Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009088.1 Hibiscus syriacus cultivar Beakdansim tig00112532_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 200037
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 2
Found at i:138191 original size:20 final size:19
Alignment explanation
Indices: 138145--138191 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
138135 TCCGGTAACG
138145 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
138164 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
138185 TTTTACC
1 TTTTACC
138192 TGGTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:145726 original size:23 final size:23
Alignment explanation
Indices: 145700--145744 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
145690 CACCACAGCT
*
145700 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
145723 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
145745 ATATAACAAT
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:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:145896 original size:151 final size:149
Alignment explanation
Indices: 145712--146027 Score: 555
Period size: 151 Copynumber: 2.1 Consensus size: 149
145702 TATAATTGCA
145712 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
145776 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* *
145841 CCACAGAATATATATATATATC
130 CCAAAG-A-ATATACATATATC
*
145863 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
145928 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
145993 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
146012 CC-AAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
146028 CCCTCACTCT
Statistics
Matches: 160, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
148 14 0.09
149 13 0.08
150 2 0.01
151 131 0.82
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:147516 original size:21 final size:21
Alignment explanation
Indices: 147492--147536 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
147482 TTTTGTTCGT
* *
147492 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
147513 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
147534 TTG
1 TTG
147537 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:163599 original size:191 final size:192
Alignment explanation
Indices: 163275--163649 Score: 592
Period size: 191 Copynumber: 2.0 Consensus size: 192
163265 ATTTTTAAAG
*
163275 AAATTTTCTTCTAATCTATAATATGTAAGAATTATTCGAATAAAATTTTATTCATATTCGAATAA
1 AAATTTTCTTCTAATCTATAATATGTAAGAATTATTCGAATAAAATTTCATTCATATTCGAATAA
* *
163340 AATATCTCTATTTCGGAAAGGTTTTTAAAATATTATTTTTAATATGTTGTTGCAGGTAAAAAAGA
66 AATATCTCTATATCGGAAAGGTTATTAAAATATTATTTTTAATATGTTGTTGCAGGTAAAAAAGA
*
163405 AGTGAGTAATAAATTCGAAAA-TGTTTTTTATAACATCAACTTGTCGAAAGAATAGTAGAGA
131 AGTGAGTAAGAAATTCGAAAAGTGTTTTTTATAACATCAACTTGTCGAAAGAATAGTAGAGA
* * * *
163466 AAATTTTCTT-TCAATCTATAATCTTTAAGTATTATTCGAATAAAATTTCCTTCATATTCGAATA
1 AAATTTTCTTCT-AATCTATAATATGTAAGAATTATTCGAATAAAATTTCATTCATATTCGAATA
* * * *
163530 ATATATCTCTATATCGGAAATGTTATTGAAATATTATTTTTAATATGTTGTTGCGGGTAAAAAAG
65 AAATATCTCTATATCGGAAAGGTTATTAAAATATTATTTTTAATATGTTGTTGCAGGTAAAAAAG
* *
163595 AAGTGAGTAAGAAATTCGAAAAGGTTTTTTTTATAACATCAACTTGTCGGAAGAA
130 AAGTGAGTAAGAAATTCGAAAA-GTGTTTTTTATAACATCAACTTGTCGAAAGAA
163650 ACTCTCAAGT
Statistics
Matches: 167, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
190 1 0.01
191 137 0.82
193 29 0.17
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (192 bp):
AAATTTTCTTCTAATCTATAATATGTAAGAATTATTCGAATAAAATTTCATTCATATTCGAATAA
AATATCTCTATATCGGAAAGGTTATTAAAATATTATTTTTAATATGTTGTTGCAGGTAAAAAAGA
AGTGAGTAAGAAATTCGAAAAGTGTTTTTTATAACATCAACTTGTCGAAAGAATAGTAGAGA
Found at i:163877 original size:25 final size:25
Alignment explanation
Indices: 163849--163908 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
163839 ATTTGTAGTA
*
163849 GAAAAATAATATTTATTATAATGAC
1 GAAAAATAATATTCATTATAATGAC
163874 GAAAAATAATATTCATTATAATGAC
1 GAAAAATAATATTCATTATAATGAC
163899 -AAGAAATAAT
1 GAA-AAATAAT
163909 GACACTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 2 0.06
25 31 0.94
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (25 bp):
GAAAAATAATATTCATTATAATGAC
Found at i:164359 original size:268 final size:270
Alignment explanation
Indices: 163874--164384 Score: 703
Period size: 268 Copynumber: 1.9 Consensus size: 270
163864 TTATAATGAC
* *
163874 GAAAAATAATATTCATTATAATGACAAGAAATAATGACACTAATTATCTATTAATAACCCAGGTA
1 GAAAAATAATATTCATTATAATGACAAAAAATAATGACACTAATTATCCATTAATAACCCAGGTA
* * * * *
163939 GGTTGGTGGTCGGTGGTTATTAATTATCCATTAATAACCCAGGTAGGTTGGTGATTGGTTGTTGA
66 -GTAGAT-GTCGATGATTATTAATTATCCATTAATAACCCAGGTAGGTTGGTGATTGGTGGTTGA
*
