Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 3 of 131
Found at i:225820 original size:180 final size:178
Alignment explanation
Indices: 225382--226037 Score: 492
Period size: 180 Copynumber: 3.6 Consensus size: 178
225372 AATGGCCATA
* * * * ** * * *
225382 ATTATTTTATTCTAAATAAAATAGTATGAATAGAACCAATTGTTTGATAACAAAACAAAAGGTTG
1 ATTATTTT-TTCTAAATAAACTTGTATGAACAAAAATAATTGTTTTATGACAAAACAAAAGG-TA
* * * * * * *
225447 A-AACAATTTGAAATAAAGTAATT-ATCAAATAGTCAA-AACAATTTGAAGAATGATTTTGGTAA
64 ATAATAATTTG-AA-AGA-TAATTGTTCAAATAGT-AATAACTATTTG-A-ACT-AATTTGGCAA
* ** * * *
225509 ACAAATTTACTTTTT-AAATCTCTTACTGCTTAATTTTCTA-AATATTAAAAAATTAGT
122 AAAAATTTA-TTTTTAAAATCTCTTACTTATAAATTTTC-AGAATATTAACAAATTAAT
* * *
225566 ATTATTTTATT-TCAAACAAACTT-TAT-AACAAAAACAATTGTTTTTATGACAAAACAAAA-AT
1 ATTATTTT-TTCT-AAATAAACTTGTATGAACAAAAATAATTG-TTTTATGACAAAACAAAAGGT
* * * *
225627 AATAATGATTTGAAAGATAATTGTTCAAATAGTTATAATTATTTGAACTAGTTTGGCAAATAAAA
63 AATAATAATTTGAAAGATAATTGTTCAAATAGTAATAACTATTTGAACTAATTTGGCAAA-AAAA
* *
225692 TTT-TTTTTAAAAATCTCTTCCTTATAAAATTTTGA-AATATTAACAAATTAAT
127 TTTATTTTT-AAAATCTCTTACTTAT-AAATTTTCAGAATATTAACAAATTAAT
* **** *
225744 TTTATTTTATTCCT-AATAAACTTGTATGAGTTGAAATAATTGTTTTATGACAAAACAAAAGGTC
1 ATTATTTT-TT-CTAAATAAACTTGTATGAACAAAAATAATTGTTTTATGACAAAACAAAAGGTA
* * ** * ***
225808 ATAACAATTTGAAATTGATAATTGTTCATATAGTCCTAACTATTTTGAACTAATTTGGTAAACGT
64 ATAATAATTTGAAA--GATAATTGTTCAAATAGTAATAACTA-TTTGAACTAATTTGGCAAAAAA
* * * * ** *
225873 ATTTATTTTTTAAATCTCTTAGTTATGAATTTTCAGACTATTATTAAATTAGT
126 ATTTATTTTTAAAATCTCTTACTTATAAATTTTCAGAATATTAACAAATTAAT
* * * *
225926 ATTATTTTTTCTAAATAAATTTGTATGAACAAAAATAA-TGTTTTATGATATAACAAAAGGTTAT
1 ATTATTTTTTCTAAATAAACTTGTATGAACAAAAATAATTGTTTTATGACAAAACAAAAGGTAAT
*
225990 AATAATTTGAAATAGATAATTTTTCAAATAGTAATAACTATTTGAACT
66 AATAATTTG-AA-AGATAATTGTTCAAATAGTAATAACTATTTGAACT
226038 GGTCATAACT
Statistics
Matches: 379, Mismatches: 71, Indels: 49
0.76 0.14 0.10
Matches are distributed among these distances:
176 5 0.01
177 9 0.02
178 54 0.14
179 42 0.11
180 96 0.25
181 35 0.09
182 78 0.21
183 42 0.11
184 18 0.05
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.40
Consensus pattern (178 bp):
ATTATTTTTTCTAAATAAACTTGTATGAACAAAAATAATTGTTTTATGACAAAACAAAAGGTAAT
AATAATTTGAAAGATAATTGTTCAAATAGTAATAACTATTTGAACTAATTTGGCAAAAAAATTTA
TTTTTAAAATCTCTTACTTATAAATTTTCAGAATATTAACAAATTAAT
Found at i:226196 original size:62 final size:64
Alignment explanation
Indices: 226121--226250 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 64
226111 AATTAATATT
* *
226121 ATTTATTCAAATAAGCTT-GTATGTT-GAAAAATAATTATTTTTTGAC-AAAC-AAAGGTAATAA
1 ATTTATTCAAATAAGCTTGGTATGTTAG-AAAATAATT-GTTTATGACAAAACAAAAGGTAATAA
226182 C
64 C
* *
226183 GATTTATT-TAATAAGCTTGGTATGTTAGAAAATAATTGTTTATGACAAAACAAAAGTTAATAAC
1 -ATTTATTCAAATAAGCTTGGTATGTTAGAAAATAATTGTTTATGACAAAACAAAAGGTAATAAC
226247 ATTT
1 ATTT
226251 GAAATAGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
62 16 0.27
63 31 0.53
64 12 0.20
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (64 bp):
ATTTATTCAAATAAGCTTGGTATGTTAGAAAATAATTGTTTATGACAAAACAAAAGGTAATAAC
Found at i:226954 original size:359 final size:361
Alignment explanation
Indices: 226324--226989 Score: 780
Period size: 359 Copynumber: 1.8 Consensus size: 361
226314 TTTAAATCTT
* * *
226324 TTATTAATTTTTTGAAATATTAATAAAGTAGTATTATTTATTTTTGGATAAGCTTTTATACTGAA
1 TTATTAATTTTTTGAAATATTAATAAAGTAGTATTATTTATTTTTGAATAAGCTTGTATACTAAA
* * * *
226389 CAATTGTTTTATGACAAAACAAAAGTTCATAACAATTTTAAATATAGATGATTGTTTAAATAATC
66 CAATTATTTTATAACAAAACAAAAGTTCATAACAATTTTAAATATAGATAATTGTTCAAATAATC
* * * * *
226454 ATTAACTATTTGAACTTGTTTACTAAACAGATTTATTTTTCAAATCACTTGCTTATTGATTTTTA
131 ATTAACTATTTAAACTTGTTTACTAAACAAATTTATTTTTCAAAACACTTGCTTATTAATTTTGA
* * * * * *
226519 GAATGTTAATAAATCAGTATTTTTTTAGTTTGAAAGTTTTGCATGAACAGAAACAATTGTTTTAT
196 GAATATTAAGAAATCAATATTATTTTAGTTTGAAAGTTTT-CATAAACAGAAACAATTCTTTTAT
* * * *
226584 GACAAAACAAAAGGTCA-AATGATTTGAAATAGATAATTGTTCAAATGGACATGACTAATTGAAT
260 GACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATGGACATGACTAATTGAAT
226648 TGATTCAATAAACAAATTAACTTTTTAAATCACTTAG
325 TGATTCAATAAACAAATTAACTTTTTAAATCACTTAG
* *
226685 TTATTAA-TTTTT-AAATATTAATAAATTAGTTTTATTT-TGTTTTGAATAAGCTTGTATGAACT
1 TTATTAATTTTTTGAAATATTAATAAAGTAGTATTATTTAT-TTTTGAATAAGCTTGTAT--ACT
**
226747 AAAACAATTATTTTATAAC-AAACAAAA-TGTCATAATGATTTT-AA-ATAGATAATTGTTCAAA
63 -AAACAATTATTTTATAACAAAACAAAAGT-TCATAACAATTTTAAATATAGATAATTGTTCAAA
* * ** * ** *
226808 TAGTCA-TAACTATTTAAATTTGTTTGGTAAACAAATTTATTTTTTAAAACTTTTTCTTATTAAT
126 TAATCATTAACTATTTAAACTTGTTTACTAAACAAATTTATTTTTCAAAACACTTGCTTATTAAT
* * **
226872 TTTG-GAAATATTAGGAAATTAATATTATTTTA-TTCTAGATAAGCTTTT-ATAAATTGAAACAA
191 TTTGAG-AATATTAAGAAATCAATATTATTTTAGTT-T-GA-AAG-TTTTCATAAACAGAAACAA
** *
226934 TTCTTTTATGTTAAAACAAAAAGTCATAACGATTTTAAATAAATAATTATTCAAAT
251 TTCTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAAT
226990 AATCATAACT
Statistics
Matches: 253, Mismatches: 41, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
357 3 0.01
358 72 0.28
359 94 0.37
360 36 0.14
361 33 0.13
362 15 0.06
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (361 bp):
TTATTAATTTTTTGAAATATTAATAAAGTAGTATTATTTATTTTTGAATAAGCTTGTATACTAAA
CAATTATTTTATAACAAAACAAAAGTTCATAACAATTTTAAATATAGATAATTGTTCAAATAATC
ATTAACTATTTAAACTTGTTTACTAAACAAATTTATTTTTCAAAACACTTGCTTATTAATTTTGA
GAATATTAAGAAATCAATATTATTTTAGTTTGAAAGTTTTCATAAACAGAAACAATTCTTTTATG
ACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATGGACATGACTAATTGAATT
GATTCAATAAACAAATTAACTTTTTAAATCACTTAG
Found at i:226989 original size:181 final size:179
Alignment explanation
Indices: 226216--228070 Score: 1080
Period size: 180 Copynumber: 10.4 Consensus size: 179
226206 GTTAGAAAAT
*
226216 AATTG-TTTATGACAAAAC-AAAAGTTAATAAC-ATTTGAAATAGTATAAATTGTTCAAAT-GTC
1 AATTGTTTTATGACAAAACAAAAAG-TCATAACGATTTGAAATAG-AT-AATTGTTCAAATAGTC
* * * * * * * * *
226277 ATAATTATTT-TATTTGATTTGGTGAACTGATTTATTTTTTAAATCTTTTAT-TAATT--TTTTG
63 ATAACTATTTAAACTTG-TTCGATAAACAGATTTATTTTTTAAAACTTTT-TCTTATTAATTTTG
* * * * *
226338 AAATATTAATAAAGTAGTATTA-TTTATTTTTGGATAAGCTTTTAT-ACTG-AAC
126 AAATATTAATAAATTAGTATTATTTTA-TTCTAGATAAGCTTGTATAATTGAAAC
* * * * *
226390 AATTGTTTTATGACAAAAC-AAAAGTTCATAACAATTTTAAATATAGATGATTGTTTAAATAATC
1 AATTGTTTTATGACAAAACAAAAAG-TCATAACGA-TTTGAA-ATAGATAATTGTTCAAATAGTC
* * * * ** * * *
226454 ATTAACTATTTGAACTTGTT-TACTAAACAGATTTATTTTTCAAATCACTTGCTTATTGATTTTT
63 A-TAACTATTTAAACTTGTTCGA-TAAACAGATTTATTTTTTAAAACTTTTTCTTATTAATTTTG
* * * * * **
226518 AGAATGTTAATAAATCAGTATTTTTTTAGTT-T-GA-AAGTTTTGCATGAACAGAAAC
126 A-AATATTAATAAATTAGTATTATTTTA-TTCTAGATAAG-CTTGTAT-AATTGAAAC
* * * * *
226573 AATTGTTTTATGACAAAACAAAAGGTCA-AATGATTTGAAATAGATAATTGTTCAAATGGACATG
1 AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * * * ** ** *
226637 ACTAATTGAA-TTGATTCAATAAACAAATTAACTTTTTAAATCACTTAGTTATTAATTTTTAAAT
66 ACTATTTAAACTTG-TTCGATAAACAGATTTATTTTTTAAAACTTTTTCTTATTAATTTTGAAAT
* * * * *
226701 ATTAATAAATTAGTTTTATTTTGTT-TTGAATAAGCTTGTATGAACTAAAAC
130 ATTAATAAATTAGTATTATTTTATTCTAG-ATAAGCTTGTAT-AATTGAAAC
* * * * *
226752 AATTATTTTATAAC-AAACAAAATGTCATAATGATTTTAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * *
226816 ACTATTTAAATTTGTTTGGTAAACAAATTTATTTTTTAAAACTTTTTCTTATTAATTTTGGAAAT
66 ACTATTTAAACTTGTTCGATAAACAGATTTATTTTTTAAAACTTTTTCTTATTAATTTT-GAAAT
** * *
226881 ATTAGGAAATTAATATTATTTTATTCTAGATAAGCTTTTATAAATTGAAAC
130 ATTAATAAATTAGTATTATTTTATTCTAGATAAGCTTGTAT-AATTGAAAC
* ** * * * *
226932 AATTCTTTTATGTTAAAACAAAAAGTCATAACGATTTTAAATAAATAATTATTCAAATAATCATA
1 AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * **
226997 ACTATTTGAACTTGTTCGATAAAGAGATTTATTTTTCAAATCTTTTACTTATTAATTTTCCAATA
66 ACTATTTAAACTTGTTCGATAAACAGATTTATTTTTTAAAACTTTTTCTTATTAATTTTGAAATA
*
227062 --AAT---TTA-AATTATTTTATTCT-GAATAAGCTTGTA-AGATATGAAAC
131 TTAATAAATTAGTATTATTTTATTCTAG-ATAAGCTTGTATA-AT-TGAAAC
* * * * ** * * **
227106 AAATATTTT-TAACTAAACAAATGGTC---A--A---GAAATAGGTAATTAG-TCTAATAGTTTT
1 AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATT-GTTCAAATAGTCAT
* * * * * * * * * *
227161 AATTATTTGAACTAGCTCAGCA-AAACACATTTA-TTTTTAAAGCTCTTACCTATTAATTTTTAA
65 AACTATTTAAACTTGTTC-G-ATAAACAGATTTATTTTTTAAAACTTTTTCTTATTAA-TTTTGA
* * * * * * * *
227224 AATATTATTAAATTAGTATAATTTTTAGTCGA-ATAAG-TTCCTATGATCAGAAAT
127 AATATTAATAAATTAGTATTA-TTTTATTCTAGATAAGCTT-GTATAAT-TGAAAC
* * * * * * * * *
227278 AATTG-TTAATTGACAAAACAAAGA-TCTTAACAATTTGAAATTGATATTTATTTAAAAAGTCAT
1 AATTGTTTTA-TGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * * *
227341 AACTATTTAAACTAGTTTGATAAATAGATTTACTTCTT-AAA---TCTCTTATTAATTTTGAAAT
65 AACTATTTAAACTTGTTCGATAAACAGATTTATTTTTTAAAACTTTTTCTTATTAATTTTGAAAT
* * ** *
227402 ATTAATAAATTAGTATTATTTTATT-TCAAATAAACTTGTATAATAAAAAAT
130 ATTAATAAATTAGTATTATTTTATTCT-AGATAAGCTTGTATAAT-TGAAAC
* * * * * * *
227453 AATTGTTTTATGATAAAACAAAAGGTCATAACAATTTAAAATAGATAATCGTTCAAATGGCCATA
1 AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * *
227518 ACTATTTAAACTAGTTCAATAAACAGATTTATTTATT-AAA-TTTCTTACTTATTAATTTAAGAA
66 ACTATTTAAACTTGTTCGATAAACAGATTTATTTTTTAAAACTTT-TT-CTTATTAATTT-TGAA
**
227581 ATATTAATAAATTAGTATTATTTTATTCTATCTAAGCTTGTATTAATTGAAAC
128 ATATTAATAAATTAGTATTATTTTATTCTAGATAAGCTTGTA-TAATTGAAAC
* * * * * * * *
227634 AATTGTTTTTATGACAAATCAAAATGTTATAAAGATTTTAAATA-ACAATTGTTAAAATAGTAAT
1 AATTG-TTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * * *
227698 AACTATTTAAACTTTTTCGGTAAACAGATTTTATTTTTTTAAA-TCTCTTCTTATTACTTTTTCA
65 AACTATTTAAACTTGTTCGATAAACAGA-TTTATTTTTTAAAACT-TTTTCTTATTA-ATTTTGA
* * * * * * *
227762 AATATT-ATTAA-TGGTATTAATTTATT-TTGAATATGCTTGTATGAACTGAAAT
127 AATATTAATAAATTAGTATTATTTTATTCTAG-ATAAGCTTGTAT-AATTGAAAC
* * * * * * * **
227814 AATTCTTTTTTGACTAAACAAAAGGTTAGAATGATTTGAAATAGATAATTGTTTTAATAGT-ATT
1 AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCA-T
* * * * *
227878 AACCATTTAAAC-TGATTC-AGTAAA-AAATATTATTTTTTAAATCTCTTACTTATTAATTTTTG
65 AACTATTTAAACTTG-TTCGA-TAAACAGAT-TTATTTTTTAAAACTTTTTCTTATTAA-TTTTG
* * * * * * *
227940 AAATATTATTAAATTGGTGTTATTGTAATC-CGAATAAGCTTGTATAGA-TAAAAC
126 AAATATTAATAAATTAGTATTATTTTATTCTAG-ATAAGCTTGTATA-ATTGAAAC
* * *
227994 AATTATTTTATGACAAAACAAAAAGTAATAACGATTTGAAATAGATAATTGTTCAAGTAGTCATA
1 AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
* *
228059 ATTATTTGAACT
66 ACTATTTAAACT
228071 GGTTTGGAAA
Statistics
Matches: 1305, Mismatches: 286, Indels: 173
0.74 0.16 0.10
Matches are distributed among these distances:
165 52 0.04
166 18 0.01
167 1 0.00
168 3 0.00
170 1 0.00
171 7 0.01
172 22 0.02
173 31 0.02
174 48 0.04
175 83 0.06
176 89 0.07
177 14 0.01
178 81 0.06
179 235 0.18
180 274 0.21
181 236 0.18
182 71 0.05
183 34 0.03
184 5 0.00
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
AATTGTTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
ACTATTTAAACTTGTTCGATAAACAGATTTATTTTTTAAAACTTTTTCTTATTAATTTTGAAATA
TTAATAAATTAGTATTATTTTATTCTAGATAAGCTTGTATAATTGAAAC
Found at i:228538 original size:181 final size:178
Alignment explanation
Indices: 228203--228785 Score: 473
Period size: 180 Copynumber: 3.2 Consensus size: 178
228193 AGTTAGTTTG
* * * * * * * *
228203 AAATAAAAGAATATTAATTTATTAATA-TTTAGAAAATAAAT-ACGTAAGAGATTTAAAAAGTAA
1 AAATAAAATAATACTAATTTAATAATATTTTA-AAAATTAATAAC-AAAGAAAATTAAAAAATAA
* * ** * * * *
228266 ATCTACTTACTAAACCATTTCAAATAGTTTTGACTATTTCAATAATTATTTATTTCAAATCATTA
64 ATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TATGAATAATTATCTATTTCAAATCATCA
* * **
228331 CAACCTTTTATTTTGTCATCAAACAATTGGTTATGTTCATA-CTATTTTATTCA
128 CAACCTTTTATTTTGT-ATCAAACAATT-GTTATATTCATACCAAGCTTATT-A
* * * *
228384 AAATAAAATAATGCTAATTTAATTATATTTTAAAACTTAATAACCAAGAAAATTAAAAAATAAAT
1 AAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAACAAAGAAAATTAAAAAATAAAT
* * * **
228449 CTAATTGCCAAACCAGTTCAAATAGTTAAGACTCTATGAATGATTATCTATTTCAAATCATCATG
66 CTAATTACTAAACCAGTTCAAATAGTTAAGACT-TATGAATAATTATCTATTTCAAATCATCACA
* * *
228514 ACCTTTCT-TTTAATGT-TTAAACAATTGTTTTATTCATACCAAGCTTATTG
130 ACCTTT-TATTT--TGTATCAAACAATTGTTATATTCATACCAAGCTTATTA
* * * * *
228564 GATTAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGAGATTTAAAAAATAAAT
1 AAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAACAAAGAAAATTAAAAAATAAAT
** * * *
228629 -TTTTTAACTAAATCAGTTCAAATGGTTAAGA-TTATTAGAATAATTATCTATTTCAAATCGTTC
66 CTAATT-ACTAAACCAGTTCAAATAGTTAAGACTTA-T-GAATAATTATCTATTTCAAATC-ATC
* * * * * *
228692 -TAATCTTTTGTTTAGTCATAAAACAATTGTTTTAGTTCATA-CAAGCTTATTA
127 ACAACCTTTTATTTTGT-ATCAAACAATTGTTATA-TTCATACCAAGCTTATTA
* * * * **
228744 GAATAAATTAATACTAATTTATTAACATTTGGAAAATTAATA
1 AAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATA
228786 GGAAAAAGAT
Statistics
Matches: 328, Mismatches: 60, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
178 4 0.01
179 6 0.02
180 178 0.54
181 130 0.40
182 7 0.02
183 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (178 bp):
AAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAACAAAGAAAATTAAAAAATAAAT
CTAATTACTAAACCAGTTCAAATAGTTAAGACTTATGAATAATTATCTATTTCAAATCATCACAA
CCTTTTATTTTGTATCAAACAATTGTTATATTCATACCAAGCTTATTA
Found at i:228622 original size:180 final size:177
Alignment explanation
Indices: 228123--233688 Score: 1049
Period size: 181 Copynumber: 30.8 Consensus size: 177
228113 TATAACTATT
* * * * * * * *
228123 TGAACAATTATCTATTTTAAATCATTATTACTTTTTGTTT-TGTCATAAAACAATTATTTTTGTT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATT-GTTTTATT
* * * * * * * * *
228187 AATATAAG-TTAGTTTGAAATAAAAGAATATTAATTTATTAATA-TTTAGAAAATAAATACGTAA
