Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167940.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_201, 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: 52044
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.37
Warning! 1000 characters in sequence are not A, C, G, or T
Found at i:158 original size:16 final size:17
Alignment explanation
Indices: 126--158 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
116 AATCACTTCA
126 AATAATTATAACTATTTG
1 AATAATTAT-ACTATTTG
144 AATAATTAT-CTATTT
1 AATAATTATACTATTT
159 CAAATCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:1907 original size:177 final size:178
Alignment explanation
Indices: 3--2817 Score: 1839
Period size: 179 Copynumber: 16.3 Consensus size: 178
1 TA
* ** * * * *
3 TCATAAAACAATTGTTT-TAGTTCATAAAAATTTATCCAAAATAAAATAATATTACTTTATTAAT
1 TCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAAT
* * * * * * *
67 ATTTTAAAGATCAATAAGTAAAAGATTTAAAAAATAAAACAGTTTA-TCGAATC-ACTTCAAATA
65 A-TTCAAAAATTAAT-A-TGAAAGATTTAAAAAATAAATCTGTTTACT-GAA-CAAGTTCAAATA
* * * * *
130 ATTATAACTATTTGAATAATTATCTATTTCAAATCGTTATTACCTTTCGTTTTG
125 GTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * **
184 TCATAAAACAATTGTTTTTA-ACATACAAGCTTATT--TTATAAAATAATACTAATTTAATTAAT
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTT-ATTAAT
* * * *
246 ATT-TAAAATT-ATATG--AGA-TTAAAAAATAAATCAGTTTTACTAAACCAGTTCAAA-AGTTA
65 ATTCAAAAATTAATATGAAAGATTTAAAAAATAAATCTG-TTTACTGAACAAGTTCAAATAGTTA
* * *
305 TGACTATTTGAACAATTATCTATTTTAAATTGTTATTA-CTTTTG-TTT-
129 TGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * * * *
352 TCATAAAA-AATTATTTC-AGTCATATAAGTTTATTCG-AATAAAATAA-ACAAAATTA-AAATA
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA
* * * * *
412 TTC-AAAA-TAA-AT-AAGAGATTTAAAAAAAAAATC-ATTT-GTGAACCAGTTCAAATAAATTA
66 TTCAAAAATTAATATGAA-AGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAAT-AGTTA
* *
471 -AACTA-TTGAACAATTA--T-TTT-AAAT-TTTAT-ACCTTTTGTTTTG
129 TGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* *
513 TCATAAAA-AATTATTT-T-TT-AGCT-CATA-CTTATTCG-AA-AAAATAA-ACTAA-TTAAT-
1 TCATAAAACAATTGTTTCTATTCA--TACA-AGCTTATTCGAAATAAAATAATACTAATTTATTA
* * * *
567 AT-TTCAAAATTTAAT-T-AGAGATTTAAAAAATAAAT-T-TTT--TGAAACCACTTCAAATAGT
63 ATATTCAAAAATTAATATGAAAGATTTAAAAAATAAATCTGTTTACTG-AACAAGTTCAAATAGT
* * *
625 TA--AATATTTGAACAATTATCTATTGCAAAT--TTATGGCCTTTTAG-TTTG
127 TATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTT-GTTTTG
* * * *
673 TCATAAAACAAAT-TTTGTTTTCATA-AA---TATTTGAAATAAAA-AATAACT-A---A-TAAT
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAAT-ACTAATTTATTAAT
** * * * * *
727 -TTCAATTATTAAGTA--AGAGATTTAAAAAATAATTATGTTT--TGAACCACTTCAAATA-TTA
65 ATTCAAAAATTAA-TATGAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTA
* * *
786 TGATTATTTGAACAATTATCTATTTCAAATCATTATTACCTTTTGTTTTG
129 TGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * *
836 TCATAAAACAAATGTTT-TGTT-ATATAAG--T-TT-GGAATAAAA-AA-A-AAATTTA-TAATA
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA
* * * * * *
891 TTTAAAAATTATTAAT-AAGAGATTTAAAAAAT-AATTTGTTTA-TCAAACCAGTTCAATTAGTT
66 TTCAAAAATTAAT-ATGAA-AGATTTAAAAAATAAATCTGTTTACT-GAACAAGTTCAAATAGTT
* * * *
953 ATAACTATTTGAACAATTATTTATTTCAAATCATTATGACCATTTGTTTTG
128 ATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * *
1004 TCATAAAACAATTGTTTCTGTTCATA-TAGTCTTATTCGGAATAAAGTAATGCTAATTTATTAAT
1 TCATAAAACAATTGTTTCTATTCATACAAG-CTTATTCGAAATAAAATAATACTAATTTATTAAT
** * ** ** * ** * * *
1068 ATTTTGAAAATTAATAAGTAAAGGATTTAGGAAATGTATTTGTTGGCCT-ACCAA-TGCAAATAA
65 A-TTCAAAAATTAATATG-AAA-GATTTAAAAAATAAATCTGTT-TACTGAACAAGTTCAAATAG
* *
1131 TTATGACTGTTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTG
126 TTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * *
1184 TCACAAAACAATTGTTTCTGTT-GTACAAGCTTATTC-AGAATAATATAATTCTAATTTATTAAT
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAAT
* * *
1247 ATTCCAAAAATTAATGA-GTAAGATTTTAAAAAATGAATCTATTTA-TCGAACAAGTTCAAATAG
65 ATT-CAAAAATTAAT-ATGAAAGA-TTTAAAAAATAAATCTGTTTACT-GAACAAGTTCAAATAG
*
1310 TTATAACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
126 TTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * * *
1363 TTATAAAACAATTGTTCCTATTCATACAAGCTTATTC-TAATAAAATAATA-TAAACTGACTAAT
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACT-AATTTATTAAT
* * * * * * *
1426 AATCCAACAATTAATAAGCAAAAATTT-AAAAATAAATCTATTT-TTGAACACGTTCAAATAGTT
65 -ATTCAAAAATTAATATG-AAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTT
*
1489 CTGACTA-TTGAACAATTATCTATTTCAAATCGTTATGACCTTTTAG-TTTG
128 ATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTT-GTTTTG
* * * * * * *
1539 TCATAAACCAATTGTTTTTGTTCATAAAAGCTTACTC-AGAATAAAATAATATTAATTTATTAAA
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAAT
* * * ** *
1603 ATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTAC-CAAGTGAGTCCAAATAG
65 A-TTCAAAAATTAAT-A-TGAAAGATTTAAAAAATAAATCTGTTTACTGAA-CAAGTTCAAATAG
* * * * *
1667 TTATGACTATTTAAATAATTATTTATTTCAAATTGTTATGATCTTTTGTTTTG
126 TTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* *
1720 TCATAAAACAATTATTTCTATTCATACAAGTTTATTCGAAATAAAATAATACTAATTTATTAATA
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA
* * * *
1785 TTCAAAAAATTAGT-TGGAAG-TTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAATCAT
66 TTC-AAAAATTAATATGAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTAT
* * * * * * * * *
1848 GTCCATTTGAACTATTACCAATTTTAAATCATTATGACATTTTGTTTTT
130 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* ** * *
1897 TCATAAAACAATTCTTTCTATTCATACAAAATTATT-TAGAATAAAATAATATTAATTTATTAAT
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAAT
* * * *
1961 ATTTCAAAAATT-A-AT--AAG-CTTAAAAACTAAATCTGTTTACTGGATC-GGTTCAAATAGTT
65 A-TTCAAAAATTAATATGAAAGATTTAAAAAATAAATCTGTTTACT-GAACAAGTTCAAATAGTT
* * * * * * * *
2020 ATAATTATTTGAAGAATTATCTATCTCAAATTGGTATGAGC-TTTGTTTTA
128 ATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * * * * ** *
2070 TCATGAAACAATTGTTTCTATTCATACAAACTTATTTGGAGT-AAATATTGCTAAACTAATAATA
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA
* * * *
2134 TTCTAAAAATTAATAAGTAAGAGATTT-AAAAATAAATGTGTTTGA-TGAACTAGTTTAAATAGT
66 TTC-AAAAATTAATATG-AA-AGATTTAAAAAATAAATCTGTTT-ACTGAACAAGTTCAAATAGT
* * * * * * *
2197 TAAGACTATTAGAATAATTATCTATTTCAAATTGTTTTGACTTTTTGTTTAG
127 TATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * * *
2249 TTATAAAATAATTATTTC-AGTTCATACATGCTTATTCGAAATAAAATAATACTATTTTATTAAC
1 TCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAAT
* * * * **
2313 ATCCAAAAAATTAATAAGCAAGGAATTTAAAAAA-AATTCTG----CCAAACAAGTTCAAATAGT
65 ATTC-AAAAATTAATATG-AAAG-ATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGT
* * * * *
2373 TATGACTATTTGAACAATTATCTATTTAAAATTGTTATGGCCTTTTG-CTTA
127 TATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * * * *
2424 TCATAAAACAATT-ATTC-AGTTCATAAAAGCTTATCCAAAATTAAATAATAATACTTTATTAAT
1 TCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAAT
* *
2487 ATTTCAAAAATTGAGA-AGTTG-GAGATTTAAAAAATAAAT-TAGTTTA-TCGAATCAA-CTCAA
65 A-TTCAAAAATT-A-ATA--TGAAAGATTTAAAAAATAAATCT-GTTTACT-GAA-CAAGTTCAA
* * * * *
2547 ATAGTTATGGCTGTTTGAACAATTATCTAATTCAAATCATTATGAACTTTTGTTTTG
122 ATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* * * * *
2604 TCATCAAACAATT-TTTC-A-TCAAACAAG--TATTTGGAATAAAATAATACTAATTCATTAATA
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA
** * * * * *
2664 TTTCAAAAATT-A-AT--AAG---TAGGAGAT-TATCTATTTACTGAACCAGTTTAAATAGTTAT
66 -TTCAAAAATTAATATGAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTAT
* * * *
2721 AACTATTTGAACAATTATATATTTCAAATCATTATAACCTTTTGTTTTG
130 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
* ** * *
2770 TCATAAAACAATTATTGATGTTCATACCAGCTTATTC-AGAATAAAATA
1 TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-AATAAAATA
2818 TTGTTGAACC
Statistics
Matches: 2110, Mismatches: 365, Indels: 328
0.75 0.13 0.12
Matches are distributed among these distances:
155 3 0.00
156 17 0.01
157 19 0.01
158 43 0.02
159 59 0.03
160 66 0.03
161 62 0.03
162 17 0.01
163 41 0.02
164 40 0.02
165 28 0.01
166 97 0.05
167 59 0.03
168 81 0.04
169 16 0.01
170 10 0.00
171 71 0.03
172 40 0.02
173 49 0.02
174 130 0.06
175 27 0.01
176 168 0.08
177 203 0.10
178 149 0.07
179 278 0.13
180 202 0.10
181 131 0.06
182 3 0.00
183 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (178 bp):
TCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA
TTCAAAAATTAATATGAAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATG
ACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTG
Found at i:2624 original size:15 final size:16
Alignment explanation
Indices: 2599--2629 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2589 TGAACTTTTG
2599 TTTTGTCATCAAACAA
1 TTTTGTCATCAAACAA
2615 TTTT-TCATCAAACAA
1 TTTTGTCATCAAACAA
2630 GTATTTGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTTGTCATCAAACAA
Found at i:2637 original size:529 final size:528
Alignment explanation
Indices: 943--2689 Score: 1248
Period size: 535 Copynumber: 3.3 Consensus size: 528
933 TCAAACCAGT
* * * * * *
943 TCAATTAGTTATAACTATTTGAACAATTATTTATTTCAAATCATTATGACCATTTGTTTTGTCAT
1 TCAAATAGTTATAACTATTTGAACAATTATCTATCTCAAATCAGTATGAAC-TTTGTTTTATCAT
* * * * ** * * * * * * * *
1008 AAAACAATTGTTTCTGTTCATATAGTCTTATTCGGAATAAAGTAATGCTAATTTATTAATATTTT
65 CAAACAATTGTTTCTATTCAAACAAACGTATTTGGAATAAAATAATACTAACTCAATAATATTTC
* ** ** * * ** * * * * * *
1073 GAAAATTAATAAGTAA-AGGATTTAGGAAATGTATTTGTTGGCCTAC-CAATGCAAATAATTATG
130 AAAAATTAATAAGTAAGA-GATTTAAAAAATAAATCTATTTACCAACTGAGTCCAAATAGTTAAG
* * * ** * * * *
1136 ACTGTTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCACAAAACAATTGTTT
194 ACTATTTAAATAATTATCTATTTCAAATTGTTATGATCTTTTGTTTAGTCATAAAACAATTATTT
* * * * *
1201 CTGTT-GTACAAGCTTATTC-AGAATAATATAATTCTAATTTATTAATATTCC-AAAAATTAATG
259 CTATTCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAACA-TCCAAAAAATTAAT-
* * * * * * * * *
1263 AGTAAGATTTTAAAAAATGAATCTATTTATCGAACAAGTTCAAATAGTTATAACTATTTGAACAA
321 AGCAAG--TTTAAAAAATAAATC--TGT-CCAAACAAGTTCAAATAATCATGACCATTTGAACAA
* * * * * * * * *
1328 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTTATAAAACAATT-GTTCCTATTCATACAA
381 TTACCAATTTAAAATCATTATGACATTTTGTCTTATCATAAAACAATTCATT-CTATTCATACAA
** * * * * * * * * *
1392 GCTTATTC-TAATAAAATAAT-ATAAACTGACTAATAATCCAACAATTAATAAGCAAAAATTTAA
445 AATTATCCAAAATAAAATAATAAT-AATTTATTAATATTTCAAAAATTAATAAGC-----TTAAA
* *
1455 AAATAAATCTATTT-TTGAA-C-AC
504 AAATAAATCTGTTTACTGAATCAAC
* * * * *
1477 GTTCAAATAGTTCTGACTA-TTGAACAATTATCTATTTCAAATC-GTTATGACCTTT-TAGTTTG
1 --TCAAATAGTTATAACTATTTGAACAATTATCTATCTCAAATCAG-TATGAACTTTGT--TTTA
* * * * * ** * * * *
1539 TCAT-AAACCAATTGTTTTTGTTCATAA-AAGCTTACTCAGAATAAAATAATATTAATTTATTAA
61 TCATCAAA-CAATTGTTTCTATTCA-AACAAACGTATTTGGAATAAAATAATACTAACTCAATAA
* * *
1602 AATTTCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCAAGTGAGTCCAAATAG
124 TATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACCAACTGAGTCCAAATAG
* * *
1667 TTATGACTATTTAAATAATTATTTATTTCAAATTGTTATGATCTTTTGTTTTGTCATAAAACAAT
189 TTAAGACTATTTAAATAATTATCTATTTCAAATTGTTATGATCTTTTGTTTAGTCATAAAACAAT
* * *
1732 TATTTCTATTCATACAAGTTTATTCGAAATAAAATAATACTAATTTATTAATATTCAAAAAATTA