164004 ACAGGAAAATATAATGAATTAGAGAGTAATAAAATCGAAGTAATAATAAGTAGTTATAAAAATAC
129 ACAGGAAAATATAATGAACTAGAGAGTAATAAAATCGAAGTAATAATAAGTAGTTATAAAAATAC
*
164069 AAAGTAATAAATTTAATCATTATTATAATGTAATCATAGTATTTAAGCCGAACATATTTGCTTCA
194 AAAGTAATAAATTTAATCATTATTATAATATAATCATAGTATTTAAGCCGAACATATTTGCTTCA
164134 ATATTTGTAGTA
259 ATATTTGTAGTA
* *
164146 GAAAAATAATATTTATTATAATGACAAAAAATAATGACACCATTAATTATCCGTTAATAACCC-G
1 GAAAAATAATATTCATTATAATGACAAAAAATAATGACA-C--TAATTATCCATTAATAACCCAG
* * ** *
164210 G-A-TAGAT-T-GATGATTATTAATTATTCATTAATAATCTGGGTAGGTTGGTGGTTGGTGGTTG
63 GTAGTAGATGTCGATGATTATTAATTATCCATTAATAACCCAGGTAGGTTGGTGATTGGTGGTTG
* * * *
164271 AACGGGAAATTATAATGAACTAGGGAGTAATAAACTCGAAGTAATAATAAGTA-TTATAAAAA-A
128 AACAGGAAAATATAATGAACTAGAGAGTAATAAAATCGAAGTAATAATAAGTAGTTATAAAAATA
* * *
164334 TCTGAAGTAATCAATTTATTCATTATTATAATATAATCATAGTATTTAAGC
193 -C-AAAGTAATAAATTTAATCATTATTATAATATAATCATAGTATTTAAGC
164385 ATTATTTTTA
Statistics
Matches: 211, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
266 1 0.00
267 10 0.05
268 137 0.65
269 1 0.00
271 3 0.01
272 37 0.18
273 2 0.01
274 2 0.01
275 18 0.09
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (270 bp):
GAAAAATAATATTCATTATAATGACAAAAAATAATGACACTAATTATCCATTAATAACCCAGGTA
GTAGATGTCGATGATTATTAATTATCCATTAATAACCCAGGTAGGTTGGTGATTGGTGGTTGAAC
AGGAAAATATAATGAACTAGAGAGTAATAAAATCGAAGTAATAATAAGTAGTTATAAAAATACAA
AGTAATAAATTTAATCATTATTATAATATAATCATAGTATTTAAGCCGAACATATTTGCTTCAAT
ATTTGTAGTA
Found at i:164437 original size:34 final size:34
Alignment explanation
Indices: 164394--164458 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
164384 CATTATTTTT
*
164394 ATAAAAAAATATTGTTAATATATTTATATTTATA
1 ATAAAAAAATATTGTTAATATATTTACATTTATA
164428 ATAAAAAAATATTGTTAATATATTTACATTT
1 ATAAAAAAATATTGTTAATATATTTACATTT
164459 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (34 bp):
ATAAAAAAATATTGTTAATATATTTACATTTATA
Found at i:164446 original size:17 final size:17
Alignment explanation
Indices: 164394--164447 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
164384 CATTATTTTT
164394 ATAAAAAAATATTGTTA
1 ATAAAAAAATATTGTTA
* ***
164411 ATATATTTATATT-TATA
1 ATAAAAAAATATTGT-TA
164428 ATAAAAAAATATTGTTA
1 ATAAAAAAATATTGTTA
164445 ATA
1 ATA
164448 TATTTACATT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
ATAAAAAAATATTGTTA
Found at i:167318 original size:27 final size:27
Alignment explanation
Indices: 167267--167545 Score: 175
Period size: 27 Copynumber: 9.7 Consensus size: 27
167257 TGTTGACGCT
* *
167267 ATATTTTAATGAATGTGA-TATATATCA
1 ATATTTGAATTAATGTGATTA-ATATCA
*
167294 ATAGTTGAATTAATGTGATTAATATCA
1 ATATTTGAATTAATGTGATTAATATCA
** * *
167321 ATATTTGAATTAATATGATGGATATTTGTTAACGCT
1 ATATTTGAATT-A-ATG-T-G--A-TTAAT-A-TCA
* * *
167357 ATATTTTAATGAATATGATTAATATCA
1 ATATTTGAATTAATGTGATTAATATCA
* * *
167384 ATAGTTGAATGAATGTGAATAATATCA
1 ATATTTGAATTAATGTGATTAATATCA
*
167411 ATAGTTGAATTAATGTGATTAATATCA
1 ATATTTGAATTAATGTGATTAATATCA
** * *
167438 ATATTTGAATTAATATGATGGATATTTGTTGACGCT
1 ATATTTGAATT-A-ATG-T-G--A-TTAAT-A-TCA
* *
167474 ATATTTTAA-TGATGTGATTAATATCA
1 ATATTTGAATTAATGTGATTAATATCA
*
167500 ATAGTTGAATTAATGTGATTAATATCA
1 ATATTTGAATTAATGTGATTAATATCA
*
167527 ATATTTGAATGAATGTGAT
1 ATATTTGAATTAATGTGAT
167546 GGATATTAAT
Statistics
Matches: 195, Mismatches: 37, Indels: 40
0.72 0.14 0.15
Matches are distributed among these distances:
26 8 0.04
27 124 0.64
28 8 0.04
29 10 0.05
30 3 0.02
31 3 0.02
32 2 0.01
33 6 0.03
34 8 0.04
35 4 0.02
36 19 0.10
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (27 bp):
ATATTTGAATTAATGTGATTAATATCA
Found at i:167332 original size:90 final size:90
Alignment explanation
Indices: 167234--167429 Score: 322
Period size: 90 Copynumber: 2.2 Consensus size: 90
167224 TTATCTATTT
* *
167234 TTTGAATTAATATGATGGATATTTGTTGACGCTATATTTTAATGAATGTGA-TATATATCAATAG
1 TTTGAATTAATATGATGGATATTTGTTAACGCTATATTTTAATGAATATGATTA-ATATCAATAG
* *
167298 TTGAATTAATGTGATTAATATCAATA
65 TTGAATGAATGTGAATAATATCAATA
167324 TTTGAATTAATATGATGGATATTTGTTAACGCTATATTTTAATGAATATGATTAATATCAATAGT
1 TTTGAATTAATATGATGGATATTTGTTAACGCTATATTTTAATGAATATGATTAATATCAATAGT
167389 TGAATGAATGTGAATAATATCAATA
66 TGAATGAATGTGAATAATATCAATA
* *
167414 GTTGAATTAATGTGAT
1 TTTGAATTAATATGAT
167430 TAATATCAAT
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
90 97 0.98
91 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (90 bp):
TTTGAATTAATATGATGGATATTTGTTAACGCTATATTTTAATGAATATGATTAATATCAATAGT
TGAATGAATGTGAATAATATCAATA
Found at i:167412 original size:117 final size:116
Alignment explanation
Indices: 167274--167545 Score: 465
Period size: 117 Copynumber: 2.3 Consensus size: 116
167264 GCTATATTTT
167274 AATGAATGTG-ATATATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATG
