAGGAAGT
1 CATACAGAGAAAGTTATAGGA-GAAGT
23886315 CTAAGCCCAT
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
33 3 0.04
34 71 0.93
35 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.25
Consensus pattern (33 bp):
CATACAGAGAAAGTTATAGGAGAAGTTAAAGTC
Found at i:23886325 original size:34 final size:33
Alignment explanation
Indices: 23886207--23886326 Score: 125
Period size: 34 Copynumber: 3.5 Consensus size: 33
23886197 AGTTAGGAGG
*
23886207 AGAAGTTAGAGTCTATACAGAGAAAGTTATTATG-
1 AGAAGTTA-AGTCCATACAGAGAAAGTTA-TATGA
* *
23886241 TGAAGTTAAAGTCCATATAGAGAAAGTTATATGA
1 AGAAGTT-AAGTCCATACAGAGAAAGTTATATGA
* *
23886275 AGAAGTTATAATCCATACAGAGAAAGCTATATGA
1 AGAAGTTA-AGTCCATACAGAGAAAGTTATATGA
* *
23886309 GGAAGTCTAAGCCCATAC
1 AGAAGT-TAAGTCCATAC
23886327 TAAAAGTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
33 5 0.07
34 64 0.89
35 3 0.04
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (33 bp):
AGAAGTTAAGTCCATACAGAGAAAGTTATATGA
Found at i:23888239 original size:23 final size:23
Alignment explanation
Indices: 23888211--23888255 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23888201 TCAACTCGTC
23888211 TTTTTCTTCCTTTTTTCACAATT
1 TTTTTCTTCCTTTTTTCACAATT
* *
23888234 TTTTTCTTCTTTTTTTGACAAT
1 TTTTTCTTCCTTTTTTCACAAT
23888256 AACATCAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTCTTCCTTTTTTCACAATT
Found at i:23889332 original size:12 final size:13
Alignment explanation
Indices: 23889304--23889333 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
23889294 GTTTATTTGC
23889304 AAAACAAAATATA
1 AAAACAAAATATA
23889317 AAAACAAAATATA
1 AAAACAAAATATA
23889330 AAAA
1 AAAA
23889334 GTAAGTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAACAAAATATA
Found at i:23890259 original size:19 final size:18
Alignment explanation
Indices: 23890231--23890266 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23890221 TTATTAATAT
*
23890231 TTTATATTTTTAATATTC
1 TTTATATTTTAAATATTC
23890249 TTTATTATTTTAAATATT
1 TTTA-TATTTTAAATATT
23890267 TTTTTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATTTTAAATATTC
Found at i:23890266 original size:9 final size:9
Alignment explanation
Indices: 23890224--23890269 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
23890214 ATTATAATTA
23890224 TTAATA-TT
1 TTAATATTT
23890232 TT-ATATTT
1 TTAATATTT
23890240 TTAATATTCT
1 TTAATATT-T
*
23890250 TTATTATTT
1 TTAATATTT
*
23890259 TAAATATTT
1 TTAATATTT
23890268 TT
1 TT
23890270 TTTGTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
7 3 0.10
8 6 0.19
9 14 0.45
10 8 0.26
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TTAATATTT
Found at i:23894151 original size:18 final size:18
Alignment explanation
Indices: 23894128--23894170 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23894118 GAATAGATTT
23894128 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
23894146 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
23894164 TTAATTA
1 TTAATTA
23894171 CACATTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:23894234 original size:27 final size:27
Alignment explanation
Indices: 23894191--23894255 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
23894181 TGGAAAAGAA
* * *
23894191 AAACTATT-TGTTTCATTTTGATTGAAG
1 AAACTATTCT-TTCCATTTTGACTAAAG
23894218 AAACTATTCTTTCCATTTTGACTAAAG
1 AAACTATTCTTTCCATTTTGACTAAAG
23894245 AAACTATTCTT
1 AAACTATTCTT
23894256 ATCCTAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (27 bp):
AAACTATTCTTTCCATTTTGACTAAAG
Found at i:23895630 original size:15 final size:15
Alignment explanation
Indices: 23895610--23895639 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23895600 AATGAAAAAT
*
23895610 TTTCCACATTATCTA
1 TTTCCACATGATCTA
23895625 TTTCCACATGATCTA
1 TTTCCACATGATCTA
23895640 CGAGTATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (15 bp):
TTTCCACATGATCTA
Found at i:23912253 original size:36 final size:36
Alignment explanation
Indices: 23912206--23912275 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
23912196 GTGAGTTTTT
23912206 GATAAGGTAGATTGGAGAGACATTTCAGATCTATTC
1 GATAAGGTAGATTGGAGAGACATTTCAGATCTATTC
23912242 GATAAGGTAGATTGGAGAGACATTTCAGATCTAT
1 GATAAGGTAGATTGGAGAGACATTTCAGATCTAT
23912276 GTAGTTCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (36 bp):
GATAAGGTAGATTGGAGAGACATTTCAGATCTATTC
Found at i:23924728 original size:52 final size:51
Alignment explanation
Indices: 23924649--23924837 Score: 236
Period size: 52 Copynumber: 3.6 Consensus size: 51
23924639 GCTATAAATG
*
23924649 AAAGGATCCGATGACTAAGTGTCATTGTGAGTAAATGAATCCTTTACGGATTT
1 AAAGG-TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGA-TT
* * * *
23924702 AAAGGTCCGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * *
23924753 AAAGGTCCGATGACTCAGTGTTATCGTGAGTATATGAATTCCTATACGGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATT
23924805 AAGAGGTCCGATGACTATA-TGTCATCGTGAGTA
1 AA-AGGTCCGATGACTA-AGTGTCATCGTGAGTA
23924838 TTAAATGAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
51 36 0.30
52 51 0.43
53 31 0.26
54 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:23924829 original size:104 final size:104
Alignment explanation
Indices: 23924649--23924837 Score: 267
Period size: 104 Copynumber: 1.8 Consensus size: 104
23924639 GCTATAAATG
* * *
23924649 AAAGGATCCGATGACTAAGTGTCATTGTGAGTAAATGAATCCTTTACGGATTTAAAGGTCCGATG
1 AAAGGATCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTATACGGATATAAAGGTCCGATG
*
23924714 ACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATT
66 ACTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATT
* * *
23924753 AAAGG-TCCGATGACTCAGTGTTATCGTGAGTATATGAATTCCTATACGGA-ATAAGAGGTCCGA
1 AAAGGATCCGATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTATACGGATATAA-AGGTCCGA
23924816 TGACTATA-TGTCATCGTGAGTA
64 TGACTA-AGTGTCATCGTGAGTA
23924838 TTAAATGAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
103 32 0.43
104 42 0.56
105 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (104 bp):
AAAGGATCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTATACGGATATAAAGGTCCGATG
ACTAAGTGTCATCGTGAGTAAATGAATCCATGATGGATT
Found at i:23924887 original size:59 final size:61
Alignment explanation
Indices: 23924786--23924903 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 61
23924776 TCGTGAGTAT
* * * *
23924786 ATGAATTCCTATACGGAATAAGAGGTCCGATGACTATATGTCATCGTGAGTATTAAATGAA
1 ATGAATTCCGATACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGAAATAAATGAA
* * * *
23924847 ATGAATTCCGATGC-GAACAAG-GGTCTGATGACTTTGTGTCATCGTGAGAAATAAATG
1 ATGAATTCCGATACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGAAATAAATG
23924904 CGAGTGAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 31 0.63
60 6 0.12
61 12 0.24