63 CATACAAGCTTA-TTAG-AATAAAATAATACTAATTTAATAATATTTTA-AAAATTAATAAGAAA
* * * ** *
228250 GAGATTTAAAAAGTAAATCTACTTACTAAACCATTTCAAATAGTTTTGACTATT
125 GAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
* * * * * * *
228304 TCAATAATTATTTATTTCAAATCATTACAACCTTTTATTT-TGTCATCAAACAATTGGTTATGTT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATT-GTTTTATT
* ** * * * * **
228368 CATACTATTTTATTCAAAATAAAATAATGCTAATTTAATTATATTTTAAAACTTAATAACCAAGA
63 CATACAAGCTTATT-AGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGA
* * * *
228433 AAATTAAAAAATAAATCTAATTGCCAAACCAGTTCAAATAGTTAAGACTCTA
127 GATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
* * *
228485 TGAATGATTATCTATTTCAAATCATCATGACCTTTCT-TTTAATGTTTAAACAATTGTTTTATTC
1 TGAATAATTATCTATTTCAAATCATCATAACCTTT-TATTT-ATGTTAAAACAATTGTTTTATTC
* *
228549 ATACCAAGCTTATTGGATTAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGAG
64 ATA-CAAGCTTATTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGAG
** * *
228614 ATTTAAAAAATAAAT-TTTTTAACTAAATCAGTTCAAATGGTTAAGA-TTA
128 ATTTAAAAAATAAATCTAATT-ACTAAACCAGTTCAAATAGTTAAGACTTA
* * *
228663 TTAGAATAATTATCTATTTCAAATCGTTC-TAATCTTTTGTTTA-GTCATAAAACAATTGTTTTA
1 -T-GAATAATTATCTATTTCAAATC-ATCATAACCTTTTATTTATGT--TAAAACAATTGTTTTA
* * * ** *
228726 GTTCATACAAGCTTATTAGAATAAATTAATACTAATTTATTAACATTTGGAAAATTAATAGGAAA
61 -TTCATACAAGCTTATTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAA
* * * * * * * ** ***
228791 AAGATTTACAAAAATAAATAT-TTTACCAAACAAATTCAAATAAGTGATTTAAAAA
125 GAGATTTA-AAAAATAAATCTAATTACTAAACCAGTTCAAAT-AGTTA-AGACTTA
* * * ** * * ***
228846 GTGAATATATT-TACTGAATCAATTTAAATTATTATGGCCATTTCAATAATTAT-CTATTTCAAA
1 -TGAATA-ATTAT-CT--AT---TTCAAATCATCATAACC-TTT---TATTTATGTTAAAAC-AA
** * * * * * * *
228909 TTGTTATTACCATTTGTTTGGTCATATGACAATTATTTTTG-ATCATACAA-GCTTATTTGGAAT
53 TTGTT-TT---A-TT-CAT--ACA-A-G-C--TTA--TTAGAATAAAATAATACTAATTT--AAT
** ** *** * * ** *
228972 AAAATAATACTAATTTATTAATCTTTCAAA-A-ATTAGTAAGTAAGAT-AGT-TAAAAAATAAA-
101 --AAT-ATTTTAA-AAATTAA--TAAGAAAGAGATT--TAA--AAAATAAATCTAATTACTAAAC
* * * *
229032 TATGTTTACCAAACTAATTCAAATAGTTA
156 CA-G-TT--CAAA-TAGTT--AAGACTTA
* * * * ** * ** *
229061 TGACTATTTGAGCAATTGTATACTTTAAATTGTTATAACCTTTTATTGTATCATAAAACAATTAT
1 TGA--A--T----AATTATCTATTTCAAATCATCATAACCTTTTATT-TATGTTAAAACAATTGT
* ** *
229126 TTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAATCCAATAATATTTTGAAAATTAATA
57 TT-TATTCATACAAGCTTATT-AGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATA
** * ** * * *
229191 ACTAAGAGATTTAAAAAATAAAAT-TATTTTTTGAACTAGTTCAAATAGCTAAGACTATA
120 AGAAAGAGATTTAAAAAAT-AAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
* * * * ** *
229250 TGAACAATTATCTATTTTAAATCATTATGACCTTTCGT-TTTATCATAAAACAATAT-TTTCAAT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTT--TATTTATGTTAAAACAAT-TGTTT-TAT
* * * * *
229313 TCATACTAGCTTATTTAGAATAAAATAA-AATAAATTTATTAATATTTTAAAAATTAATGAGTAA
62 TCATACAAGCTTA-TTAGAATAAAATAATACT-AATTTAATAATATTTTAAAAATTAATAAGAAA
* * ** * * * *
229377 GAGATTTAAAAAATAATTTTGTTTACCT-AATCAGTTCAAATAATTATGACTATT
125 GAGATTTAAAAAATAAATCTAATTA-CTAAACCAGTTCAAATAGTTAAGACT-TA
** * * * * * * *
229431 TGAGCATTTATCTATTTCAAATTATTATGACCTTTTGTTT-TGTCATAAAACAAATGTTTTTGTT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATTG-TTTTATT
* * * * * * * * *
229495 CGTATAAGTTTGTTCGGAATAAAATAATACTAATCTATTAATATTTCAAAAATTAATAAG---CA
63 CATACAAGCTTATT-AGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGA
* * *
229557 -ATTTAAAAATTAAATCTATTTA-TCAAA-CTGATTC-AA-A-TTAAGAC-TA
127 GATTTAAAAAATAAATCTAATTACT-AAACCAG-TTCAAATAGTTAAGACTTA
* ** * * * * *
229603 TTTAAGTAATTA-CTTATTTCAAATTGTTATGACTTTTTGTTCTAT-TATAAAACAATAGTTTTT
1 -TGAA-TAATTATC-TATTTCAAATCATCATAACCTTTTATT-TATGT-TAAAACAATTG-TTTT
* * * * * * * * *
229666 GTTCATTCAAGCTTACTCGAATTAAAATAACACAAATTTATTAATATTTTGACAATTAATAAGTA
60 ATTCATACAAGCTTATTAGAA-TAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAG-A
* * * * * * * * * * * *
229731 AA-AAATGTAAAAAAATAAATAT-GTATATTGAACTAGATT-AAACAATCATGACTATT
123 AAGAGAT-TTAAAAAATAAATCTAAT-TACTAAACCAG-TTCAAATAGTTAAGACT-TA
* * * * ** * *
229787 TGAATAATTATCTATTAT-AAATCGTTATGACCTTTTCTTCTATCATAAAA-AATTATTTCAATT
1 TGAATAATTATCTATT-TCAAATCATCATAACCTTTTATT-TATGTTAAAACAATTGTTT-TATT
* * * * * * **
229850 CATATAAGCTTATTAGAAATAAAATAATATTAAGTTATTAATATTCTAAAAATTGATAACTAAGA
63 CATACAAGCTTATTAG-AATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGA
* * *** * * * *
229915 GATTTAAAAAGTGAATCGGTTTACTAAACAAGTTTAAATAATTATGA-TTA
127 GATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACTTA
* * * * ** ** *
229965 TTTGAATAATTTTCTATTTGAAATC-GCTAGAACCTTTTGCTT-TGTCATAAAATGATTTTTTCT
1 --TGAATAATTATCTATTTCAAATCATC-ATAACCTTTTATTTATGT--TAAAACAATTGTTT-T
* * *
230028 GTTCATACAAGCTTATCTCA-AATAAAATAATACAAATTTATTAATA--TTAAGACAATTAATAA
60 ATTCATACAAGCTTAT-T-AGAATAAAATAATACTAATTTAATAATATTTTAA-A-AATTAATAA
** * * * *
230090 GTAAA-AGATTTAAAAAATAAATCTGTTTACTAAACAAGTTCAAATCA-ATATGACTATT
121 G-AAAGAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAAT-AGTTAAGACT-TA
* * * ** * * * ** *
230148 TAAACAATTATTTATTTCAAATTGTTATGAA-TTTTTGTTTTATCATAAAACAATTGTTTTTGTT
1 TGAATAATTATCTATTTCAAATCATCAT-AACCTTTT-ATTTATGTTAAAACAATTG-TTTTATT
* * * * * * *
230212 CATACAAACTTATTTGGAATAAAATAATATTAATTTATTAATATTTTGACAATTTATAAGTAAA-
63 CATACAAGCTTA-TTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAG-AAAG
* * * * *
230276 AGATTTGAAAAATAAATAT-GTT--T-----A--TC---T--TTGA-ACTATT
126 AGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
** * * ** * * *
230313 TGAATAATTATCTATTTCAAATCATTGTGACCTTTTGTTTTATAATAAAATAATTGTTTCAATTT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTT-ATTTATGTTAAAACAATTGTTT-TATTC
* ** * * * * ** * *
230378 ATATAAGCCCATTTGAAATAAAATAATATTAATTGATTAATATTCCAAAAATTAAAAAGTAAGAG
64 ATACAAGCTTATTAG-AATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGAG
* * * ** * * * * *
230443 AATTAAAAAAAATGAATTTGCTTACCAATCAAGTTGAAATAGTTATGAC-TA
128 -ATT-TAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACTTA
* * * * * * * * *
230494 TCTAAGTAATTATCTATTT-AAAACATTATGACTTTTTGTTT-TGTCATAAAATAATCGGTTCTA
1 T-GAA-TAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAAT-TGTTTTA
* * * * *
230557 TTCATGCAAGCATATTTTGAATAAAATAATA-TAAATTTATTAATATTCTAAAAATTAATAAGTA
61 TTCATACAAGCTTA-TTAGAATAAAATAATACT-AATTTAATAATATTTTAAAAATTAATAAG-A
* * * * * * *
230621 AA-A-TTTTAGAAAATAAAGCTATTTTCTGAATA-C-GTTCAAATAGTTATGA-TATT
123 AAGAGATTTAAAAAATAAATCTAATTACT-AA-ACCAGTTCAAATAGTTAAGACT-TA
* * * * * * *
230674 TGAAATAATGATCTATTTCAAATCATTATGACCATTTGTTT-TGTCATAAACTAATTGTTTCTGT
1 TG-AATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGTTA-AAAC-AATTGTTT-TAT
* * * * * **
230738 TCAAACAAGATTATTTGGAATAAAATAATTCTAATTTATTAATA-TTCCAAAATTAATAAGTAAA
62 TCATACAAGCTTA-TTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAG-AAA
* * ** * * * *
230802 -ATATTTAAAAAATAAATTTGTTTACTGAGCCAGTTCAAATAGTTATGA-TTGCT
125 GAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACTT--A
* * * * * * *
230855 TGAACAATTATTTATTTCAAATCGTTATGATCTTTTGTTT-TGTCATAAAACAATTGTCTCTT-T
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATTGT-T-TTAT
* * * * * **
230918 TCATACAAGTTTATTTGGAATAAAATAATACTAATTTATTAACATTCTAAAAATTAATAAG-TTG
62 TCATACAAGCTTA-TTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAG
* * * * * * *
230982 AAGATTTAAAAAATTAATC-AGTTTACCAAACAAGTTCAAATAGTCATGTCCATT-
126 -AGATTTAAAAAATAAATCTA-ATTACTAAACCAGTTCAAATAGTTAAG-AC-TTA
** * * ** * * *
231036 TGAACT-ATTATCTATTTCAAATTGTTATGATATTTTGTTT-GGTCGTAAAAC-ATTTTTTGCTA
1 TGAA-TAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATTGTTT--TA
** * * * *
231098 TT-ATACAAAATTATTTATAATAAAATAATACTAATTTATTACTATTTCAAAAATTAAT----AA
61 TTCATACAAGCTTA-TTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAA
* ** ** * * * *
231158 GAGATCTAAAAGCTAAATCTCTTTACCAAACCAGTTTAAATATTTATA-ACTATT
125 GAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTA-AGACT-TA
* * * * ** * * * * * * *
231212 TAAACAACTATCTATCTCAAATTGTTATGATC-TTTGTTT-TGCCCTAAAACATTTGTTTCTGTT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATG--TTAAAACAATTGTTT-TATT
* * ** * * *
231275 CATACAAGCTTATTCAGAGTAAAATATTGTTAAGTTAATATTATATTCTAAAAATTAATAAGTAA
63 CATACAAGCTTATT-AGAATAAAATAATACTAATTTAATA--ATATTTTAAAAATTAATAAGAAA
* ** ** * * * * *
231340 G-GATTTAAAAAATAAATGTGTTTGTTGATCTAGCTC-AA-AGTTAAAAC-TA
125 GAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACTTA
* * * *
231389 TTAAAATAATTATCTATTTCAAATCATTC-TGACCTTTTATTTA-GTCATAAAATAATTGTTTCA
1 -T-GAATAATTATCTATTTCAAATCA-TCATAACCTTTTATTTATGT--TAAAACAATTGTTTTA
* * * * * ** *
231452 GTTCATACATGCTTGTTCCA-AATAAAATAATTA-TAATTTATTAACAATCAAAAAATTAATGAG
61 -TTCATACAAGCTTATT--AGAATAAAATAA-TACTAATTTAATAATATTTTAAAAATTAATAAG
* * * ** ** * *
231515 CAAGAAATTTAAAAAAATAAATTTGTTTAC-AGAATAAGTTCAAATAGTTATGACTATT
122 AAAGAGATTT-AAAAAATAAATCTAATTACTA-AACCAGTTCAAATAGTTAAGACT-TA
* * * ** * *
231573 TGAATAATTATATATCTAAAATCA-C-TATACCTTTTTATTTTATCATAAAACAATTGTTTCAGA
1 TGAATAATTATCTATTTCAAATCATCATA-ACC-TTTTA-TTTATGTTAAAACAATTGTTTTA-T
* * * * * **
231636 TCATAAAAGCTTATCCCA-AATAAAATAATA-TTACTTAATTAATATTTTAAAAATTGATAATTT
62 TCATACAAGCTTAT--TAGAATAAAATAATACTAATTTAA-TAATATTTTAAAAATTAATAA-GA
* * * * * * * *
231699 AA-AGA-TTAAAACATAAATC-AGTTTA-TCGAATCAGTTAAAATAATTATGGCCATT-
123 AAGAGATTTAAAAAATAAATCTA-ATTACT-AAACCAGTTCAAATAGTTA-AGAC-TTA
* * *
231753 TGAACATTTATCTATTTCAAATCATTATGAA-CTTTT-TTT-TGTCATAAAACAATTGTTTT-TC
1 TGAATAATTATCTATTTCAAATCATCAT-AACCTTTTATTTATGT--TAAAACAATTGTTTTAT-
* * * * * *
231814 ATCATACTAGCCTATTCGTAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAA
62 -TCATACAAGCTTATTAG-AATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAA
* ** ** * * * *
231879 GAGATTTAAAAAATAAATTTGTTTACCGAACTAATTCAAATAGTTATGACTATT
125 GAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
* * ** * * *
231933 TG--T-ATT-TCAATTTC---T--T-ATAACCTTTTGTTCTATCATAAAATAATTATTTTTGTTC
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATT-TATGTTAAAACAATT-GTTTTATTC
* * * * * * * ** *
231988 AAACAAGTTTATTCAAAATAAAATAATACTAATGTAATAATAATTTGAAATTTAATAACTAATAG
64 ATACAAGCTTATT-AGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGAG
* * ** * * *
232053 ATTTAAAAAATAATTTTTTTTGCTAAACTAGTTCAAATAGTTAAGGCTATA
128 ATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
* * * * ** * * * * *
232104 TGAACAATTCTTTATTTTAAATTGTTATGACATTTTGTTTTAT-TGTAAAATAATT-TTTTCAGT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTT-ATTTATGT-TAAAACAATTGTTTT-A-T
* ** * * *
232167 TCTTACTAA-CTTATTTAGAATAAAATAA-AAAAATTTTATTAATATTTCAAAAATTAATCAA-T
62 TCATAC-AAGCTTA-TTAGAATAAAATAATACTAA-TTTAATAATATTTTAAAAATTAAT-AAGA
* * * ** * * * * *
232229 AAGAGATTTAATAAATAATTTTGTTTACTGAACCAGTTGAAATAATTATGACTATT
123 AAGAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
** * * * * *
232285 TGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTT-TGTCATAAAACAAATGTTTTTGTT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATTG-TTTTATT
* * * * * * * *
232349 CAAATAAGTTTGTTTGAAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAGA
63 CATACAAGCTTATTAG-AATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGA
* * ** * * *
232414 GAATTAAAAAATAAATTTGTTTACTAAACTAGTTCAATTAGTTATA-ACTATT
127 GATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTA-AGACT-TA
* * * * * * * * *
232466 TGAACAATCATTTATTTCAAATCGTTATGA-CTATTTGTTT-TGTTATAAAATAATTGTTTTTGT
1 TGAATAATTATCTATTTCAAATCATCATAACCT-TTTATTTATG-T-TAAAACAATTG-TTTTAT
* * * * * * * *
232529 TCATACTATCTTATTTAAAATAAAGTAATGCTAATTTATTAATATTCTAAAAATTAATAAGTAAT
62 TCATACAAGCTTA-TTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAG-AAA
* * * * * * *
232594 G-GATTTAAAAAA-AGAATCT-TTTAGCCT-AACCAATGCAAATAGATATGATTGTT
125 GAGATTTAAAAAATA-AATCTAATTA--CTAAACCAGTTCAAATAGTTAAGACT-TA
* * * * *** * *
232647 TGAACAATTATCTATTTTAAATCGTTATAACCATTTGT-TTTATCACAAAACAATTATTTTTGTT
1 TGAATAATTATCTATTTCAAATCATCATAACC-TTT-TATTTATGTTAAAACAATT-GTTTTATT
* * * * * *
232711 CGTACAAGCTTATTTGAAATAATATAATTCTAATTT-ATCAATATTCTAGAAATTAAT----AAG
63 CATACAAGCTTATTAG-AATAAAATAATACTAATTTAAT-AATATTTTAAAAATTAATAAGAAAG
* * * * *
232771 AGATTTAAAAAATGAATCT-GTTCACTGAACAAGTTTAAATAGTTATA-A-TTA
126 AGATTTAAAAAATAAATCTAATT-ACTAAACCAGTTCAAATAGTTA-AGACTTA
* * ** *
232822 TTTAAAAAATTATCTATTTCAAATCA-CTATAACCTTTGT-TTTATCATAAAAAAATT-TATTCT
1 --TGAATAATTATCTATTTCAAATCATC-ATAACCTTT-TATTTATGTTAAAACAATTGT-TT-T
* ** **
232884 ATTCATAGAAGCTTATTTCA-AATAAAATAATA-TAAATTTGTTAATATTCAAAAAATTAATAAG
60 ATTCATACAAGCTTA-TT-AGAATAAAATAATACT-AATTTAATAATATTTTAAAAATTAATAAG
* * * * ** * *
232947 TAAA-AAATTTTAAAAATAAATCTATTTACCAAATAAGTTTAAATAGTTATGAC-TA
122 -AAAGAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACTTA
** * * ** * * * * * *
233002 GTTGAACCATTATTTATTTTAAATTGTTATGACTTTTTGTTT-TGTCATAAAATAATTGTTTCTG
1 --TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATTGTTT-TA
* * * *
233066 TTCATACAAGCTTATTCAGATTAAAATAATATTAATTTATTAATA-TTTAGATAATTAATAAGTA
61 TTCATACAAGCTTATT-AGAATAAAATAATACTAATTTAATAATATTTTA-AAAATTAATAAG-A
* * * * * * * * *
233130 AA-ATATTTTAAAAATAAATATATTTACTGAACAAGTCCAAATAGTCATA-ACTATT
123 AAGAGATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTA-AGACT-TA
* * * * * * * * * * ***
233185 TAAATAACTATCAACTTCAAATCGTTATGACCTTTTGTTT-TGTTATAAAATAATTGCATCGGTT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATG-T-TAAAACAATTG-TTTTATT
* * * * * * *
233249 CATATAGGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATGAGCAAGA
63 CATACAAGCTTATTAG-AATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGA
* * * * * * *