1 AATGAATGTGAATA-ATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATG
167338 ATGGATATTTGTTAACGCTATATTTTAATGAATATGATTAATATCAATAGTTG
65 ATGGATATTTGTTAACGCTATATTTTAATG-ATATGATTAATATCAATAGTTG
167391 AATGAATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
1 AATGAATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
* *
167456 TGGATATTTGTTGACGCTATATTTTAATGATGTGATTAATATCAATAGTTG
66 TGGATATTTGTTAACGCTATATTTTAATGATATGATTAATATCAATAGTTG
* * * *
167507 AATTAATGTGATTAATATCAATATTTGAATGAATGTGAT
1 AATGAATGTGAATAATATCAATAGTTGAATTAATGTGAT
167546 GGATATTAAT
Statistics
Matches: 148, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
116 56 0.38
117 89 0.60
118 3 0.02
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (116 bp):
AATGAATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
TGGATATTTGTTAACGCTATATTTTAATGATATGATTAATATCAATAGTTG
Found at i:169527 original size:24 final size:24
Alignment explanation
Indices: 169500--169556 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 24
169490 TCCATGTAAT
169500 TAAAATTAATTCATCGTTCTCAAA
1 TAAAATTAATTCATCGTTCTCAAA
169524 TAAAATATATTAATTCATCGTTCTCAAA
1 T--AA-A-ATTAATTCATCGTTCTCAAA
169552 TAAAA
1 TAAAA
169557 AGCCCCTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
24 2 0.07
25 1 0.03
26 4 0.14
27 1 0.03
28 21 0.72
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.37
Consensus pattern (24 bp):
TAAAATTAATTCATCGTTCTCAAA
Found at i:171900 original size:23 final size:23
Alignment explanation
Indices: 171838--171912 Score: 105
Period size: 23 Copynumber: 3.2 Consensus size: 23
171828 GTTTATATTA
*
171838 ATTTATTGTGTTCGTTTACGTTC
1 ATTTATTGTGTTCGTTAACGTTC
* *
171861 GTTTGTTTGTGTTCGTTAACGTTC
1 ATTT-ATTGTGTTCGTTAACGTTC
*
171885 ATTTATTATGTTCGTTAACGTTC
1 ATTTATTGTGTTCGTTAACGTTC
171908 ATTTA
1 ATTTA
171913 CACCCGTTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 25 0.56
24 20 0.44
ACGTcount: A:0.16, C:0.12, G:0.17, T:0.55
Consensus pattern (23 bp):
ATTTATTGTGTTCGTTAACGTTC
Found at i:172648 original size:20 final size:20
Alignment explanation
Indices: 172625--172676 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
172615 AACGCGATCC
172625 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
172645 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
172665 CCAAAATCGCAA
1 CCAGAATCGCAA
172677 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:172693 original size:21 final size:20
Alignment explanation
Indices: 172666--172764 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
172656 AATCAGTTTC
172666 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
172687 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
172708 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
172728 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
172749 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
172765 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:172793 original size:20 final size:20
Alignment explanation
Indices: 172731--172924 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
172721 CGATTTTCCA
* ** *
172731 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
172751 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
172771 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
172791 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
172811 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
172831 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
172851 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
172871 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
172891 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
172912 AAATCGCAACGCG
1 AAATCGCAACGCG
172925 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:172815 original size:60 final size:60
Alignment explanation
Indices: 172731--172924 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
172721 CGATTTTCCA
* ** * *
172731 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
172791 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
172851 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
172912 AAATCGCAACGCG
1 AAATCGCAACGCG
172925 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:173345 original size:33 final size:33
Alignment explanation
Indices: 173306--173376 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
173296 TTCACTTAGA
*
173306 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
173339 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
173372 TTTCA
1 TTTCA
173377 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:173516 original size:14 final size:14
Alignment explanation