254 TATTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAACATCCAAAAAATTA
* * * ** * *
1797 GTTGGAAGTTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAATCATGTCCATTTGAACTA
319 ATAGCAAGTTTAAAAAATAAATCTG--T-CCAAACAAGTTCAAATAATCATGACCATTTGAACAA
* * * *
1862 TTACCAATTTTAAATCATTATGACATTTTGTTTTTTCATAAAACAATTCTTTCTATTCATACAAA
381 TTACCAATTTAAAATCATTATGACATTTTGTCTTATCATAAAACAATTCATTCTATTCATACAAA
** * * *
1927 ATTATTTAGAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGCTTAAAAACTAAA
446 ATTATCCAAAATAAAATAATAATAATTTATTAATATTTCAAAAATTAATAAGCTTAAAAAATAAA
* ***
1992 TCTGTTTACTGGATCGGT
511 TCTGTTTACTGAATCAAC
* * ** * *
2010 TCAAATAGTTATAATTATTTGAAGAATTATCTATCTCAAATTGGTATGAGCTTTGTTTTATCATG
1 TCAAATAGTTATAACTATTTGAACAATTATCTATCTCAAATCAGTATGAACTTTGTTTTATCATC
* * * * *
2075 AAACAATTGTTTCTATTCATACAAACTTATTTGGAGT-AAATATTGCTAAACT-AATAATA-TTC
66 AAACAATTGTTTCTATTCAAACAAACGTATTTGGAATAAAATAATACT-AACTCAATAATATTTC
* * ** **
2137 TAAAAATTAATAAGTAAGAGATTT-AAAAATAAATGTGTTTGATGAACT-AGTTTAAATAGTTAA
130 -AAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTT-ACCAACTGAGTCCAAATAGTTAA
* * *
2200 GACTA-TTAGAATAATTATCTATTTCAAATTGTTTTGA-CTTTTTGTTTAGTTATAAAATAATTA
193 GACTATTTA-AATAATTATCTATTTCAAATTGTTATGATC-TTTTGTTTAGTCATAAAACAATTA
* *
2263 TTTC-AGTTCATACATGCTTATTCGAAATAAAATAATACTATTTTATTAACATCCAAAAAATTAA
256 TTTCTA-TTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAACATCCAAAAAATTAA
* * * *
2327 TAAGCAAGGAATTTAAAAAA-AATTCTG-CCAAACAAGTTCAAATAGTTATGACTATTTGAACAA
320 T-AGCAA-G--TTTAAAAAATAAATCTGTCCAAACAAGTTCAAATAATCATGACCATTTGAACAA
* * ** * *
2390 TTATCTATTTAAAATTGTTATGGCCTTTTG-CTTATCATAAAACAATT-ATTC-AGTTCATA-AA
381 TTACCAATTTAAAATCATTATGACATTTTGTCTTATCATAAAACAATTCATTCTA-TTCATACAA
* * * * *
2451 AGCTTATCCAAAATTAAATAATAATACTTTATTAATATTTCAAAAATTGAGAAGTTGGAGATTTA
445 A-ATTATCCAAAATAAAATAATAATAATTTATTAATATTTCAAAAATT---AA--T-AAG-CTTA
2516 AAAAATAAAT-TAGTTTA-TCGAATCAAC
502 AAAAATAAATCT-GTTTACT-GAATCAAC
** * * *
2543 TCAAATAGTTATGGCTGTTTGAACAATTATCTAAT-TCAAATCATTATGAACTTTTGTTTTGTCA
1 TCAAATAGTTATAACTATTTGAACAATTATCT-ATCTCAAATCAGTATGAAC-TTTGTTTTATCA
* *
2607 TCAAACAATT-TTTC-A-TCAAAC-AA-GTATTTGGAATAAAATAATACTAATTCATTAATATTT
64 TCAAACAATTGTTTCTATTCAAACAAACGTATTTGGAATAAAATAATACTAACTCAATAATATTT
*
2667 CAAAAATTAATAAGTAGGAGATT
129 CAAAAATTAATAAGTAAGAGATT
2690 ATCTATTTAC
Statistics
Matches: 982, Mismatches: 180, Indels: 104
0.78 0.14 0.08
Matches are distributed among these distances:
525 4 0.00
526 48 0.05
527 15 0.02
528 57 0.06
529 152 0.15
530 95 0.10
531 61 0.06
532 46 0.05
533 76 0.08
534 130 0.13
535 156 0.16
536 96 0.10
537 45 0.05
538 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (528 bp):
TCAAATAGTTATAACTATTTGAACAATTATCTATCTCAAATCAGTATGAACTTTGTTTTATCATC
AAACAATTGTTTCTATTCAAACAAACGTATTTGGAATAAAATAATACTAACTCAATAATATTTCA
AAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACCAACTGAGTCCAAATAGTTAAGAC
TATTTAAATAATTATCTATTTCAAATTGTTATGATCTTTTGTTTAGTCATAAAACAATTATTTCT
ATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAACATCCAAAAAATTAATAGCAA
GTTTAAAAAATAAATCTGTCCAAACAAGTTCAAATAATCATGACCATTTGAACAATTACCAATTT
AAAATCATTATGACATTTTGTCTTATCATAAAACAATTCATTCTATTCATACAAAATTATCCAAA
ATAAAATAATAATAATTTATTAATATTTCAAAAATTAATAAGCTTAAAAAATAAATCTGTTTACT
GAATCAAC
Found at i:3475 original size:181 final size:180
Alignment explanation
Indices: 2821--4400 Score: 1193
Period size: 181 Copynumber: 8.8 Consensus size: 180
2811 TAAAATATTG
* * * ** **
2821 TTGAACCAGTTCAAGTAGTTAAGGGTATTTGAATAATTATCTATTTCAAA-TCATTATGACAATT
1 TTGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATTC-TTATGACCTTT
* * * * * * *
2885 TGTTTTGTCATAAAATAATTGTTTCTATTGAAACAATCTTATTTGGAATAAAGTAATGCTAATTT
65 TGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAATTT
* * * * * **
2950 ATTAATATTCTAAAAATTAATAAGTAACAGATTTAAAAACTGAATTTGTTGGC
130 ATTAATATTC-AGAAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTT-TA
* * * * * * *
3003 TTGACCAA-TACAAATTGTTATGACTGTTTGAA-ACATTATTTATTTCAAATTATTATGAACTTT
1 TTGAACAAGTTCAAATAGTTATGACTATTTGAATA-ATTATCTATTTCAAATTCTTATGACCTTT
* ** * * *
3066 TGTTTTGTCACAAAACAATTGTTTCT-TTTGTATAAGCTTATTCAGAATAACATAACT-CTAATT
65 TGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAA-TACTAATT
* *
3129 TATTAATATTCA-AAA--AATTAA-TAAATAG--TTAAAAATTGAATCTGTTTA
129 TATTAATATTCAGAAATTAA-TAAGTAAA-AGATTTAAAAAATAAATCTGTTTA
* * ** * * *
3177 TCGAATAAGTTGTAATAGTTATGACTATTTGAATAATT-CCTATTTCAAA-TCGCTATAACCTTT
1 TTGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATTC-TTATGACCTTT
* ** * * *
3240 TGTTTTGTCATTAAATTATTTTTTCTATTCATACAAGCCTATTTC--AATTAAAATAATACAAAT
65 TGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTA-TTCGGAA-TAAAATAATACTAAT
* * *
3303 TTATTAATATTCAGATGACTAATAAATAAAAGATTTAAAAAATAAATCTGTTTA
128 TTATTAATATTCAGA-AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA
* * * * *
3357 TTGAATAAGTTCAAATAGCTATGACTATTTGAACAATTATTTATTTCAAATTCTTATGACTTTTT
1 TTGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATTCTTATGACCTTTT
* * * * *
3422 GTTTTGTCATAAAACAATTGTTTTTGTTTATACAAGCTTATTCGGATTAAAATAATATTAATTTA
66 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAATTTA
** * * *
3487 TTAATATTTTGACAATTAATAAGCAAAAGATTTTAAAAATAAATATGTTTA
131 TTAATATTCAGA-AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA
** ** * * * *
3538 TCAAACAAGTTCAAATAGGCATAACTATTTGAATAATTATCCATTTCAAATTGTTGTGACCTTTT
1 TTGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATTCTTATGACCTTTT
** * * * * *
3603 GTTTCATAATAAAACAATTGTATC-AGTTCATATAGGCTTATTC--AA-AAAA-AAAACTAATTT
66 GTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTCGGAATAAAATAATACTAATTT
* * * * * *
3663 ATTAATATTCTGAAAATTAATGAGTAAGAGATTT-AAAAATGATTCTATTT-
130 ATTAATATTCAG-AAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA
* * * *
3713 TCGATCAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTT
1 TTGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATTCTTATGACCTTTT
* * * * *
3778 GTTTTTGTCATAAAACAATTGTTTTTGTTCATACAAGCTTAGTCTGAATAAAATAATA-TAAAGT
66 G-TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACT-AATT
*
3842 TATTAATATTCTAGAAATTAATAAGTAAAA-ATTTAAAAAATAAATCTATTT-
129 TATTAATATTC-AGAAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA
**
3893 TCTGAACACA-TTCAAATAGTTATGA-TAATTTGAATAATTATCTATTTCAAATAGTTATGACCT
1 T-TGAACA-AGTTCAAATAGTTATGACT-ATTTGAATAATTATCTATTTCAAATTCTTATGACCT
** * * *
3956 TTT-TGTTTGTCATAATCCAATTGTTTCTATTCATACAAGCATATTTGAAATAAAATAATACTAA
63 TTTGT-TTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAA
* * *
4020 TTTATTAATATTTCAAAAATAAATAAGTAAAAG--TTAAAAAATAAATCTATTTA
127 TTTATTAATA-TTCAGAAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA
* * * * * * * **
4073 CTGAGCAAGTTCAAATAGTTATCACTGTTTGGAAT-AGTATTTATTTCAAATGGT-TTATTATAA
1 TTGAACAAGTTCAAATAGTTATGACTATTT-GAATAATTATCTATTTCAAAT--TCTTATGA-CC
* * * * **
4136 TTTTGTTTTGTTATAAAATTAATTGTTTCTATTGCATATAAGTTTAGTGTCATAATAAAATAATA
62 TTTTGTTTTGTCATAAAA-CAATTGTTTCTATT-CATACAAGCTTA-T-TCGGAATAAAATAAT-
* ** * * * * * * *
4201 ACTGATTTATTAAATATTTTGAAATAAATAGGT-AGAGATTT-AAAATTAATTAT-TTTG
122 ACTAATTTATT-AATATTCAGAAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA
** * * * * *
4258 CCGAACAAGTTCAAATAG-TATGTCCATTTGAACAATTATCTAGTTCAAA-TCATTATGACCTCC
1 TTGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATTC-TTATGACCT-T
* * * * ** **
4321 TT-TTTTGTCCATAAAATAATTATTTATCATTCATCGCAAAATTCATTTAGATATAAAAATAATA
64 TTGTTTTGT-CATAAAACAATTGTTTCT-ATTCAT-ACAAGCTT-ATTCGGA-AT-AAAATAATA
*
4385 CTAATCTATTAATATT
123 CTAATTTATTAATATT
4401 TTGAATATTT
Statistics
Matches: 1116, Mismatches: 215, Indels: 134
0.76 0.15 0.09
Matches are distributed among these distances:
173 1 0.00
174 46 0.04
175 130 0.12
176 54 0.05
177 43 0.04
178 16 0.01
179 73 0.07
180 222 0.20
181 333 0.30
182 53 0.05
183 44 0.04
184 29 0.03
185 34 0.03
186 32 0.03
187 6 0.01
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (180 bp):
TTGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATTCTTATGACCTTTT
GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAAATAATACTAATTTA
TTAATATTCAGAAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA
Found at i:3738 original size:356 final size:352
Alignment explanation
Indices: 2823--4341 Score: 1195
Period size: 356 Copynumber: 4.2 Consensus size: 352
2813 AAATATTGTT
* * * ** * **
2823 GAACCAGTTCAAGTAGTTAAGGGTATTTGAATAATTATCTATTTCAAATCA-TTATGACAATTTG
1 GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCCATTTCAAAT-AGTTATGACCTTTTG
* * * * * * * **
2887 TTTTGTCATAAAATAATTGTTTCTATTGAAACAATCTTATTTGGAATAAAGTAATGCTAATTTAT
65 -TTTGTCATAAAACAATTGTTTCTATTCATACAAGCATATTT-CAA-AAA-AAAAACTAATTTAT
* * * * * *
2952 TAATATTCTAAAAATTAATAAGTAACAGATTTAAAAACTGAATTTGTTGGCTT-GACCAA-TACA
126 TAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAA-TAAATCTATT---TTCGATCAAGTTCA
* * *
3015 AATTGTTATGACTGTTTGAAACATTATTTATTTCAAATTATTATGAACTTTTGTTTTGTCACAAA
187 AATAGTTATGACTATTTGAAA-ATTATTTATTTCAAATTATTATG-ACTTTTGTTTTGTCATAAA
* * * * * * *
3080 ACAATTGTTTCT-TTTGTATAAGCTTATTCAGAATAACATAACT-CTAATTTATTAATATTCAAA
250 ACAATTGTTTTTGTTTATACAAGCTTATTCAGAATAAAATAA-TATTAATTTATTAATATT-TAG
* *
3143 AAATTAAT-A-AATAG---TTAAAAATTGAATCTGTTTATC
313 AAATTAATAAGAAAAGATTTTAAAAA-TAAATCTGTTTATC
* ** * * *
3179 GAATAAGTTGTAATAGTTATGACTATTTGAATAA-T-TCCTATTTCAAATCGCTATAACCTTTTG
1 GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCC-ATTTCAAATAGTTATGACCTTTTG
* ** * * * *
3242 TTTTGTCATTAAATTATTTTTTCTATTCATACAAGCCTATTTCAATTAAAATAATACAAATTTAT
65 -TTTGTCATAAAACAATTGTTTCTATTCATACAAGCATATTTCAA--AAAA-AAAACTAATTTAT
** * * * *
3307 TAATATTC-AGATGACTAATAAATAAAAGATTTAAAAAATAAATCTGTTTATTGAAT-AAGTTCA
126 TAATATTCTA-AAAATTAATAAGTAAAAGATTT-AAAAATAAATCTATTT-TCG-ATCAAGTTCA
* *
3370 AATAGCTATGACTATTTGAACAATTATTTATTTCAAATTCTTATGACTTTTTGTTTTGTCATAAA
187 AATAGTTATGACTATTTGAA-AATTATTTATTTCAAATTATTATGAC-TTTTGTTTTGTCATAAA
* * *
3435 ACAATTGTTTTTGTTTATACAAGCTTATTCGGATTAAAATAATATTAATTTATTAATATTTTGAC
250 ACAATTGTTTTTGTTTATACAAGCTTATTCAGAATAAAATAATATTAATTTATTAATATTTAGA-
*
3500 AATTAATAAGCAAAAGATTTTAAAAATAAATATGTTTATC
314 AATTAATAAG-AAAAGATTTTAAAAATAAATCTGTTTATC
* ** * * *
3540 AAACAAGTTCAAATAGGCATAACTATTTGAATAATTATCCATTTCAAATTGTTGTGACCTTTTGT
1 GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCCATTTCAAATAGTTATGACCTTTTGT
* * * * * *
3605 TTCATAATAAAACAATTGTATC-AGTTCATATAGGCTTA-TTCAAAAAAAAAACTAATTTATTAA
66 TT-GTCATAAAACAATTGTTTCTA-TTCATACAAGCATATTTCAAAAAAAAAACTAATTTATTAA
* * * * *
3668 TATTCTGAAAATTAATGAGTAAGAGATTTAAAAATGATTCTATTTTCGATCAAGTTCAAATAGTT
129 TATTCTAAAAATTAATAAGTAAAAGATTTAAAAATAAATCTATTTTCGATCAAGTTCAAATAGTT
* *
3733 ATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTTGTCATAAAACAATT
194 ATGACTATTTGAA-AATTATTTATTTCAAATTATTATGA-CTTTTG-TTTTGTCATAAAACAATT
* * * * *
3798 GTTTTTGTTCATACAAGCTTAGTCTGAATAAAATAATATAAAGTTATTAATATTCTAGAAATTAA
256 GTTTTTGTTTATACAAGCTTATTCAGAATAAAATAATATTAATTTATTAATATT-TAGAAATTAA
* *
3863 TAAGTAAAA-ATTTAAAAAATAAATCTATTT-TC
320 TAAG-AAAAGATTTTAAAAATAAATCTGTTTATC
*
3895 TGAACACA-TTCAAATAGTTATGA-TAATTTGAATAATTATCTATTTCAAATAGTTATGACCTTT
1 -GAACA-AGTTCAAATAGTTATGACT-ATTTGAATAATTATCCATTTCAAATAGTTATGACC-TT
** *
3958 TTGTTTGTCATAATCCAATTGTTTCTATTCATACAAGCATATTTGAAATAAAATAATACTAATTT