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (61 bp):
ATGAATTCCGATACGGAACAAGAGGTCCGATGACTATATGTCATCGTGAGAAATAAATGAA
Found at i:23927956 original size:24 final size:24
Alignment explanation
Indices: 23927863--23927954 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
23927853 TTACTACAAA
23927863 ATTGAGTGGCTTGACCACAACGAT
1 ATTGAGTGGCTTGACCACAACGAT
* * *
23927887 ATTAAGTGGCTTGTCCATAACG-T
1 ATTGAGTGGCTTGACCACAACGAT
** * * *
23927910 AAAAGAGTGGTTTGACCATAATGAT
1 -ATTGAGTGGCTTGACCACAACGAT
*
23927935 ATTGAGTGGCTTGGCCACAA
1 ATTGAGTGGCTTGACCACAA
23927955 TGTGGAGTGT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.02
24 50 0.96
25 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (24 bp):
ATTGAGTGGCTTGACCACAACGAT
Found at i:23929022 original size:17 final size:17
Alignment explanation
Indices: 23928981--23929023 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
23928971 TATTTATTAC
23928981 ATATTGAAACTATAGAT
1 ATATTGAAACTATAGAT
23928998 -TA-TGAAACTAT-GTAT
1 ATATTGAAACTATAG-AT
23929013 ATATTGAAACT
1 ATATTGAAACT
23929024 TTATGTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.04
15 11 0.48
16 4 0.17
17 7 0.30
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (17 bp):
ATATTGAAACTATAGAT
Found at i:23929881 original size:28 final size:28
Alignment explanation
Indices: 23929847--23929904 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
23929837 AGATAAACTG
* *
23929847 TCACATAATT-TCCATAAATGGCCACATA
1 TCACATAATTGT-CAAAAATGGCCAAATA
23929875 TCACATAATTGTCAAAAATGGCCAAATA
1 TCACATAATTGTCAAAAATGGCCAAATA
23929903 TC
1 TC
23929905 GTCCACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (28 bp):
TCACATAATTGTCAAAAATGGCCAAATA
Found at i:23936349 original size:25 final size:25
Alignment explanation
Indices: 23936315--23936364 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23936305 CACTAAAGTC
* *
23936315 TCTATTGTTTTCTCT-TCTATAGTTT
1 TCTATAGTTTT-TCTATATATAGTTT
23936340 TCTATAGTTTTTCTATATATAGTTT
1 TCTATAGTTTTTCTATATATAGTTT
23936365 CACAAGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.62
Consensus pattern (25 bp):
TCTATAGTTTTTCTATATATAGTTT
Found at i:23937422 original size:28 final size:28
Alignment explanation
Indices: 23937391--23937447 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
23937381 GATAAAGTGC
* *
23937391 CACACAATTGTCATAAATGACCACATAT
1 CACACAATTGCCAAAAATGACCACATAT
* *
23937419 CACATAATTGCCAAAAATGGCCACATAT
1 CACACAATTGCCAAAAATGACCACATAT
23937447 C
1 C
23937448 TTCCACCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (28 bp):
CACACAATTGCCAAAAATGACCACATAT
Found at i:23943232 original size:7 final size:8
Alignment explanation
Indices: 23943216--23943240 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23943206 TTTGTGTTTC
23943216 AAAATAAA
1 AAAATAAA
23943224 AAAATAAA
1 AAAATAAA
23943232 AAAATAAA
1 AAAATAAA
23943240 A
1 A
23943241 TATAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:23943766 original size:14 final size:15
Alignment explanation
Indices: 23943736--23943771 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23943726 TTAATTGGAC
*
23943736 TTTAATTTATTTGGT
1 TTTATTTTATTTGGT
23943751 TTTATTTTATTT-GT
1 TTTATTTTATTTGGT
23943765 TTTATTT
1 TTTATTT
23943772 CTAATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (15 bp):
TTTATTTTATTTGGT
Found at i:23944100 original size:40 final size:40
Alignment explanation
Indices: 23943921--23944287 Score: 425
Period size: 42 Copynumber: 9.0 Consensus size: 40
23943911 CGTAACCCAA
* * * *
23943921 CTTCAATCTGCCCTTTGGATGGGGTAAAAGATTGGTTGATGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATG--GT
* *
23943963 CTTCAATCTGCCCTCTAGTTGGGGTAAAAGATTGGATGGTGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGAT-G-GT
23944005 CTTCAATCTGCCCTCTGGTT-GAGGTAAAAGATTGGATGGTGT
1 CTTCAATCTGCCCTCTGGTTAG-GGTAAAAGATTGGAT-G-GT
*
23944047 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGAATGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
23944087 CTTCAGTCTGCCCTCTAGTTAGGCTAAAAGATTGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
23944127 CTTCAATCTGCCCTCTTGTTAGGGTAAAATATTGGATAGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
*
23944167 CTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTAT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGG--T
* * * * *
23944209 CTTGAATCTACCCT-TTGTATGGGGTAAAAGATTGGATGAT
1 CTTCAATCTGCCCTCTGGT-TAGGGTAAAAGATTGGATGGT
* * *
23944249 CTTCAATTTGCCCTCTGATTAAGGT-AAAGATTGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
23944288 AGCTTCGCCT
Statistics
Matches: 287, Mismatches: 31, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
39 13 0.05
40 124 0.43
41 7 0.02
42 141 0.49
43 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (40 bp):
CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
Found at i:23944198 original size:162 final size:163
Alignment explanation
Indices: 23943921--23944287 Score: 467
Period size: 162 Copynumber: 2.2 Consensus size: 163
23943911 CGTAACCCAA
* ** * *
23943921 CTTCAATCTGCCCTTTGGA-TGGGGTAAAAGATTGGTTGATGTCTTCAATCTGCCCTCTAGTTGG
1 CTTCAATCTGCCCTCT-GATTAAGGTAAAAGATTGGATG--GTCTTCAATCTGCCCTCTAGTTAG
* *
23943985 GGTAAAAGATTGGATGGTGTCTTCAATCTGCCCTCTGGTTGAGGTAAAAGATTGGATGGTGTCTT
63 GGTAAAAGATTGGAT-GAGTCTTCAATCTGCCCTCTGGTTGAGGTAAAAGATTGGATGGTATCTT
* *
23944050 CAATCTGCCCTCTGGT-TAGGGTAAAAGAATGGATGGT
127 CAATCTACCCT-TGGTATAGGGTAAAAGAATGGATGAT
* *
23944087 CTTCAGTCTGCCCTCT-AGTT-AGGCTAAAAGATTGGATGGTCTTCAATCTGCCCTCTTGTTAGG
1 CTTCAATCTGCCCTCTGA-TTAAGG-TAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAGG
* * *
23944150 GTAAAATATTGGAT-AGTCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGGTATCTTGA
64 GTAAAAGATTGGATGAGTCTTCAATCTGCCCTCTGGTTGAGGTAAAAGATTGGATGGTATCTTCA
* * *
23944214 ATCTACCCTTTGTATGGGGTAAAAGATTGGATGAT
129 ATCTACCCTTGGTATAGGGTAAAAGAATGGATGAT
*
23944249 CTTCAATTTGCCCTCTGATTAAGGT-AAAGATTGGATGGT
1 CTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGGATGGT
23944288 AGCTTCGCCT
Statistics
Matches: 177, Mismatches: 18, Indels: 17
0.83 0.08 0.08
Matches are distributed among these distances:
161 17 0.10
162 89 0.50
163 4 0.02
164 37 0.21
165 2 0.01
166 28 0.16
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (163 bp):
CTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAGGGT
AAAAGATTGGATGAGTCTTCAATCTGCCCTCTGGTTGAGGTAAAAGATTGGATGGTATCTTCAAT
CTACCCTTGGTATAGGGTAAAAGAATGGATGAT
Found at i:23949967 original size:28 final size:28
Alignment explanation
Indices: 23949925--23949986 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
23949915 GAGTATGAAT
*
23949925 GAATAAAACATTTTGTCAATTTGGAA-AA
1 GAATAAAACATTTTGTCAAATT-GAACAA
23949953 GAATAAAA-ATATTTGTCAAATTGAACAA