Indices: 173497--173551 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
173487 AGAATGACTG
173497 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
173511 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
173530 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
173544 TCGCAACG
1 TCGCAACG
173552 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:173564 original size:33 final size:33
Alignment explanation
Indices: 173497--173567 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
173487 AGAATGACTG
***
173497 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
173530 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
173563 TCGCA
1 TCGCA
173568 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:173585 original size:19 final size:19
Alignment explanation
Indices: 173563--173660 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
173553 GAAACCAAAA
*
173563 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
173582 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
173596 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
173615 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
173629 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
173648 TCGCGTTGCGATT
1 TCGCGTTGCGATT
173661 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:173604 original size:14 final size:14
Alignment explanation
Indices: 173585--173674 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
173575 TTTCATTTCG
173585 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
173599 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
173618 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
173632 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
173649 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
173665 CGTTGCGATT
1 CGTTGCGATT
173675 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:173610 original size:33 final size:33
Alignment explanation
Indices: 173568--173682 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
173558 CAAAATCGCA
173568 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
173601 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
173634 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
173667 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
173683 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:175610 original size:185 final size:186
Alignment explanation
Indices: 175381--175853 Score: 939
Period size: 185 Copynumber: 2.5 Consensus size: 186
175371 TAGATTGCTT
175381 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175446 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
175511 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
175566 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175631 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
175696 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
175752 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175817 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
175854 ATCCATTCAA
Statistics
Matches: 287, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
185 155 0.54
186 132 0.46
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:175695 original size:93 final size:93
Alignment explanation
Indices: 175381--175853 Score: 939
Period size: 93 Copynumber: 5.1 Consensus size: 93
175371 TAGATTGCTT
175381 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175446 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
175474 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175538 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
175566 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175631 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
175659 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175724 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
175752 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
175817 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
175845 AGTAAATTT
1 AGTAAATTT
175854 ATCCATTCAA
Statistics
Matches: 379, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.24
93 287 0.76
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:175937 original size:19 final size:19
Alignment explanation
Indices: 175897--176025 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
175887 TAGTTTACTT
* *
175897 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
175917 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
175936 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
175955 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
175969 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