62 TTGTTTGTCATAAAACAATTGTTTCTATTCATACAAGCATATTTCAAA-AAAA-AA-ACTAATTT
* * * *
4023 ATTAATATT-TCAAAAATAAATAAGTAAAAG-TTAAAAAATAAATCTATTTACTGAGCAAGTTCA
124 ATTAATATTCT-AAAAATTAATAAGTAAAAGATTTAAAAATAAATCTATTTTC-GATCAAGTTCA
* * * * * *
4086 AATAGTTATCACTGTTTGGAATAGTATTTATTTCAAATGGTTTATTAT-AATTTTGTTTTGTTAT
187 AATAGTTATGACTATTT-GAAAATTATTTATTTCAAA----TTATTATGACTTTTGTTTTGTCAT
* * * * * * * * *
4150 AAAATTAATTGTTTCTATTGCATATAAGTTTAGTGTCATAATAAAATAATAACTGATTTATTAAA
247 AAAA-CAATTGTTTTTGTT-TATACAAGCTTA-T-TCAGAATAAAATAAT-ATTAATTTATT-AA
* * * * * * * * **
4215 TATTTTGAAATAAATAGGTAGAGA-TTTAAAATTAATTAT-TTTGCC
306 TATTTAGAAATTAATAAGAAAAGATTTTAAAAATAAATCTGTTTATC
* * * * *
4260 GAACAAGTTCAAATAG-TATGTCCATTTGAACAATTATCTAGTTCAAATCA-TTATGACCTCCTT
1 GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCCATTTCAAAT-AGTTATGACCT--TT
*
4323 T-TTTGTCCATAAAATAATT
63 TGTTTGT-CATAAAACAATT
4342 ATTTATCATT
Statistics
Matches: 941, Mismatches: 162, Indels: 112
0.77 0.13 0.09
Matches are distributed among these distances:
352 1 0.00
353 1 0.00
354 10 0.01
355 179 0.19
356 226 0.24
357 110 0.12
358 42 0.04
359 28 0.03
360 70 0.07
361 63 0.07
362 68 0.07
363 55 0.06
364 36 0.04
365 27 0.03
366 19 0.02
367 6 0.01
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (352 bp):
GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCCATTTCAAATAGTTATGACCTTTTGT
TTGTCATAAAACAATTGTTTCTATTCATACAAGCATATTTCAAAAAAAAAACTAATTTATTAATA
TTCTAAAAATTAATAAGTAAAAGATTTAAAAATAAATCTATTTTCGATCAAGTTCAAATAGTTAT
GACTATTTGAAAATTATTTATTTCAAATTATTATGACTTTTGTTTTGTCATAAAACAATTGTTTT
TGTTTATACAAGCTTATTCAGAATAAAATAATATTAATTTATTAATATTTAGAAATTAATAAGAA
AAGATTTTAAAAATAAATCTGTTTATC
Found at i:3950 original size:17 final size:19
Alignment explanation
Indices: 3903--3952 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 19
3893 TCTGAACACA
3903 TTCAAATAGTTATGATAAT
1 TTCAAATAGTTATGATAAT
* * *
3922 TT-GAATAATTAT-CT-AT
1 TTCAAATAGTTATGATAAT
3938 TTCAAATAGTTATGA
1 TTCAAATAGTTATGA
3953 CCTTTTTGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 5
0.68 0.18 0.15
Matches are distributed among these distances:
16 4 0.17
17 9 0.39
18 8 0.35
19 2 0.09
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (19 bp):
TTCAAATAGTTATGATAAT
Found at i:5458 original size:171 final size:177
Alignment explanation
Indices: 5065--5847 Score: 548
Period size: 176 Copynumber: 4.4 Consensus size: 177
5055 TCGTAAAAGC
*
5065 TTATTCGAAATAAAATAATACTAATTTATTAAAATTTCAAAAATTAATAAGTAAAAAATTAAAAA
1 TTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTAAAAA
* * * * * *
5130 AATAAATCTATTTGCCTAGCAAGTTAAAATAGTTATGACTATTTAAACAATTATTTATTTCAAAT
66 AATAAATCTATTTGACTAACAAGTTAAAATAATCATGACTATTGAAACAATTATCTATTTCAAAT
* **
5195 CGTTATGATCTCTTTTGTCATAAAGCATATGTTTCTATTCATACAAGT
131 CGTTATGATCTATTTTGTCATAAA-CATATGTTTCTATTCATACAAAA
* ** *
5243 TTATTTGAAATAAAATAATACTAATTTATTAATA-TTCTAAAAATTAATAAGT-TGAAATTTAAA
1 TTATTCGAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAGTAAAAAATTAAAA
* * * * *
5306 AAATAAATCTATTT-ACTGAATAAGTTCAAATAATCATGTC-ATTGGAACTATTATCTATTTCAA
65 AAATAAATCTATTTGACT-AACAAGTTAAAATAATCATGACTATTGAAACAATTATCTATTTCAA
* *
5369 ATCGTTATGA-C-ATTTTGT-TTACAA-AT-TGTTTTTATTCATACAAAA
129 ATCGTTATGATCTATTTTGTCATA-AACATATGTTTCTATTCATACAAAA
* * * *
5414 TTATTCAAAATAAAATAATACTAATTTATTCATATTTCAAAAATTAATAAG----AGATTTAAAA
1 TTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTAAAAA
* ** * * * * * * *
5475 ACTAAATCTGCTT-ATCGAACCAA-TTCAAATAGTTATGACTATTTAAACAATTATTTATCTCAA
66 AATAAATCTATTTGA-CTAA-CAAGTTAAAATAATCATGACTATTGAAACAATTATCTATTTCAA
* * * * * * * * **
5538 ATCATTATGATTTTTGTTTTGTCATAAAAAAATTGTTTCTGTTTATGCAAGC
129 ATCGTTATGA--TCTATTTTGTCATAAACATA-TGTTTCTATTCATACAAAA
* * * * * ** * * ** * * *
5590 TTATTTGGAGTAAAATATTGCTAAAATAATAATATTTTAAAAATTAATAACCAAGAGATTTAAAA
1 TTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTAAAAA
* * * * * * * *
5655 AATAAATATGTTTG-CTAAACTAGTTTAAATAGTTAAGACTATTTG-AACAATTATATATTTCAA
66 AATAAATCTATTTGACT-AACAAGTTAAAATAATCATGACTA-TTGAAACAATTATCTATTTCAA
* * * * *
5718 ATCGTTATGACCTTTTGTTTAGTCATAAA-ATAATTGTTT-TAGTTCATATACAC
129 ATCGTTATGATC-TAT-TTT-GTCATAAACAT-A-TGTTTCTA-TTCATACAAAA
* * * * *
5771 TTATTTGAAATAAAATAATACTATTTTATTAACA-TTCAGAAAAATTAATAAGCAAGAAATTAAA
1 TTATTCGAAATAAAATAATACTAATTTATTAATATTTC--AAAAATTAATAAGTAAAAAATTAAA
5835 AAAA-AAA-CTATTT
64 AAAATAAATCTATTT
5848 ATCGAACATT
Statistics
Matches: 478, Mismatches: 97, Indels: 58
0.76 0.15 0.09
Matches are distributed among these distances:
168 35 0.07
169 30 0.06
171 60 0.13
172 5 0.01
173 10 0.02
174 11 0.02
175 1 0.00
176 83 0.17
177 41 0.09
178 46 0.10
179 5 0.01
180 74 0.15
181 51 0.11
182 26 0.05
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (177 bp):
TTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTAAAAA
AATAAATCTATTTGACTAACAAGTTAAAATAATCATGACTATTGAAACAATTATCTATTTCAAAT
CGTTATGATCTATTTTGTCATAAACATATGTTTCTATTCATACAAAA
Found at i:5721 original size:349 final size:346
Alignment explanation
Indices: 5065--5847 Score: 801
Period size: 349 Copynumber: 2.2 Consensus size: 346
5055 TCGTAAAAGC
*
5065 TTATTCGAAATAAAATAATACTAATTTATTAAAATTTCAAAAATTAATAAGTAAAAAATTAAAAA
1 TTATTCAAAATAAAATAATACTAATTTATTAAAATTTCAAAAATTAATAAG---AAAATTAAAAA
* * *
5130 AATAAATCTATTTGCCTAGCAAGTTAAAATAGTTATGACTATTTAAACAATTATTTATTTCAAAT
63 AATAAATCTATTTGCCAACCAAGTTAAAATAGTTATGACTATTTAAACAATTATTTATCTCAAAT
* ** *
5195 CGTTATGATCTCTTTTGTCATAAAGCATATGTTTCTATTCATACAAGTTTATTTGAAATAAAATA
128 CATTATGATCTCTTTTGTCATAAAAAATATGTTTCTATTCATACAAGCTTATTTGAAATAAAATA
** * *** * *
5260 ATACTAATTTATTAATATTCTAAAAATTAATAAGTTGAAATTTAAAAAATAAATCTATTTACTGA
193 ATACTAAAATAATAATATTCTAAAAATTAATAACAAGAAATTTAAAAAATAAATATATTTACTAA
* * * *
5325 ATAAGTTCAAATAATCATGTCATTGGAACTATTATCTATTTCAAATCGTTATGACATTTTGTTTA
258 ATAAGTTCAAATAATCAAGACATTGGAACAATTATATATTTCAAATCGTTATGACATTTTGTTTA
5390 CAAATTGTTTTTATTCATACAAAA
323 CAAATTGTTTTTATTCATACAAAA
* * * * *
5414 TTATTCAAAATAAAATAATACTAATTTATTCATATTTCAAAAATTAATAAG-AGATTTAAAAACT
1 TTATTCAAAATAAAATAATACTAATTTATTAAAATTTCAAAAATTAATAAGAAAATTAAAAAAAT
* * *
5478 AAATCTGCTTAT-CGAACCAA-TTCAAATAGTTATGACTATTTAAACAATTATTTATCTCAAATC
66 AAATCT-ATT-TGCCAACCAAGTTAAAATAGTTATGACTATTTAAACAATTATTTATCTCAAATC
* * * * * * *
5541 ATTATGATTTTTGTTTTGTCATAAAAAA-ATTGTTTCTGTTTATGCAAGCTTATTTGGAGTAAAA
129 ATTATGA--TCTCTTTTGTCATAAAAAATA-TGTTTCTATTCATACAAGCTTATTTGAAATAAAA
* * * * * *
5605 TATTGCTAAAATAATAATATTTTAAAAATTAATAACCAAGAGATTTAAAAAATAAATATGTTTGC
191 TAATACTAAAATAATAATATTCTAAAAATTAATAA-CAAGAAATTTAAAAAATAAATATATTTAC
* * * * *
5670 TAAACT-AGTTTAAATAGTTAAGACTATTTGAACAATTATATATTTCAAATCGTTATGACCTTTT
255 TAAA-TAAGTTCAAATAATCAAGAC-ATTGGAACAATTATATATTTCAAATCGTTATGACATTTT
* * *
5734 GTTTAGTCATAAAATAAT-TGTTTTAGTTCATATACAC
318 GTTTA--C---AAAT--TGT-TTTTA-TTCATACAAAA
** * *
5771 TTATTTGAAATAAAATAATACTATTTTATTAACA-TTCAGAAAAATTAATAAGCAAGAAATTAAA
1 TTATTCAAAATAAAATAATACTAATTTATTAAAATTTC--AAAAATTAATAAG--A-AAATTAAA
5835 AAAA-AAA-CTATTT
61 AAAATAAATCTATTT
5848 ATCGAACATT
Statistics
Matches: 353, Mismatches: 58, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
345 63 0.18
346 8 0.02
347 73 0.21
348 38 0.11
349 89 0.25
351 1 0.00
354 4 0.01
355 1 0.00
356 9 0.03
357 37 0.10
358 14 0.04
359 2 0.01
360 2 0.01
361 3 0.01
362 9 0.03
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (346 bp):
TTATTCAAAATAAAATAATACTAATTTATTAAAATTTCAAAAATTAATAAGAAAATTAAAAAAAT
AAATCTATTTGCCAACCAAGTTAAAATAGTTATGACTATTTAAACAATTATTTATCTCAAATCAT
TATGATCTCTTTTGTCATAAAAAATATGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATA
CTAAAATAATAATATTCTAAAAATTAATAACAAGAAATTTAAAAAATAAATATATTTACTAAATA
AGTTCAAATAATCAAGACATTGGAACAATTATATATTTCAAATCGTTATGACATTTTGTTTACAA
ATTGTTTTTATTCATACAAAA
Found at i:8121 original size:316 final size:319
Alignment explanation
Indices: 7509--8139 Score: 703
Period size: 316 Copynumber: 2.0 Consensus size: 319
7499 CTAACACATT
*
7509 TGAACAATTATCTATTTCAAACCATTATGAACTTTTGTTTTGTCATAAAACAATTGTTCTTCATC
1 TGAACAATTATCTATTTCAAACCATTATGAACTTTTGTTTTGTCATAAAACAAATGTTCTTCATC
*
7574 ATTCAAGCCAATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTTATATGTATGAG
66 ATTCAAGCCAATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTTATA-GTAAGAG
* * *
7639 ATTTAAAAAATAAATATGCTTACTGAACTAGTTCAAATAATTATGACTTTAAACAATTATATATT
130 ATTTAAAAAATAAATAT-CATAC-AAACTAGTTCAAATAATTATAACTTTAAACAATTATATATT
* * * * *
7704 TCAAATAGTTATAATCTTTTGTTTTGTCATAAAATAATTATTTATGTTCATACAAGCTTATTCGA
193 TCAAATAGTTATAACCATTTGTTTTGTCATAAAACAAATATTTATGTTCATACAAGCCTATTCGA
* *
7769 AATAAAGTAATCTAATCTAATAATATTATGAAAATTAATAACTAA-GAGATTTAAAGGCTATG
258 AATAAAGTAATCTAATCTAATAATATTATAAAAATTAATAAATAATG-GATTTAAAGGCTATG
* * * *
7831 TGAACAATTCTCTATTTCAAATC-TTATGACCTTTTGTTTTGTCATAAAACAAATGTT-TTTATT
1 TGAACAATTATCTATTTCAAACCATTATGAACTTTTGTTTTGTCATAAAACAAATGTTCTTCA-T
* **** * * ** *
7894 CGTAT-AAGTTTGTTTATAATAAAATAATA-TGAATTTATTAATATTTTGATAA-TTA-A-TAAG
65 CAT-TCAAGCCAATTCAAAATAAAATAATACT-AATTTATTAATATTTCAAAAATTTATAGTAAG
* * * *
7954 AGATTTAAAAAATAAATTAT-ATA-AAACTAGTTCAATTAGTTATAACAATTTGAACAATTATTT
128 AGATTTAAAAAATAAA-TATCATACAAACTAGTTCAAATAATTATAAC--TTTAAACAATTATAT
* * * * *
8017 ATTTCAAACT-GTTATGACCATTTGTTTTGTCATAAAACAAAT-TTTCTGTTGATATAATCCTAC
190 ATTTCAAA-TAGTTATAACCATTTGTTTTGTCATAAAACAAATATTTATGTTCATACAAGCCTA-
* * * *
8080 TT-GGAATAAAGTAATGCTAATTTATTAATATTCTAAAAATTAATAAATAATGGATTTAAA
253 TTCGAAATAAAGTAAT-CTAATCTAATAATATTATAAAAATTAATAAATAATGGATTTAAA
8140 AAATGAATCT
Statistics
Matches: 260, Mismatches: 39, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
314 19 0.07
315 27 0.10
316 89 0.34
317 21 0.08
318 3 0.01
319 1 0.00
320 7 0.03
321 71 0.27
322 22 0.08
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (319 bp):
TGAACAATTATCTATTTCAAACCATTATGAACTTTTGTTTTGTCATAAAACAAATGTTCTTCATC
ATTCAAGCCAATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTTATAGTAAGAGA
TTTAAAAAATAAATATCATACAAACTAGTTCAAATAATTATAACTTTAAACAATTATATATTTCA
AATAGTTATAACCATTTGTTTTGTCATAAAACAAATATTTATGTTCATACAAGCCTATTCGAAAT
AAAGTAATCTAATCTAATAATATTATAAAAATTAATAAATAATGGATTTAAAGGCTATG
Found at i:8350 original size:178 final size:174
Alignment explanation
Indices: 7826--8581 Score: 488
Period size: 178 Copynumber: 4.3 Consensus size: 174
7816 GATTTAAAGG
* *
7826 CTATGTGAACAATTCTCTATTTCAAATC-TTATGACCTTTTGTTTTGTCATAAAACAAATGTTTT
1 CTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTG--TTGTCATAAAACAAATGTTTT
* * * ** * * ** *
7890 TATTCGTATAAGTTTGTTTA-TAATAAAATAATATGAATTTATTAATATTTTGATAA-T--TAAT
64 TGTTCATATAA-TCTAATTAGGAAT-AAATAATATTAATTTATTAATATTTCAAAAATTAATAAT
* * *
7951 AAGAGATTTAAAAAATAA-ATTATATAAAACTAGTTCAATTAGTTATAA
127 AAGAGATTTAAAAAATAATATTTTAT-AAACAAGTTCAAATAGTTATAA
* * *
7999 CAATTTGAACAATTATTTATTTCAAA-CTGTTATGACCATTTGTTTTGTCATAAAACAAAT-TTT
1 CTATTTGAACAATTATCTATTTCAAATC-GTTATGACC-TTT-TGTTGTCATAAAACAAATGTTT
* * * **
8062 CTGTTGATATAATCCTACTT-GGAATAAAGTAATGCTAATTTATTAATA-TTCTAAAAATTAATA
63 TTGTTCATATAAT-CTAATTAGGAATAAA-TAATATTAATTTATTAATATTTC-AAAAATTAAT-
** * * *
8125 AATAATG-GATTTAAAAAATGAATCTATTGGCATGACCAA-TACAAATAGTTATAA
124 AATAA-GAGATTTAAAAAAT-AA--TATT-TTATAAACAAGTTCAAATAGTTATAA
* * * *
8179 TTGTTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTT-TCATCAAAACAATTGTTTTT