233314 GATTTAAAAAATGAATCTATTTACGAAACAAGTTCAAATCGTTATGACTATT
127 GATTTAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACT-TA
* * * * * * * *
233366 TGGACAATTATTTATTTCAAATCGTTATGACATTTT-GTTATGTCATAAAACAATTGTTTCTATT
1 TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGT--TAAAACAATTGTTT-TATT
* * * ** *
233430 CATACAAGCTTATTTTGAATAAAATAATA-TAAATTTATTAAT-TTTCCAAATTTTATTAAGTAA
63 CATACAAGCTTA-TTAGAATAAAATAATACT-AATTTAATAATATTT-TAAAAATTAATAAG-AA
** ** * * *
233493 A-A-ATTT-AAAAATAAATCT-ATTTTTTGA-CACGTTTAAATAGTTATGACTATT
124 AGAGATTTAAAAAATAAATCTAATTACTAAACCA-GTTCAAATAGTTAAGACT-TA
* * * * * * *
233544 TGAACAATTATTTAGTTCAAAT-ATTTATGACCTTTTGTTT-TGTCGTAAACCAATTGTTTCTAT
1 TGAATAATTATCTATTTCAAATCA-TCATAACCTTTTATTTATGT--TAAAACAATTGTTT-TAT
* * * * * *
233607 TCATATAAGCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATATGTAAA
62 TCATACAAGCTTATTAG-AATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAG-AAA
*
233672 -AGATTTAAGAAATAAAT
125 GAGATTTAAAAAATAAAT
233689 TTGTTTACTG
Statistics
Matches: 4066, Mismatches: 935, Indels: 769
0.70 0.16 0.13
Matches are distributed among these distances:
164 9 0.00
165 97 0.02
166 4 0.00
167 10 0.00
168 3 0.00
169 2 0.00
170 7 0.00
171 110 0.03
172 6 0.00
173 10 0.00
174 101 0.02
175 36 0.01
176 174 0.04
177 95 0.02
178 181 0.04
179 223 0.05
180 817 0.20
181 1590 0.39
182 292 0.07
183 62 0.02
184 4 0.00
185 2 0.00
187 2 0.00
188 12 0.00
189 8 0.00
190 6 0.00
191 11 0.00
192 10 0.00
193 2 0.00
194 15 0.00
195 6 0.00
196 9 0.00
197 4 0.00
198 5 0.00
199 3 0.00
200 4 0.00
201 10 0.00
202 4 0.00
203 10 0.00
204 6 0.00
205 6 0.00
206 2 0.00
207 2 0.00
208 4 0.00
209 10 0.00
210 5 0.00
211 12 0.00
212 10 0.00
213 10 0.00
214 12 0.00
215 7 0.00
216 16 0.00
218 1 0.00
219 1 0.00
221 4 0.00
222 2 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (177 bp):
TGAATAATTATCTATTTCAAATCATCATAACCTTTTATTTATGTTAAAACAATTGTTTTATTCAT
ACAAGCTTATTAGAATAAAATAATACTAATTTAATAATATTTTAAAAATTAATAAGAAAGAGATT
TAAAAAATAAATCTAATTACTAAACCAGTTCAAATAGTTAAGACTTA
Found at i:229156 original size:181 final size:181
Alignment explanation
Indices: 228831--233772 Score: 3433
Period size: 181 Copynumber: 27.6 Consensus size: 181
228821 CAAATTCAAA
* * * * * * * * * *
228831 TAAGTGATTTAAAAAGTGAATATATTTACTGAA-TCAATTTAAATTA-TTATGGCCATTTCAATA
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACT-AATTCAAA-TAGTTATGACTATTTGAACA
* * * * ** * *
228894 ATTATCTATTTCAAATTGTTATTACCATTTGTTTGGTCATATGACAATTATTTTTGA-TCATACA
64 ATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT-ATTCATACA
* * *
228958 AGCTTATTTGGAATAAAATAATACTAATTTATTAATCTTTCAAAAATTAGTAAG
128 AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * *
229012 TAAGATAGTTAAAAAATAAATATGTTTACCAAACTAATTCAAATAGTTATGACTATTTGAGCAAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * * * *
229077 TGTATACTTT-AAATTGTTATAACCTTTTATTGTATCATAAAACAATTATTTCTATTCATACAAG
66 TATCTA-TTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
** ** * ** *
229141 CTTATTCAAAATAAAATAATACTAATCCAATAATATTTTGAAAATTAATAAC
130 CTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * *
229193 TAAGAGATTTAAAAAATAAAATTAT-TTT-TTGAACTAGTTCAAATAGCTAAGACTATATGAACA
1 TAAGAGATTTAAAAAAT-AAA-TATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACA
* * * * * *
229256 ATTATCTATTTTAAATCATTATGACCTTTCGTTTTATCATAAAACAATAT-TTTCAATTCATACT
64 ATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAAT-TGTTTCTATTCATACA
* * *
229320 AGCTTATTT-AGAATAAAATAA-AATAAATTTATTAATATTTTAAAAATTAATGAG
128 AGCTTATTTGA-AATAAAATAATACT-AATTTATTAATATTTCAAAAATTAATAAG
* * * * * * *
229374 TAAGAGATTTAAAAAATAATTTTGTTTACCTAATC-AGTTCAAATAATTATGACTATTTGAGCAT
1 TAAGAGATTTAAAAAATAAATATGTTTA-CTAAACTAATTCAAATAGTTATGACTATTTGAACAA
** * * * * *
229438 TTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCATAAAACAAATGTTTTTGTTCGTATAAG
65 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
* * * * *
229503 TTTGTTCGGAATAAAATAATACTAATCTATTAATATTTCAAAAATTAATAAG
130 CTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * * *
229555 ---CA-ATTTAAAAATTAAATCTATTTA-TCAAACTGATTC-AA-A-TTAAGACTATTT-AAGTA
1 TAAGAGATTTAAAAAATAAATATGTTTACT-AAACTAATTCAAATAGTTATGACTATTTGAA-CA
* * * * * * * * *
229611 ATTA-CTTATTTCAAATTGTTATGACTTTTTGTTCTATTATAAAACAATAGTTTTTGTTCATTCA
64 ATTATC-TATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACA
* * * * * ** *
229675 AGCTTACTCGAATTAAAATAACACAAATTTATTAATATTTTGACAATTAATAAG
128 AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * * * * * *
229729 TAAAAAATGTAAAAAAATAAATATGTATATTGAACTAGATT-AAACAATCATGACTATTTGAATA
1 TAAGAGAT-TTAAAAAATAAATATGTTTACTAAACTA-ATTCAAATAGTTATGACTATTTGAACA
* * * * * *
229793 ATTATCTATTAT-AAATCGTTATGACCTTTTCTTCTATCATAAAA-AATTATTTCAATTCATATA
64 ATTATCTATT-TCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACA
* * * * *
229856 AGCTTATTAGAAATAAAATAATATTAAGTTATTAATA-TTCTAAAAATTGATAAC
128 AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAG
* * ** * * * *
229910 TAAGAGATTTAAAAAGTGAATCGGTTTACTAAAC-AAGTTTAAATAATTATGATTATTTGAATAA
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAACAA
* * * * ** * *
229974 TTTTCTATTTGAAATCGCTA-GAACCTTTTGCTTTGTCATAAAATGATTTTTTCTGTTCATACAA
65 TTATCTATTTCAAATCGTTATG-ACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAA
* * *
230038 GCTTATCTCAAATAAAATAATACAAATTTATTAATA-TT-AAGACAATTAATAAG
129 GCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAA-A-AATTAATAAG
* * * *
230091 TAAAAGATTTAAAAAATAAATCTGTTTACTAAAC-AAGTTCAAATCA-ATATGACTATTTAAACA
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAA-TTCAAAT-AGTTATGACTATTTGAACA
* * ** * * *
230154 ATTATTTATTTCAAATTGTTATGAATTTTTGTTTTATCATAAAACAATTGTTTTTGTTCATACAA
64 ATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAA
* * * ** * *
230219 ACTTATTTGGAATAAAATAATATTAATTTATTAATATTTTGACAATTTATAAG
129 GCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * *
230272 TAAAAGATTTGAAAAATAAATATGTTTA-T---C---TT----T-G--A--ACTATTTGAATAAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * * * *
230321 TATCTATTTCAAATCATTGTGACCTTTTGTTTTATAATAAAATAATTGTTTCAATTTATATAAGC
66 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGC
** * * * *
230386 CCATTTGAAATAAAATAATATTAATTGATTAATATTCCAAAAATTAAAAAG
131 TTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * * * *
230437 TAAGAGAATTAAAAAAAATGAATTTGCTTACCAATC-AAGTTGAAATAGTTATGACTATCT-AAG
1 TAAGAG-ATT-TAAAAAATAAATATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAA-
* * * * * * * *
230500 TAATTATCTATTT-AAAACATTATGACTTTTTGTTTTGTCATAAAATAATCGGTTCTATTCATGC
62 CAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAC
*
230564 AAGCATATTTTG-AATAAAATAATA-TAAATTTATTAATA-TTCTAAAAATTAATAAG
127 AAGCTTA-TTTGAAATAAAATAATACT-AATTTATTAATATTTC-AAAAATTAATAAG
* * *
230619 TAA-A-ATTTTAGAAAATAAAGCTAT-TTT-CTGAA-TACGTTCAAATAGTTATGA-TATTTGAA
1 TAAGAGA-TTTAAAAAATAAA--TATGTTTACTAAACTA-ATTCAAATAGTTATGACTATTTG-A
* * * * * *
230678 ATAATGATCTATTTCAAATCATTATGACCATTTGTTTTGTCAT-AAACTAATTGTTTCTGTTCAA
61 ACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAAC-AATTGTTTCTATTCAT
* * * *
230742 ACAAGATTATTTGGAATAAAATAATTCTAATTTATTAATA-TTCCAAAATTAATAAG
125 ACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * * * * **
230798 TAAAATATTTAAAAAATAAATTTGTTTACTGAGCCAGTTCAAATAGTTATGATTGCTTGAACAAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * *
230863 TATTTATTTCAAATCGTTATGATCTTTTGTTTTGTCATAAAACAATTGTCTCTTTTCATACAAGT
66 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGC
* *
230928 TTATTTGGAATAAAATAATACTAATTTATTAACA-TTCTAAAAATTAATAAG
131 TTATTTGAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAG
* * * * * *
230979 T-TGAAGATTTAAAAAATTAATCA-GTTTACCAAAC-AAGTTCAAATAGTCATGTCCATTTGAAC
1 TAAG-AGATTTAAAAAATAAAT-ATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAAC
* * ** * * *
231041 TATTATCTATTTCAAATTGTTATGATATTTTGTTTGGTCGTAAAAC-ATTTTTTGCTATT-ATAC
63 AATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT-CTATTCATAC
** *
231104 AAAATTATTT-ATAATAAAATAATACTAATTTATTACTATTTCAAAAA-T--TAA-
127 AAGCTTATTTGA-AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* ** * * * * * * * * * *
231155 TAAGAGATCTAAAAGCTAAATCTCTTTACCAAACCAGTTTAAATATTTATAACTATTTAAACAAC
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * * *
231220 TATCTATCTCAAATTGTTATGATC-TTTGTTTTGCCCTAAAACATTTGTTTCTGTTCATACAAGC
66 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGC
* * * ** * * *
231284 TTA-TTCAGAGTAAAATATTGTTAAGTTAATATTATATTCTAAAAATTAATAAG
131 TTATTTGA-AATAAAATAATACTAATTTATTAATAT-TTC-AAAAATTAATAAG
* ** * * ** ** ** *
231337 TAAG-GATTTAAAAAATAAATGTGTTTGTTGATCTAGCTC-AA-AGTTAAAACTATTAAAATAAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * *
231399 TATCTATTTCAAATCATTCTGACCTTTTATTTAGTCATAAAATAATTGTTTC-AGTTCATACATG
66 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAG
* ** * * *
231463 CTTGTTCCAAATAAAATAATTA-TAATTTATTAACA-ATCAAAAAATTAATGAG
130 CTTATTTGAAATAAAATAA-TACTAATTTATTAATATTTC-AAAAATTAATAAG
* * * *
231515 CAAGAAATTTAAAAAAATAAATTTGTTTAC-AGAA-TAAGTTCAAATAGTTATGACTATTTGAAT
1 TAAGAGATTT-AAAAAATAAATATGTTTACTA-AACTAA-TTCAAATAGTTATGACTATTTGAAC
* * * ** * * *
231578 AATTATATATCTAAAATCACTAT-ACCTTTTTATTTTATCATAAAACAATTGTTTC-AGATCATA
63 AATTATCTATTTCAAATCGTTATGACC-TTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATA
* *** * * * * * *
231641 AAAGCTTATCCCAAATAAAATAATATTACTTAATTAATATTTTAAAAATTGATAATT
126 CAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAA-G
* * * * * * * *
231698 TAA-AGA-TTAAAACATAAATCA-GTTTATCGAATC-AGTTAAAATAATTATGGCCATTTGAACA
1 TAAGAGATTTAAAAAATAAAT-ATGTTTA-CTAAACTAATTCAAATAGTTATGACTATTTGAACA
* * * * *
231759 TTTATCTATTTCAAATCATTATGAACTTTT-TTTTGTCATAAAACAATTGTTTTTCA-TCATACT
64 ATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT-ATTCATACA
* * * * *
231822 AGCCTATTCGTAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAG
128 AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* ** *
231876 TAAGAGATTTAAAAAATAAATTTGTTTACCGAACTAATTCAAATAGTTATGACTATTTG---TAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * * * * * *
231938 T-TC-AATT----TC-TTATAACCTTTTGTTCTATCATAAAATAATTATTTTTGTTCAAACAAGT
66 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGC
** * * * * *
231996 TTATTCAAAATAAAATAATACTAATGTAATAATAATTT-GAAATTTAATAAC
131 TTATTTGAAATAAAATAATACTAATTTATTAAT-ATTTCAAAAATTAATAAG
* * * * * * * * *
232047 TAATAGATTTAAAAAATAATTTTTTTTGCTAAACTAGTTCAAATAGTTAAGGCTATATGAACAAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * * ** * * *
232112 TCTTTATTTTAAATTGTTATGACATTTTGTTTTATTGTAAAATAATTTTTTC-AGTTCTTACTAA
66 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATAC-AA
**
232176 -CTTATTT-AGAATAAAATAA-AAAAATTTTATTAATATTTCAAAAATTAATCAA-
129 GCTTATTTGA-AATAAAATAATACTAA-TTTATTAATATTTCAAAAATTAAT-AAG
* * * * * * * * *
232228 TAAGAGATTTAATAAATAATTTTGTTTACTGAACCAGTTGAAATAATTATGACTATTTGAATAAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * * *
232293 TATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACAAATGTTTTTGTTCAAATAAGT
66 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGC
* * *
232358 TTGTTTGAAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAG
131 TTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * *
232409 TAAGAGAATTAAAAAATAAATTTGTTTACTAAACTAGTTCAATTAGTTATAACTATTTGAACAAT
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
* * * * * * * *
232474 CATTTATTTCAAATCGTTATGA-CTATTTGTTTTGTTATAAAATAATTGTTTTTGTTCATACTAT
66 TATCTATTTCAAATCGTTATGACCT-TTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
* * *
232538 CTTATTTAAAATAAAGTAATGCTAATTTATTAATA-TTCTAAAAATTAATAAG
130 CTTATTTGAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAG
* * * * * *
232590 TAATG-GATTTAAAAAA-AGAATCT-TTTAGCCT-AACCAATGCAAATAGATATGATTGTTTGAA
1 TAA-GAGATTTAAAAAATA-AATATGTTTA--CTAAACTAATTCAAATAGTTATGACTATTTGAA
* * * * * * * * *
232651 CAATTATCTATTTTAAATCGTTATAACCATTTGTTTTATCACAAAACAATTATTTTTGTTCGTAC
62 CAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAC
* * * *
232716 AAGCTTATTTGAAATAATATAATTCTAATTTATCAATA-TTCTAGAAA-T--TAA-
127 AAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAG
* * * * * * * * *
232767 TAAGAGATTTAAAAAATGAATCTGTTCACTGAAC-AAGTTTAAATAGTTATAATTATTTAAAAAA
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAACAA
** * * * *
232831 TTATCTATTTCAAATCACTATAACC-TTTGTTTTATCATAAAAAAATT-TATTCTATTCATAGAA
65 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGT-TTCTATTCATACAA
* *
232894 GCTTATTTCAAATAAAATAATA-TAAATTTGTTAATA-TTCAAAAAATTAATAAG
129 GCTTATTTGAAATAAAATAATACT-AATTTATTAATATTTC-AAAAATTAATAAG
* * * * * * * * *
232947 TAAAAAATTTTAAAAATAAATCTATTTACCAAA-TAAGTTTAAATAGTTATGACTAGTTGAACCA
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAACAA
* * * * * *
233011 TTATTTATTTTAAATTGTTATGACTTTTTGTTTTGTCATAAAATAATTGTTTCTGTTCATACAAG
65 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
* * * *
233076 CTTA-TTCAGATTAAAATAATATTAATTTATTAATATTT-AGATAATTAATAAG
130 CTTATTTGA-AATAAAATAATACTAATTTATTAATATTTCA-AAAATTAATAAG
* * * * * * * * * *
233128 TAAAATATTTTAAAAATAAATATATTTACTGAAC-AAGTCCAAATAGTCATAACTATTTAAATAA
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAACAA
* * * * * ** ** * *
233192 CTATCAACTTCAAATCGTTATGACCTTTTGTTTTGTTATAAAATAATTGCATCGGTTCATATAGG
65 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
*
233257 CTTATTTGAAATAAAATAATACTAATTTATTAATA-TTCTAAAAATTAATGAG
130 CTTATTTGAAATAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAAG
* * * * * * *
233309 CAAGAGATTTAAAAAATGAATCTATTTACGAAAC-AAGTTCAAATCGTTATGACTATTTGGACAA