1 GAATAAAACAT-TTTGTCAAATTGAACAA
23949981 GAATAA
1 GAATAA
23949987 GTGAATTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (28 bp):
GAATAAAACATTTTGTCAAATTGAACAA
Found at i:23958064 original size:25 final size:27
Alignment explanation
Indices: 23958036--23958086 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
23958026 GATAGAATAT
23958036 CGCTCATACGAGCCA-AA-CAGAATTA
1 CGCTCATACGAGCCAGAATCAGAATTA
*
23958061 CGCTCTTACGAGCCAGAATCAGAATT
1 CGCTCATACGAGCCAGAATCAGAATT
23958087 TCCTCAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.61
26 2 0.09
27 7 0.30
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (27 bp):
CGCTCATACGAGCCAGAATCAGAATTA
Found at i:23973782 original size:18 final size:18
Alignment explanation
Indices: 23973731--23973783 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
23973721 GTGCAACCTG
* *
23973731 ATCAAATGCAATCACATA
1 ATCAGATGCAATCATATA
* *
23973749 CTCAGATGCAGTCATATA
1 ATCAGATGCAATCATATA
*
23973767 ATCAGATGCAACCATAT
1 ATCAGATGCAATCATAT
23973784 GTTCAAATAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.25
Consensus pattern (18 bp):
ATCAGATGCAATCATATA
Found at i:23979966 original size:3 final size:3
Alignment explanation
Indices: 23979958--23979995 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23979948 AGAAGGAAAC
23979958 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
23979996 TTGTTCCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:23991183 original size:14 final size:15
Alignment explanation
Indices: 23991153--23991188 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23991143 TTAATTAGAC
*
23991153 TTTAATTTATTTGGT
1 TTTATTTTATTTGGT
23991168 TTTATTTTATTT-GT
1 TTTATTTTATTTGGT
23991182 TTTATTT
1 TTTATTT
23991189 CTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (15 bp):
TTTATTTTATTTGGT
Found at i:23991579 original size:109 final size:108
Alignment explanation
Indices: 23991226--23991591 Score: 410
Period size: 109 Copynumber: 3.4 Consensus size: 108
23991216 GAGGTGTTAC
* * * * **
23991226 AGTATCCATTGAGTATTTACCTGCTCACGATGCTGCTCACACAAGCTGTCGAGAATTTGTAACAT
1 AGTATCCATTCAGTATTCACCGGCTCACGATGCTGCTCACACAAGCTGTCAAGAATCCGTAACAT
* * * * * *
23991291 ATGCAAGATCTTAGCAATCGCGACTGTATTTACCATTAGAACAT
66 ATGCAAGATCTCAGCCATCGC-AATGTATGTATCATCAGAACAT
* * * * * *
23991335 AGTATCCATTCAGTATTCACTGGCTAATGGTGCTGAT-AGCACAAGCTGTCAAGAATCCGCAACA
1 AGTATCCATTCAGTATTCACCGGCTCACGATGCTGCTCA-CACAAGCTGTCAAGAATCCGTAACA
* *
23991399 TATGCAGGATCTCAGCCATCGCAATGGTATGTATCATCAAAACAT
65 TATGCAAGATCTCAGCCATCGCAAT-GTATGTATCATCAGAACAT
* * * *
23991444 AGTATCCATTCAATATTCACTGGCTCACGATGCTGCTCACACAGGCTATCAAGAATCCGTAACAT
1 AGTATCCATTCAGTATTCACCGGCTCACGATGCTGCTCACACAAGCTGTCAAGAATCCGTAACAT
* * *
23991509 ATGCAAGATCTCAACCATCGTAATAGTATGTGTCATCAGAACAT
66 ATGCAAGATCTCAGCCATCGCAAT-GTATGTATCATCAGAACAT
* * * *
23991553 GGAATCCATTCAGTATTCACCAGCTCATGATGCTGCTCA
1 AGTATCCATTCAGTATTCACCGGCTCACGATGCTGCTCA
23991592 ACTGTCGAGA
Statistics
Matches: 214, Mismatches: 40, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
108 3 0.01
109 210 0.98
110 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (108 bp):
AGTATCCATTCAGTATTCACCGGCTCACGATGCTGCTCACACAAGCTGTCAAGAATCCGTAACAT
ATGCAAGATCTCAGCCATCGCAATGTATGTATCATCAGAACAT
Found at i:23995398 original size:19 final size:19
Alignment explanation
Indices: 23995374--23995410 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23995364 TTCTCTATCC
* *
23995374 GAAAAAGAATGAAAAAAAA
1 GAAAAAAAAAGAAAAAAAA
23995393 GAAAAAAAAAGAAAAAAA
1 GAAAAAAAAAGAAAAAAA
23995411 TTTAACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (19 bp):
GAAAAAAAAAGAAAAAAAA
Found at i:24003934 original size:102 final size:102
Alignment explanation
Indices: 24003758--24003962 Score: 410
Period size: 102 Copynumber: 2.0 Consensus size: 102
24003748 ATTCTGCACA
24003758 AATAAATGCATCCAATAGAATTGCATCCGCTCAAAATAATCCAGTGGTTGGGTGGTGAGGGATGA
1 AATAAATGCATCCAATAGAATTGCATCCGCTCAAAATAATCCAGTGGTTGGGTGGTGAGGGATGA
24003823 AAAGTTATGATTTGTTTTCTAATATACTTTGATTTTT
66 AAAGTTATGATTTGTTTTCTAATATACTTTGATTTTT
24003860 AATAAATGCATCCAATAGAATTGCATCCGCTCAAAATAATCCAGTGGTTGGGTGGTGAGGGATGA
1 AATAAATGCATCCAATAGAATTGCATCCGCTCAAAATAATCCAGTGGTTGGGTGGTGAGGGATGA
24003925 AAAGTTATGATTTGTTTTCTAATATACTTTGATTTTT
66 AAAGTTATGATTTGTTTTCTAATATACTTTGATTTTT
24003962 A
1 A
24003963 GATGAGTCAG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (102 bp):
AATAAATGCATCCAATAGAATTGCATCCGCTCAAAATAATCCAGTGGTTGGGTGGTGAGGGATGA
AAAGTTATGATTTGTTTTCTAATATACTTTGATTTTT
Found at i:24016323 original size:12 final size:12
Alignment explanation
Indices: 24016306--24016330 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24016296 AATATAATGA
24016306 ACATCTATATAC
1 ACATCTATATAC
24016318 ACATCTATATAC
1 ACATCTATATAC
24016330 A
1 A
24016331 TATATTGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ACATCTATATAC
Found at i:24018743 original size:68 final size:67
Alignment explanation
Indices: 24018631--24018827 Score: 266
Period size: 68 Copynumber: 3.0 Consensus size: 67
24018621 TGAAGGCTGA
* * *
24018631 ATCCTGCAATATTTTAGAGGTTATAACTAGAAGAACAAATAAGGAAGAAGGTTTCAAGAGAAAAG
1 ATCCTGCAA-ATTTTAGAGGTTAAAACTAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAG
24018696 GGG
65 GGG
*
24018699 ATCCTGCAACATTTTAGAAGTTAAAACTAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAG
1 ATCCTGCAA-ATTTTAGAGGTTAAAACTAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAG
24018764 GGG
65 GGG
* *
24018767 A---T-----TTATAGAGGTTAAAAATAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGG
1 ATCCTGCAAATTTTAGAGGTTAAAACTAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGG
24018824 GG
66 GG
24018826 AT
1 AT
24018828 TTAATTCTAG
Statistics
Matches: 120, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
59 55 0.46
65 1 0.01
68 64 0.53
ACGTcount: A:0.48, C:0.08, G:0.26, T:0.18
Consensus pattern (67 bp):
ATCCTGCAAATTTTAGAGGTTAAAACTAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGG
GG
Found at i:24018789 original size:59 final size:59
Alignment explanation
Indices: 24018709--24018830 Score: 219
Period size: 59 Copynumber: 2.1 Consensus size: 59
24018699 ATCCTGCAAC
*
24018709 ATTT-TAGAAGTTAAAACTAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGGGG
1 ATTTATAGAAGTTAAAAATAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGGGG
*
24018767 ATTTATAGAGGTTAAAAATAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGGGG
1 ATTTATAGAAGTTAAAAATAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGGGG
24018826 ATTTA
1 ATTTA
24018831 ATTCTAGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 4 0.07
59 57 0.93
ACGTcount: A:0.52, C:0.04, G:0.27, T:0.17
Consensus pattern (59 bp):
ATTTATAGAAGTTAAAAATAGAAGAACAAAGAAGGAAGAAGGTATCAAGAGAAAAGGGG