1 CTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTGTCAT-AAAACAAATGTTTTT
* *
8243 GTTCATACAA-CTAATTAGGAATAACATAATTTTAATTTATTAATATTTCAAAAATTAATAAGTA
65 GTTCATATAATCTAATTAGGAATAA-ATAATATTAATTTATTAATATTTCAAAAATTAATAA-TA
* *
8307 AGAGATTTAAAAACTAAATATGTTTATCAAACAAGTTCAAATAGTTATGA
128 AGAGATTTAAAAAAT-AATAT-TTTAT-AAACAAGTTCAAATAGTTATAA
* * * * * * * *
8357 CTATTTGAACAGTTACCTATTTCAAATCGCTATAACCTTTTGTTTTGTTATAAAA-TATTTTTTT
1 CTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTG--TTGTCATAAAACAAATGTTTT
* * ** ** ** * * *
8421 TGTATTCATAAAAGCTTGTT-TCAATTAAAATAATACAAATTTATTAATA-TTCTGACAACTAAT
64 TG--TTCATATAATCTAATTAGGAA-T-AAATAATATTAATTTATTAATATTTC-AAAAATTAAT
* * * * *
8484 AAGTAA-ATGATTTAAAAAATGAATTTGTTTACCAAATAAGTTTAAATAGTTATGA
124 AA-TAAGA-GATTTAAAAAAT-AATAT-TTTA-TAAACAAGTTCAAATAGTTATAA
* * * *
8539 CTATTTGAATAGTTATATAATTCAAATCGTTATGA-CTTTTGTT
1 CTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTT
8582 TTGTCAAACA
Statistics
Matches: 463, Mismatches: 80, Indels: 74
0.75 0.13 0.12
Matches are distributed among these distances:
172 7 0.02
173 58 0.13
174 25 0.05
175 3 0.01
176 7 0.02
177 34 0.07
178 112 0.24
179 30 0.06
180 49 0.11
181 30 0.06
182 106 0.23
183 2 0.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (174 bp):
CTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTGTCATAAAACAAATGTTTTTG
TTCATATAATCTAATTAGGAATAAATAATATTAATTTATTAATATTTCAAAAATTAATAATAAGA
GATTTAAAAAATAATATTTTATAAACAAGTTCAAATAGTTATAA
Found at i:8879 original size:143 final size:143
Alignment explanation
Indices: 8720--9010 Score: 401
Period size: 143 Copynumber: 2.0 Consensus size: 143
8710 AAACAATTGG
* *
8720 TTTATGACAAAACAAAATGTCATAGCT-ATTTGAAATAGATAATTGTTCAAATAGTTATAACTAT
1 TTTATGACAAAACAAAAGGTCATA-ATGATTTGAAATAGATAATTGTTCAAATAGTTATAACTAT
* * * * *
8784 TTGAA-TGTGTTCAGAAAATAGATTTATTTTTTAAATTTC-TACTTAGTAATTTTTGAAATATTA
65 TTGAACT-TGTACAGAAAATAGATTCATTTTTTAAATGTCGTACTCAGTAATTTTAGAAATATTA
8847 ATAAATTTA-TATTAT
129 ATAAA-TTAGTATTAT
* *
8862 TTTATGACAAAAACAAAAGGTCTTAATGATTTGAAATAGATAATTGTTCAATTAGTTATAACTAT
1 TTTATGAC-AAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTTATAACTAT
* * * *
8927 TTGAACTTGTACGGTAAATAGATTCATTTTTTAAATGTCGTACTCATTAATTTTAGGAATATTAA
65 TTGAACTTGTACAGAAAATAGATTCATTTTTTAAATGTCGTACTCAGTAATTTTAGAAATATTAA
8992 TAAATTAGTATTAT
130 TAAATTAGTATTAT
9006 TTTAT
1 TTTAT
9011 TTTGAATAAG
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
142 9 0.07
143 85 0.65
144 37 0.28
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (143 bp):
TTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTTATAACTATT
TGAACTTGTACAGAAAATAGATTCATTTTTTAAATGTCGTACTCAGTAATTTTAGAAATATTAAT
AAATTAGTATTAT
Found at i:21712 original size:17 final size:17
Alignment explanation
Indices: 21690--21726 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21680 ATGATATGGT
21690 TATATAATATAAAATAA
1 TATATAATATAAAATAA
* *
21707 TATATAATTTTAAATAA
1 TATATAATATAAAATAA
21724 TAT
1 TAT
21727 TATAGTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATAATATAAAATAA
Found at i:21868 original size:22 final size:22
Alignment explanation
Indices: 21829--21881 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
21819 TAATCATTAT
21829 AATTAATTA-ATCATTTAAATAGA
1 AATT-ATTATATCATTTAAATA-A
*
21852 AATTATTATATCA-TTAAATAT
1 AATTATTATATCATTTAAATAA
21873 AATTATTAT
1 AATTATTAT
21882 GTTATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 8 0.29
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (22 bp):
AATTATTATATCATTTAAATAA
Found at i:21931 original size:23 final size:22
Alignment explanation
Indices: 21909--21948 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21899 GAAAAATTTA
21909 TTATT-CATAAT-TTAAATATT
1 TTATTACATAATATTAAATATT
21929 TTATTACATAATATTAAATA
1 TTATTACATAATATTAAATA
21949 ATATTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATTACATAATATTAAATATT
Found at i:22024 original size:12 final size:12
Alignment explanation
Indices: 21983--22049 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
21973 AATTTTTAAC
21983 TATAATTTAATTA
1 TATAA-TTAATTA
*
21996 TATAATTAAATA
1 TATAATTAATTA
* *
22008 AATAATTATTTA
1 TATAATTAATTA
22020 TATAA-T-ATTA
1 TATAATTAATTA
22030 T-T-ATTAAGTTA
1 TATAATTAA-TTA
22041 TATATATTA
1 TATA-ATTA
22050 TTTTTAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
8 1 0.02
9 2 0.05
10 5 0.12
11 5 0.12
12 20 0.48
13 5 0.12
14 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
TATAATTAATTA
Found at i:22056 original size:20 final size:21
Alignment explanation
Indices: 22017--22056 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22007 AAATAATTAT
22017 TTATATAATATTATTATTAAG
1 TTATATAATATTATTATTAAG
*
22038 TTATAT-ATATTATTTTTAA
1 TTATATAATATTATTATTAA
22057 TATATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTATATAATATTATTATTAAG
Found at i:22060 original size:37 final size:37
Alignment explanation
Indices: 21972--22066 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 37
21962 TTATAAGCGT
21972 TAATTTTTAACTATAAT-TTAATTATATAATTAAATAAA
1 TAATTTTTAA-TATAATATT-ATTATATAATTAAATAAA
* *
22010 TAATTATTT-ATATAATATTATTAT-TAAGTTATATATA
1 TAATT-TTTAATATAATATTATTATATAA-TTAAATAAA
*
22047 TTATTTTTAATAT-ATATTAT
1 TAATTTTTAATATAATATTAT
22067 AAGATTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
36 13 0.26
37 26 0.52
38 8 0.16
39 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
TAATTTTTAATATAATATTATTATATAATTAAATAAA
Found at i:22062 original size:20 final size:21
Alignment explanation
Indices: 22018--22063 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
22008 AATAATTATT
22018 TATATA-ATATTATTATTAAG
1 TATATATATATTATTATTAAG
*
22038 T-TATATATATTATTTTTAA-
1 TATATATATATTATTATTAAG
22057 TATATAT
1 TATATAT
22064 TATAAGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATATTATTATTAAG
Found at i:24195 original size:21 final size:21
Alignment explanation
Indices: 24171--24210 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24161 ATTTTGCCTA
24171 GACCTAATCGATCCCTTGCAT
1 GACCTAATCGATCCCTTGCAT
*
24192 GACCTAATTGATCCCTTGC
1 GACCTAATCGATCCCTTGC
24211 TTGAGGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.30
Consensus pattern (21 bp):
GACCTAATCGATCCCTTGCAT
Found at i:25163 original size:21 final size:20
Alignment explanation
Indices: 25139--25180 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
25129 GATTATTATA
25139 AATATATTAAATATTATAATT
1 AATATATTAAA-ATTATAATT
25160 -A-ATATTAAAA-TATAATT
1 AATATATTAAAATTATAATT
25177 AATA
1 AATA
25181 ACTTTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 9 0.47
20 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATATATTAAAATTATAATT
Found at i:25175 original size:17 final size:19
Alignment explanation
Indices: 25132--25180 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 19
25122 AATAACTGAT
*
25132 TATTATAAAT-ATATTAAA
1 TATTATAATTAATATTAAA
25150 TATTATAATTAATATTAAA
1 TATTATAATTAATATTAAA
25169 -A-TATAATTAATA
1 TATTATAATTAATA
25181 ACTTTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.38
18 10 0.34
19 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTATAATTAATATTAAA
Found at i:25886 original size:15 final size:16
Alignment explanation
Indices: 25866--25905 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
25856 ATTATTGTTT
25866 ATTAATTAAATATT-A
1 ATTAATTAAATATTAA
25881 ATTAATT-AATATTAA
1 ATTAATTAAATATTAA
25896 ATTGAATTAA
1 ATT-AATTAA
25906 CAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 4 0.18
17 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTAATTAAATATTAA
Found at i:26025 original size:13 final size:13
Alignment explanation
Indices: 25969--26044 Score: 50
Period size: 13 Copynumber: 5.9 Consensus size: 13
25959 TTCATAATAA
*
25969 TAATTAATATAGTT
1 TAATTAA-ATAATT
*
25983 T-ATTAATATTATT
1 TAATTAA-ATAATT
* *
25996 TGATAAAATAA--
1 TAATTAAATAATT
26007 TAATTAAATAATT
1 TAATTAAATAATT
*
26020 TAATTAAATGATT
1 TAATTAAATAATT
* *
26033 AAATTAACTAAT
1 TAATTAAATAAT
26045 ATTCAAATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
11 9 0.18
13 35 0.71
14 5 0.10
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (13 bp):
TAATTAAATAATT
Found at i:26230 original size:17 final size:18
Alignment explanation
Indices: 26192--26237 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
26182 ATTTTTAATT
*
26192 ATTATTTAAATTACTAAC
1 ATTATTAAAATTACTAAC
**
26210 ATTA-TAAAATTACTAGT
1 ATTATTAAAATTACTAAC
26227 ATTATTAAAAT
1 ATTATTAAAAT
26238 ATTAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTATTAAAATTACTAAC
Found at i:26646 original size:14 final size:13
Alignment explanation
Indices: 26614--26678 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 13
26604 TGAGTAATTT
26614 ATAATAATTAGTTA
1 ATAATAATTA-TTA
*
26628 CTAATAATTATTAA
1 ATAATAATTATT-A
*
26642 ATAATAA-TAATA
1 ATAATAATTATTA
26654 ATAAT-ATTATT-
1 ATAATAATTATTA
* *
26665 ATTATTATTATTA
1 ATAATAATTATTA
26678 A
1 A
26679 GATAAATTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 5 0.12
12 15 0.36
13 6 0.14
14 16 0.38
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
ATAATAATTATTA
Found at i:27364 original size:24 final size:24
Alignment explanation
Indices: 27337--27386 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
27327 GATTAAAATT
27337 TTAAATCTTA-TTAA-AAATTATTAG
1 TTAAAT-TTATTTAATAAATTATT-G
27361 TT-AATTTATTTAATAAATTATTG
1 TTAAATTTATTTAATAAATTATTG
27384 TTA
1 TTA
27387 TAGATTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.13
23 10 0.43
24 10 0.43
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAAATTTATTTAATAAATTATTG
Found at i:27478 original size:22 final size:22
Alignment explanation
Indices: 27453--27530 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
27443 CAATTATTAT
27453 TTATAATTATAAATAATAAATA
1 TTATAATTATAAATAATAAATA
*
27475 TTATAATAATAAATAATATAATA
1 TTATAATTATAAATAATA-AATA
*
27498 TTAATTAATTA-ATATTAAT-AATA
1 TT-A-TAATTATA-AATAATAAATA
*
27521 GTATAATTAT
1 TTATAATTAT
27531 TATAGTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 6 0.13
22 18 0.38
23 11 0.23
24 2 0.04
25 10 0.21
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (22 bp):
TTATAATTATAAATAATAAATA
Found at i:27484 original size:15 final size:15
Alignment explanation
Indices: 27458--27497 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
27448 ATTATTTATA
27458 ATTATAAATAATAAAT
1 ATTAT-AATAATAAAT
27474 ATTATAATAATAAAT
1 ATTATAATAATAAAT
*
27489 AATATAATA
1 ATTATAATA
27498 TTAATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTATAATAATAAAT
Found at i:27512 original size:14 final size:15
Alignment explanation
Indices: 27476--27520 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
27466 TAATAAATAT
* *
27476 TATAATAATAAATAA
1 TATAATATTAATTAA
27491 TATAATATTAATTAA
1 TATAATATTAATTAA
27506 T-TAATATTAA-TAA
1 TATAATATTAATTAA
27519 TA
1 TA
27521 GTATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 4 0.15
14 9 0.33
15 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAATATTAATTAA
Found at i:27676 original size:12 final size:12
Alignment explanation
Indices: 27659--27693 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
27649 TATATGTTAT
27659 TAATTATATTAA