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAACAA
* * *
233373 TTATTTATTTCAAATCGTTATGACATTTTGTTATGTCATAAAACAATTGTTTCTATTCATACAAG
65 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG
** *
233438 CTTATTTTG-AATAAAATAATA-TAAATTTATTAAT-TTTCCAAATTTTATTAAG
130 CTTA-TTTGAAATAAAATAATACT-AATTTATTAATATTT-CAAAAATTAATAAG
* * * ** *
233490 TAA-AAATTT-AAAAATAAATCTATTTTTTGACACGT--TT-AAATAGTTATGACTATTTGAACA
1 TAAGAGATTTAAAAAATAAATATGTTTACT-AAAC-TAATTCAAATAGTTATGACTATTTGAACA
* * ** * * *
233550 ATTATTTAGTTCAAATATTTATGACCTTTTGTTTTGTCGTAAACCAATTGTTTCTATTCATATAA
64 ATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAA
* * *
233615 GCTTATTCGAAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATATG
129 GCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
* * * * * * * * *
233668 TAAAAGATTTAAGAAATAAATTTGTTTACTGAGC-AAGCTCAAATAGTTATGACTGTTTAAACAG
1 TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAA-TTCAAATAGTTATGACTATTTGAACAA
* * *
233732 TTATTTATTTCAAATAGTTATGATCTTTTGTTTTGTCATAA
65 TTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAA
233773 CTATTTGACA
Statistics
Matches: 3766, Mismatches: 796, Indels: 398
0.76 0.16 0.08
Matches are distributed among these distances:
165 109 0.03
166 3 0.00
167 15 0.00
170 11 0.00
171 116 0.03
172 4 0.00
173 2 0.00
174 113 0.03
175 29 0.01
176 181 0.05
177 101 0.03
178 161 0.04
179 243 0.06
180 628 0.17
181 1728 0.46
182 288 0.08
183 34 0.01
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (181 bp):
TAAGAGATTTAAAAAATAAATATGTTTACTAAACTAATTCAAATAGTTATGACTATTTGAACAAT
TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGC
TTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
Found at i:232301 original size:16 final size:17
Alignment explanation
Indices: 232269--232301 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
232259 AACCAGTTGA
232269 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
232287 AATAATTAT-CTATTT
1 AATAATTATACTATTT
232302 CAAATTGTTA
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:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:239918 original size:9 final size:9
Alignment explanation
Indices: 239904--239955 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
239894 TGAAAATTTT
239904 TTTTGATGA
1 TTTTGATGA
*
239913 TTTTGATGG
1 TTTTGATGA
*
239922 TATTGATGA
1 TTTTGATGA
*
239931 -CTTGATGA
1 TTTTGATGA
*
239939 TATTGATGA
1 TTTTGATGA
239948 TTTTGATG
1 TTTTGATG
239956 GTATAAACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (9 bp):
TTTTGATGA
Found at i:239937 original size:17 final size:18
Alignment explanation
Indices: 239906--239959 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
239896 AAAATTTTTT
*
239906 TTGATGATTTTGATGGTA
1 TTGATGATCTTGATGGTA
*
239924 TTGATGA-CTTGATGATA
1 TTGATGATCTTGATGGTA
*
239941 TTGATGATTTTGATGGTA
1 TTGATGATCTTGATGGTA
239959 T
1 T
239960 AAACCAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (18 bp):
TTGATGATCTTGATGGTA
Found at i:239944 original size:26 final size:26
Alignment explanation
Indices: 239906--239955 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
239896 AAAATTTTTT
* *
239906 TTGATGATTTTGATGGTATTGATGAC
1 TTGATGATATTGATGATATTGATGAC
*
239932 TTGATGATATTGATGATTTTGATG
1 TTGATGATATTGATGATATTGATG
239956 GTATAAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (26 bp):
TTGATGATATTGATGATATTGATGAC
Found at i:240055 original size:26 final size:26
Alignment explanation
Indices: 240016--240067 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
240006 AATTTATGCT
240016 TAAATTCAGAGGGAGCTTGTTTTTCA
1 TAAATTCAGAGGGAGCTTGTTTTTCA
* *
240042 TAAATTTAGGGGGAGCTTGTTTTTCA
1 TAAATTCAGAGGGAGCTTGTTTTTCA
240068 AATAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (26 bp):
TAAATTCAGAGGGAGCTTGTTTTTCA
Found at i:241902 original size:175 final size:177
Alignment explanation
Indices: 241498--241930 Score: 457
Period size: 175 Copynumber: 2.4 Consensus size: 177
241488 AAGACTATTA
* * * * * * * *
241498 GAATAATTACCAATTTCAAATTGTTATAACCTTTTATTTAGTCGTAAAATAATTGTCTCAGTTCA
1 GAATAATTATCTATTTCAAATCGTTATAACCTTTAATTT-TTCATAAAATAATTGTTTCAATTCA
* * * *
241563 TATAAGTTTATTCAGAATAAAATAATACTAATTTATTAACATTCAAAAAAATTAATAAGCAAGAG
65 TAAAAGCTTATCCAGAAAAAAATAATACTAATTTATTAACATTC-AAAAAATTAAT-A--AAGAG
* * * **
241628 ATTTGAAAAATAAATCTGCTTATCGAACAAGTTCAAATAGTTATGATTATTT
126 ATTTAAAAAATAAATCAGCTTATCGAACAAGTTCAAATAATTATGACAATTT
* * * * *
241680 GAACAATTATCTATTTAAAATCATTATGAACTTTTAATTTTTCATAAAACAATTGTTTCAATTCA
1 GAATAATTATCTATTTCAAATCGTTAT-AACCTTTAATTTTTCATAAAATAATTGTTTCAATTCA
* *
241745 TAAAAGCTTATCCA-AAAAAAATAATACTATTTTATTAATATTTC-AAAAATTAAT-AAGAGATT
65 TAAAAGCTTATCCAGAAAAAAATAATACTAATTTATTAACA-TTCAAAAAATTAATAAAGAGATT
* *
241807 TAAAAAATAAATCAGTTTA-CTGAACAA-TTCAAATAATTATGGCAATTT
129 TAAAAAATAAATCAGCTTATC-GAACAAGTTCAAATAATTATGACAATTT
* *
241855 GAATAATTATCTATTTCAAATCGTTATTACCTTTCATTTTCTCATAAAATAATTGCTTTTCAA--
1 GAATAATTATCTATTTCAAATCGTTATAACCTTTAATTTT-TCATAAAATAATTG--TTTCAATT
*
241918 CATACAAGCTTAT
63 CATAAAAGCTTAT
241931 TTGAAATAAA
Statistics
Matches: 211, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
174 10 0.05
175 67 0.32
176 30 0.14
177 6 0.03
180 10 0.05
181 23 0.11
182 55 0.26
183 10 0.05
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (177 bp):
GAATAATTATCTATTTCAAATCGTTATAACCTTTAATTTTTCATAAAATAATTGTTTCAATTCAT
AAAAGCTTATCCAGAAAAAAATAATACTAATTTATTAACATTCAAAAAATTAATAAAGAGATTTA
AAAAATAAATCAGCTTATCGAACAAGTTCAAATAATTATGACAATTT
Found at i:241953 original size:67 final size:68
Alignment explanation
Indices: 241872--242007 Score: 220
Period size: 67 Copynumber: 2.0 Consensus size: 68
241862 TATCTATTTC
* *
241872 AAATCGTTATTACCTTTCATTTTCTCATAAAATAATTGCTTTTCAACATACAAGCTTATTTGAAA
1 AAATCGTTATTACCTTTCATTTTCTCATAAAACAATTACTTTTCAACATACAAGCTTATTTGAAA
241937 TAA
66 TAA
* * *
241940 AAAT-GTTATTACCTTTCATTTTGTCATAAAACAATTATTTTTCAACCTACAAGCTTATTTGAAA
1 AAATCGTTATTACCTTTCATTTTCTCATAAAACAATTACTTTTCAACATACAAGCTTATTTGAAA
242004 TAA
66 TAA
242007 A
1 A
242008 GTAATACTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
67 59 0.94
68 4 0.06
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (68 bp):
AAATCGTTATTACCTTTCATTTTCTCATAAAACAATTACTTTTCAACATACAAGCTTATTTGAAA
TAA
Found at i:242416 original size:179 final size:179
Alignment explanation
Indices: 241963--242567 Score: 607
Period size: 181 Copynumber: 3.4 Consensus size: 179
241953 TTTCATTTTG
* * * *
241963 TCATAAAACAATTATTTTTCAACCTACAAGCTTATTTGAAATAAAGTAATACTAATTTATTAATA
1 TCATAAAACAATTATTTTTC-TCATACAAGTTTATTTGAAATAAAATAATACTAATTTATTAATA
* * * *
242028 TTTCAAGAA--T-T-AGTAATAGATTTAAAAAATAAATCTGTTTACCGAACTAGTTCAAATAGTT
65 TTTCAA-AATTTATAAGTAAAAGATTTAAAAAATAAATCTGTTTACCAAACCAGTTCAAACAGTT
* *
242089 ATGACTATTTGAACAATTATCTATTTCAAATAGTTATAACCTTTTGCTTTA
129 AAGACTATATGAACAATTATCTATTTCAAATAGTTATAACCTTTTGCTTTA
* * *
242140 TCATAAAATAATTATTTCTTTTCATGCAAGTTTATTTGAAATAAAATAATACTAATTTCA-TAAT
1 TCATAAAACAATTATTT-TTCTCATACAAGTTTATTTGAAATAAAATAATACTAATTT-ATTAAT
* * * * * *
242204 ATTTTGAAAATTCATAACTAAGAGATCTAAAAAATAAATCTGTTTGCCAAACCAGTTCAAACAGT
64 A-TTTCAAAATTTATAAGTAAAAGATTTAAAAAATAAATCTGTTTACCAAACCAGTTCAAACAGT
* * * *
242269 TAAGGCTGTATGAACAATTATCTATTTCCAATCGTTATAACC-TTTG-TTTA
128 TAAGACTATATGAACAATTATCTATTTCAAATAGTTATAACCTTTTGCTTTA
* * * * *
242319 TCATAAGACAATTATTTTGTCTCATACAAGTTTATTCGGAATAAAATAAAACTAATTTGTTAATA
1 TCATAAAACAATTATTTT-TCTCATACAAGTTTATTTGAAATAAAATAATACTAATTTATTAATA
* * * * * * *
242384 TTTCAAAATTTTATAAGTAAAAGATTTAAAAAATAATTTTATTTACCGAACCATTTTAAATAAG-
65 TTTCAAAA-TTTATAAGTAAAAGATTTAAAAAATAAATCTGTTTACCAAACCAGTTCAAA-CAGT
* * * * * * * *
242448 TATA-ATTATTTGAACAATTGTCTATTTCAAATTGTTATTACTTTTTGTTTTG
128 TA-AGACTATATGAACAATTATCTATTTCAAATAGTTATAACCTTTTGCTTTA
* * * * * **
242500 TGATAAAACAATTGTTTTTGTTCATATAAGTTTGTTCAAAATAAAATAATACTAATTTATTAATA
1 TCATAAAACAATTATTTTT-CTCATACAAGTTTATTTGAAATAAAATAATACTAATTTATTAATA
242565 TTT
65 TTT
242568 AGAGACTTAA
Statistics
Matches: 350, Mismatches: 63, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
177 55 0.16
178 16 0.05
179 129 0.37
180 13 0.04
181 137 0.39
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (179 bp):
TCATAAAACAATTATTTTTCTCATACAAGTTTATTTGAAATAAAATAATACTAATTTATTAATAT
TTCAAAATTTATAAGTAAAAGATTTAAAAAATAAATCTGTTTACCAAACCAGTTCAAACAGTTAA
GACTATATGAACAATTATCTATTTCAAATAGTTATAACCTTTTGCTTTA
Found at i:250817 original size:90 final size:90
Alignment explanation
Indices: 250671--250836 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
250661 ATAGTGGATG
** * *
250671 AGGCATGTGCCCATACCAAGGCCCAGCATGTGCCAATGATGGTCGAGACATGTACCCATATCTAG
1 AGGCATGTGCCCATACCAAGGCCCAGCATGTGCCAATGATGGTCGAGACAACTACCCATACCAAG
*
250736 GGCCAGCATGCACTGATCGTAGTCA
66 GCCCAGCATGCACTGATCGTAGTCA
* * ** * **
250761 AGGCATGTGCCTATACCAAGGCCTAGCATGCT-CTGATGGTGGTCGAGGTAACTACCCATACCAA
1 AGGCATGTGCCCATACCAAGGCCCAGCATG-TGCCAATGATGGTCGAGACAACTACCCATACCAA
250825 GGCCCAGCATGC
65 GGCCCAGCATGC
250837 CTGCACTAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (90 bp):
AGGCATGTGCCCATACCAAGGCCCAGCATGTGCCAATGATGGTCGAGACAACTACCCATACCAAG
GCCCAGCATGCACTGATCGTAGTCA
Found at i:250915 original size:45 final size:44
Alignment explanation
Indices: 250866--251028 Score: 152
Period size: 45 Copynumber: 3.6 Consensus size: 44
250856 GCACTGATAA
* * *
250866 TGGTCGAGGTAAGTGCCCACACTAAGGCCTAGCATACGCTGATGG
1 TGGTC-AGGTAAGTGCCCGCACCAAGGCCTAGCATAAGCTGATGG
* * * *
250911 TGGTCAAGTCAAATGCCCGCAGCAAAGGCC-AGCATATGC-GATGG
1 TGGTCAGGT-AAGTGCCCGCA-CCAAGGCCTAGCATAAGCTGATGG
* *
250955 TGGTCACGGTAAGTACCCGTACCAAGGCCTAGCATAAG-TCGATGG
1 TGGTCA-GGTAAGTGCCCGCACCAAGGCCTAGCATAAGCT-GATGG
* *
251000 TGGTTGAGGTAACTGCCCGCACCAAGGCC
1 TGG-TCAGGTAAGTGCCCGCACCAAGGCC
251029 AACATATGCC
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 7 0.07
44 29 0.30
45 51 0.53
46 9 0.09
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.18
Consensus pattern (44 bp):
TGGTCAGGTAAGTGCCCGCACCAAGGCCTAGCATAAGCTGATGG
Found at i:251135 original size:45 final size:45
Alignment explanation
Indices: 251086--251196 Score: 107
Period size: 45 Copynumber: 2.5 Consensus size: 45
251076 TCGCCATTCA
* * *
251086 CTGATGGTGGTCGAGGC-AGATGCTCGTACCAAAGCCCAGCATGTG
1 CTGATGGTGGTCGAGGCAAG-TACCCGCACCAAAGCCCAGCATGTG
* * * * *
251131 CTGATGATGTTTGAGGTAAGTACCCGCACCAAGGCCCAGCATGTG
1 CTGATGGTGGTCGAGGCAAGTACCCGCACCAAAGCCCAGCATGTG
* * *
251176 TTGATAGTGGTCGAGGTAAGT
1 CTGATGGTGGTCGAGGCAAGT
251197 GCCCATACCA
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (45 bp):
CTGATGGTGGTCGAGGCAAGTACCCGCACCAAAGCCCAGCATGTG
Found at i:251215 original size:45 final size:44
Alignment explanation
Indices: 251113--251243 Score: 118
Period size: 45 Copynumber: 2.9 Consensus size: 44
251103 AGATGCTCGT
* * * * *
251113 ACCAAAGCCCAGCATGTGCTGATGATGTTTGAGGTAAGTACCCGC
1 ACCAAGGCCCAGCATGTGCTGATG-TGGTCGAGGTAAGTGCCCAC
* *
251158 ACCAAGGCCCAGCATGTGTTGATAGTGGTCGAGGTAAGTGCCCAT
1 ACCAAGGCCCAGCATGTGCTGAT-GTGGTCGAGGTAAGTGCCCAC
* * * ** *
251203 ACCAGGGGCCAGCTTGTGCCAATGGTGGTCGAGGTATGTGC
1 ACCAAGGCCCAGCATGTGCTGAT-GTGGTCGAGGTAAGTGC
251244 TCGTATTAGG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
45 69 0.99
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (44 bp):
ACCAAGGCCCAGCATGTGCTGATGTGGTCGAGGTAAGTGCCCAC
Found at i:251741 original size:26 final size:26
Alignment explanation
Indices: 251702--251758 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
251692 AAAACTCCTA
* * **
251702 AAAAATTTTAAAAAATCTTGAACCAT
1 AAAAACTTTAAAAAATCATGAAAAAT
*
251728 AAAAACTTTCAAAAATCATGAAAAAT
1 AAAAACTTTAAAAAATCATGAAAAAT
251754 AAAAA
1 AAAAA
251759 ATGAGTCATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.25
Consensus pattern (26 bp):
AAAAACTTTAAAAAATCATGAAAAAT
Found at i:265577 original size:45 final size:44
Alignment explanation
Indices: 265528--265692 Score: 138
Period size: 45 Copynumber: 3.7 Consensus size: 44
265518 TGTGCTGATA
* *
265528 GTGTTCGAGGTAAGTGCCTACACCAAGGGCCAGTATGCATCGATG
1 GTGTTCGAGGCAAGTGCCCACACCAAGGGCCAGTATG-ATCGATG
** * *
265573 GTGTTCGA-GTTAGATGCCCACACTAA-GTCCTAGTATG-TGCTGATG
1 GTGTTCGAGGCAAG-TGCCCACACCAAGGGCC-AGTATGAT-C-GATG
* * *
265618 GTGTTCGAGGCAAGTGCCCACACCAAAGGCCAGCATGTACCGATG
1 GTGTTCGAGGCAAGTGCCCACACCAAGGGCCAGTATG-ATCGATG
* * * *
265663 GTGGTCAAGGCAAGTGCTCGCACCAAGGGC
1 GTGTTCGAGGCAAGTGCCCACACCAAGGGC
265693 TAACATGCAC
Statistics
Matches: 97, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 8 0.08
45 81 0.84
46 7 0.07
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (44 bp):
GTGTTCGAGGCAAGTGCCCACACCAAGGGCCAGTATGATCGATG
Found at i:265735 original size:45 final size:46
Alignment explanation
Indices: 265615--265769 Score: 129
Period size: 45 Copynumber: 3.4 Consensus size: 46
265605 GTATGTGCTG
* * * * * *
265615 ATGGTGTTCGAGGCAAGTGCC-CACACCAAAGG-CCAGCATGTACCG
1 ATGGTGGTCGAGGCATGTGCCTCGCACC-AAGGCCCAACATGCACCA
* * * *
265660 ATGGTGGTCAAGGCAAGTG-CTCGCACCAAGGGCTAACATGCACCA
1 ATGGTGGTCGAGGCATGTGCCTCGCACCAAGGCCCAACATGCACCA
* * * **
265705 ATGGTGGTCGAGACATGTGCCT-GCATCAAGGCCCAGCATGCGTCA
1 ATGGTGGTCGAGGCATGTGCCTCGCACCAAGGCCCAACATGCACCA
*
265750 ATGGTGGTTGAGGCATGTGC
1 ATGGTGGTCGAGGCATGTGC
265770 ATTGTCACAG
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
44 5 0.06
45 82 0.92
46 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.19
Consensus pattern (46 bp):
ATGGTGGTCGAGGCATGTGCCTCGCACCAAGGCCCAACATGCACCA
Found at i:266596 original size:45 final size:45
Alignment explanation
Indices: 266431--266899 Score: 262
Period size: 45 Copynumber: 10.4 Consensus size: 45
266421 GCTTGCGTCA
* * * * * * * *