Found at i:24032762 original size:138 final size:138
Alignment explanation
Indices: 24032514--24032798 Score: 471
Period size: 138 Copynumber: 2.1 Consensus size: 138
24032504 GAAGGGGGTG
* * *
24032514 ATATTAATTATATTCTTTCTAAAAGAATATTAATTTCCATGTGTTTTATATTTTGACCAAAATTA
1 ATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTGTGTTATATTTTGAACAAAATTA
* *
24032579 ATTAATATAACTGTTTATATTAATAAATTTGGTAAAATATATATAATTAATATTTTGTATGAATC
66 ATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATATAATTAATATTTTATATGAATC
24032644 AAATTCAT
131 AAATTCAT
* * * *
24032652 ATATTAATTATATTTTTTCCAAAAGAATATTAATTTCTATGTGTGTTATATTTTTAACAAATTTA
1 ATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTGTGTTATATTTTGAACAAAATTA
* *
24032717 ATTAATATAATTGTTTATTTTAATAAATTCGGTAAAATATATATAATTAATATTTTATATGAATC
66 ATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATATAATTAATATTTTATATGAATC
24032782 AAATTCAT
131 AAATTCAT
24032790 ATATTAATT
1 ATATTAATT
24032799 TTATCTATGT
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (138 bp):
ATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTGTGTTATATTTTGAACAAAATTA
ATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATATAATTAATATTTTATATGAATC
AAATTCAT
Found at i:24035042 original size:30 final size:29
Alignment explanation
Indices: 24034996--24035092 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
24034986 CAAGTTACTA
*
24034996 ATATGTAGAAATCTTTGTGGTTGTTCTCTG
1 ATATGT-GAAAGCTTTGTGGTTGTTCTCTG
* * * *
24035026 ATATGTGAAAGACTTTGTCGATGTTATTTG
1 ATATGTGAAAG-CTTTGTGGTTGTTCTCTG
*
24035056 ATATATGAAAGCATTTGTGGTTGTTCTCTG
1 ATATGTGAAAGC-TTTGTGGTTGTTCTCTG
*
24035086 ACATGTG
1 ATATGTG
24035093 GATGCCTTTG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 5 0.09
30 48 0.91
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (29 bp):
ATATGTGAAAGCTTTGTGGTTGTTCTCTG
Found at i:24035105 original size:30 final size:30
Alignment explanation
Indices: 24035008--24035105 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 30
24034998 ATGTAGAAAT
*
24035008 CTTTGTGGTTGTTCTCTGATATGTGAAAGA
1 CTTTGTGGTTGTTCTCTGATATGTGAAAGC
* * * * *
24035038 CTTTGTCGATGTTATTTGATATATGAAAGC
1 CTTTGTGGTTGTTCTCTGATATGTGAAAGC
* * * *
24035068 ATTTGTGGTTGTTCTCTGACATGTGGATGC
1 CTTTGTGGTTGTTCTCTGATATGTGAAAGC
24035098 CTTTGTGG
1 CTTTGTGG
24035106 CTATCTAATA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.44
Consensus pattern (30 bp):
CTTTGTGGTTGTTCTCTGATATGTGAAAGC
Found at i:24035864 original size:21 final size:21
Alignment explanation
Indices: 24035838--24035915 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
24035828 AATGCATATA
*
24035838 TCTACCGATACAAGTGTCAGT
1 TCTACCGATACAAGTGTCACT
* * *
24035859 TCTACCAATACAAGTGACTCT
1 TCTACCGATACAAGTGTCACT
* * * *
24035880 TCTACCGAAACATGTCTTACT
1 TCTACCGATACAAGTGTCACT
*
24035901 TCTACTGATACAAGT
1 TCTACCGATACAAGT
24035916 ACATAGTCTA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (21 bp):
TCTACCGATACAAGTGTCACT
Found at i:24040085 original size:81 final size:81
Alignment explanation
Indices: 24039950--24040108 Score: 300
Period size: 81 Copynumber: 2.0 Consensus size: 81
24039940 ATCGTATCAC
*
24039950 AATTTGAATCAAAATTCACTCATGAAGCTAAGGCTTTTAACATCAAAGATTGTTGGAGCAAACAA
1 AATTTGAATCAAAATTCACTCATGAAGCTAACGCTTTTAACATCAAAGATTGTTGGAGCAAACAA
24040015 TTACCTCCTTAGCCAT
66 TTACCTCCTTAGCCAT
*
24040031 AATTTGAATCAAAATTCACTCATGAAGCTAACGCTTTTAACTTCAAAGATTGTTGGAGCAAACAA
1 AATTTGAATCAAAATTCACTCATGAAGCTAACGCTTTTAACATCAAAGATTGTTGGAGCAAACAA
24040096 TTACCTCCTTAGC
66 TTACCTCCTTAGC
24040109 TACTTAGCCT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (81 bp):
AATTTGAATCAAAATTCACTCATGAAGCTAACGCTTTTAACATCAAAGATTGTTGGAGCAAACAA
TTACCTCCTTAGCCAT
Found at i:24044940 original size:58 final size:56
Alignment explanation
Indices: 24044821--24044999 Score: 184
Period size: 58 Copynumber: 3.1 Consensus size: 56
24044811 CATGCATTTT
* * * *
24044821 AAAA-AAAAAAAGGTCAAGATTAAAACCCGCAAAGGGCATCTTGAAA-CAAAAAAAT
1 AAAAGAAAAAAAGGTCGAGA-TAAAAACCGCAAAAGGCATCTTGAAACCAAAAAAAG
* *
24044876 AAAAGAAAAAGAGGTCGAGATGAAAACTCGCAAAAGGCATCTTGAAACCTAAAAAAAG
1 AAAAGAAAAAAAGGTCGAGATAAAAAC-CGCAAAAGGCATCTTGAAACC-AAAAAAAG
* * *
24044934 CAAAGAAAAAAAAGTCGAGCTAAAAACCTG-AAAAGGTCATCTTGAAACCCAAAAAGAAG
1 AAAAGAAAAAAAGGTCGAGATAAAAACC-GCAAAAGG-CATCTTGAAA-CCAAAAA-AAG
*
24044993 AGAAGAA
1 AAAAGAA
24045000 GAAGAAGAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
55 9 0.09
56 31 0.30
57 8 0.08
58 45 0.44
59 10 0.10
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.12
Consensus pattern (56 bp):
AAAAGAAAAAAAGGTCGAGATAAAAACCGCAAAAGGCATCTTGAAACCAAAAAAAG
Found at i:24047218 original size:52 final size:52
Alignment explanation
Indices: 24047155--24047530 Score: 170
Period size: 52 Copynumber: 7.3 Consensus size: 52
24047145 TATATCCTTG
* *
24047155 AAGTTGTAGTGGAATGGAGTAAAACTAACAGTAGCGGATCTCAATCTCCCTA
1 AAGTTGCAGTGGAATGGAGTAAAACTAACAGTAGCAGATCTCAATCTCCCTA
* * * * * * * * *
24047207 AAGTTGCAGTGGAATGGAGT-GAAGTTACAACT-CCAAATC-CTATATCCCTG
1 AAGTTGCAGTGGAATGGAGTAAAACTAAC-AGTAGCAGATCTCAATCTCCCTA
* * * * *
24047257 AAGTTGCAGTGG-ATCAGATTAAAACTAATAGTAGCGGATCTCAATCTCTCTA
1 AAGTTGCAGTGGAAT-GGAGTAAAACTAACAGTAGCAGATCTCAATCTCCCTA
* * * ** * * *
24047309 AAGTTGTAATGGAATGGAGTGAAGTTAC-AACTCTA--A-ATC-CTATATCCCTG
1 AAGTTGCAGTGGAATGGAGT-AA--AACTAACAGTAGCAGATCTCAATCTCCCTA
* * *
24047359 AAGTTGCAGTGG-ATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTA
1 AAGTTGCAGTGGAAT-GGAGTAAAACTAACAGTAGCAGATCTCAATCTCCCTA
* * ** * * ** * *
24047411 AAGTTTCAGTGGAATAGAGGGAAGC-CACAACACCAAAATCT-ATATCT--CTA
1 AAGTTGCAGTGGAATGGAGTAAAACTAACAGTAGC-AGATCTCA-ATCTCCCTA
* * * * *
24047461 AAGTTGCAGTGG-ATCAGATTAAAACTAACAGTAGCATATTTCAATCTCCCTG
1 AAGTTGCAGTGGAAT-GGAGTAAAACTAACAGTAGCAGATCTCAATCTCCCTA
* *
24047513 TAGTTACAGTGGAATGGA
1 AAGTTGCAGTGGAATGGA
24047531 ATGAAGCCAT
Statistics
Matches: 225, Mismatches: 75, Indels: 48
0.65 0.22 0.14
Matches are distributed among these distances:
47 2 0.01
48 4 0.02
49 8 0.04
50 74 0.33
51 34 0.15
52 89 0.40
53 8 0.04
54 4 0.02
55 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (52 bp):
AAGTTGCAGTGGAATGGAGTAAAACTAACAGTAGCAGATCTCAATCTCCCTA
Found at i:24047264 original size:50 final size:50
Alignment explanation
Indices: 24047201--24047371 Score: 139
Period size: 50 Copynumber: 3.4 Consensus size: 50
24047191 GATCTCAATC
24047201 TCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTACAACTCCAAATCCTATA
1 TCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTACAACTCCAAATCCTATA
* * * * ** * * ** * *
24047251 TCCCTGAAGTTGCAGTGG-ATCAGATTAAAACTA-ATAGTAGCGGATCTCAATC
1 TCCCTAAAGTTGCAGTGGAAT-GGAGTGAAGTTACA-ACT-CCAAATC-CTATA
* * * *
24047303 TCTCTAAAGTTGTAATGGAATGGAGTGAAGTTACAACTCTAAATCCTATA