1 TAATTATATTAA
27671 TAATTAT-TTAA
1 TAATTATATTAA
27682 TAAATTATATTA
1 T-AATTATATTA
27694 TATGAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 13 0.62
13 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATTATATTAA
Found at i:27799 original size:73 final size:68
Alignment explanation
Indices: 27659--27799 Score: 149
Period size: 73 Copynumber: 2.0 Consensus size: 68
27649 TATATGTTAT
* * * *
27659 TAATTATATTAATAATTATTTAATAAATTATATTATATGAATAACAATATTTTATTCATAATTAA
1 TAATTATATTAATAATTATTTAATAAATAATATTATATCAATAACAATATTTGATTCATAATAAA
27724 ATA
66 ATA
* * *
27727 TAATATATATTTATTAACTTATTTAATTAAATAATATTTATATCTATAA-AGATATTTGATTTAT
1 TAAT-TATA-TTAATAA-TTATTTAA-TAAATAATA-TTATATCAATAACA-ATATTTGATTCAT
*
27791 TATAAAATA
60 AATAAAATA
27800 GTAAATAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
68 4 0.07
69 4 0.07
70 6 0.10
71 8 0.14
72 9 0.15
73 28 0.47
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (68 bp):
TAATTATATTAATAATTATTTAATAAATAATATTATATCAATAACAATATTTGATTCATAATAAA
ATA
Found at i:28237 original size:18 final size:18
Alignment explanation
Indices: 28215--28251 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
28205 ATTATAGTAT
28215 TATATAATATCATTAAGTTA
1 TATATAATA--ATTAAGTTA
28235 TATATAATAATTAAGTT
1 TATATAATAATTAAGTT
28252 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATAATAATTAAGTTA
Found at i:28601 original size:19 final size:19
Alignment explanation
Indices: 28555--28592 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
28545 GTTTTAACGG
28555 ATAATTAGT-ATTATAATTT
1 ATAATTA-TAATTATAATTT
28574 ATAATTATAATTATAATTT
1 ATAATTATAATTATAATTT
28593 TGATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATAATTATAATTATAATTT
Found at i:28751 original size:26 final size:26
Alignment explanation
Indices: 28722--28782 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
28712 AGTATCTTAC
28722 AATAATTATTATGAATTAA-ATTAATA
1 AATAATTATTATGAA-TAAGATTAATA
* * *
28748 AATAAATAATATTAATAAGATTAATA
1 AATAATTATTATGAATAAGATTAATA
28774 AATAATTAT
1 AATAATTAT
28783 ATTTATTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (26 bp):
AATAATTATTATGAATAAGATTAATA
Found at i:28770 original size:9 final size:8
Alignment explanation
Indices: 28738--28776 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
28728 TATTATGAAT
28738 TAAATTAA
1 TAAATTAA
*
28746 TAAATAAA
1 TAAATTAA
28754 TAATATTAA
1 TAA-ATTAA
28763 TAAGATTAA
1 TAA-ATTAA
28772 TAAAT
1 TAAAT
28777 AATTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (8 bp):
TAAATTAA
Found at i:29505 original size:23 final size:23
Alignment explanation
Indices: 29479--29523 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
29469 ATTTTAAAAT
29479 AAATAATTACTAAATT-AATAAAC
1 AAATAATTA-TAAATTAAATAAAC
* *
29502 AAATATTTATTAATTAAATAAA
1 AAATAATTATAAATTAAATAAA
29524 AATTAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATAATTATAAATTAAATAAAC
Found at i:29799 original size:14 final size:14
Alignment explanation
Indices: 29772--29820 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
29762 AATAAATTAT
29772 TTATA-TATAAATAA
1 TTATATTAT-AATAA
*
29786 TTATATTATTATAA
1 TTATATTATAATAA
29800 -TATATTTATAATAA
1 TTATA-TTATAATAA
29814 TTA-ATTA
1 TTATATTA
29821 AAAATATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 7 0.23
14 18 0.60
15 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATATTATAATAA
Found at i:29808 original size:19 final size:19
Alignment explanation
Indices: 29755--29809 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
29745 AACAATATAA
29755 ATTATTA-AATA-AATTAT
1 ATTATTATAATATAATTAT
29772 -TTATATATAA-ATAATTAT
1 ATTAT-TATAATATAATTAT
*
29790 ATTATTATAATATATTTAT
1 ATTATTATAATATAATTAT
29809 A
1 A
29810 ATAATTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 13 0.41
19 12 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTATTATAATATAATTAT
Found at i:30259 original size:15 final size:16
Alignment explanation
Indices: 30235--30267 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30225 ACAATTGATA
30235 TAAATAATTAA-ATAC
1 TAAATAATTAATATAC
*
30250 TAAATTATTAATATAC
1 TAAATAATTAATATAC
30266 TA
1 TA
30268 TTTGAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATAATTAATATAC
Found at i:30337 original size:16 final size:18
Alignment explanation
Indices: 30306--30340 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
30296 TTAATTTGTA
30306 TACAATTATAAATATTAT
1 TACAATTATAAATATTAT
30324 TACAA-TAT-AATATTAT
1 TACAATTATAAATATTAT
30340 T
1 T
30341 GTAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TACAATTATAAATATTAT
Found at i:30559 original size:24 final size:25
Alignment explanation
Indices: 30519--30569 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
30509 TAACAATTAA
*
30519 TAATTTAACTTATTATAAATTATAT
1 TAATATAACTTATTATAAATTATAT
* *
30544 TAATATAA-TTATTATATATTTTAT
1 TAATATAACTTATTATAAATTATAT
30568 TA
1 TA
30570 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATAACTTATTATAAATTATAT
Found at i:32330 original size:22 final size:22
Alignment explanation
Indices: 32282--32331 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
32272 TAAATTCATT
* *
32282 ATATTACTAATTAATTTAACAA
1 ATATTACTAATAAAATTAACAA
32304 ATATTA-TAATAAAATTAATCAA
1 ATATTACTAATAAAATTAA-CAA
*
32326 TTATTA
1 ATATTA
32332 ATTAACTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTACTAATAAAATTAACAA
Found at i:32526 original size:21 final size:20
Alignment explanation
Indices: 32491--32529 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
32481 TTTAATGATA
32491 TAATTAAATATATATTATAT
1 TAATTAAATATATATTATAT
*
32511 TAATTAAGTAATATATTAT
1 TAATTAAAT-ATATATTAT
32530 TACTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TAATTAAATATATATTATAT
Found at i:32643 original size:20 final size:20
Alignment explanation
Indices: 32606--32644 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32596 ATAAATTTTA
*
32606 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
32626 TAATTTATATATAT-TAATT
1 TAATTTAT-TATATGTAATT
32645 AATAAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:33541 original size:12 final size:12
Alignment explanation
Indices: 33526--33550 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33516 ATATATTTTT
33526 TAATTATTATAA
1 TAATTATTATAA
33538 TAATTATTATAA
1 TAATTATTATAA
33550 T
1 T
33551 TTATTGTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATTATTATAA
Found at i:33916 original size:17 final size:16
Alignment explanation
Indices: 33875--33922 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
33865 ATAAATATAT
*
33875 TTATTAATATTTATTAA
1 TTATTAA-ATTAATTAA
33892 TT-TTAAATTAATTAA
1 TTATTAAATTAATTAA
33907 TTAATTAAATTAATTA
1 TT-ATTAAATTAATTA
33923 TATACAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 10 0.36
16 4 0.14
17 14 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATTAAATTAATTAA
Found at i:33931 original size:19 final size:19
Alignment explanation
Indices: 33894--33948 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
33884 TTTATTAATT
*
33894 TTAAATTAATTA-AT-TAA
1 TTAAATTAATTATATACAA
33911 TTAAATTAATTATATACAA
1 TTAAATTAATTATATACAA
*
33930 TTCAAA-TATTTATATACAA
1 TT-AAATTAATTATATACAA
33949 AATATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 12 0.36
18 2 0.06
19 16 0.48
20 3 0.09
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAATTAATTATATACAA
Found at i:34258 original size:16 final size:16
Alignment explanation
Indices: 34239--34274 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
34229 GATATTACAA
*
34239 TAATTATAATAATATT
1 TAATAATAATAATATT
34255 TAATAATAATAATATT
1 TAATAATAATAATATT
34271 TAAT
1 TAAT
34275 CTTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATAATAATATT
Found at i:35251 original size:183 final size:177
Alignment explanation
Indices: 34945--35341 Score: 460
Period size: 183 Copynumber: 2.2 Consensus size: 177
34935 TTGTTATGTC
* * *
34945 ATAATTTATTAATATTTCAACAATTAATAAGTAAAAGATTTAAAAAAATAAGTTTACCAAACAAG
1 ATAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTAAAAAAAATAAGTTTACCAAACAAG
* **
35010 TTCAAATAGTCATAACTATTTGAATAATTATCCACTTCAAATCATTGTAACATTTTGTTTTGTAA
66 TTCAAATAGTCATAACTATTTGAATAATTATCCACTTCAAAACATTACAACATTTTGTTTTGTAA
* * * *
35075 TAAAACAATT-GTTTCAATTCATGT-TATCTTATTTGAAATAAAATAAT
131 TAAAACAATTAG-TTCAATTCAT-TCAAGCCTATTTCAAATAAAATAAT
* * ***
35122 ACTAATTTATTAATATTCCAAAAATTAAAAAGTAAGAGAATTAAAAAAAATAAATTTGTTTATTG
1 A-TAATTTATTAATATTCCAAAAATTAATAAGTAAAAG-ATTAAAAAAAAT-AA---GTTTACCA
* * * *
35187 AACAAGTTCAAATAGTTATGAA-TATCTT-AATAATTATCTATTTCAAAACATTACAACCTTTTG
60 AACAAGTTCAAATAGTCAT-AACTAT-TTGAATAATTATCCACTTCAAAACATTACAACATTTTG
* *
35250 TTTTGTCATAAAACAATTAGTTCTATTCATTCAAGCCTATTTCAAATAAAATAAT
123 TTTTGTAATAAAACAATTAGTTCAATTCATTCAAGCCTATTTCAAATAAAATAAT
* *
35305 ATAAATTTATAAATGTTCCAAAAATTAATAAGTAAAA
1 AT-AATTTATTAATATTCCAAAAATTAATAAGTAAAA
35342 ATTTTTAAAA
Statistics
Matches: 184, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
177 1 0.01
178 32 0.17
179 11 0.06
180 2 0.01
182 2 0.01
183 131 0.71
184 5 0.03
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (177 bp):
ATAATTTATTAATATTCCAAAAATTAATAAGTAAAAGATTAAAAAAAATAAGTTTACCAAACAAG
TTCAAATAGTCATAACTATTTGAATAATTATCCACTTCAAAACATTACAACATTTTGTTTTGTAA
TAAAACAATTAGTTCAATTCATTCAAGCCTATTTCAAATAAAATAAT
Found at i:35966 original size:179 final size:178
Alignment explanation
Indices: 35398--35973 Score: 461
Period size: 179 Copynumber: 3.2 Consensus size: 178
35388 AATTATTCAG
* * * *
35398 AATAAAATAATACT-ATTTATTACTATTTTGAAAATTAATAAG--AG-ATTTAAAAACTAAATCT
1 AATAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGTAAGAAATTAAAAA--AAATCT
* * * * * ** * ** *
35459 CTTTACCGAACCAATTCAAATAGTTATGATTATTTGAACAATTATCTATCTCCAATTGTTATGA-
64 ATTTACTGAATCAATTCAAATAGTTAAGACTATTAAAACAATTATCTATTTAAAATCGTTATGAC
* ** ** * * ** * * * *
35523 TTTTTGTTTTTTCCTAAAACATTTAATTTCTATTCA-ACAAGCTTAT-TCA
129 CTTTAATTTAGTCATAAAACAATT-GCTTCAACTCATAAAAGCTTATATGA
* * * * * * * * * *
35572 GAGTAAAATATTACTAAATTAATAATATTCTAAATATTAATAAGTAAGGATTTAAAAAAAATGTG
1 -AATAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGTAAGAAATTAAAAAAAATCTA
* * *
35637 TTTGCTGAATCAATTCAAATAGTTAAGACTATTAAAACAATTATCTATTTCAAATCGTTTTGACC
65 TTTACTGAATCAATTCAAATAGTTAAGACTATTAAAACAATTATCTATTTAAAATCGTTATGACC
** * * * *
35702 TTTTGTTTAGTCATAAAATAATTGCTTCAACTCATACATGCTTATTTGA
130 TTTAATTTAGTCATAAAACAATTGCTTCAACTCATAAAAGCTTATATGA
* *
35751 AATAAAATAATACTAATTTATTAACATTCA-AAAAATTATTAAGTAAGAAATTATAAAAAAATCT
1 AATAAAATAATACTAATTTATTAATATT-ATAAAAATTAATAAGTAAGAAATTA-AAAAAAATCT
* ** *
35815 ATTTACTGAA-CAAGTTCAAATATTTTTGACTATTTAAACAATTATCTATTTAAAATCGTTATGA
64 ATTTACTGAATCAA-TTCAAATAGTTAAGACTATTAAAACAATTATCTATTTAAAATCGTTATGA
* * **
35879 CCTTATAATTTA-TCATAAAACAATTGTTTTAGTTCATAAAAGCTTATATGA
128 CCTT-TAATTTAGTCATAAAACAATTGCTTCAACTCATAAAAGCTTATATGA
* * * *
35930 AATAAAATAATATTACTTTATTATTATTATAAAAATTGATAAGT
1 AATAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGT
35974 TTTTATTAAT
Statistics
Matches: 321, Mismatches: 68, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
175 12 0.04
176 22 0.07
177 64 0.20
178 75 0.23
179 143 0.45
180 5 0.02
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (178 bp):