175988 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
176002 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
176021 TCGCA
1 TCGCA
176026 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:175976 original size:33 final size:32
Alignment explanation
Indices: 175933--176025 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
175923 CGCGAAACCA
**
175933 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
175965 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
175998 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
176026 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:176023 original size:52 final size:52
Alignment explanation
Indices: 175897--176025 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
175887 TAGTTTACTT
**
175897 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
175949 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
176002 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
176026 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:176043 original size:19 final size:19
Alignment explanation
Indices: 176021--176155 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
176011 GAAACCAAAA
*
176021 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
176040 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
176056 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
176073 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
176089 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
176106 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
176125 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
176145 TCGTGTTGCGA
1 TCGCGTTGCGA
176156 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:176062 original size:14 final size:14
Alignment explanation
Indices: 176043--176099 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
176033 TTTCATTTCG
176043 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
176057 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
176074 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
176090 CGTTGCGATT
1 CGTTGCGATT
176100 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:176068 original size:33 final size:33
Alignment explanation
Indices: 176026--176118 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
176016 CAAAATCGCA
*
176026 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
176059 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
176092 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
176119 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:178078 original size:14 final size:14
Alignment explanation
Indices: 178059--178094 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
178049 ATTGTTTAAT
178059 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
178073 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
178087 TGATTTGT
1 TGATTTGT
178095 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:178217 original size:19 final size:19
Alignment explanation
Indices: 178201--178302 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
178191 AAAAATGACT
178201 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
178220 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
178239 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
178253 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
178272 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
178292 ATCGCAATGCG
1 ATCGCAATGCG
178303 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:178355 original size:19 final size:19
Alignment explanation
Indices: 178331--178635 Score: 340
Period size: 19 Copynumber: 17.4 Consensus size: 19
178321 GATTATCTCG
178331 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
178350 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
178369 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
178383 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
178402 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
178421 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
178440 TTGCGA-TTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
178458 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
178473 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
178491 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
178510 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
178524 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
178543 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
178561 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
178575 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
178595 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