266431 ATGGTGGTCGAGGCAACTGCCCGTACCAAAGCCCAGCTTGCGCTG
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
* * * ** * * *
266476 ATGGTGGTCAAGGTATGTGCTCGCATTAAGGCCCTGCATGTGTCG
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
* * * ** * * ***
266521 ATAGTGATCAAGAC-AGATGCTTGCATCAAGGGCCAACATGCATCG
1 ATGGTGGTCAAGGCAAG-TGCCCGCACCAAGGGCCAGCATGTGCCG
* * * *
266566 ATGGTGGTCCAGGTAAGTGCCCGCACCAAGGCCCAGCATGGGCCG
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
* * * * * * *
266611 ATAGTGGTCTAGGCAATTG-CTGCACTATGGGCCAACATGTGCCG
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
** * * * * *
266655 ATGGTGGTTGAGGCATGTGCTCGCACTAAGGGCTAGCATGTGTCG
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
* * * * * *
266700 ATGGTGGTCAAGG-TAGATGCCTGAACCAA-GGCCTAACATTTGCCT
1 ATGGTGGTCAAGGCAAG-TGCCCGCACCAAGGGCC-AGCATGTGCCG
* * * * *
266745 ATGGTGGTCAAGGCAAGTGCCCACCCCAAGGGCCAGCTTATGTCG
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
* * * * * *
266790 ATGGTGGTCGAGGCATGTGCCCGCACCATGGGCCAGCTTGTACCA
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
* * * * *
266835 ATGGTGGTCAAGGCATGTGCTCGCACCAGGGGCCAGCTTGTGCCA
1 ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
** *
266880 ATAATGGTCAAGGCATGTGC
1 ATGGTGGTCAAGGCAAGTGC
266900 TCGTATCAGA
Statistics
Matches: 319, Mismatches: 98, Indels: 14
0.74 0.23 0.03
Matches are distributed among these distances:
44 38 0.12
45 273 0.86
46 8 0.03
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.22
Consensus pattern (45 bp):
ATGGTGGTCAAGGCAAGTGCCCGCACCAAGGGCCAGCATGTGCCG
Found at i:266680 original size:89 final size:90
Alignment explanation
Indices: 266475--266711 Score: 246
Period size: 89 Copynumber: 2.6 Consensus size: 90
266465 AGCTTGCGCT
* * *
266475 GATGGTGGTCAAGGTATGTGCTCGCATTAAGGCCCTGCATGTGTCGATAGTGATCAAGACAGATG
1 GATGGTGGTCAAGGTATGTGCTCGCACTAAGGCCCAGCATGTGTCGATAGTGGTCAAGACAGATG
*
266540 CTTGCATCAAGGGCCAACATGCATC
66 CTTGCATCAAGGGCCAACATGCACC
* * * * * * * *
266565 GATGGTGGTCCAGGTAAGTGCCCGCACCAAGGCCCAGCATGGGCCGATAGTGGTCTAGGCA-ATT
1 GATGGTGGTCAAGGTATGTGCTCGCACTAAGGCCCAGCATGTGTCGATAGTGGTCAAGACAGA-T
* **
266629 GC-TGCA-CTATGGGCCAACATGTGCC
65 GCTTGCATC-AAGGGCCAACATGCACC
** * * * *
266654 GATGGTGGTTGAGGCATGTGCTCGCACTAAGGGCTAGCATGTGTCGATGGTGGTCAAG
1 GATGGTGGTCAAGGTATGTGCTCGCACTAAGGCCCAGCATGTGTCGATAGTGGTCAAG
266712 GTAGATGCCT
Statistics
Matches: 118, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
88 1 0.01
89 64 0.54
90 53 0.45
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (90 bp):
GATGGTGGTCAAGGTATGTGCTCGCACTAAGGCCCAGCATGTGTCGATAGTGGTCAAGACAGATG
CTTGCATCAAGGGCCAACATGCACC
Found at i:266914 original size:45 final size:44
Alignment explanation
Indices: 266794--266923 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 44
266784 ATGTCGATGG
* * **
266794 TGGTCGAGGCATGTGCCCGCACCATGGGCCAGCTTGTACCAATGG
1 TGGTCAAGGCATGTGCTCGCACCA-GGGCCAGCTTGTACCAATAA
*
266839 TGGTCAAGGCATGTGCTCGCACCAGGGGCCAGCTTGTGCCAATAA
1 TGGTCAAGGCATGTGCTCGCACCA-GGGCCAGCTTGTACCAATAA
* * *
266884 TGGTCAAGGCATGTGCTCGTATCAGAGGCCAACTTGTACC
1 TGGTCAAGGCATGTGCTCGCACCAG-GGCCAGCTTGTACC
266924 GATGGTGATC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 73 0.99
ACGTcount: A:0.21, C:0.27, G:0.31, T:0.22
Consensus pattern (44 bp):
TGGTCAAGGCATGTGCTCGCACCAGGGCCAGCTTGTACCAATAA
Found at i:266914 original size:90 final size:90
Alignment explanation
Indices: 266745--266930 Score: 212
Period size: 90 Copynumber: 2.1 Consensus size: 90
266735 ACATTTGCCT
* * * ** *
266745 ATGGTGGTCAAGGCAAGTGCCCACCCCAAGGGCCAGCTTATGTCGATGGTGGTCGAGGCATGTGC
1 ATGGTGGTCAAGGCAAGTGCCCACACCAAGGGCCAGCTTATGCCAATAATGGTCAAGGCATGTGC
*
266810 CCGCACCATGGGCCAGCTTGTACCA
66 CCGCACCATGGGCCAACTTGTACCA
* * * * *
266835 ATGGTGGTCAAGGCATGTGCTCGCACCAGGGGCCAGCTTGTGCCAATAATGGTCAAGGCATGTGC
1 ATGGTGGTCAAGGCAAGTGCCCACACCAAGGGCCAGCTTATGCCAATAATGGTCAAGGCATGTGC
* * * *
266900 TCGTATCA-GAGGCCAACTTGTACCG
66 CCGCACCATG-GGCCAACTTGTACCA
266925 ATGGTG
1 ATGGTG
266931 ATCGAGGCCT
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
89 1 0.01
90 78 0.99
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (90 bp):
ATGGTGGTCAAGGCAAGTGCCCACACCAAGGGCCAGCTTATGCCAATAATGGTCAAGGCATGTGC
CCGCACCATGGGCCAACTTGTACCA
Found at i:272494 original size:3 final size:3
Alignment explanation
Indices: 272488--272525 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
272478 TTAGTATTAT
**
272488 TAA TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
272526 TTGGTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:273460 original size:14 final size:14
Alignment explanation
Indices: 273441--273469 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
273431 ACGACGGTCC
273441 AATGTCGAATGCCG
1 AATGTCGAATGCCG
273455 AATGTCGAATGCCG
1 AATGTCGAATGCCG
273469 A
1 A
273470 CAGAGCCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (14 bp):
AATGTCGAATGCCG
Found at i:274021 original size:3 final size:3
Alignment explanation
Indices: 273982--274007 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
273972 GCTTAAAATG
273982 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
274008 CTAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:274187 original size:12 final size:11
Alignment explanation
Indices: 274153--274195 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
274143 GCATAAAAAG
274153 ATAATAAA-TA
1 ATAATAAATTA
274163 ATAATAAATTA
1 ATAATAAATTA
*
274174 ATAATATTATTA
1 ATAATA-AATTA
274186 ATAATAAATT
1 ATAATAAATT
274196 TTCATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 8 0.28
11 11 0.38
12 10 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATAAATTA
Found at i:274393 original size:14 final size:14
Alignment explanation
Indices: 274374--274438 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
274364 AACCTCTAAA
274374 CCTAAAAACGAAAC
1 CCTAAAAACGAAAC
** *
274388 CCTAAACTCTAAAC
1 CCTAAAAACGAAAC
* * *
274402 CTTAAACACTCAAAAC
1 CCTAAA-A-ACGAAAC
274418 CCTAAAAACGAAAC
1 CCTAAAAACGAAAC
274432 CCTAAAA
1 CCTAAAA
274439 TCTAAATGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 28 0.70
15 1 0.03
16 11 0.28
ACGTcount: A:0.52, C:0.31, G:0.03, T:0.14
Consensus pattern (14 bp):
CCTAAAAACGAAAC
Found at i:274464 original size:44 final size:44
Alignment explanation
Indices: 274344--274444 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
274334 TTAAATTTCA
* *
274344 AAACCCT-AAAT-TAAACCTCAAAC-CTCTAAA-CCTAAAAACG
1 AAACCCTAAAATCTAAACCTTAAACACTCAAAACCCTAAAAACG
*
274384 AAACCCTAAACTCTAAACCTTAAACACTCAAAACCCTAAAAACG
1 AAACCCTAAAATCTAAACCTTAAACACTCAAAACCCTAAAAACG
274428 AAACCCTAAAATCTAAA
1 AAACCCTAAAATCTAAA
274445 TGCTAAACCT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
40 7 0.13
41 3 0.06
42 11 0.21
43 6 0.11
44 26 0.49
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.17
Consensus pattern (44 bp):
AAACCCTAAAATCTAAACCTTAAACACTCAAAACCCTAAAAACG
Found at i:274474 original size:87 final size:85
Alignment explanation
Indices: 274344--274596 Score: 214
Period size: 87 Copynumber: 3.0 Consensus size: 85
274334 TTAAATTTCA
* * *
274344 AAACCCT-AAATTAAA-CCTCAAA-CCTCTAAA-CCTAAAAACGAAACCCTAAA-CTCTAAACCT
1 AAACCCTAAAATGAAACCCT-AAACCCTCCAAACCCT-AAAATGAAACCCTAAACCTCTAAACCT
* *
274404 TAAACACTCAAAACCCTAAAAA-CG
64 TAAA-A-T-AAAACCCCAAAAACCC
* ** * * * * *
274428 AAACCCTAAAATCTAAATGCTAAACCTTCCAAACCCTGAAATGAAACCCCAAACCTCCAAACCCT
1 AAACCCTAAAAT-GAAACCCTAAACCCTCCAAACCCTAAAATGAAACCCTAAACCTCTAAACCTT
*
274493 AAAATGAAACCCCAAAAACCTCC
65 AAAATAAAACCCCAAAAA-C-CC
* *
274516 AAACCTTAAAATGAAACCCTAAACCCTCCAAACCCTAAAATTAAA-CCTCAAACCTCTAAACCTT
1 AAACCCTAAAATGAAACCCTAAACCCTCCAAACCCTAAAATGAAACCCT-AAACCTCTAAACCTT
* *
274580 AAAATGAAACCCTAAAA
65 AAAATAAAACCCCAAAA
274597 CTTTTAAACC
Statistics
Matches: 137, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
84 7 0.05
85 15 0.11
86 10 0.07
87 78 0.57
88 27 0.20
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.17
Consensus pattern (85 bp):
AAACCCTAAAATGAAACCCTAAACCCTCCAAACCCTAAAATGAAACCCTAAACCTCTAAACCTTA
AAATAAAACCCCAAAAACCC
Found at i:274554 original size:29 final size:28
Alignment explanation
Indices: 274344--274681 Score: 204
Period size: 28 Copynumber: 11.8 Consensus size: 28
274334 TTAAATTTCA
* *
274344 AAACCCT-AAATTAAA-CCTCAAACCTCT
1 AAACCCTAAAATGAAACCCT-AAACCTCC
* *
274371 AAA-CCTAAAAACGAAACCCTAAA-CTCT
1 AAACCCT-AAAATGAAACCCTAAACCTCC
* * ** *
274398 AAACCTTAAACACTCAAAACCCTAAA-AACG
1 AAACCCTAAA-A-T-GAAACCCTAAACCTCC
* **
274428 AAACCCTAAAATCTAAATGCTAAACCTTCC
1 AAACCCTAAAAT-GAAACCCTAAACC-TCC
* *
274458 AAACCCTGAAATGAAACCCCAAACCTCC
1 AAACCCTAAAATGAAACCCTAAACCTCC
*
274486 AAACCCTAAAATGAAACCCCAAAAACCTCC
1 AAACCCTAAAATGAAA-CCC-TAAACCTCC
*
274516 AAACCTTAAAATGAAACCCTAAACCCTCC
1 AAACCCTAAAATGAAACCCTAAA-CCTCC
* *
274545 AAACCCTAAAATTAAA-CCTCAAACCTCT
1 AAACCCTAAAATGAAACCCT-AAACCTCC
* * **
274573 AAACCTTAAAATGAAACCCTAAAACTTTT
1 AAACCCTAAAATGAAACCCT-AAACCTCC
* * * *
274602 AAACCTTAAAATCATAA-TCTAAACCTTC
1 AAACCCTAAAATGA-AACCCTAAACCTCC
* * * **
274630 AAACCCTAAAATTAAGCCTTAAACCTTAT
1 AAACCCTAAAATGAAACCCTAAACC-TCC
* *
274659 AAACCCTAAAGTTAAACCCTAAA
1 AAACCCTAAAATGAAACCCTAAA
274682 AACAAAACCT
Statistics
Matches: 248, Mismatches: 46, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.01
27 14 0.06
28 88 0.35
29 86 0.35
30 57 0.23
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (28 bp):
AAACCCTAAAATGAAACCCTAAACCTCC
Found at i:274574 original size:21 final size:22
Alignment explanation
Indices: 274535--274575 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
274525 AATGAAACCC
274535 TAAACCCTCCAAACCCTAAAAT
1 TAAACCCTCCAAACCCTAAAAT
274557 TAAA-CCT-CAAACCTCTAAA
1 TAAACCCTCCAAACC-CTAAA
274576 CCTTAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCTCCAAACCCTAAAAT
Found at i:274606 original size:57 final size:56
Alignment explanation
Indices: 274428--274681 Score: 206
Period size: 57 Copynumber: 4.4 Consensus size: 56
274418 CCTAAAAACG
* * *
274428 AAACCCTAAAATCTAAATGCTAAACCTTCCAAACCCTGAAATGAAACCC-CAAACCTCC
1 AAACCCTAAAAT-TAAA-CCTAAACC-TCCAAACCCTAAAATGAAACCCTAAAACCTCC
* * * *
274486 AAACCCTAAAATGAAACCCCAAAAACCTCCAAACCTTAAAATGAAACCCTAAACCCTCC
1 AAACCCTAAAATTAAA--CC-TAAACCTCCAAACCCTAAAATGAAACCCTAAAACCTCC
* * * **
274545 AAACCCTAAAATTAAACCTCAAACCTCTAAACCTTAAAATGAAACCCTAAAACTTTT
1 AAACCCTAAAATTAAACCT-AAACCTCCAAACCCTAAAATGAAACCCTAAAACCTCC
* * * * * * * **
274602 AAACCTTAAAATCATAATCTAAACCTTCAAACCCTAAAAT-TAAGCCTTAAACCTTAT
1 AAACCCTAAAATTA-AACCTAAACCTCCAAACCCTAAAATGAAACCCTAAAACC-TCC
*
274659 AAACCCTAAAGTTAAACCCTAAA
1 AAACCCTAAAATTAAA-CCTAAA
274682 AACAAAACCT
Statistics
Matches: 159, Mismatches: 30, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
56 11 0.07
57 84 0.53
58 37 0.23
59 27 0.17
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.20
Consensus pattern (56 bp):
AAACCCTAAAATTAAACCTAAACCTCCAAACCCTAAAATGAAACCCTAAAACCTCC
Found at i:274741 original size:16 final size:15
Alignment explanation
Indices: 274701--274798 Score: 51
Period size: 14 Copynumber: 6.7 Consensus size: 15
274691 TTAGACCCTT
274701 AAAACCCT-AAAATC
1 AAAACCCTAAAAATC
* *
274715 AAATCCGTAAAATATC
1 AAAACCCTAAAA-ATC
**
274731 AAAACCCTAAATCCTC
1 AAAACCCTAAA-AATC
* * *
274747 TAAACTCT-AAAACC
1 AAAACCCTAAAAATC
** **
274761 AAAACTTTAAACCTC
1 AAAACCCTAAAAATC
274776 -AAACCCT-AAAATC
1 AAAACCCTAAAAATC
274789 AAAACCCTAA
1 AAAACCCTAA
274799 CCTTAAACCC
Statistics
Matches: 58, Mismatches: 20, Indels: 11
0.65 0.22 0.12
Matches are distributed among these distances:
13 4 0.07
14 25 0.43
15 9 0.16
16 20 0.34
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (15 bp):
AAAACCCTAAAAATC
Found at i:274785 original size:14 final size:14
Alignment explanation
Indices: 274732--274812 Score: 51
Period size: 14 Copynumber: 5.7 Consensus size: 14
274722 TAAAATATCA
274732 AAACCCTAAATCCTC
1 AAACCCTAAA-CCTC
* *
274747 TAAACTCTAAAACC-A
1 -AAACCCT-AAACCTC
**
274762 AAACTTTAAACCTC
1 AAACCCTAAACCTC
*
274776 AAACCCTAAA-ATC
1 AAACCCTAAACCTC
*
274789 AAAACCCT-AACCTT
1 -AAACCCTAAACCTC
274803 AAACCCTAAA
1 AAACCCTAAA
274813 ATCAAAAACC
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
13 16 0.31
14 24 0.47
16 8 0.16
17 3 0.06
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAACCTC
Found at i:274790 original size:13 final size:13
Alignment explanation
Indices: 274774--274818 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
274764 ACTTTAAACC
274774 TCAAACCCTAAAA
1 TCAAACCCTAAAA
**
274787 TCAAAACCCTAACC
1 TC-AAACCCTAAAA
*
274801 TTAAACCCTAAAA
1 TCAAACCCTAAAA
274814 TCAAA
1 TCAAA
274819 AACCTGAACC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (13 bp):
TCAAACCCTAAAA
Found at i:274820 original size:28 final size:27
Alignment explanation
Indices: 274728--274861 Score: 124
Period size: 28 Copynumber: 4.7 Consensus size: 27
274718 TCCGTAAAAT
*
274728 ATCAAAACCCTAAATCCTCTAAACTCTAAA
1 ATCAAAACCCT-AA-CCT-TAAACCCTAAA
* ** *
274758 ACCAAAACTTTAAACCTCAAACCCTAAA
1 ATCAAAACCCT-AACCTTAAACCCTAAA
274786 ATCAAAACCCTAACCTTAAACCCTAAA
1 ATCAAAACCCTAACCTTAAACCCTAAA
* **
274813 ATCAAAAACCTGAACCTTAAAATCTAAA
1 ATCAAAACCCT-AACCTTAAACCCTAAA
* *
274841 ACTCGAAACCCTAACCCTAAA
1 A-TCAAAACCCTAACCTTAAA
274862 ATTCAAAACT
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
27 25 0.29
28 40 0.46
29 11 0.13
30 11 0.13
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (27 bp):
ATCAAAACCCTAACCTTAAACCCTAAA
Found at i:274869 original size:28 final size:28
Alignment explanation
Indices: 274781--274878 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
274771 ACCTCAAACC
* * **
274781 CTAAAA-TCAAAACCCTAACCTTAAACC