AATAAAATAATACTAATTTATTAATATTATAAAAATTAATAAGTAAGAAATTAAAAAAAATCTAT
TTACTGAATCAATTCAAATAGTTAAGACTATTAAAACAATTATCTATTTAAAATCGTTATGACCT
TTAATTTAGTCATAAAACAATTGCTTCAACTCATAAAAGCTTATATGA
Found at i:36234 original size:22 final size:21
Alignment explanation
Indices: 36203--36251 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
36193 ACAAAACTAT
36203 TTAATATATAATAATTATAATA
1 TTAATATATAATAATTA-AATA
* * *
36225 TTAATTTATAATTATTAACTA
1 TTAATATATAATAATTAAATA
36246 TTAATA
1 TTAATA
36252 ATGATAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATATATAATAATTAAATA
Found at i:36899 original size:29 final size:29
Alignment explanation
Indices: 36829--36901 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
36819 TTATTCCTAA
*
36829 TATTATTATAAATAATAATATCAATATTAT
1 TATTATTAT-TATAATAATATCAATATTAT
*
36859 TA-TAATATTTATAATAATAAT-AATATTAT
1 TATTATTA-TTATAATAAT-ATCAATATTAT
36888 TATTATTATTATAA
1 TATTATTATTATAA
36902 GACTATTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 28 0.76
30 9 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TATTATTATTATAATAATATCAATATTAT
Found at i:37179 original size:15 final size:16
Alignment explanation
Indices: 37154--37193 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
37144 TATATTTTTG
37154 TTAATTCAATTTAATA-
1 TTAATT-AATTTAATAT
37170 TTAATTAA-TTAATAT
1 TTAATTAATTTAATAT
37185 TTAATTAAT
1 TTAATTAAT
37194 AAACAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTAATTTAATAT
Found at i:37368 original size:14 final size:14
Alignment explanation
Indices: 37344--37485 Score: 51
Period size: 16 Copynumber: 9.4 Consensus size: 14
37334 GATAGGCCCA
*
37344 TTTTGTTTTA-TAT
1 TTTTATTTTATTAT
37357 TTTATATTTTATTAT
1 TTT-TATTTTATTAT
*
37372 TTTTATTTT-GTAT
1 TTTTATTTTATTAT
37385 CTTATGTA-TTTATTATT
1 -TT-T-TATTTTATTA-T
37402 TATTTATTTATGATTACT
1 T-TTTATTT-T-ATTA-T
* *
37420 ATTTATTAATATATAT
1 TTTTATT-TTAT-TAT
*
37436 ATTTATTATTATT-T
1 TTTTATT-TTATTAT
*
37450 TTTTATCTGTTAATAT
1 TTTTAT-T-TTATTAT
*
37466 TTGTA-TTTATTAT
1 TTTTATTTTATTAT
37479 TATTTAT
1 T-TTTAT
37486 CTATTTATAT
Statistics
Matches: 99, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
13 13 0.13
14 24 0.24
15 18 0.18
16 27 0.27
17 12 0.12
18 5 0.05
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (14 bp):
TTTTATTTTATTAT
Found at i:37402 original size:23 final size:22
Alignment explanation
Indices: 37350--37402 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
37340 CCCATTTTGT
*
37350 TTTA-TATTTTATATTTTATTA
1 TTTATTATTTTATATCTTATTA
*
37371 TTT-TTATTTTGTATCTTATGTA
1 TTTATTATTTTATATCTTAT-TA
37393 TTTATTATTT
1 TTTATTATTT
37403 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 16 0.59
22 5 0.19
23 6 0.22
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTATTATTTTATATCTTATTA
Found at i:37446 original size:29 final size:28
Alignment explanation
Indices: 37391--37446 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
37381 GTATCTTATG
* *
37391 TATTTATTATTTATTTATTTATGATTAC
1 TATTTATTATATATATATTTATGATTAC
*
37419 TATTTATTAATATATATATTTATTATTA
1 TATTTATT-ATATATATATTTATGATTA
37447 TTTTTTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TATTTATTATATATATATTTATGATTAC
Found at i:37498 original size:16 final size:15
Alignment explanation
Indices: 37357--37527 Score: 73
Period size: 14 Copynumber: 11.9 Consensus size: 15
37347 TGTTTTATAT
37357 TTTATAT-TTTATTA
1 TTTATATATTTATTA
37371 TTT-T-TATTT-TGTA
1 TTTATATATTTAT-TA
*
37384 TCTTATGTATTTATTA
1 T-TTATATATTTATTA
* *
37400 TTTATTTATTTATGA
1 TTTATATATTTATTA
*
37415 -TTA-CTATTTATTAA
1 TTTATATATTTATT-A
*
37429 TATATATATTTATTA
1 TTTATATATTTATTA
* *
37444 -TTATTTTTTTATCT-
1 TTTATATATTTAT-TA
* *
37458 GTTA-ATATTT-GTA
1 TTTATATATTTATTA
37471 TTTATTATTATTTATCTA
1 TTTA-TA-TATTTAT-TA
*
37489 TTTATATA-TTATAA
1 TTTATATATTTATTA
* *
37503 TCTATCTA-TTATTA
1 TTTATATATTTATTA
37517 TTT-T-TATTTAT
1 TTTATATATTTAT
37528 CTGTTAATAT
Statistics
Matches: 120, Mismatches: 19, Indels: 37
0.68 0.11 0.21
Matches are distributed among these distances:
12 5 0.04
13 22 0.18
14 36 0.30
15 25 0.21
16 23 0.19
17 3 0.03
18 6 0.05
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTATATATTTATTA
Found at i:37528 original size:20 final size:20
Alignment explanation
Indices: 37472--37585 Score: 97
Period size: 20 Copynumber: 5.6 Consensus size: 20
37462 ATATTTGTAT
*
37472 TTATTATTATTTATCTATTTA
1 TTATTTTTATTTATCTA-TTA
* * *
37493 TATATTATAATCTATCTATTA
1 T-TATTTTTATTTATCTATTA
*
37514 TTATTTTTATTTATCTGTTA
1 TTATTTTTATTTATCTATTA
* *
37534 ATATTTTGATTTATCTGATTA
1 TTATTTTTATTTATCT-ATTA
*
37555 -T-TTTTTAATTATCTATTA
1 TTATTTTTATTTATCTATTA
*
37573 ATATTTTTTATTT
1 TTA-TTTTTATTT
37586 GATTTTGATT
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.05
19 12 0.16
20 30 0.39
21 16 0.21
22 14 0.18
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTTTTATTTATCTATTA
Found at i:37532 original size:72 final size:66
Alignment explanation
Indices: 37400--37557 Score: 183
Period size: 72 Copynumber: 2.3 Consensus size: 66
37390 GTATTTATTA
* *
37400 TTTATTTATTTATGA-TTACTATTTATTAATATATATATTTATTATTATTTTTTTATCTGTTAAT
1 TTTATTTA-TTATTATTTACTATTTATTAATATATATATCTATTATTATTTTTTTATCTGTTAAT
37464 AT
65 AT
* *
37466 TTGTATTTATTATTATTTATCTATTTATATATTATAATCTATCTATTATTATTTTTATTTATCTG
1 TT-TATTTATTATTATTTA-CTATTTAT-TAATAT-ATATATCTATTATTA-TTTT-TTTATCTG
37531 TTAATAT
60 TTAATAT
37538 TTTGATTTATCTGATTATTT
1 TTT-ATTTAT-T-ATTATTT
37558 TTTAATTATC
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
66 7 0.09
67 9 0.12
68 8 0.10
69 5 0.06
70 13 0.17
71 5 0.06
72 23 0.29
73 1 0.01
74 7 0.09
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (66 bp):
TTTATTTATTATTATTTACTATTTATTAATATATATATCTATTATTATTTTTTTATCTGTTAATA
T
Found at i:37977 original size:19 final size:19
Alignment explanation
Indices: 37940--37978 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37930 CAGATTTCGG
*
37940 TTGAATTTTTCAACGAAGT
1 TTGAATTTTTCAACCAAGT
**
37959 TTGAATTTTTTGACCAAGT
1 TTGAATTTTTCAACCAAGT
37978 T
1 T
37979 CCCAGTTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (19 bp):
TTGAATTTTTCAACCAAGT
Found at i:38105 original size:6 final size:6
Alignment explanation
Indices: 38096--38126 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
38086 TCATTTTTCA
38096 TTTATT TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
38127 ATTAACTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:38110 original size:18 final size:18
Alignment explanation
Indices: 38082--38126 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
38072 CCCAGGTTTT
*
38082 TTTTTCATTTTT-CATTTA
1 TTTTT-ATTTTTATATTTA
*
38100 TTTTTATTTTTATTTTTA
1 TTTTTATTTTTATATTTA
38118 TTTTTATTT
1 TTTTTATTT
38127 ATTAACTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTATTTTTATATTTA
Found at i:38175 original size:13 final size:12
Alignment explanation
Indices: 38151--38181 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
38141 AATTGTTTAA
38151 TATTTTTTATTT
1 TATTTTTTATTT
38163 TATTTTATTATTT
1 TATTTT-TTATTT
38176 TATTTT
1 TATTTT
38182 CTTTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:38261 original size:58 final size:57
Alignment explanation
Indices: 38199--38410 Score: 261
Period size: 58 Copynumber: 3.7 Consensus size: 57
38189 TAAAATTCAA
*
38199 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTCT
* * *
38257 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATCTTCCTTAAAAATAAGTTT-T
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCT
* * *
38313 CAAAAGTAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATGAAAGTTTCT
1 -AAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT--AAGTTTCT
* *
38373 AAAAAATA-TTTTG-GGAAAAAGTTCAAAGTATTAATTTT
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
38411 TCCTGTACAG
Statistics
Matches: 134, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
56 3 0.02
57 36 0.27
58 84 0.63
59 10 0.07
60 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCT
Found at i:38749 original size:25 final size:25
Alignment explanation
Indices: 38713--38781 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
38703 AACCGAACTT
38713 CTGAACCCTGTTCTGGTTAGTAGAC
1 CTGAACCCTGTTCTGGTTAGTAGAC
*
38738 CTGAACCTTGTTCTGGTTAGTAGAC
1 CTGAACCCTGTTCTGGTTAGTAGAC
38763 CTGAACCCTGTTCTGGTTA
1 CTGAACCCTGTTCTGGTTA
38782 CCTATTCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (25 bp):
CTGAACCCTGTTCTGGTTAGTAGAC
Found at i:42436 original size:16 final size:17
Alignment explanation
Indices: 42415--42448 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
42405 ACAATGGATG
42415 AAAGATGA-GAAAAAAA
1 AAAGATGATGAAAAAAA
42431 AAAGATGATGAAAAAAA
1 AAAGATGATGAAAAAAA
42448 A
1 A
42449 TGAAAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (17 bp):
AAAGATGATGAAAAAAA
Found at i:42454 original size:21 final size:20
Alignment explanation
Indices: 42418--42476 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
42408 ATGGATGAAA
* *
42418 GATGAGAAAAAAAAAAGAT-
1 GATGAAAAAAAAAAAAAATG
42437 GATGAAAAAAAATGAAAAAATG
1 GATGAAAAAAAA--AAAAAATG
42459 GA-GAAAAAAAGAAAAAAA
1 GATGAAAAAAA-AAAAAAA
42477 ATGAGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 11 0.32
20 6 0.18
21 14 0.41
22 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (20 bp):
GATGAAAAAAAAAAAAAATG
Found at i:42476 original size:20 final size:20
Alignment explanation
Indices: 42428--42485 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
42418 GATGAGAAAA
42428 AAAAAAGATGATGAAAAAAAATG
1 AAAAAA-ATGA-G-AAAAAAATG
42451 -AAAAAATGGAGAAAAAAA-G
1 AAAAAAAT-GAGAAAAAAATG
42470 AAAAAAAATGAGAAAA
1 -AAAAAAATGAGAAAA
42486 TGAAAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.03
20 14 0.44
21 10 0.31
22 7 0.22
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (20 bp):
AAAAAAATGAGAAAAAAATG
Found at i:42493 original size:20 final size:18
Alignment explanation
Indices: 42424--42485 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 18
42414 GAAAGATGAG
*
42424 AAAAAAAAAAGATGATGAA
1 AAAAAAAAAAAATGA-GAA
42443 AAAAAATGAAAAAATGGAGAAA
1 AAAAAA--AAAAAAT-GAG-AA
42465 AAAAGAAAAAAAATGAGAA
1 AAAA-AAAAAAAATGAGAA
42484 AA
1 AA
42486 TGAAAAAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 10 0.27
20 3 0.08
21 14 0.38
22 8 0.22
23 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAAAAAAAAAATGAGAA
Found at i:44269 original size:41 final size:41
Alignment explanation
Indices: 44151--44594 Score: 269
Period size: 41 Copynumber: 10.8 Consensus size: 41
44141 TGTCAAGGAA
* * *
44151 CAATTTATTTTTCCAAAG-TTTCATTGCCTCTGTTTAGAGGAG
1 CAATTTATTTTT-CAAAGCTGTGA-TGCCTCTGTTTAGAAGAG
* * *
44193 CAATTTACTTTTC-AAGTTGTGGTGCCTCTGTTTAGAAGAG
1 CAATTTATTTTTCAAAGCTGTGATGCCTCTGTTTAGAAGAG
* *
44233 CAATTTACTTTCCAAAGCTGTGATGCCTCTGTTTAGAAGAG
1 CAATTTATTTTTCAAAGCTGTGATGCCTCTGTTTAGAAGAG
* *
44274 CAATTTATTTTTCAAAGTTGTTGA-GCCTCTGATTAGAAGAG
1 CAATTTATTTTTCAAAGCTG-TGATGCCTCTGTTTAGAAGAG
* * *
44315 CCATTTATTTTTCAAAG-TCGTTGA-GCCTCTGATTAGAGGAG
1 CAATTTATTTTTCAAAGCT-G-TGATGCCTCTGTTTAGAAGAG
* * * *
44356 CCATTTATTTTCCAAAGTCAT-T-AAGCCTCTGTTTAGAGGAG
1 CAATTTATTTTTCAAAG-C-TGTGATGCCTCTGTTTAGAAGAG
* * *
44397 C--TTTATTCATTTTCAAAGTTGTTGA-GCCTCTGATTAGAGGAG
1 CAATTTA-T--TTTTCAAAGCTG-TGATGCCTCTGTTTAGAAGAG
* * * *