1 TCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTACAACTCCAAATCCTATA
*
24047353 TCCCTGAAGTTGCAGTGGA
1 TCCCTAAAGTTGCAGTGGA
24047372 TCAGATTAAA
Statistics
Matches: 83, Mismatches: 32, Indels: 12
0.65 0.25 0.09
Matches are distributed among these distances:
49 3 0.04
50 44 0.53
51 7 0.08
52 26 0.31
53 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTACAACTCCAAATCCTATA
Found at i:24047702 original size:306 final size:306
Alignment explanation
Indices: 24047174--24047762 Score: 817
Period size: 306 Copynumber: 1.9 Consensus size: 306
24047164 TGGAATGGAG
* * * ** *
24047174 TAAAACTAACAGTAGCGGATCTCAATCTCCCTAAAGTTGCAGTGGAATGGAGTGAAGTTACAACT
1 TAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTACAGTGGAATGGAATGAAGCCACAACA
* * *
24047239 CCAAATCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCGGATCTCAATCT
66 CCAAATCCTATATCCCTGAAGTTGCAATGGATCAGACTAAAACTAATAGTAGCAGATCTCAATCT
* ** * * * * *
24047304 CTCTAAAGTTGTAATGGAATGGAGTGAAGTTACAACTCTAAATCCTATATCCCTGAAGTTGCAGT
131 CTCTAAAGTTGTAATGGAATGGAGTAAAGCCACAACACCAAATCCTATATCCCTAAAGTTACAAT
*
24047369 GGATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTAAAGTT-TCAGTGGAATAGAGGGA
196 GGATCAGATTAAAACTAATAATAGCAGATCTCAATCTCCCTAAAGTTGT-AGTGGAATAGAGGGA
24047433 AG-CCACAACACCAAAAT-CTATATCTCTAAAGTTGCAGTGGATCAGAT
260 AGTCC-CAACA-CAAAATCCTATATCTCTAAAGTTGCAGTGGATCAGAT
* * ** *
24047480 TAAAACTAACAGTAGCATATTTCAATCTCCCTGTAGTTACAGTGGAATGGAATGAAGCCATAACA
1 TAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTACAGTGGAATGGAATGAAGCCACAACA
* * *
24047545 CCAAATCTTATATCCCTGAAGTTGTAATGGATC-GAACTAAAATTAATAGTAGCAGATCTCAATC
66 CCAAATCCTATATCCCTGAAGTTGCAATGGATCAG-ACTAAAACTAATAGTAGCAGATCTCAATC
** *
24047609 TCTCTAAAGTTGTGGTGGAATGGAGTAAAGCCACAACACCAAATCCTATATCCTTAAAGTTACAA
130 TCTCTAAAGTTGTAATGGAATGGAGTAAAGCCACAACACCAAATCCTATATCCCTAAAGTTACAA
* * *
24047674 TGGATCAGATTAAAACTAATAATAGCAGATCTCAATCTCCTTGAAGTTGTAGTGGAATAGAGTGA
195 TGGATCAGATTAAAACTAATAATAGCAGATCTCAATCTCCCTAAAGTTGTAGTGGAATAGAGGGA
*
24047739 AGTCCCAACACTAAATCCTATATC
260 AGTCCCAACACAAAATCCTATATC
24047763 CTCTCTGTTC
Statistics
Matches: 246, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
305 6 0.02
306 237 0.96
307 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (306 bp):
TAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTACAGTGGAATGGAATGAAGCCACAACA
CCAAATCCTATATCCCTGAAGTTGCAATGGATCAGACTAAAACTAATAGTAGCAGATCTCAATCT
CTCTAAAGTTGTAATGGAATGGAGTAAAGCCACAACACCAAATCCTATATCCCTAAAGTTACAAT
GGATCAGATTAAAACTAATAATAGCAGATCTCAATCTCCCTAAAGTTGTAGTGGAATAGAGGGAA
GTCCCAACACAAAATCCTATATCTCTAAAGTTGCAGTGGATCAGAT
Found at i:24047764 original size:102 final size:102
Alignment explanation
Indices: 24047142--24047763 Score: 741
Period size: 102 Copynumber: 6.1 Consensus size: 102
24047132 AAACAAAAAG
* * * * * *
24047142 TCCTATATCCTTGAAGTTGTAGTGGAAT-GGAGTAAAACTAACAGTAGCGGATCTCAATCTCCCT
1 TCCTATATCCCTGAAGTTGCAGTGG-ATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCT
* ** *
24047206 AAAGTTGCAGTGGAATGGAGTGAAGTTACAACTCCAAA
65 AAAGTTGTAGTGGAATGGAGTGAAGCCACAACACCAAA
* *
24047244 TCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCGGATCTCAATCTCTCTA
1 TCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTA
* ** * *
24047309 AAGTTGTAATGGAATGGAGTGAAGTTACAACTCTAAA
66 AAGTTGTAGTGGAATGGAGTGAAGCCACAACACCAAA
24047346 TCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTA
1 TCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTA
* *
24047411 AAGTT-TCAGTGGAATAGAGGGAAGCCACAACACCAAAA
66 AAGTTGT-AGTGGAATGGAGTGAAGCCACAACACC-AAA
* * * * * *
24047449 T-CTATATCTCTAAAGTTGCAGTGGATCAGATTAAAACTAACAGTAGCATATTTCAATCTCCCTG
1 TCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTA
* ** * *
24047513 TAGTTACAGTGGAATGGAATGAAGCCATAACACCAAA
66 AAGTTGTAGTGGAATGGAGTGAAGCCACAACACCAAA
* * * * * *
24047550 TCTTATATCCCTGAAGTTGTAATGGATC-GAACTAAAATTAATAGTAGCAGATCTCAATCTCTCT
1 TCCTATATCCCTGAAGTTGCAGTGGATCAG-ATTAAAACTAATAGTAGCAGATCTCAATCTCCCT
* *
24047614 AAAGTTGTGGTGGAATGGAGTAAAGCCACAACACCAAA
65 AAAGTTGTAGTGGAATGGAGTGAAGCCACAACACCAAA
* * * * * * *
24047652 TCCTATATCCTTAAAGTTACAATGGATCAGATTAAAACTAATAATAGCAGATCTCAATCTCCTTG
1 TCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTA
* *
24047717 AAGTTGTAGTGGAATAGAGTGAAGTCC-CAACACTAAA
66 AAGTTGTAGTGGAATGGAGTGAAG-CCACAACACCAAA
24047754 TCCTATATCC
1 TCCTATATCC
24047764 TCTCTGTTCT
Statistics
Matches: 448, Mismatches: 64, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
101 8 0.02
102 433 0.97
103 7 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (102 bp):
TCCTATATCCCTGAAGTTGCAGTGGATCAGATTAAAACTAATAGTAGCAGATCTCAATCTCCCTA
AAGTTGTAGTGGAATGGAGTGAAGCCACAACACCAAA
Found at i:24048220 original size:21 final size:22
Alignment explanation
Indices: 24048195--24048246 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
24048185 AATGTTCTAA
*
24048195 AAACTACAAATTAAA-TTACCT
1 AAACTACAAACTAAATTTACCT
* *
24048216 AAACTGC-AACTAAATTTACTT
1 AAACTACAAACTAAATTTACCT
24048237 AAA-TACAAAC
1 AAACTACAAAC
24048247 AATTAACCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (22 bp):
AAACTACAAACTAAATTTACCT
Found at i:24050021 original size:20 final size:20
Alignment explanation
Indices: 24049996--24050049 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
24049986 TTGGCCTGGG
*
24049996 ACTTCTACTGATAGAACTTC
1 ACTTCTACTGATACAACTTC
24050016 ACTTCTACTGATACAACTTC
1 ACTTCTACTGATACAACTTC
* *
24050036 AGTTCTACCGATAC
1 ACTTCTACTGATAC
24050050 CATGAAGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (20 bp):
ACTTCTACTGATACAACTTC
Found at i:24052582 original size:28 final size:28
Alignment explanation
Indices: 24052529--24052582 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
24052519 GACGAACTGC
* *
24052529 CACATAGTTTCCATGAAAGGCTACATAT
1 CACATAGTTTCCATAAAAGGCCACATAT
*
24052557 CACATATTTTCCA-AAAACGGCCACAT
1 CACATAGTTTCCATAAAA-GGCCACAT
24052583 CTTCCTCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (28 bp):
CACATAGTTTCCATAAAAGGCCACATAT
Found at i:24055504 original size:19 final size:21
Alignment explanation
Indices: 24055477--24055516 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
24055467 TGAGTGAATG
24055477 AAATGAATA-AAT-AAGAAAA
1 AAATGAATATAATAAAGAAAA
*
24055496 AAATTAATATAATAAAGAAAA
1 AAATGAATATAATAAAGAAAA
24055517 GTAATAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
AAATGAATATAATAAAGAAAA
Found at i:24064704 original size:71 final size:70
Alignment explanation
Indices: 24064579--24064736 Score: 181
Period size: 71 Copynumber: 2.2 Consensus size: 70
24064569 TAAATTTCAG
* * * * * * * * *
24064579 TACTGAATGGAGTTGTTTCTGAACAACTCCACAAGGTATCGGTAGAAGTTCAGGGGTATGGGACA
1 TACTGACTTGAGTTGTTTCGGAACAACTCCACAAAGTATCAGTAAAAGTACAGGGGTATAGAACA