1 CTAAAACTCCAAACCCTAACCCTAAAAT
* * *
274808 CTAAAA-TCAAAAACCTGAACCTTAAAAT
1 CTAAAACTCCAAACCCT-AACCCTAAAAT
*
274836 CTAAAACTCGAAACCCTAACCCTAAAAT
1 CTAAAACTCCAAACCCTAACCCTAAAAT
274864 -TCAAAACTCCAAACC
1 CT-AAAACTCCAAACC
274879 TTAAGATCCA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 16 0.26
28 37 0.61
29 8 0.13
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (28 bp):
CTAAAACTCCAAACCCTAACCCTAAAAT
Found at i:287306 original size:14 final size:14
Alignment explanation
Indices: 287265--287309 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
287255 TGTTTAGGCG
287265 TTCCTT-TTCTTTCT
1 TTCCTTCTTCTTT-T
*
287279 TTCTTTCATTCTTTT
1 TTCCTTC-TTCTTTT
287294 TTCCTTCTTCTTTT
1 TTCCTTCTTCTTTT
287308 TT
1 TT
287310 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 14 0.52
15 7 0.26
16 6 0.22
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCCTTCTTCTTTT
Found at i:303175 original size:20 final size:20
Alignment explanation
Indices: 303150--303191 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
303140 TGGGTCAAGT
303150 GCCGAGCATCCTCTAAAGGA
1 GCCGAGCATCCTCTAAAGGA
303170 GCCGAGCATCCTCTAAAGGA
1 GCCGAGCATCCTCTAAAGGA
303190 GC
1 GC
303192 TCCGGTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (20 bp):
GCCGAGCATCCTCTAAAGGA
Found at i:304891 original size:11 final size:11
Alignment explanation
Indices: 304874--304996 Score: 98
Period size: 11 Copynumber: 11.4 Consensus size: 11
304864 TCTATGTTCT
*
304874 TTTTTTTTTTCA
1 TTTTTATTTT-A
304886 TTTTT-TTTTA
1 TTTTTATTTTA
304896 TTTTTATTTT-
1 TTTTTATTTTA
304906 TTTTGTATTTTACA
1 TTTT-TATTTT--A
304920 TTTTTATTTTA
1 TTTTTATTTTA
*
304931 TTTCTATTTTA
1 TTTTTATTTTA
304942 TTTTTA-TTT-
1 TTTTTATTTTA
*
304951 TTGTTATTATTA
1 TTTTTATT-TTA
*
304963 -TTTTATATT-
1 TTTTTATTTTA
* *
304972 TTTTTCTTTTC
1 TTTTTATTTTA
304983 TTTTT-TTTTA
1 TTTTTATTTTA
304993 TTTT
1 TTTT
304997 AGGTATTTAC
Statistics
Matches: 93, Mismatches: 8, Indels: 22
0.76 0.07 0.18
Matches are distributed among these distances:
9 5 0.05
10 31 0.33
11 42 0.45
12 5 0.05
13 6 0.06
14 4 0.04
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:304899 original size:6 final size:6
Alignment explanation
Indices: 304873--304996 Score: 75
Period size: 6 Copynumber: 20.7 Consensus size: 6
304863 GTCTATGTTC
* * *
304873 TTTTTT TTTTTCA -TTTT- TTTTTA TTTTTA TTTTT- TTTGTA TTTTACA
1 TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA
* *
304920 TTTTTA -TTTTA TTTCTA -TTTTA TTTTTA TTTTTGTTA TTATTA TTTTATA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --TTT-TTA TTTTTA TTTT-TA
304970 TTTTT- TTCTTT- TCTTTT- TTTTTA TTTT
1 TTTTTA TT-TTTA T-TTTTA TTTTTA TTTT
304997 AGGTATTTAC
Statistics
Matches: 95, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
5 23 0.24
6 52 0.55
7 14 0.15
8 3 0.03
9 3 0.03
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:305016 original size:5 final size:5
Alignment explanation
Indices: 304875--304997 Score: 79
Period size: 5 Copynumber: 23.0 Consensus size: 5
304865 CTATGTTCTT
* * *
304875 TTTTT TTTTCA TTTTT TTTTA TTTTTA TTTTT TTTGTA TTTTACA TTTTTA
1 TTTTA TTTT-A TTTTA TTTTA -TTTTA TTTTA TTT-TA TTTT--A -TTTTA
*
304926 TTTTA TTTCTA TTTTA TTTTTA TTTT- TGTTA TTATTA TTTTA TATTT-
1 TTTTA TTT-TA TTTTA -TTTTA TTTTA TTTTA TT-TTA TTTTA T-TTTA
* * *
304973 TTTTC TTTTC TTTTT TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
304998 GGTATTTACG
Statistics
Matches: 97, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
4 6 0.06
5 54 0.56
6 32 0.33
7 1 0.01
8 4 0.04
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:305128 original size:21 final size:22
Alignment explanation
Indices: 305099--305142 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
305089 TATTATTTAA
305099 TTTTAATTTATCTG-TTAATTT
1 TTTTAATTTATCTGATTAATTT
* *
305120 TTTTTATTTATCTGATTTATTT
1 TTTTAATTTATCTGATTAATTT
305142 T
1 T
305143 CATTTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTAATTTATCTGATTAATTT
Found at i:305251 original size:14 final size:14
Alignment explanation
Indices: 305232--305259 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
305222 ATTCAATGAT
305232 TGAATCCCGATCCA
1 TGAATCCCGATCCA
305246 TGAATCCCGATCCA
1 TGAATCCCGATCCA
305260 AAGAGAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (14 bp):
TGAATCCCGATCCA
Found at i:306300 original size:118 final size:116
Alignment explanation
Indices: 306168--306688 Score: 623
Period size: 118 Copynumber: 4.4 Consensus size: 116
306158 ATAAAATCCA
306168 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAAAAA
*
306232 AAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
65 AAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTTTC
* * * **
306286 CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTGCCAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTCAAAAA
* * * * *
306351 AATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
64 AAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
** * * *
306404 AAAAAAAGGTTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAA
* * *
306469 AAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
65 AAA----TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* * *
306525 AAAAAAAGTTTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
1 AAAAAAA----TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
* *
306590 AAAATCAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCT-AAATTAAAGTTTC
62 AAAA--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAATAAAGTTTC
* * **
306647 AAAAGAATATTTTTAGGGAAAAGTTGAAAACATCAATTTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
306689 CTTCACAAGA
Statistics
Matches: 348, Mismatches: 40, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
116 3 0.01
117 11 0.03
118 120 0.34
119 44 0.13
120 11 0.03
121 53 0.15
122 48 0.14
123 1 0.00
124 7 0.02
125 48 0.14
126 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (116 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
Found at i:306380 original size:60 final size:58
Alignment explanation
Indices: 306168--306691 Score: 604
Period size: 60 Copynumber: 8.8 Consensus size: 58
306158 ATAAAATCCA
* *
306168 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
306226 AAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* **
306286 CAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTGCC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
* * *
306346 AAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** * * *
306404 AAAAAAAGGTTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
306462 AAAAAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
1 ---AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
306525 AAAAAAAGTTTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAA----TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
306587 AAAAAAATCAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCT-AAATTAAAGTTTC
1 AAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAATAAATTTTC
* **
306647 AAAAGAATATTTTT-AGGGAAAAGTTGAAAACATCAATTTTTCCTT
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAA-TTTTCCTT
306692 CACAAGAACA
Statistics
Matches: 410, Mismatches: 39, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
57 1 0.00
58 89 0.22
59 90 0.22
60 119 0.29
61 9 0.02
62 56 0.14
63 46 0.11
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:306602 original size:17 final size:17
Alignment explanation
Indices: 306560--306602 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
306550 AGTTGAAAGT
**
306560 ATCAATTTTTCTTAAAA
1 ATCAATTTTTCAAAAAA
*
306577 AT-AAATTTTCAAAAAA
1 ATCAATTTTTCAAAAAA
306593 ATCAATTTTT
1 ATCAATTTTT
306603 GAGAAAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
ATCAATTTTTCAAAAAA
Found at i:306729 original size:22 final size:21
Alignment explanation
Indices: 306703--306747 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
306693 ACAAGAACAA
* *
306703 TCATTCTTTTCTTCTTTTTTTT
1 TCATTCTTTTATT-TTTATTTT
*
306725 TCATTTTTTTATTTTTATTTT
1 TCATTCTTTTATTTTTATTTT
306746 TC
1 TC
306748 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (21 bp):
TCATTCTTTTATTTTTATTTT
Found at i:313375 original size:8 final size:8
Alignment explanation
Indices: 313362--313391 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
313352 ACTATGCTTG
313362 AAAAAAAT
1 AAAAAAAT
313370 AAAAAAAT
1 AAAAAAAT
313378 AAAAAAAT
1 AAAAAAAT
313386 AAAAAA
1 AAAAAA
313392 GAAAAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:314452 original size:41 final size:41
Alignment explanation
Indices: 314407--314620 Score: 230
Period size: 41 Copynumber: 5.1 Consensus size: 41
314397 ATGATTGTCA
*
314407 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
314448 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
314489 AGAAGCAATTTACTTTTTAAAGTCGTTGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
314530 AGGAGTAATTTACTTTTTCAAAGTTGTTGAGCCTTTGATTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * * *
314572 AGAAGCCATTTATGTTTCTCAAAGTCATTGAGCCTCTGTCTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
314615 AGGAGC
1 AGGAGC
314621 TTTGATAAAA
Statistics
Matches: 145, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
41 86 0.59
42 34 0.23
43 25 0.17
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:316356 original size:61 final size:60
Alignment explanation
Indices: 316251--316428 Score: 202
Period size: 61 Copynumber: 3.0 Consensus size: 60
316241 AATCCACTCA
* * * *
316251 AATATATCATATTCATGTAGATCATTTCAGTTTC-ATTAAGTCCACTCACAAATATATACTT
1 AATATATTATACTCATGTAGATCATTTCAGTTTCTTTTAA-TCCACTCACAAATATATA-AT
*
316312 AATATATTATACTCATGTAAATCATTTCAGTTTCTTTTAATCCACTCACAAATATA-AAT
1 AATATATTATACTCATGTAGATCATTTCAGTTTCTTTTAATCCACTCACAAATATATAAT
* * * * * *
316371 -ATATAAATATACACA-CTAGACCCTTTCAGTTTCTTTTAATCCACTCATAAATATATAA
1 AATAT-ATTATACTCATGTAGATCATTTCAGTTTCTTTTAATCCACTCACAAATATATAA
316429 ATATACACAC
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
58 39 0.38
59 11 0.11
60 1 0.01
61 47 0.46
62 4 0.04
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (60 bp):
AATATATTATACTCATGTAGATCATTTCAGTTTCTTTTAATCCACTCACAAATATATAAT
Found at i:320556 original size:22 final size:22
Alignment explanation
Indices: 320526--320576 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
320516 TTTTATTTAT
*
320526 AAAAA-AATTAATTAATTAATA
1 AAAAATAATTAATTAATCAATA
* *
320547 AAAAATAATTTATTGATCAATA
1 AAAAATAATTAATTAATCAATA
320569 AAAAATAA
1 AAAAATAA
320577 ATTTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAATAATTAATTAATCAATA
Found at i:320616 original size:15 final size:15
Alignment explanation
Indices: 320591--320629 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
320581 TTCTTTATAT
*
320591 TTTTCTTTAAAAAATA
1 TTTT-TTTAAAAAAAA
320607 TTTTTTTAAAAAAAA
1 TTTTTTTAAAAAAAA
320622 TTATTTTT
1 TT-TTTTT
320630 GAATAAGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTTTTAAAAAAAA
Found at i:332304 original size:32 final size:31
Alignment explanation
Indices: 332255--332314 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
332245 ATAGTGGTAT
* *
332255 AAATAAATATATAATTTATAAGTAATTTTTTC
1 AAATAAATAAATAATTTA-AAATAATTTTTTC
*
332287 AAATGAATAAATAATTTAAAATAATTTT
1 AAATAAATAAATAATTTAAAATAATTTT
332315 ATAAGTGCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (31 bp):
AAATAAATAAATAATTTAAAATAATTTTTTC
Found at i:334779 original size:2 final size:2
Alignment explanation
Indices: 334772--334823 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
334762 CCCCAAAGAA
* * * * *
334772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT GT GT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
334814 AT AT AT AT AT
1 AT AT AT AT AT
334824 GAAGCTAGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (2 bp):
AT
Found at i:337172 original size:16 final size:16
Alignment explanation
Indices: 337151--337184 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
337141 ATATTTTTAA
*
337151 ATATAAACTAAATATC
1 ATATAAAATAAATATC
*
337167 ATATAAAATAATTATC
1 ATATAAAATAAATATC
337183 AT
1 AT
337185 TTTATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAAAATAAATATC
Found at i:348367 original size:12 final size:12
Alignment explanation
Indices: 348352--348396 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
348342 TTTTTAAGTT
348352 TAATATTAATAA
1 TAATATTAATAA
* *
348364 TAATTTTGATAA
1 TAATATTAATAA
348376 TAATATTAATAA
1 TAATATTAATAA
*
348388 TAACATTAA
1 TAATATTAA
348397 AAATTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:349435 original size:23 final size:22
Alignment explanation
Indices: 349402--349453 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
349392 TTTTGAGTAT
* *
349402 TTTTTATATTTATGCATGATAAA
1 TTTTTAAATTTAT-CAGGATAAA
* *
349425 TTTTTAAATTTGTTAGGATAAA
1 TTTTTAAATTTATCAGGATAAA
349447 TTTTTAA
1 TTTTTAA
349454 TGGTTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (22 bp):
TTTTTAAATTTATCAGGATAAA
Found at i:349527 original size:3 final size:3
Alignment explanation
Indices: 349519--349566 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
349509 TAAAATGCTT
*
349519 TAA TAA TAA TAA TAA TAA TAA TCTA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
349564 TAA
1 TAA
349567 ATTTTTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:349914 original size:29 final size:29
Alignment explanation
Indices: 349830--349929 Score: 94
Period size: 30 Copynumber: 3.4 Consensus size: 29
349820 TAGGATTCTA
* * *
349830 AAACCCCTAAAATCCAAAATCCTTTAAATTC
1 AAACCCCTAAAATCCAAACT-C-TAAAATCC
* * *