178609 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
178628 TTGCGATT
1 TTGCGATT
178636 GTATTTTCCG
Statistics
Matches: 247, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.13
17 28 0.11
18 39 0.16
19 103 0.42
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:178489 original size:141 final size:135
Alignment explanation
Indices: 178299--178635 Score: 484
Period size: 141 Copynumber: 2.4 Consensus size: 135
178289 AAAATCGCAA
178299 TGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTT-TAATTTCGCATTGCGATTAT-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
*
178363 TTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCATTGCGA-
*
178428 TTTCATTTCGTAT
127 -TTC-TCTCG--T
178441 TGCGA-TTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTTTAATTTCGCATTGCGATTAT-TC-GTTGCGATTTTCATTTCGCATTGCGATTTTCAT
178504 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATT
178569 CTCTCGT
129 CTCTCGT
* * *
178576 TGCGATTTTCATTTCCGCATTGCGATT-TTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTAATTT-CGCATTGCGATTATTC--GTTGCGATTTTCATTTCGCATTGCGATT
178636 GTATTTTCCG
Statistics
Matches: 182, Mismatches: 7, Indels: 17
0.88 0.03 0.08
Matches are distributed among these distances:
135 8 0.04
136 11 0.06
137 38 0.21
138 3 0.02
140 18 0.10
141 95 0.52
142 9 0.05
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (135 bp):
TGCGATTTTAATTTCGCATTGCGATTATTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTCT
CTCGT
Found at i:178494 original size:51 final size:51
Alignment explanation
Indices: 178331--178603 Score: 306
Period size: 52 Copynumber: 5.2 Consensus size: 51
178321 GATTATCTCG
*
178331 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGA-TTTCATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCA
* *
178383 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGA-TTTCATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCA
* *
178440 TTGCGATTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTCATTTCGCATTGCGATTATCTC-GTTGCGATTTTCATTTCGCA
*
178491 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGA-TTTCATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCA
*
178543 TTGCGATTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTCATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTT-CGCA
178595 TTGCGATTT
1 TTGCGATTT
178604 TCATGTTGGG
Statistics
Matches: 206, Mismatches: 6, Indels: 18
0.90 0.03 0.08
Matches are distributed among these distances:
51 65 0.32
52 103 0.50
53 4 0.02
54 6 0.03
55 5 0.02
56 17 0.08
57 6 0.03
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (51 bp):
TTGCGATTTCATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCA
Found at i:180957 original size:12 final size:12
Alignment explanation
Indices: 180940--180964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
180930 TCTTCGGGGA
180940 CTTTTTCTTCTT
1 CTTTTTCTTCTT
180952 CTTTTTCTTCTT
1 CTTTTTCTTCTT
180964 C
1 C
180965 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:181173 original size:24 final size:24
Alignment explanation
Indices: 181139--181185 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
181129 CTGAAACATC
181139 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
181163 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
181186 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:181887 original size:20 final size:20
Alignment explanation
Indices: 181859--182227 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
181849 AAATTTCAGT
* * * *
181859 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
181879 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
181899 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
181919 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
181939 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
181959 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
181979 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
181999 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
182019 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
182039 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
182059 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
182079 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
182099 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
182119 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
182139 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
182159 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
182179 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
182199 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
182219 GTTGCGATT
1 GTTGCGATT