24064644 TCTAGC
66 T-TAGC
* * *
24064650 TACTGACTTGAGTTGTTTCGGAATAACTCTACAAAGTATCAGTAAAAGTACAGGGTTATAGAACA
1 TACTGACTTGAGTTGTTTCGGAACAACTCCACAAAGTATCAGTAAAAGTACAGGGGTATAGAACA
*
24064715 TTGGC
66 TTAGC
*
24064720 TACTGACTTGTGTTGTT
1 TACTGACTTGAGTTGTT
24064737 CTGGTAGAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
70 19 0.26
71 54 0.74
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (70 bp):
TACTGACTTGAGTTGTTTCGGAACAACTCCACAAAGTATCAGTAAAAGTACAGGGGTATAGAACA
TTAGC
Found at i:24076149 original size:17 final size:17
Alignment explanation
Indices: 24076121--24076162 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
24076111 ATCTCAACTT
24076121 TTTTACTTTTAT-TTACTA
1 TTTTA-TTTTATCTT-CTA
24076139 TTTTATTTTATCTTCTA
1 TTTTATTTTATCTTCTA
24076156 TTATTAT
1 TT-TTAT
24076163 ATGCTCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTATTTTATCTTCTA
Found at i:24082913 original size:49 final size:49
Alignment explanation
Indices: 24082774--24082917 Score: 191
Period size: 49 Copynumber: 3.0 Consensus size: 49
24082764 GATACCGATA
* * *
24082774 AATGGTCACATAG-CACATCGTGGGTAAATCACCACATATTTACCGATG
1 AATGGCCACATAGTCACATCGTGGGTAAATCACCACATATTTGCCAATG
* * * *
24082822 AATGGCCACGTAGTCACATCATGGGTAAACCACCACATATTTGCTAATG
1 AATGGCCACATAGTCACATCGTGGGTAAATCACCACATATTTGCCAATG
** *
24082871 AATGGCCACATAGTCACATCGTGGACAATTCACCACATATTTGCCAA
1 AATGGCCACATAGTCACATCGTGGGTAAATCACCACATATTTGCCAA
24082918 AACAGCCACA
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
48 11 0.14
49 70 0.86
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (49 bp):
AATGGCCACATAGTCACATCGTGGGTAAATCACCACATATTTGCCAATG
Found at i:24089909 original size:18 final size:18
Alignment explanation
Indices: 24089883--24089930 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
24089873 ACTCAAGCTC
24089883 CTTTGTTTGCTTTTCTTA
1 CTTTGTTTGCTTTTCTTA
*
24089901 CTTTATTTGCTTTTCTTA
1 CTTTGTTTGCTTTTCTTA
*
24089919 TTTTGTTTGCTT
1 CTTTGTTTGCTT
24089931 GAGGACAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.06, C:0.15, G:0.10, T:0.69
Consensus pattern (18 bp):
CTTTGTTTGCTTTTCTTA
Found at i:24092388 original size:24 final size:24
Alignment explanation
Indices: 24092326--24092388 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
24092316 GGTTTGAAAG
* *
24092326 GCACAATTCGCAAGAGCTTGCAAT
1 GCACAGTTCGCAAGAGCTCGCAAT
24092350 GCACAGTTTC-CAAGAGCTCGCAAT
1 GCACAG-TTCGCAAGAGCTCGCAAT
*
24092374 GCACAGTTCGTAAGA
1 GCACAGTTCGCAAGA
24092389 CATTATCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.09
24 28 0.82
25 3 0.09
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (24 bp):
GCACAGTTCGCAAGAGCTCGCAAT
Found at i:24094553 original size:27 final size:27
Alignment explanation
Indices: 24094515--24094595 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
24094505 TGTTGTAGTC
* * *
24094515 ATAGAGTGTAGCTCATT-CGAGTCCAGA
1 ATAGAGTTTAGCTC-TTACGAGCCCAAA
24094542 ATAGAGTTTAGCTCTTACGAGCCCAAA
1 ATAGAGTTTAGCTCTTACGAGCCCAAA
*
24094569 ATAGATTTTAGCTCTTACGAGCCCAAA
1 ATAGAGTTTAGCTCTTACGAGCCCAAA
24094596 CAGAATAACG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (27 bp):
ATAGAGTTTAGCTCTTACGAGCCCAAA
Found at i:24097467 original size:14 final size:15
Alignment explanation
Indices: 24097440--24097468 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24097430 AAAAAATAAG
24097440 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
24097455 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
24097469 AGATGAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:24102425 original size:16 final size:16
Alignment explanation
Indices: 24102401--24102432 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24102391 TAACTACTAT
*
24102401 GTACCATACTTTCCTG
1 GTACAATACTTTCCTG
24102417 GTACAATACTTTCCTG
1 GTACAATACTTTCCTG
24102433 CTATAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (16 bp):
GTACAATACTTTCCTG
Found at i:24130536 original size:37 final size:37
Alignment explanation
Indices: 24130472--24130548 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
24130462 ATTCCAAAAA
24130472 TAATATTATTTTAATAAGTTTCATATTAAATTTAAT-T
1 TAATATTATTTTAATAAGTTTCATATT-AATTTAATAT
*
24130509 TAATACTTATTTTAAT-AGTATT-TTATTAATTTAATAT
1 TAATA-TTATTTTAATAAGT-TTCATATTAATTTAATAT
24130546 TAA
1 TAA
24130549 AGTGATTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
36 8 0.22
37 16 0.44
38 12 0.33
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (37 bp):
TAATATTATTTTAATAAGTTTCATATTAATTTAATAT
Found at i:24130556 original size:20 final size:18
Alignment explanation
Indices: 24130532--24130580 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
24130522 AATAGTATTT
24130532 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
24130550 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
24130570 T-TTAATTTAAT
1 TATTAATTTAAT
24130581 TTTTATCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.26
18 2 0.07
19 4 0.15
20 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:24136474 original size:20 final size:20
Alignment explanation
Indices: 24136451--24136571 Score: 161
Period size: 20 Copynumber: 6.0 Consensus size: 20
24136441 ACAAGCCACA
24136451 AGTAATGCAGATAAACTGCC
1 AGTAATGCAGATAAACTGCC
* * **
24136471 AGTAATGCAAACAAGTTGCC
1 AGTAATGCAGATAAACTGCC
24136491 AGTAATGCAGATAAACTGCC
1 AGTAATGCAGATAAACTGCC
*
24136511 AGTAATGCAGACAAACTGCC
1 AGTAATGCAGATAAACTGCC
* * *
24136531 AGTATTGCAGATGAACTCCC
1 AGTAATGCAGATAAACTGCC
*
24136551 AGTAATGCAGATAAATTGCC
1 AGTAATGCAGATAAACTGCC
24136571 A
1 A
24136572 ATACTTCCTC
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
AGTAATGCAGATAAACTGCC
Found at i:24136560 original size:40 final size:40
Alignment explanation
Indices: 24136451--24136571 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
24136441 ACAAGCCACA
* *
24136451 AGTAATGCAGATAAACTGCCAGTAATGCAAACAAGTTGCC
1 AGTAATGCAGATAAACTGCCAGTAATGCAGACAAATTGCC
*
24136491 AGTAATGCAGATAAACTGCCAGTAATGCAGACAAACTGCC
1 AGTAATGCAGATAAACTGCCAGTAATGCAGACAAATTGCC
* * * *
24136531 AGTATTGCAGATGAACTCCCAGTAATGCAGATAAATTGCC
1 AGTAATGCAGATAAACTGCCAGTAATGCAGACAAATTGCC
24136571 A
1 A
24136572 ATACTTCCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (40 bp):
AGTAATGCAGATAAACTGCCAGTAATGCAGACAAATTGCC
Found at i:24143240 original size:30 final size:31
Alignment explanation
Indices: 24143175--24143241 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
24143165 TTATTTTAAA
* *
24143175 TTAAATCTGACCCTTTTATTTTTTCTTTCTT
1 TTAAATCTGACCCTTTTATTCTGTCTTTCTT
** *
24143206 TTAAATCTTCCCCTTTTATTCTGT-TTTGTT
1 TTAAATCTGACCCTTTTATTCTGTCTTTCTT
24143236 TTAAAT
1 TTAAAT
24143242 TAAATCCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.18, C:0.18, G:0.04, T:0.60