349861 AAACTCCTAAAATCTAAAACCCTAAAATCC
1 AAACCCCTAAAATC-CAAACTCTAAAATCC
*
349891 AACCCCCTAAAATCCAAACTCTAAAAT-C
1 AAACCCCTAAAATCCAAACTCTAAAATCC
*
349919 AAAACCCTAAA
1 AAACCCCTAAA
349930 CCTTTCATAC
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 10 0.18
29 11 0.20
30 18 0.32
31 14 0.25
32 3 0.05
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (29 bp):
AAACCCCTAAAATCCAAACTCTAAAATCC
Found at i:349916 original size:14 final size:14
Alignment explanation
Indices: 349834--349929 Score: 84
Period size: 15 Copynumber: 6.5 Consensus size: 14
349824 ATTCTAAAAC
349834 CCCTAAAATCCAAAA
1 CCCTAAAATCC-AAA
* * *
349849 TCCTTTAAATTCAAA
1 -CCCTAAAATCCAAA
*
349864 CTCCTAAAATCTAAAA
1 C-CCTAAAATC-CAAA
*
349880 CCCTAAAATCCAACC
1 CCCTAAAATCCAA-A
349895 CCCTAAAATCCAAA
1 CCCTAAAATCCAAA
* *
349909 CTCTAAAATCAAAA
1 CCCTAAAATCCAAA
349923 CCCTAAA
1 CCCTAAA
349930 CCTTTCATAC
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
14 21 0.33
15 31 0.48
16 12 0.19
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAAAATCCAAA
Found at i:350004 original size:23 final size:23
Alignment explanation
Indices: 349978--350030 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
349968 AACTCAAACC
* *
349978 AAAACCTTAAAATCCGAATCTTT
1 AAAACCTTAAAACCCGAACCTTT
* * *
350001 AAAATCTTGAAACCCTAACCTTT
1 AAAACCTTAAAACCCGAACCTTT
350024 AAAACCT
1 AAAACCT
350031 CTACTCAAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAACCTTAAAACCCGAACCTTT
Found at i:351795 original size:22 final size:21
Alignment explanation
Indices: 351761--351802 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
351751 ATTCCATGTG
*
351761 AAAAAAATGTTTTTCCTTTTA
1 AAAAAAATATTTTTCCTTTTA
*
351782 AAAAAGAATATTTTTTCTTTT
1 AAAAA-AATATTTTTCCTTTT
351803 TTTGAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
AAAAAAATATTTTTCCTTTTA
Found at i:356063 original size:20 final size:20
Alignment explanation
Indices: 356040--356078 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
356030 ATACCTCTAA
356040 ACCTTTTCAAATACTTTCAC
1 ACCTTTTCAAATACTTTCAC
356060 ACCTTTTCAAATACTTTCA
1 ACCTTTTCAAATACTTTCA
356079 TGACCCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (20 bp):
ACCTTTTCAAATACTTTCAC
Found at i:358799 original size:22 final size:22
Alignment explanation
Indices: 358753--358800 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
358743 AAGACTCTGA
*
358753 GCATGATTTCTAATACCTCCAG
1 GCATGATTTCTAAGACCTCCAG
* *
358775 GCATGATTTCTAAGACTTCCGG
1 GCATGATTTCTAAGACCTCCAG
358797 GCAT
1 GCAT
358801 AAATTCGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (22 bp):
GCATGATTTCTAAGACCTCCAG
Found at i:358968 original size:111 final size:110
Alignment explanation
Indices: 358767--359234 Score: 416
Period size: 111 Copynumber: 4.2 Consensus size: 110
358757 GATTTCTAAT
* * * *
358767 ACCTCCAGG-CATGATT-TCTAAGA-CTTCCGGGCATAAATTCGATTCGCGGTGTTATCTCAATC
1 ACCTCC-GGACATGATTCTCTAAGACCTT-CGGGCATAAATTTGATTCGCGATATTATCCCAATC
* * * * *
358829 GATTTTTGATTTTTTAACTTACGATGTTGTCTCAGTCAATTCTGTAAG
64 GATTCTT-ATTTTTTAACTTACGGTGTTGTCCCAATCAATTCTATAAG
* * * ** *
358877 ACCTCCGGACATGATTCTGTAAGATCTTCGGGCAT-AATTTCGATTCGTGATATTATTTCAATCA
1 ACCTCCGGACATGATTCTCTAAGACCTTCGGGCATAAATTT-GATTCGCGATATTATCCCAATCG
* * *
358941 AGTT-TT-TTCTTTTCAACTTGCGGTGTTGTCCCAATCGATTCTGTAAG
65 A-TTCTTATT-TTTT-AACTTACGGTGTTGTCCCAATCAATTCTATAAG
* * * *
358988 ACCTCC-GAGCATGATT-TCTAAAACCTCCGGGCATAAATTTGATTCTCGATGTTATCCCAATCG
1 ACCTCCGGA-CATGATTCTCTAAGACCTTCGGGCATAAATTTGATTCGCGATATTATCCCAATCG
* * *
359051 ATTCTTAATTTTTTAACTTACGGTGTTGTCTCAATCGATTTTATAAG
65 ATTCTT-ATTTTTTAACTTACGGTGTTGTCCCAATCAATTCTATAAG
* * * * * ** *
359098 ACCTCCAGG-CACGATTCTATAAGACCTTCAGACATAAATTTGATTCGCGGTATTATCCTGATTG
1 ACCTCC-GGACATGATTCTCTAAGACCTTCGGGCATAAATTTGATTCGCGATATTATCCCAATCG
* * *
359162 ATTCTTAATTTTTTAACTTGCGGTGTTATCCCAGTCAATTCTATAAG
65 ATTCTT-ATTTTTTAACTTACGGTGTTGTCCCAATCAATTCTATAAG
* * *
359209 ACCTCTGAACATGATTCT-TACGACCT
1 ACCTCCGGACATGATTCTCTAAGACCT
359235 CTGGGTATGA
Statistics
Matches: 294, Mismatches: 48, Indels: 32
0.79 0.13 0.09
Matches are distributed among these distances:
109 6 0.02
110 106 0.36
111 174 0.59
112 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (110 bp):
ACCTCCGGACATGATTCTCTAAGACCTTCGGGCATAAATTTGATTCGCGATATTATCCCAATCGA
TTCTTATTTTTTAACTTACGGTGTTGTCCCAATCAATTCTATAAG
Found at i:359182 original size:221 final size:221
Alignment explanation
Indices: 358767--359224 Score: 534
Period size: 221 Copynumber: 2.1 Consensus size: 221
358757 GATTTCTAAT
* * * *
358767 ACCTCC-AGGCATGATTTCTAAGACTTCCGGGCATAAATTCGATTCGCGGTGTTATCTCAATCGA
1 ACCTCCGA-GCATGATTTCTAAAACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGA
* * * * * *
358831 TTTTTGATTTTTTAACTTACGATGTTGTCTCAGTCAATTCTGTAAGACCTCCGGACATGATTCTG
65 TTCTTAATTTTTTAACTTACGATGTTGTCTCAATCAATTCTATAAGACCTCCGGACACGATTCTA
* * * * *
358896 TAAGATCTTCGGGCATAATTTCGATTCGTGATATTATTTCAATCAAGTTTTTTCTTTTCAACTTG
130 TAAGACCTTCAGACATAATTTCGATTCGCGATATTATCTCAATCAAGTTTTTTCTTTTCAACTTG
* * *
358961 CGGTGTTGTCCCAATCGATTCTGTAAG
195 CGGTGTTATCCCAATCAATTCTATAAG
* *
358988 ACCTCCGAGCATGATTTCTAAAACCTCCGGGCATAAATTTGATTCTCGATGTTATCCCAATCGAT
1 ACCTCCGAGCATGATTTCTAAAACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGAT
* * *
359053 TCTTAATTTTTTAACTTACGGTGTTGTCTCAATCGATTTTATAAGACCTCCAGG-CACGATTCTA
66 TCTTAATTTTTTAACTTACGATGTTGTCTCAATCAATTCTATAAGACCTCC-GGACACGATTCTA
* * **
359117 TAAGACCTTCAGACATAAATTT-GATTCGCGGTATTATC-CTGATTGA-TTCTTAATT-TTTT-A
130 TAAGACCTTCAGACAT-AATTTCGATTCGCGATATTATCTC-AATCAAGTT-TT--TTCTTTTCA
*
359177 ACTTGCGGTGTTATCCCAGTCAATTCTATAAG
190 ACTTGCGGTGTTATCCCAATCAATTCTATAAG
* *
359209 ACCTCTGAACATGATT
1 ACCTCCGAGCATGATT
359225 CTTACGACCT
Statistics
Matches: 200, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
220 3 0.01
221 183 0.92
222 12 0.06
223 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (221 bp):
ACCTCCGAGCATGATTTCTAAAACCTCCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGAT
TCTTAATTTTTTAACTTACGATGTTGTCTCAATCAATTCTATAAGACCTCCGGACACGATTCTAT
AAGACCTTCAGACATAATTTCGATTCGCGATATTATCTCAATCAAGTTTTTTCTTTTCAACTTGC
GGTGTTATCCCAATCAATTCTATAAG
Found at i:359607 original size:102 final size:101
Alignment explanation
Indices: 359492--359996 Score: 636
Period size: 102 Copynumber: 5.0 Consensus size: 101
359482 CGACTCGTGG
* *
359492 TTCAATCTCGATCTCTTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATTTTTTTATTAA
1 TTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTTTGATT-A
* *
359557 CGGTTTAATCTCGATCTCTTTATTCTTCGACTCGCGA
65 CGGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGA
* * ** *
359594 TTTAATCTCGATCTCTTTAATTCAAAATCATAATTTAATCTTAATTGTTGTTATTTTTTAACTTA
1 TTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTTTGA-TTA
* **
359659 CGATTTAATCCCGATCTCTTTATTCTTCGATTC-ATA
65 CGGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGA
* *
359695 GTTCAATCCCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTCTGACTT
1 -TTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTTTGA-TT
**
359760 GTGGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGA
64 ACGGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGA
* * * * *
359798 TTCAATCTCGATCTCTTTAATTCAAAATTACAGTTTAATCTTGATTGTTTTTATTTTTTGACTCA
1 TTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTTTGA-TTA
* * * *
359863 TGGTTTAATCCCGGTCTCTTTATTCTTAGATTCGTGA
65 CGGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGA
* * * * * **
359900 TTTAATCTCGATCTCTTTAGTTTAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTCTGACTCG
1 TTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTTTGA-TTA
*
359965 CGGTTTAATCTC-AGTCTCTTTATTCTTCGATT
65 CGGTTTAATCCCGA-TCTCTTTATTCTTCGATT
359997 ATTGTTATTT
Statistics
Matches: 351, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
101 1 0.00
102 347 0.99
103 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (101 bp):
TTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTTTGATTAC
GGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGA
Found at i:359614 original size:15 final size:15
Alignment explanation
Indices: 359560--359614 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
359550 TTATTAACGG
359560 TTTAATCTCGATCTC
1 TTTAATCTCGATCTC
* *
359575 TTTATTCTTCGACTCGC
1 TTTAATC-TCGA-TCTC
359592 GATTTAATCTCGATCTC
1 --TTTAATCTCGATCTC
359609 TTTAAT
1 TTTAAT
359615 TCAAAATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 12 0.38
16 4 0.12
17 6 0.19
18 4 0.12
19 6 0.19
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTAATCTCGATCTC
Found at i:359703 original size:34 final size:34
Alignment explanation
Indices: 359665--359816 Score: 100
Period size: 34 Copynumber: 4.5 Consensus size: 34
359655 CTTACGATTT
359665 AATCCCGATCTCTTTATTCTTCGATTCATAGTTC
1 AATCCCGATCTCTTTATTCTTCGATTCATAGTTC
** * *
359699 AATCCCGATCTCTTTAATTC--AAAATCATAGTTT
1 AATCCCGATCTCTTT-ATTCTTCGATTCATAGTTC
* * * * *
359732 AATCTCGAT-TGTTGTTATT-TTCTGACTT-GTGGTTT
1 AATCCCGATCT-CT-TTATTCTTC-GA-TTCATAGTTC
**
359767 AATCCCGATCTCTTTATTCTTCGATTC-GCGATTC
1 AATCCCGATCTCTTTATTCTTCGATTCATAG-TTC
*
359801 AATCTCGATCTCTTTA
1 AATCCCGATCTCTTTA
359817 ATTCAAAATT
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
32 1 0.01
33 24 0.27
34 41 0.46
35 22 0.24
36 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (34 bp):
AATCCCGATCTCTTTATTCTTCGATTCATAGTTC
Found at i:359940 original size:33 final size:33
Alignment explanation
Indices: 359865--359944 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
359855 TTGACTCATG
* * * * *
359865 GTTTAATCCCGGTCTCTTTATTCTTAGATTCGT
1 GTTTAATCTCGATCTCTTTAGTCTTAAAATCGT
359898 GATTTAATCTCGATCTCTTTAGT-TTAAAATCGT
1 G-TTTAATCTCGATCTCTTTAGTCTTAAAATCGT
359931 AGTTTAATCTCGAT
1 -GTTTAATCTCGAT
359945 TGTTGTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 21 0.52
34 19 0.47
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (33 bp):
GTTTAATCTCGATCTCTTTAGTCTTAAAATCGT
Found at i:359995 original size:204 final size:204
Alignment explanation
Indices: 359486--359996 Score: 729
Period size: 204 Copynumber: 2.5 Consensus size: 204
359476 TTATTTCGAC
* * *
359486 TCGTGGTTCAATCTCGATCTCTTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATTTTTT
1 TCGTGATTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTCT
* * * * *
359551 TATTAACGGTTTAATCTCGATCTCTTTATTCTTCGACTCGCGATTTAATCTCGATCTCTTTAATT
66 GACTAGCGGTTTAATCTCGATCTCTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTAATT
* *
359616 CAAAATCATAATTTAATCTTAATTGTTGTTATTTTTTAACTTACGATTTAATCCCGATCTCTTTA
131 CAAAATCACAATTTAATCTTAATTGTTGTTATTTTTTAACTCACGATTTAATCCCGATCTCTTTA
*
359681 TTCTTCGAT
196 TTCTTAGAT
* *
359690 TCAT-AGTTCAATCCCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTC
1 TCGTGA-TTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTC
* * *
359754 TGACTTGTGGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTAAT
65 TGACTAGCGGTTTAATCTCGATCTCTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTAAT
* * * * * * * *
359819 TCAAAATTACAGTTTAATCTTGATTGTTTTTATTTTTTGACTCATGGTTTAATCCCGGTCTCTTT
130 TCAAAATCACAATTTAATCTTAATTGTTGTTATTTTTTAACTCACGATTTAATCCCGATCTCTTT
359884 ATTCTTAGAT
195 ATTCTTAGAT
* * * *
359894 TCGTGATTTAATCTCGATCTCTTTAGTTTAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTCT
1 TCGTGATTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTCT
*
359959 GACTCGCGGTTTAATCTC-AGTCTCTTTATTCTTCGATT
66 GACTAGCGGTTTAATCTCGA-TCTCTTTATTCTTCGATT
359997 ATTGTTATTT
Statistics
Matches: 271, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
203 1 0.00
204 269 0.99
205 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.48
Consensus pattern (204 bp):
TCGTGATTCAATCTCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTCT
GACTAGCGGTTTAATCTCGATCTCTTTATTCTTCGATTCGCGATTCAATCTCGATCTCTTTAATT
CAAAATCACAATTTAATCTTAATTGTTGTTATTTTTTAACTCACGATTTAATCCCGATCTCTTTA
TTCTTAGAT
Found at i:360002 original size:51 final size:51
Alignment explanation
Indices: 359940--360047 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
359930 TAGTTTAATC
* *
359940 TCGATTGTTGTTATTTTCTGACTCGCGGTTTAA-TCTCAGTCTCTTTATTCT
1 TCGATTATTGTTATTTTCTGACTCGCGATTTAATTCT-AGTCTCTTTATTCT
* *
359991 TCGATTATTGTTATTTTTTGACTCGTGATTTAATTCTAGTCTCTTTATTCT
1 TCGATTATTGTTATTTTCTGACTCGCGATTTAATTCTAGTCTCTTTATTCT
360042 TCGATT
1 TCGATT
360048 CGCGGTTCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 49 0.94
52 3 0.06
ACGTcount: A:0.16, C:0.17, G:0.14, T:0.54
Consensus pattern (51 bp):
TCGATTATTGTTATTTTCTGACTCGCGATTTAATTCTAGTCTCTTTATTCT
Found at i:360067 original size:153 final size:153
Alignment explanation
Indices: 359831--360145 Score: 436
Period size: 153 Copynumber: 2.1 Consensus size: 153
359821 AAAATTACAG
* * * * *
359831 TTTAATCTT-GATTGTTTTTATTTTTTGACTCATGGTTTAATCCCGGTCTCTTTATTCTTAGATT
1 TTTATTCTTCGATTATTGTTATTTTTTGACTCATGATTTAATCCCAGTCTCTTTATTCTTAGATT
* * * * * *
359895 CGTGATTTAATCTCGATCTCTTTAGTTTAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTCTG
66 CGCGATTCAATCCCAATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTCTG
*
359960 ACTCGCGGTTTAA-TCTCAGTCTC
131 ACTCGCAGTTTAATTCT-AGTCTC
* * * *
359983 TTTATTCTTCGATTATTGTTATTTTTTGACTCGTGATTTAATTCTAGTCTCTTTATTCTTCGATT
1 TTTATTCTTCGATTATTGTTATTTTTTGACTCATGATTTAATCCCAGTCTCTTTATTCTTAGATT
* *
360048 CGCGGTTCAATCCCAATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTG
66 CGCGATTCAATCCCAATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTCTG
*
360113 ACTCGTAGTTTAATTCTAGTCTC
131 ACTCGCAGTTTAATTCTAGTCTC
360136 TTTATTCTTC
1 TTTATTCTTC
360146 AATTTGAGGT
Statistics