44439 CCATTTATTTTTCAAATC-GTTGA-GCCTCTGATTAGAGGAG
1 CAATTTATTTTTCAAAGCTG-TGATGCCTCTGTTTAGAAGAG
*
44479 C--TTTATTCATTTTCAAAG-TCGTTGA-GCCTCTGATTAGAAGAG
1 CAATTTA-T--TTTTCAAAGCT-G-TGATGCCTCTGTTTAGAAGAG
** * * *
44521 CTGTTTATTTTCCAAAGTCAT-TGA-GCCTCTATTTAGAGGAG
1 CAATTTATTTTTCAAAG-C-TGTGATGCCTCTGTTTAGAAGAG
* *
44562 CTTTATTTATTTTTCAAAGTTGTTGA-GCCTCTG
1 C--AATTTATTTTTCAAAGCTG-TGATGCCTCTG
44595 ATTAAAGGAG
Statistics
Matches: 341, Mismatches: 31, Indels: 59
0.79 0.07 0.14
Matches are distributed among these distances:
38 4 0.01
39 5 0.01
40 59 0.17
41 175 0.51
42 62 0.18
43 26 0.08
44 10 0.03
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (41 bp):
CAATTTATTTTTCAAAGCTGTGATGCCTCTGTTTAGAAGAG
Found at i:44314 original size:82 final size:80
Alignment explanation
Indices: 44176--44733 Score: 488
Period size: 82 Copynumber: 6.7 Consensus size: 80
44166 AAGTTTCATT
* * * * * * * *
44176 GCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAGTTGTGGTGCCTCTGTTTAGAAGAGCAATTTA
1 GCCTCTGATTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-ATTTA
*
44240 CTTTCCAAAGCTG-TGA
65 CTTTTCAAAG-TGTTGA
* * *
44256 TGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCCATTT
1 -GCCTCTGATTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG-CATTT
*
44321 ATTTTTCAAAGTCGTTGA
64 ACTTTTCAAAGT-GTTGA
* * * * * *
44339 GCCTCTGATTAGAGGAGCCATTTATTTTCCAAAGTCATTAAGCCTCTGTTTAGAGGAGC-TTTAT
1 GCCTCTGATTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTTA-
44403 TCATTTTCAAAGTTGTTGA
65 -C-TTTTCAAAG-TGTTGA
* *
44422 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAA-TCGTTGAGCCTCTGATTAGAGGAGC-TTTAT
1 GCCTCTGATTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTTA-
44485 TCATTTTCAAAGTCGTTGA
65 -C-TTTTCAAAGT-GTTGA
** * *
44504 GCCTCTGATTAGAAGAGCTGTTTATTTTCCAAAGTCATTGAGCCTCT-ATTTAGAGGAGCTTTAT
1 GCCTCTGATTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGC---AT
*
44568 TTATTTTTCAAAGTTGTTGA
62 TTACTTTTCAAAG-TGTTGA
*
44588 GCCTCTGATTA-AAG-G-AGATTTATTCATTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC-T
1 GCCTCTGATTAGAAGAGCA-ATTTA-T--TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCAT
44649 TTATTCATTTTCAAAGTCGTTGA
62 TTA--C-TTTTCAAAGT-GTTGA
* * * * *
44672 GCCTCTGATTAGAGGAGCATTGTTTATGTTTTTCAAAATCGTTGAGCCTCTGCTTAAAGGAG
1 GCCTCTGATTAGAAGAGCA--ATTTA--TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG
44734 TTTTGATCAA
Statistics
Matches: 407, Mismatches: 40, Indels: 54
0.81 0.08 0.11
Matches are distributed among these distances:
80 4 0.01
81 35 0.09
82 166 0.41
83 77 0.19
84 51 0.13
85 33 0.08
86 1 0.00
87 35 0.09
88 4 0.01
89 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (80 bp):
GCCTCTGATTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTTAC
TTTTCAAAGTGTTGA
Found at i:44427 original size:42 final size:42
Alignment explanation
Indices: 44282--44733 Score: 523
Period size: 42 Copynumber: 10.8 Consensus size: 42
44272 AGCAATTTAT
* *
44282 TTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCCATTTA-T--
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG-C-TTTATTCA
* *
44323 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC--CATTTA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
* * *
44363 TTTTCCAAAGTCATTAAGCCTCTGTTTAGAGGAGCTTTATTCA
1 TTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
*
44406 TTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA-T--
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG-C-TTTATTCA
44447 TTTTCAAA-TCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
* *
44488 TTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCTGT-TT-A
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
* *
44528 TTTTCCAAAGTCATTGAGCCTCT-ATTTAGAGGAGCTTTATTTA
1 TTTT-CAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCTTTATTCA
* * *
44571 TTTTTCAAAGTTGTTGAGCCTCTGATTAAAGGAGATTTATTCA
1 -TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
*
44614 TTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTATTCA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
* **
44656 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCATTGTTTATGT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TT-TAT-TCA
* * *
44701 TTTTCAAAATCGTTGAGCCTCTGCTTAAAGGAG
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG
44734 TTTTGATCAA
Statistics
Matches: 356, Mismatches: 34, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
37 1 0.00
38 5 0.01
39 2 0.01
40 34 0.10
41 104 0.29
42 124 0.35
43 44 0.12
44 11 0.03
45 31 0.09
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (42 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA
Found at i:44933 original size:7 final size:7
Alignment explanation
Indices: 44918--44967 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 7
44908 GCCCATTTTG
*
44918 TTTTGTA
1 TTTTATA
44925 TTTTATA
1 TTTTATA
44932 TTTTATTA
1 TTTTA-TA
44940 TTTT-TA
1 TTTTATA
44946 TTTT-TA
1 TTTTATA
44952 TTTTAT-
1 TTTTATA
44958 TTTGTATA
1 TTT-TATA
44966 TT
1 TT
44968 ATGTATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 15 0.39
7 15 0.39
8 8 0.21
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:44953 original size:27 final size:30
Alignment explanation
Indices: 44913--44986 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 30
44903 GGTAAGCCCA
*
44913 TTTTGTTTTGTATTTTATATT-T-TATTAT-
1 TTTTATTTT-TATTTTATATTGTATATTATG
*
44941 TTTTATTTTTATTTTATTTTGTATATTATG
1 TTTTATTTTTATTTTATATTGTATATTATG
44971 TATTTATTATTTATTT
1 T-TTTATT-TTTATTT
44987 ATTATTACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 10 0.26
28 9 0.23
29 6 0.15
30 1 0.03
31 6 0.15
32 7 0.18
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.74
Consensus pattern (30 bp):
TTTTATTTTTATTTTATATTGTATATTATG
Found at i:44981 original size:7 final size:7
Alignment explanation
Indices: 44933--45066 Score: 67
Period size: 7 Copynumber: 19.7 Consensus size: 7
44923 TATTTTATAT
44933 TTTATTA
1 TTTATTA
44940 TTT-TTA
1 TTTATTA
44946 TTT-TTA
1 TTTATTA
44952 -TT-TTA
1 TTTATTA
44957 TTT-TGTA
1 TTTAT-TA
44964 TATTATGTA
1 T-TTAT-TA
44973 TTTATTA
1 TTTATTA
44980 TTTATT-
1 TTTATTA
44986 TATTATTA
1 T-TTATTA
*
44994 -CTACTTA
1 TTTA-TTA
*
45001 -TTAATA
1 TTTATTA
*
45007 TATATTA
1 TTTATTA
45014 -TTATTA
1 TTTATTA
45020 TTTATCTA
1 TTTAT-TA
45028 TTTA-TA
1 TTTATTA
*
45034 TATTATAA
1 T-TTATTA
45042 TTTATCTA
1 TTTAT-TA
45050 -TTATTA
1 TTTATTA
*
45056 -TTGTTA
1 TTTATTA
45062 TTTAT
1 TTTAT
45067 CTGTTAATAT
Statistics
Matches: 103, Mismatches: 10, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
5 5 0.05
6 32 0.31
7 46 0.45
8 15 0.15
9 5 0.05
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:44991 original size:3 final size:3
Alignment explanation
Indices: 44930--45063 Score: 67
Period size: 3 Copynumber: 41.3 Consensus size: 3
44920 TTGTATTTTA
* * *
44930 TAT T-T TAT TAT TTT TAT TTT TAT T-T TAT T-T TGT ATAT TAT GTATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TA-T
* *
44975 TAT TATT TATT TAT TAT TAC TACT TAT TAA TAT ATAT TAT TAT TATT
1 TAT TA-T TA-T TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT TA-T
* *
45022 TAT CTATT TAT ATAT TAT AATT TAT CTAT TAT TAT TGT TAT T
1 TAT -TA-T TAT -TAT TAT TA-T TAT -TAT TAT TAT TAT TAT T
45064 TATCTGTTAA
Statistics
Matches: 103, Mismatches: 13, Indels: 30
0.71 0.09 0.21
Matches are distributed among these distances:
2 6 0.06
3 62 0.60
4 33 0.32
5 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:44992 original size:39 final size:38
Alignment explanation
Indices: 44912--44992 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
44902 AGGTAAGCCC
* *
44912 ATTTTGTTTTGTATTTTATATTTTATTATTTTTATTTTT
1 ATTTTATTTTGTATATTATATTTTATTA-TTTTATTTTT
*
44951 ATTTTATTTTGTATATTATGTATTTATTA-TTTATTTATT
1 ATTTTATTTTGTATATTATAT-TTTATTATTTTATTT-TT
44990 ATT
1 ATT
44993 ACTACTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 7 0.19
39 23 0.62
40 7 0.19
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (38 bp):
ATTTTATTTTGTATATTATATTTTATTATTTTATTTTT
Found at i:45014 original size:23 final size:25
Alignment explanation
Indices: 44986--45039 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
44976 ATTATTTATT
44986 TATTATTACTACTTAT-TA-ATATA
1 TATTATTACTACTTATCTATATATA
* * *
45009 TATTATTATTATTTATCTATTTATA
1 TATTATTACTACTTATCTATATATA
45034 TATTAT
1 TATTAT
45040 AATTTATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.54
24 2 0.08
25 10 0.38
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTATTACTACTTATCTATATATA
Found at i:45064 original size:20 final size:20
Alignment explanation
Indices: 44930--45117 Score: 129
Period size: 20 Copynumber: 9.3 Consensus size: 20
44920 TTGTATTTTA
44930 TATT-TTATTATTT-T-TAT
1 TATTATTATTATTTATCTAT
* * *
44947 TTTTATT-TTATTTTGTATAT
1 TATTATTATTA-TTTATCTAT
*
44967 TATGTATTTATTATTTATTTAT
1 TAT-TA-TTATTATTTATCTAT
* * *
44989 TATTACTACTTATTAATATA-
1 TATTATTA-TTATTTATCTAT
45009 TATTATTATTATTTATCTATT
1 TATTATTATTATTTATCTA-T
*
45030 TATATATTATAATTTATCTAT
1 TAT-TATTATTATTTATCTAT
* *
45051 TATTATTGTTATTTATCTGT
1 TATTATTATTATTTATCTAT
*
45071 TAATATT-TTGATTTATCTGAT
1 TATTATTATT-ATTTATCT-AT
* *
45092 TATT-TTTTTAATTATCTAT
1 TATTATTATTATTTATCTAT
*
45111 TAATATT
1 TATTATT
45118 TTTTATTTCA
Statistics
Matches: 137, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
17 6 0.04
18 5 0.04
19 17 0.12
20 53 0.39
21 26 0.19
22 27 0.20
23 3 0.02
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (20 bp):
TATTATTATTATTTATCTAT
Found at i:45505 original size:19 final size:19
Alignment explanation
Indices: 45483--45521 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45473 TTTTTTGACA
45483 AAGTTTGAATTTTACGGTG
1 AAGTTTGAATTTTACGGTG
*
45502 AAGTTTGAATTTTTCGGTG
1 AAGTTTGAATTTTACGGTG
45521 A
1 A
45522 CTTTTCTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (19 bp):
AAGTTTGAATTTTACGGTG
Found at i:45963 original size:17 final size:16
Alignment explanation
Indices: 45937--45971 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
45927 TAAATTGTTA
45937 TATTTTTTATTTTATT
1 TATTTTTTATTTTATT
*
45953 TATTATTTTATTTTCTT
1 TATT-TTTTATTTTATT
45970 TA
1 TA
45972 AATAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTATTTTATT
Found at i:46052 original size:58 final size:58
Alignment explanation
Indices: 45979--46139 Score: 268
Period size: 58 Copynumber: 2.8 Consensus size: 58
45969 TTAAATAAAA
* *
45979 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTT
1 TTCAAAAATAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTT
* *
46037 TTCAAAAATAGATTTTTAAGGAAAAGTTGAAAGTATCAATCTTCCTTAAAAATAAGTT
1 TTCAAAAATAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTT
* *
46095 TTCAAAAGTGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCAAAAATAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
46140 ATGTACAGAA
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 95 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (58 bp):
TTCAAAAATAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTT
Found at i:46763 original size:17 final size:18
Alignment explanation
Indices: 46738--46779 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
46728 TCGATATATA
46738 ATAATTAATATAAAATAAT
1 ATAA-TAATATAAAATAAT