Consensus pattern (31 bp):
TTAAATCTGACCCTTTTATTCTGTCTTTCTT
Found at i:24143639 original size:108 final size:109
Alignment explanation
Indices: 24143490--24143697 Score: 319
Period size: 108 Copynumber: 1.9 Consensus size: 109
24143480 GGCAATGTTC
* * * *
24143490 TTTTATTTTAGGGAATTCGAGAAATTGTGCCCTAACGTACTAGGTATGGTTTTTCTTTGAACCTA
1 TTTTATTTTAGGGAACTCGAGAAATTGTACCCTAACATACTAGGTATGATTTTTCTTTGAACCTA
** *
24143555 AATAATCGAGTATCCTATTTAAAATCAATAAATGTTCGATCTTA
66 AATAATCGAACACCCTATTTAAAATCAATAAATGTTCGATCTTA
*
24143599 TTTTA-TTTAGGGAACTCGAGAAATTGTACCCTAACATACTAGGTATGATTTTTCTTTGAATCTA
1 TTTTATTTTAGGGAACTCGAGAAATTGTACCCTAACATACTAGGTATGATTTTTCTTTGAACCTA
* *
24143663 AATAATTGAACACCCTATTTAAAATCGATAAATGT
66 AATAATCGAACACCCTATTTAAAATCAATAAATGT
24143698 CCTTTGTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
108 84 0.94
109 5 0.06
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (109 bp):
TTTTATTTTAGGGAACTCGAGAAATTGTACCCTAACATACTAGGTATGATTTTTCTTTGAACCTA
AATAATCGAACACCCTATTTAAAATCAATAAATGTTCGATCTTA
Found at i:24148797 original size:23 final size:22
Alignment explanation
Indices: 24148771--24148817 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24148761 TGAGTCATAG
*
24148771 GAATCACATAG-ATCAATATCACA
1 GAATCACA-AGAATC-ACATCACA
24148794 GAATCACAAGAATCACATCACA
1 GAATCACAAGAATCACATCACA
24148816 GA
1 GA
24148818 TCTCAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (22 bp):
GAATCACAAGAATCACATCACA
Found at i:24154576 original size:14 final size:15
Alignment explanation
Indices: 24154539--24154606 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
24154529 TTTAGTGTCC
24154539 ATAG-TTTTCAAAGT
1 ATAGATTTTCAAAGT
* *
24154553 CTAGATTTTCACAGT
1 ATAGATTTTCAAAGT
24154568 ATA-ATTTTCAAAGT
1 ATAGATTTTCAAAGT
* * *
24154582 CTAGGTTTTCACAGT
1 ATAGATTTTCAAAGT
24154597 ATAG-TTTTCA
1 ATAGATTTTCA
24154607 GAACCTAGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.48
15 23 0.52
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (15 bp):
ATAGATTTTCAAAGT
Found at i:24154614 original size:29 final size:29
Alignment explanation
Indices: 24154539--24154606 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
24154529 TTTAGTGTCC
*
24154539 ATAGTTTTCAAAGTCTAGATTTTCACAGT
1 ATAGTTTTCAAAGTCTAGGTTTTCACAGT
*
24154568 ATAATTTTCAAAGTCTAGGTTTTCACAGT
1 ATAGTTTTCAAAGTCTAGGTTTTCACAGT
24154597 ATAGTTTTCA
1 ATAGTTTTCA
24154607 GAACCTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (29 bp):
ATAGTTTTCAAAGTCTAGGTTTTCACAGT
Found at i:24156107 original size:46 final size:46
Alignment explanation
Indices: 24156025--24156136 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
24156015 TTTCAATAGG
* * * *
24156025 CATGCTTTACATGGGAATCACATCTCATTACAGTTTAACATAGTGA
1 CATGCTTAACATGCGAATCACATCTAATTACAGTTTAACACAGTGA
* * ** *
24156071 TATGCTTAACATGCGAATCATATCTAATTATGGTTTATCACAGTGA
1 CATGCTTAACATGCGAATCACATCTAATTACAGTTTAACACAGTGA
*
24156117 CATGCTTAACATGTGAATCA
1 CATGCTTAACATGCGAATCA
24156137 GAATCAGAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (46 bp):
CATGCTTAACATGCGAATCACATCTAATTACAGTTTAACACAGTGA
Found at i:24158128 original size:55 final size:55
Alignment explanation
Indices: 24157913--24158180 Score: 195
Period size: 55 Copynumber: 4.7 Consensus size: 55
24157903 TTATATGTCA
* * *
24157913 GGTACTGTGGTGCCGACCATCAATGTCCTAGCACTCCAAAGAAATTTTTTTTTAAAAGTTT
1 GGTACTG-GGTGCCGACCATCAATGTCCCAGCAC-CC---CAAATTTTTTTTTAAAA-TCT
* * * * * *
24157974 GGTACTGGGGTG-CTAGCCATCATTATCTCAGCACCCC-AATGTTTTTTAAAAATCT
1 GGTACT-GGGTGCCGA-CCATCAATGTCCCAGCACCCCAAATTTTTTTTTAAAATCT
* * * * *
24158029 GGTAAAAT-GGTGTC-AGCCATCAATGCCCCAACACCCCCAA-TTTTTTTTAAAATCT
1 GGT--ACTGGGTGCCGA-CCATCAATGTCCCAGCACCCCAAATTTTTTTTTAAAATCT
* * *
24158084 GGTACTGGGTGCCGACCATTAATGTCCCAGCACCCCAAATTTTTTATTTTTAAATAT
1 GGTACTGGGTGCCGACCATCAATGTCCCAGCACCCCAAA-TTTTT-TTTTAAAATCT
* * *
24158141 GGTACTAGGGTGTCGACCATCAATATCCCAGCACTCCAAA
1 GGTACT-GGGTGCCGACCATCAATGTCCCAGCACCCCAAA
24158181 AAAATTTTGG
Statistics
Matches: 166, Mismatches: 29, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
53 2 0.01
54 25 0.15
55 44 0.27
56 20 0.12
57 17 0.10
58 29 0.17
60 4 0.02
61 24 0.14
62 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (55 bp):
GGTACTGGGTGCCGACCATCAATGTCCCAGCACCCCAAATTTTTTTTTAAAATCT
Found at i:24172190 original size:25 final size:25
Alignment explanation
Indices: 24172156--24172203 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
24172146 TTCTCTCTAG
24172156 CATTCCTTTGTCGATTTTTCCCTTC
1 CATTCCTTTGTCGATTTTTCCCTTC
24172181 CATTCCTTTGTCGATTTTTCCCT
1 CATTCCTTTGTCGATTTTTCCCT
24172204 CATTAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.08, C:0.31, G:0.08, T:0.52
Consensus pattern (25 bp):
CATTCCTTTGTCGATTTTTCCCTTC
Found at i:24175510 original size:23 final size:23
Alignment explanation
Indices: 24175434--24175513 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
24175424 ACAATCAACG
* * *
24175434 GTCAACGGTTCGATTTGGTCAAA
1 GTCAACGATTCGGTTCGGTCAAA
* * * * *
24175457 GTCAATGGTTCAGTTCGATTAAA
1 GTCAACGATTCGGTTCGGTCAAA
24175480 GTCAACGATTCGGTTCGGTCAAA
1 GTCAACGATTCGGTTCGGTCAAA
24175503 GTCAACGATTC
1 GTCAACGATTC
24175514 ATTTCGGATC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (23 bp):
GTCAACGATTCGGTTCGGTCAAA
Found at i:24175544 original size:22 final size:22
Alignment explanation
Indices: 24175516--24175586 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
24175506 AACGATTCAT
24175516 TTCGGATCGATCAACGGGTCGG
1 TTCGGATCGATCAACGGGTCGG
* * *
24175538 TTTGGATCGGTCAATGGGTCGG
1 TTCGGATCGATCAACGGGTCGG
* *
24175560 GTCGGAACGATCAACGGGTCAGG
1 TTCGGATCGATCAACGGGTC-GG
24175583 TTCG
1 TTCG
24175587 ATCAAACTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 34 0.87
23 5 0.13
ACGTcount: A:0.18, C:0.20, G:0.38, T:0.24
Consensus pattern (22 bp):
TTCGGATCGATCAACGGGTCGG
Found at i:24177291 original size:12 final size:13
Alignment explanation
Indices: 24177274--24177308 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
24177264 TTAAGAACAT
24177274 AAAATAAAAGT-G
1 AAAATAAAAGTAG
*
24177286 AAAATAAAAATAG
1 AAAATAAAAGTAG
24177299 AAAATAAAAG
1 AAAATAAAAG
24177309 CAAGATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (13 bp):
AAAATAAAAGTAG
Found at i:24180135 original size:17 final size:18
Alignment explanation
Indices: 24180104--24180141 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
24180094 ATTTTTTTCT
24180104 TTTCTTTTCC-CTTTTTA
1 TTTCTTTTCCTCTTTTTA
* *
24180121 TTTCTTTTTCTTTTTTTA
1 TTTCTTTTCCTCTTTTTA
24180139 TTT
1 TTT
24180142 GAATAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTCCTCTTTTTA
Found at i:24181199 original size:21 final size:23
Alignment explanation