182228 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:182527 original size:16 final size:16
Alignment explanation
Indices: 182506--182536 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
182496 TAACGGTTAT
182506 TTTCTTTAAATGAATA
1 TTTCTTTAAATGAATA
182522 TTTCTTTAAATGAAT
1 TTTCTTTAAATGAAT
182537 GATCAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTCTTTAAATGAATA
Found at i:182761 original size:30 final size:30
Alignment explanation
Indices: 182727--182784 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
182717 CACAAATCGG
* *
182727 TCACTAACGTTATCGTTTGTTACAAAATTA
1 TCACTAACATTATCATTTGTTACAAAATTA
*
182757 TCACTAACATTATTATTTGTTACAAAAT
1 TCACTAACATTATCATTTGTTACAAAAT
182785 GGTCATCCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (30 bp):
TCACTAACATTATCATTTGTTACAAAATTA
Found at i:183778 original size:38 final size:38
Alignment explanation
Indices: 183720--183873 Score: 123
Period size: 38 Copynumber: 4.0 Consensus size: 38
183710 TAATCTCTCA
* *
183720 TGTCCCAAAGAACCACTATGTCCCAAAGGACCCCTGAT
1 TGTCCCGAAGAACCACTATGTCCCAAAGGACCACTGAT
* * * *
183758 TGTTCCGAAGAATCACTATGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGAACCACTATGTCCCAAAGGACCACTGAT
* * * *
183796 TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACT-A-
1 TGTCCCGAAGAACCACT-A-TGTCCCAAAGGACCACTGAT
* * * * *
183834 TATCCCGAAGGACCACTGTTTGTCCCGAAGGACTACTGAT
1 TGTCCCGAAGAACCAC--TATGTCCCAAAGGACCACTGAT
183874 AATCCCTCGA
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
38 75 0.81
39 2 0.02
40 16 0.17
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (38 bp):
TGTCCCGAAGAACCACTATGTCCCAAAGGACCACTGAT
Found at i:183816 original size:58 final size:58
Alignment explanation
Indices: 183738--183873 Score: 227
Period size: 58 Copynumber: 2.3 Consensus size: 58
183728 AGAACCACTA
* * * *
183738 TGTCCCAAAGGACCCCTGATTGTTCCGAAGAATCACTATGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTATATCCCGAAGGACCACTGTT
183796 TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTATATCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTATATCCCGAAGGACCACTGTT
*
183854 TGTCCCGAAGGACTACTGAT
1 TGTCCCGAAGGACCACTGAT
183874 AATCCCTCGA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (58 bp):
TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTATATCCCGAAGGACCACTGTT
Found at i:183879 original size:20 final size:20
Alignment explanation
Indices: 183720--183873 Score: 149
Period size: 20 Copynumber: 8.0 Consensus size: 20
183710 TAATCTCTCA
* *
183720 TGTCCCAAAGAACCACT-A-
1 TGTCCCGAAGGACCACTGAT
* *
183738 TGTCCCAAAGGACCCCTGAT
1 TGTCCCGAAGGACCACTGAT
* * *
183758 TGTTCCGAAGAATCACT-A-
1 TGTCCCGAAGGACCACTGAT
*
183776 TGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCACTGAT
183796 TGTCCCGAAGGACCACTGAT
1 TGTCCCGAAGGACCACTGAT
* *
183816 TGTTCCGAAGAACCACT-A-
1 TGTCCCGAAGGACCACTGAT
* *
183834 TATCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCACTGAT
*
183854 TGTCCCGAAGGACTACTGAT
1 TGTCCCGAAGGACCACTGAT
183874 AATCCCTCGA
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
18 43 0.39
19 3 0.03
20 63 0.58
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (20 bp):
TGTCCCGAAGGACCACTGAT
Found at i:188687 original size:64 final size:62
Alignment explanation
Indices: 188464--188687 Score: 234
Period size: 64 Copynumber: 3.5 Consensus size: 62
188454 TGTTTGAATG
** * *
188464 TGCACCGATGCATTGGTAGTGCATCGATGCACTCTTTTAAAATAA-AGACATCGAATGCAATTCA
1 TGCACCGATGCATAAGTAGTGCATCGATGCA-TC--TCAAAATAATAAACATCGAATGCAATTCA
* * ** **
188528 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTGATAATGAAACATCGAATGCAATTGG
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCTCA-AAATAAT-AAACATCGAATGCAATTCA
* * * * *
188592 TGCATCGATGCATAAGAAGTGCATCGATGCATCTCAACAATAATACAACATCGAATACATTTTA
1 TGCACCGATGCATAAGTAGTGCATCGATGCATCTCAA-AATAATA-AACATCGAATGCAATTCA
*
188656 TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 TGCACCGATGCATAAGTAGTGCATCGATGCAT
188688 ACCTTTATTA
Statistics
Matches: 134, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
61 1 0.01
62 4 0.03
63 3 0.02
64 126 0.94
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (62 bp):
TGCACCGATGCATAAGTAGTGCATCGATGCATCTCAAAATAATAAACATCGAATGCAATTCA
Found at i:189377 original size:31 final size:31
Alignment explanation
Indices: 189339--189493 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
189329 AGGGTCGAGG
189339 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
189370 GTTTACCTATGTTCTTCGGGACATATGGA-T
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
189400 GTTTACCTATGTTCCTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
189431 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
189462 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