* *
46757 -TAATAATATTAATTAAT
1 ATAATAATATAAAATAAT
46774 ATAATA
1 ATAATA
46780 GTAATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATATAAAATAAT
Found at i:46771 original size:27 final size:27
Alignment explanation
Indices: 46733--46797 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
46723 TTATTTCGAT
*
46733 ATATAATAATTAATATAA-AATAATTA
1 ATATAGTAATTAATATAATAATAATTA
* *
46759 ATAATATTAATTAATATAATAGTAATTA
1 AT-ATAGTAATTAATATAATAATAATTA
46787 ATATAGTAATT
1 ATATAGTAATT
46798 CCAATAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 23 0.68
28 9 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (27 bp):
ATATAGTAATTAATATAATAATAATTA
Found at i:46779 original size:15 final size:15
Alignment explanation
Indices: 46731--46796 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
46721 TTTTATTTCG
46731 ATAT-ATAATAATTA
1 ATATAATAATAATTA
46745 ATATAA-AATAATT-
1 ATATAATAATAATTA
*
46758 A-ATAATATTAATTA
1 ATATAATAATAATTA
*
46772 ATATAATAGTAATTA
1 ATATAATAATAATTA
*
46787 ATATAGTAAT
1 ATATAATAAT
46797 TCCAATAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.09
13 7 0.16
14 12 0.27
15 21 0.48
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
ATATAATAATAATTA
Found at i:46797 original size:12 final size:12
Alignment explanation
Indices: 46733--46779 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 12
46723 TTATTTCGAT
46733 ATATAATAATTA
1 ATATAATAATTA
46745 ATATAAAATAATTA
1 ATAT--AATAATTA
*
46759 ATAATATTAATTA
1 AT-ATAATAATTA
46772 ATATAATA
1 ATATAATA
46780 GTAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 9 0.30
13 9 0.30
14 10 0.33
15 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATAATAATTA
Found at i:46899 original size:25 final size:25
Alignment explanation
Indices: 46853--46929 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
46843 TTATTTAATT
* *
46853 ATTATTATA-ATATTAATATCAT-A
1 ATTATAATATATAATAATATCATAA
*
46876 ATATATAATCAT-TAATAATTTCATAA
1 AT-TATAAT-ATATAATAATATCATAA
46902 ATTATAATATATAATAA-AT-ATAA
1 ATTATAATATATAATAATATCATAA
46925 ATTAT
1 ATTAT
46930 TAAACTAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
23 11 0.24
24 8 0.18
25 23 0.51
26 3 0.07
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTATAATATATAATAATATCATAA
Found at i:46963 original size:11 final size:11
Alignment explanation
Indices: 46947--46982 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
46937 ATTTGAATCT
46947 TTAATTAATTA
1 TTAATTAATTA
*
46958 TTAATTGATTA
1 TTAATTAATTA
*
46969 TTAAGTAATTA
1 TTAATTAATTA
46980 TTA
1 TTA
46983 TATTGAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (11 bp):
TTAATTAATTA
Found at i:47064 original size:15 final size:14
Alignment explanation
Indices: 47040--47103 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 14
47030 TTTTTAAATA
47040 TTTAAT-TATTAAT
1 TTTAATATATTAAT
47053 TTTAAGTATATTAAATT
1 TTTAA-TATATT-AA-T
* *
47070 TTTAATATTTTCAT
1 TTTAATATATTAAT
47084 TTTAATAATATTTAAT
1 TTTAAT-ATA-TTAAT
47100 TTTA
1 TTTA
47104 CTTAGTTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.12
14 8 0.20
15 7 0.17
16 15 0.37
17 6 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
TTTAATATATTAAT
Found at i:47074 original size:30 final size:31
Alignment explanation
Indices: 47033--47102 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
47023 ACTAATATTT
*
47033 TTAAATATTTAAT-TATTAATTTTAAGT-ATA
1 TTAAATTTTTAATATATTAATTTTAA-TAATA
* *
47063 TTAAATTTTTAATATTTTCATTTTAATAATA
1 TTAAATTTTTAATATATTAATTTTAATAATA
*
47094 TTTAATTTT
1 TTAAATTTT
47103 ACTTAGTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (31 bp):
TTAAATTTTTAATATATTAATTTTAATAATA
Found at i:47408 original size:18 final size:20
Alignment explanation
Indices: 47371--47415 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
47361 TCCAATAAAT
*
47371 TATTTAATAATTTATTACTA
1 TATTTAATAATATATTACTA
47391 TATTTAAT-ATAT-TTACTA
1 TATTTAATAATATATTACTA
47409 TATTTAA
1 TATTTAA
47416 ATTAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATAATATATTACTA
Found at i:47695 original size:29 final size:29
Alignment explanation
Indices: 47663--47718 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
47653 ATATTTGAAT
47663 AATTATCAAATAACT-AAAAATAA-TTATTA
1 AATTAT-AAATAA-TAAAAAATAAGTTATTA
*
47692 AATTATTAATAATAAAAAATAAGTTAT
1 AATTATAAATAATAAAAAATAAGTTAT
47719 AAACAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 1 0.04
28 13 0.54
29 10 0.42
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (29 bp):
AATTATAAATAATAAAAAATAAGTTATTA
Found at i:47983 original size:26 final size:26
Alignment explanation
Indices: 47929--47980 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
47919 ATGTTATTAT
* * *
47929 ATAATTTGTTAATTATTAATTAATAA
1 ATAATTTATTAAATATTAATAAATAA
47955 ATAATTTATTAAATATT-ATAAATAA
1 ATAATTTATTAAATATTAATAAATAA
47980 A
1 A
47981 ATAGTAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATAATTTATTAAATATTAATAAATAA
Found at i:48202 original size:15 final size:15
Alignment explanation
Indices: 48160--48205 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
48150 TATATCTACT
48160 ATTAG-ATTATAATA
1 ATTAGTATTATAATA
48174 A-TA-TCATTATTAATA
1 ATTAGT-ATTA-TAATA
48189 ATTAGTATTATAATA
1 ATTAGTATTATAATA
48204 AT
1 AT
48206 ACTTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.07
14 5 0.19
15 13 0.48
16 6 0.22
17 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (15 bp):
ATTAGTATTATAATA
Found at i:48240 original size:21 final size:22
Alignment explanation
Indices: 48214--48264 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
48204 ATACTTTAAT
48214 TATAATTAT-AGTTA-AATATAA
1 TATAATTATAAGTTATAATA-AA
*
48235 TATAATAATAAGTTATAATAAA
1 TATAATTATAAGTTATAATAAA
48257 T-TAATTAT
1 TATAATTAT
48265 TTGATCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 14 0.54
22 8 0.31
23 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TATAATTATAAGTTATAATAAA
Found at i:48304 original size:21 final size:20
Alignment explanation
Indices: 48275--48313 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
48265 TTGATCATAT
48275 TAAATTATT-ATATTAATTTA
1 TAAATTATTCATA-TAATTTA
48295 TAAATATATTCATATAATT
1 TAAAT-TATTCATATAATT
48314 ATTCAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAATTATTCATATAATTTA
Found at i:48434 original size:16 final size:15
Alignment explanation
Indices: 48413--48447 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
48403 TTAATAATTT
48413 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
48429 TATAATAATTAAATG
1 TATAATAATCAAATG
48444 TATA
1 TATA
48448 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:48484 original size:15 final size:16
Alignment explanation
Indices: 48459--48489 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
48449 GTGAATAGTC
48459 TATTGAATCAATAATT
1 TATTGAATCAATAATT
48475 TATT-AATCAATAATT
1 TATTGAATCAATAATT
48490 AAAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTGAATCAATAATT
Found at i:49195 original size:12 final size:13
Alignment explanation
Indices: 49178--49217 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
49168 AATAATTCAA
49178 ATAATATAATAAT
1 ATAATATAATAAT
49191 A-AATAT-ATAAT
1 ATAATATAATAAT
*
49202 ATAAT-TAATACT
1 ATAATATAATAAT
49214 ATAA
1 ATAA
49218 ACATTATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
11 7 0.29
12 16 0.67
13 1 0.04
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:49253 original size:20 final size:19
Alignment explanation
Indices: 49228--49284 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
49218 ACATTATTCT
49228 AATAATCTAATATAATTATA
1 AATAA-CTAATATAATTATA
*
49248 AATAA-TAATTAATATTTATA
1 AATAACTAA-T-ATAATTATA
49268 ATATAACTAATATAATT
1 A-ATAACTAATATAATT
49285 GTTTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 3 0.10
19 1 0.03
20 19 0.61
21 5 0.16
22 3 0.10
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAACTAATATAATTATA
Found at i:49273 original size:18 final size:21
Alignment explanation
Indices: 49227--49283 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 21
49217 AACATTATTC
49227 TAATAATCTAATATAATTATAAA
1 TAATAAT-TAATAT-ATTATAAA
49250 TAATAATTAATAT-TTATAATA
1 TAATAATTAATATATTATAA-A
49271 TAACTAATATAAT
1 TAA-TAAT-TAAT
49284 TGTTTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.19
21 4 0.13
22 10 0.32
23 11 0.35
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAATTAATATATTATAAA
Found at i:50688 original size:23 final size:22
Alignment explanation
Indices: 50656--50762 Score: 78
Period size: 23 Copynumber: 4.8 Consensus size: 22
50646 ATTTAATATT
*
50656 TATATCTATTAATTCAATAAATA
1 TATATTTATTAATT-AATAAATA
50679 TATATTTATTAATATTAATAAAT-
1 TATATTTATT-A-ATTAATAAATA
* * *
50702 TA-ATATACTCATTAATAAATTA
1 TATATTTATTAATTAATAAA-TA
* * *
50724 AATATTTAATAATTAATAATTTA
1 TATATTTATTAATTAATAA-ATA
50747 TATATTTA--AATTAATA
1 TATATTTATTAATTAATA
50763 TAATTAATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
20 9 0.13
21 9 0.13
22 6 0.09
23 33 0.49
24 8 0.12
25 3 0.04
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATTTATTAATTAATAAATA
Found at i:50930 original size:23 final size:23
Alignment explanation
Indices: 50859--50930 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
50849 TTATACTATA
* * *
50859 TTAAATAATCTATACAATAATTAAA
1 TTAATTAATTTATA-AATAATT-AT
* * * * *
50884 TTAATTAAATAACAATTAAATAT
1 TTAATTAATTTATAAATAATTAT
50907 TTAATTAATTTATAAATAATTAT
1 TTAATTAATTTATAAATAATTAT
50930 T
1 T
50931 AAAATTACTA
Statistics
Matches: 34, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
23 20 0.59
24 5 0.15
25 9 0.26
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAATTAATTTATAAATAATTAT
Found at i:51402 original size:31 final size:28
Alignment explanation
Indices: 51367--51512 Score: 93
Period size: 32 Copynumber: 4.9 Consensus size: 28
51357 ATTAATATAA
*
51367 AATATTTAACAATTAAATTAATTCAGTTATT
1 AATATTTAA-AATTAAATAAATT-A-TTATT
51398 AATATTTATAAATTAATATAATATTTAATT-TT
1 AATATTTA-AAATTAA-ATAA-A-TT-ATTATT
*
51430 AATATTTAAAAATTAAATAAACTATTATT
1 AATATTT-AAAATTAAATAAATTATTATT
* * *
51459 AATATAT-AAATTTAATAATAGT-TTATTT
1 AATATTTAAAATTAAATAA-ATTATTA-TT
* *
51487 AATTATATATAATTAAAT-AATTATTA
1 AA-TATTTAAAATTAAATAAATTATTA
51513 CTCAGTCATA
Statistics
Matches: 95, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
27 13 0.14
28 11 0.12
29 18 0.19
30 8 0.08
31 18 0.19
32 20 0.21
33 4 0.04
34 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (28 bp):
AATATTTAAAATTAAATAAATTATTATT
Found at i:51420 original size:63 final size:60
Alignment explanation
Indices: 51346--51475 Score: 147
Period size: 63 Copynumber: 2.1 Consensus size: 60
51336 TAACTATATT
* * * *
51346 TTTAATTTAATA-TTAATATAAAATATTTAACAATTAAATTAATTCAGTTATTAATATTTATAAA
1 TTTAATATAATATTTAAT-TAAAATATTTAAAAATTAAATAAACT-A-TTATTAATA--TATAAA
**
51410 -TTAATATAATATTTAATTTTAATATTTAAAAATTAAATAAACTATTATTAATATATAAA
1 TTTAATATAATATTTAATTAAAATATTTAAAAATTAAATAAACTATTATTAATATATAAA
51469 TTTAATA
1 TTTAATA
51476 ATAGTTTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
59 6 0.10
60 6 0.10
61 9 0.16
62 1 0.02
63 31 0.53
64 5 0.09
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (60 bp):
TTTAATATAATATTTAATTAAAATATTTAAAAATTAAATAAACTATTATTAATATATAAA
Done.