Indices: 24181173--24181230 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
24181163 CGACAAAATT
24181173 TTCTTCCTTCTCTCCTT-TT-TC
1 TTCTTCCTTCTCTCCTTCTTATC
24181194 TTCTTCCATT-TCCTCCTTCTTATC
1 TTCTTCC-TTCT-CTCCTTCTTATC
*
24181218 TTCTTCTTTCTCT
1 TTCTTCCTTCTCT
24181231 TCCTCAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 8 0.26
22 8 0.26
23 6 0.19
24 9 0.29
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.60
Consensus pattern (23 bp):
TTCTTCCTTCTCTCCTTCTTATC
Found at i:24185264 original size:94 final size:94
Alignment explanation
Indices: 24185102--24185312 Score: 368
Period size: 94 Copynumber: 2.2 Consensus size: 94
24185092 TACTAGTACC
*
24185102 CGATGCTGCTCACACGAGCTATCGAGGACTCGCAACCTATGTGGTACCCCAACCATCGGTACGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACCTATGTGGTACCCCAACCATCGGTACGGT
24185167 GTCTAGCTGTACTGTAAACTGTTTCCTAA
66 GTCTAGCTGTACTGTAAACTGTTTCCTAA
* * *
24185196 GGATGCTGCTCACACGAGCTGTCGAGGACTCGTAACTTATGTGGTACCCCAACCATCGGTACGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACCTATGTGGTACCCCAACCATCGGTACGGT
* *
24185261 GTCTATCTGTATTGTAAACTGTTTCCTAA
66 GTCTAGCTGTACTGTAAACTGTTTCCTAA
24185290 CGATGCTGCTCACACGAGCTGTC
1 CGATGCTGCTCACACGAGCTGTC
24185313 AAGAGTATGC
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 110 1.00
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (94 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACCTATGTGGTACCCCAACCATCGGTACGGT
GTCTAGCTGTACTGTAAACTGTTTCCTAA
Found at i:24191949 original size:21 final size:21
Alignment explanation
Indices: 24191925--24191964 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24191915 TACCCTGTAC
* *
24191925 TTCTACCGATACATGTATAAA
1 TTCTACCGAAACAAGTATAAA
24191946 TTCTACCGAAACAAGTATA
1 TTCTACCGAAACAAGTATA
24191965 CAGAATCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (21 bp):
TTCTACCGAAACAAGTATAAA
Found at i:24193613 original size:21 final size:22
Alignment explanation
Indices: 24193589--24193633 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
24193579 TTAAACTTCC
* *
24193589 TTAATCTTTT-TTTAGCCTTAA
1 TTAATCTTTTCATTACCCTTAA
24193610 TTAATCTTTTCATTACCCTTAA
1 TTAATCTTTTCATTACCCTTAA
24193632 TT
1 TT
24193634 GTCATGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.24, C:0.18, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATCTTTTCATTACCCTTAA
Found at i:24204336 original size:12 final size:12
Alignment explanation
Indices: 24204319--24204353 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
24204309 TTAAAGAACA
24204319 AAAATAAAAGAG
1 AAAATAAAAGAG
*
24204331 AAAATAAAAATAG
1 AAAAT-AAAAGAG
24204344 AAAATAAAAG
1 AAAATAAAAG
24204354 CAAGATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (12 bp):
AAAATAAAAGAG
Found at i:24217861 original size:17 final size:16
Alignment explanation
Indices: 24217823--24217862 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
24217813 AGATTCATTT
*
24217823 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
24217839 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
24217857 TTAAAT
1 TTAAAT
24217863 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:24218625 original size:18 final size:19
Alignment explanation
Indices: 24218586--24218631 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
24218576 ATAATAATAA
*
24218586 TAATAATAATAAATGTTTT
1 TAATAATAATAAATGATTT
*
24218605 TAATAATAATGAAT-ATTT
1 TAATAATAATAAATGATTT
24218623 TAATAATAA
1 TAATAATAA
24218632 AGTAATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
TAATAATAATAAATGATTT
Found at i:24219750 original size:29 final size:28
Alignment explanation
Indices: 24219718--24219788 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
24219708 AAAATTTTAG
*
24219718 AAAATTACATTTTGAC-CCTAAAACTTCC
1 AAAATTACATTTT-ACTCCCAAAACTTCC
*
24219746 AAAAATTACCATTTTACTCCCAAACCTTCC
1 -AAAATTA-CATTTTACTCCCAAAACTTCC
*
24219776 AAAATTCCATTTT
1 AAAATTACATTTT
24219789 TAACCCCGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.16
29 15 0.41
30 16 0.43
ACGTcount: A:0.38, C:0.27, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAATTACATTTTACTCCCAAAACTTCC
Found at i:24219775 original size:30 final size:29
Alignment explanation
Indices: 24219718--24219879 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 29
24219708 AAAATTTTAG
* *
24219718 AAAATTA-CATTTTGACCCTAAAACTTCCA
1 AAAATTACCATTTTAACCC-CAAACTTCCA
24219747 AAAATTACCATTTT-ACTCCCAAACCTTCC-
1 AAAATTACCATTTTAAC-CCCAAA-CTTCCA
* *
24219776 AAAATT-CCATTTTTAACCCC-GATTTCACCA
1 AAAATTACCA-TTTTAACCCCAAACTT--CCA
*
24219806 AAAATTACCATTTTACCCCCAAACCTTCC-
1 AAAATTACCATTTTAACCCCAAA-CTTCCA
*
24219835 AAAATT-CCATTTTTAACCCC-AATTTCACCA
1 AAAATTACCA-TTTTAACCCCAAACTT--CCA
24219865 AAAATTACCATTTTA
1 AAAATTACCATTTTA
24219880 CTCCTGAACT
Statistics
Matches: 109, Mismatches: 8, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
27 4 0.04
28 9 0.08
29 44 0.40
30 43 0.39
31 7 0.06
32 2 0.02
ACGTcount: A:0.37, C:0.30, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTAACCCCAAACTTCCA
Found at i:24219807 original size:59 final size:59
Alignment explanation
Indices: 24219744--24219971 Score: 334
Period size: 59 Copynumber: 3.9 Consensus size: 59
24219734 CCTAAAACTT
24219744 CCAAAAATTACCATTTTACTCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACTCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
24219803 CCAAAAATTACCATTTTACCCCCAAACCTTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACTCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * * * **
24219862 CCAAAAATTACCATTTTACTCCTGAACTTTCTAAAATCCCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACTCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
24219921 CCAAAAATTACCATTTTAC-CCTCGAACCTTCCAAAA-TCTCATTTTTAACCC
1 CCAAAAATTACCATTTTACTCC-CAAACCTTCCAAAATTC-CATTTTTAACCC
24219972 TGAATTTTCC
Statistics
Matches: 151, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
58 3 0.02
59 148 0.98
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACTCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:24219865 original size:29 final size:31
Alignment explanation
Indices: 24219776--24219878 Score: 119
Period size: 30 Copynumber: 3.5 Consensus size: 31
24219766 CAAACCTTCC
*
24219776 AAAATT-CCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTTAACCCCAATTTCACCA
* *
24219806 AAAATTACCA-TTTTACCCCCAAACCTT--CC-
1 AAAATTACCATTTTTAACCCC-AA-TTTCACCA
24219835 AAAATT-CCATTTTTAACCCCAATTTCACCA
1 AAAATTACCATTTTTAACCCCAATTTCACCA
24219865 AAAATTACCATTTT
1 AAAATTACCATTTT
24219879 ACTCCTGAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
27 2 0.03
28 5 0.08
29 17 0.28
30 23 0.38
31 11 0.18
32 2 0.03
ACGTcount: A:0.36, C:0.30, G:0.01, T:0.33
Consensus pattern (31 bp):
AAAATTACCATTTTTAACCCCAATTTCACCA
Done.