189493 G
1 G
189494 GTCCTTCGGG
Statistics
Matches: 118, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
30 29 0.25
31 88 0.75
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:189434 original size:61 final size:62
Alignment explanation
Indices: 189339--189493 Score: 260
Period size: 61 Copynumber: 2.5 Consensus size: 62
189329 AGGGTCGAGG
189339 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGA-T
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
*
189400 GTTTACCTATGTTCCTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
* *
189462 GTTTACCTAGGTTCTTCGGAATC-TATGGACTG
1 GTTTACCTATGTTCTTCGGGA-CATATGGACTG
189494 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
61 59 0.67
62 28 0.32
63 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:192729 original size:64 final size:64
Alignment explanation
Indices: 192656--192879 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
192646 TTTTTGAATG
* * **
192656 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTC
192719 A
64 A
* * **
192720 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* * * ** * * * *
192784 TGCATTGATGCATAAGG-AGTGCATCGATGCGTCTCAACAATAATACAACATCGAATACATTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* *
192848 TACATCGATGCATCA-GTAATGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
192880 ACCTTCATTA
Statistics
Matches: 131, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
63 1 0.01
64 122 0.93
65 8 0.06
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:193571 original size:31 final size:31
Alignment explanation
Indices: 193533--193688 Score: 199
Period size: 31 Copynumber: 5.0 Consensus size: 31
193523 AGGGTCGAGG
* *
193533 GTTTACCTATGTTATTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
193564 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
193595 GTTTACCTATGTT-TCTCTGGATATATGGACT
1 GTTTACCTATGTTCT-TCGGGACATATGGACT
* *
193626 ATTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
193657 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
193688 G
1 G
193689 GTCATTCAGG
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.01
31 105 0.97
32 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:195748 original size:16 final size:16
Alignment explanation
Indices: 195727--195760 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
195717 ACTAAATATT
195727 TGTCCCGAATG-ACCAC
1 TGTCCCGAA-GAACCAC
195743 TGTCCCGAAGAACCAC
1 TGTCCCGAAGAACCAC
195759 TG
1 TG
195761 ATTGTTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.18
Consensus pattern (16 bp):
TGTCCCGAAGAACCAC
Found at i:195774 original size:20 final size:20
Alignment explanation
Indices: 195743--195878 Score: 120
Period size: 20 Copynumber: 7.0 Consensus size: 20
195733 GAATGACCAC
195743 TGTCCCGAAGAACCACTGAT
1 TGTCCCGAAGAACCACTGAT
* *
195763 TGTTCTGAAGAACCACT-A-
1 TGTCCCGAAGAACCACTGAT
* *
195781 TGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGAACCACTGAT
*
195801 TGTCCCGAAGGACCACTGAT
1 TGTCCCGAAGAACCACTGAT
* * *
195821 TATTCCAAAGAACCACT-A-
1 TGTCCCGAAGAACCACTGAT
* * *
195839 TGTCCCAAAGGACCACTGTT
1 TGTCCCGAAGAACCACTGAT
*
195859 TGTCCTGAATG-ACCACTGAT
1 TGTCCCGAA-GAACCACTGAT
195879 AATCCCTCGA
Statistics
Matches: 93, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
18 28 0.30
19 2 0.02
20 62 0.67
21 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (20 bp):
TGTCCCGAAGAACCACTGAT
Found at i:195787 original size:38 final size:38
Alignment explanation
Indices: 195726--195817 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 38
195716 CACTAAATAT
195726 TTGTCCCGAATG-ACCAC--TGTCCCGAAGAACCACTGA
1 TTGTCCCGAA-GAACCACTATGTCCCGAAGAACCACTGA
* * * *
195762 TTGTTCTGAAGAACCACTATGTCCCGAAGGACCACTGT
1 TTGTCCCGAAGAACCACTATGTCCCGAAGAACCACTGA
*
195800 TTGTCCCGAAGGACCACT
1 TTGTCCCGAAGAACCACT
195818 GATTATTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.02
36 13 0.28
38 32 0.70
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGAACCACTGA
Found at i:195819 original size:58 final size:58
Alignment explanation
Indices: 195743--195878 Score: 209
Period size: 58 Copynumber: 2.3 Consensus size: 58
195733 GAATGACCAC
* * ** *
195743 TGTCCCGAAGAACCACTGATTGTTCTGAAGAACCACTATGTCCCGAAGGACCACTGTT
1 TGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTATGTCCCAAAGGACCACTGTT
195801 TGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTATGTCCCAAAGGACCACTGTT
1 TGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTATGTCCCAAAGGACCACTGTT
* *
195859 TGTCCTGAATGACCACTGAT
1 TGTCCCGAAGGACCACTGAT
195879 AATCCCTCGA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (58 bp):
TGTCCCGAAGGACCACTGATTATTCCAAAGAACCACTATGTCCCAAAGGACCACTGTT
Done.