Matches: 142, Mismatches: 19, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
152 8 0.06
153 131 0.92
154 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (153 bp):
TTTATTCTTCGATTATTGTTATTTTTTGACTCATGATTTAATCCCAGTCTCTTTATTCTTAGATT
CGCGATTCAATCCCAATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTCTG
ACTCGCAGTTTAATTCTAGTCTC
Found at i:360110 original size:102 final size:102
Alignment explanation
Indices: 359991--360227 Score: 368
Period size: 102 Copynumber: 2.3 Consensus size: 102
359981 TCTTTATTCT
* * *
359991 TCGATTATTGTTATTTTTTGACTCGTGATTTAATTCTAGTCTCTTTATTCTTCGATTCGCGGTTC
1 TCGATTGTTGTTATTTTTTGACTCGTGATTTAATTCTAGTCTCTTTATTCTTCAATTCGAGGTTC
* *
360056 AATCCCAATCTCTTTAATTCAAAATCGTAGTTTAATC
66 AATCACAATCTCTTTAATTCAAAATCGCAGTTTAATC
*
360093 TCGATTGTTGTTATTTTTTGACTCGT-AGTTTAATTCTAGTCTCTTTATTCTTCAATTTGAGGTT
1 TCGATTGTTGTTATTTTTTGACTCGTGA-TTTAATTCTAGTCTCTTTATTCTTCAATTCGAGGTT
360157 CAATCACAATCTCTTTAATTCAAAATCGCAGTTTAATC
65 CAATCACAATCTCTTTAATTCAAAATCGCAGTTTAATC
** * *
360195 TCGATTGTTGTTATCCTCTGACTCGTGGTTTAA
1 TCGATTGTTGTTATTTTTTGACTCGTGATTTAA
360228 ATTTCGATCT
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
101 1 0.01
102 122 0.99
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (102 bp):
TCGATTGTTGTTATTTTTTGACTCGTGATTTAATTCTAGTCTCTTTATTCTTCAATTCGAGGTTC
AATCACAATCTCTTTAATTCAAAATCGCAGTTTAATC
Found at i:360194 original size:255 final size:255
Alignment explanation
Indices: 359736--360227 Score: 673
Period size: 255 Copynumber: 1.9 Consensus size: 255
359726 TAGTTTAATC
* * * *
359736 TCGATTGTTGTTATTTTCTGACTTGTGGTTTAATCCCGATCTCTTTATTCTTCGATTCGCGATTC
1 TCGATTATTGTTATTTTCTGACTCGTGATTTAATCCAGATCTCTTTATTCTTCGATTCGCGATTC
* * * * * *
359801 AATCTCGATCTCTTTAATTCAAAATTACAGTTTAATCTTGATTGTTTTTATTTTTTGACTCATGG
66 AATCCCAATCTCTTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATTTTTTGACTCATAG
* * * * * * * *
359866 TTTAATCCCGGTCTCTTTATTCTTAGATTCGTGATTTAATCTCGATCTCTTTAGTTTAAAATCGT
131 TTTAATCCCAGTCTCTTTATTCTTAGATTCGAGATTCAATCACAATCTCTTTAATTCAAAATCGC
**
359931 AGTTTAATCTCGATTGTTGTTATTTTCTGACTCGCGGTTTAATCTCAGTCTCTTTATTCT
196 AGTTTAATCTCGATTGTTGTTATCCTCTGACTCGCGGTTTAATCTCAGTCTCTTTATTCT
* * *
359991 TCGATTATTGTTATTTTTTGACTCGTGATTTAATTCTAG-TCTCTTTATTCTTCGATTCGCGGTT
1 TCGATTATTGTTATTTTCTGACTCGTGATTTAA-TCCAGATCTCTTTATTCTTCGATTCGCGATT
** *
360055 CAATCCCAATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTCGTA
65 CAATCCCAATCTCTTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATTTTTTGACTCATA
* * * *
360120 GTTTAATTCTAGTCTCTTTATTCTTCA-ATTTGAGGTTCAATCACAATCTCTTTAATTCAAAATC
130 GTTTAATCCCAGTCTCTTTATTCTT-AGATTCGAGATTCAATCACAATCTCTTTAATTCAAAATC
*
360184 GCAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGGTTTAA
194 GCAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGCGGTTTAA
360228 ATTTCGATCT
Statistics
Matches: 204, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
255 200 0.98
256 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (255 bp):
TCGATTATTGTTATTTTCTGACTCGTGATTTAATCCAGATCTCTTTATTCTTCGATTCGCGATTC
AATCCCAATCTCTTTAATTCAAAATCACAGTTTAATCTCGATTGTTGTTATTTTTTGACTCATAG
TTTAATCCCAGTCTCTTTATTCTTAGATTCGAGATTCAATCACAATCTCTTTAATTCAAAATCGC
AGTTTAATCTCGATTGTTGTTATCCTCTGACTCGCGGTTTAATCTCAGTCTCTTTATTCT
Found at i:360460 original size:34 final size:34
Alignment explanation
Indices: 360382--360463 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
360372 TCCTCAGTAT
* *
360382 TTTTTTGACTCGTGGTTTAATCCCAGCCTCTTTA
1 TTTTTTGACTTGTGATTTAATCCCAGCCTCTTTA
360416 TTTTTTGACTTGTGATTTAATCCCAGCCTCTTTA
1 TTTTTTGACTTGTGATTTAATCCCAGCCTCTTTA
360450 TTTTTTGACTTGTG
1 TTTTTTGACTTGTG
360464 TTGCTCATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.51
Consensus pattern (34 bp):
TTTTTTGACTTGTGATTTAATCCCAGCCTCTTTA
Found at i:360766 original size:12 final size:12
Alignment explanation
Indices: 360731--360775 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
360721 TTTTTTAGTT
360731 TAATATTAATAA
1 TAATATTAATAA
* * *
360743 TAGTTTTGATAA
1 TAATATTAATAA
360755 TAATATTAATAA
1 TAATATTAATAA
*
360767 TAACATTAA
1 TAATATTAA
360776 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:360845 original size:16 final size:15
Alignment explanation
Indices: 360821--360914 Score: 92
Period size: 14 Copynumber: 6.5 Consensus size: 15
360811 GAGAGAGAAC
360821 CCCTAAAATCCAAAA
1 CCCTAAAATCCAAAA
360836 CCCTATAAATCC-AAA
1 CCCTA-AAATCCAAAA
360851 CCTCTAAAATCCAAAA
1 CC-CTAAAATCCAAAA
*
360867 -CCTAAAATCC-AAT
1 CCCTAAAATCCAAAA
*
360880 CTCTAAAATCC-AAA
1 CCCTAAAATCCAAAA
*
360894 CTCTAAAAT--AAGAA
1 CCCTAAAATCCAA-AA
360908 CCCTAAA
1 CCCTAAA
360915 CCTTTCATAC
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.04
14 37 0.54
15 17 0.25
16 12 0.17
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.19
Consensus pattern (15 bp):
CCCTAAAATCCAAAA
Found at i:360871 original size:14 final size:15
Alignment explanation
Indices: 360823--360902 Score: 103
Period size: 14 Copynumber: 5.5 Consensus size: 15
360813 GAGAGAACCC
*
360823 CTAAAATCCAAAACC
1 CTAAAATCCAAAACT
*
360838 CTATAAATCCAAACCT
1 CTA-AAATCCAAAACT
360854 CTAAAATCCAAAAC-
1 CTAAAATCCAAAACT
*
360868 CTAAAATCC-AATCT
1 CTAAAATCCAAAACT
360882 CTAAAATCC-AAACT
1 CTAAAATCCAAAACT
360896 CTAAAAT
1 CTAAAAT
360903 AAGAACCCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
13 3 0.05
14 29 0.50
15 13 0.22
16 13 0.22
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAAAATCCAAAACT
Found at i:361417 original size:15 final size:15
Alignment explanation
Indices: 361397--361426 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
361387 TTTTATTTAC
361397 TATTTTATAATAAAA
1 TATTTTATAATAAAA
361412 TATTTTATAATAAAA
1 TATTTTATAATAAAA
361427 AAAATAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTTTATAATAAAA
Found at i:363803 original size:29 final size:31
Alignment explanation
Indices: 363766--363844 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 31
363756 AATTAACATA
*
363766 TTTATAATTCAAATATTATATTAAA-ATTTT
1 TTTATAATTTAAATATTATATTAAATATTTT
* *
363796 TTTA-AATTTAAATAATACATTAAATATTTT
1 TTTATAATTTAAATATTATATTAAATATTTT
* *
363826 ATTATAATTTAAAAATTAT
1 TTTATAATTTAAATATTAT
363845 TCATAACATT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 17 0.43
30 12 0.30
31 11 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTATAATTTAAATATTATATTAAATATTTT
Found at i:365754 original size:18 final size:18
Alignment explanation
Indices: 365731--365789 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
365721 AAATATGATA
365731 TTTTATATAATTATATTT
1 TTTTATATAATTATATTT
* * *
365749 TTTTATTTAAATAAATTT
1 TTTTATATAATTATATTT
* *
365767 TATTTAAATAATCATATTT
1 T-TTTATATAATTATATTT
365786 TTTT
1 TTTT
365790 GTTCAAAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 19 0.59
19 13 0.41
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATATAATTATATTT
Found at i:365767 original size:15 final size:15
Alignment explanation
Indices: 365749--365777 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
365739 AATTATATTT
365749 TTTTATTTAAATAAA
1 TTTTATTTAAATAAA
365764 TTTTATTTAAATAA
1 TTTTATTTAAATAA
365778 TCATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTATTTAAATAAA
Found at i:365804 original size:37 final size:38
Alignment explanation
Indices: 365732--365812 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 38
365722 AATATGATAT
* * *
365732 TTTATATAATTATATTTTTTTATTTAAATAAA-TTTTA
1 TTTAAATAATCATATTTTTTTATTCAAATAAATTTTTA
* *
365769 TTTAAATAATCATATTTTTTTGTTCAAA-ACTATTTTTA
1 TTTAAATAATCATATTTTTTTATTCAAATA-AATTTTTA
365807 TTTAAA
1 TTTAAA
365813 ATTGATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 1 0.03
37 25 0.68
38 11 0.30
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (38 bp):
TTTAAATAATCATATTTTTTTATTCAAATAAATTTTTA
Found at i:366036 original size:23 final size:24
Alignment explanation
Indices: 366009--366053 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
365999 TTAATTAAAT
*
366009 AATTAT-CGTAAATAATTTTTTAA
1 AATTATACATAAATAATTTTTTAA
*
366032 AATTATATATAAATAATTTTTT
1 AATTATACATAAATAATTTTTT
366054 TACTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTATACATAAATAATTTTTTAA
Found at i:366480 original size:5 final size:5
Alignment explanation
Indices: 366470--366494 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
366460 TCTCATCCTG
366470 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
366495 TTACCGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:367125 original size:19 final size:19
Alignment explanation
Indices: 367101--367141 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
367091 CGAACATATG
*
367101 CAACATGGGTATTTTGGGA
1 CAACATGGGTATTTTGAGA
367120 CAACATGGGTATTTTGAGA
1 CAACATGGGTATTTTGAGA
367139 CAA
1 CAA
367142 AGTAATAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (19 bp):
CAACATGGGTATTTTGAGA
Found at i:371506 original size:23 final size:23
Alignment explanation
Indices: 371424--371507 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
371414 GTTGTTTATT
* *
371424 TAAATTTATTTATTATTCATAAA
1 TAAATTTATTTAATATTCATGAA
* * *
371447 TATATTTATTTCTATATTTATGAA
1 TAAATTTATTT-AATATTCATGAA
* *
371471 TATATTTGTTTAATATTCATGAA
1 TAAATTTATTTAATATTCATGAA
*
371494 CAAATTTATTTAAT
1 TAAATTTATTTAAT
371508 TTAATTGAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 31 0.63
24 18 0.37
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (23 bp):
TAAATTTATTTAATATTCATGAA
Found at i:371592 original size:17 final size:17
Alignment explanation
Indices: 371570--371615 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
371560 AATATGAATG
371570 AATAAAATAAAATTTTT
1 AATAAAATAAAATTTTT
*
371587 AATAAATATGAATATTTTT
1 AATAAA-AT-AAAATTTTT
371606 -A-AAAATAAAA
1 AATAAAATAAAA
371616 AATAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 9 0.36
18 3 0.12
19 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AATAAAATAAAATTTTT
Found at i:371619 original size:19 final size:20
Alignment explanation
Indices: 371570--371619 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
371560 AATATGAATG
*
371570 AATAAAATAAAATTTTTAATA
1 AATAAAA-AATATTTTTAATA
**
371591 AAT-ATGAATATTTTTAA-A
1 AATAAAAAATATTTTTAATA
371609 AATAAAAAATA
1 AATAAAAAATA
371620 AATAAAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
18 4 0.17
19 15 0.65
20 1 0.04
21 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AATAAAAAATATTTTTAATA
Found at i:372908 original size:3 final size:3
Alignment explanation
Indices: 372900--372953 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
372890 AATTCTCCAG
*
372900 TTA TTA TTA CTTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
372946 TTA TTA TT
1 TTA TTA TT
372954 TGAGCTCAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:377058 original size:33 final size:34
Alignment explanation
Indices: 376992--377058 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
376982 TATTTGCTTG
* *
376992 AAAAAAATATTACTCATATAAATTTTTTCAATTT
1 AAAAAAATATTACACATATAAATCTTTTCAATTT
377026 AAAAAAA-ATTACACATATAAACTCTTTT-AATTT
1 AAAAAAATATTACACATATAAA-TCTTTTCAATTT
377059 TATAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 18 0.60
34 12 0.40
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAAAAATATTACACATATAAATCTTTTCAATTT
Found at i:377533 original size:18 final size:21
Alignment explanation
Indices: 377500--377539 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
377490 ATTTTCAAGA
377500 ATTATAAAAATAATTTT-TTC
1 ATTATAAAAATAATTTTCTTC
377520 ATTA-AAAAAT-ATTTTCTTC
1 ATTATAAAAATAATTTTCTTC
377539 A
1 A
377540 ATTTGTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 10 0.53
20 4 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATAAAAATAATTTTCTTC
Found at i:378846 original size:2 final size:2
Alignment explanation
Indices: 378834--378868 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
378824 GTATGTTGTA
378834 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
378869 TAGATATCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:387191 original size:32 final size:32
Alignment explanation
Indices: 387145--387214 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
387135 GTTTTCAAAG
*
387145 CACCTTAATTTCGTTTAATTTTCAGACACAGA
1 CACCCTAATTTCGTTTAATTTTCAGACACAGA
** *
387177 CACCCTAATTTCGTTTCCTTTTCAGACACATA
1 CACCCTAATTTCGTTTAATTTTCAGACACAGA
387209 CACCCT
1 CACCCT
387215 TTTTGTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (32 bp):
CACCCTAATTTCGTTTAATTTTCAGACACAGA
Found at i:388916 original size:16 final size:16
Alignment explanation
Indices: 388882--388948 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 16
388872 ACAATTTACG
* *
388882 GAACAACTA-TTCACA
1 GAACAGCTACTTCATA
* *
388897 GAACAGCTCCTTCATG
1 GAACAGCTACTTCATA
* *
388913 GAACACCAACTTCATA
1 GAACAGCTACTTCATA
388929 GAACAGCTA-TTCATA
1 GAACAGCTACTTCATA
388944 GAACA
1 GAACA
388949 ATTTCTCCAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 18 0.44
16 23 0.56
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (16 bp):
GAACAGCTACTTCATA
Found at i:390659 original size:156 final size:157
Alignment explanation
Indices: 390374--390685 Score: 590
Period size: 156 Copynumber: 2.0 Consensus size: 157
390364 TGGAGTATGA
390374 CACAGTCTGAGCTTTTTGCGGTCTTGTATGCTGTAAGTTTCTTGTGGACTTGGTATTATCTCAAA
1 CACAGTCTGAGCTTTTTGCGGTCTTGTATGCTGTAAGTTTCTTGTGGACTTGGTATTATCTCAAA
390439 TCTTAAAAGCTTTGCACGTCAATTTATTAAAAGACTAGCCATTATCAAAGCTGTGGTTTATCTGA
66 TCTTAAAAGCTTTGCACGTCAATTTATTAAAAGACTAGCCATTATCAAAGCTGTGGTTTATCTGA
*
390504 GTTTGAAATGTTATTTGATGTGTGTGG
131 GTTTGAAATGTTATTTGATATGTGTGG
*
390531 CACAGTCTGAGCTTTTTGTGGTCTTGTATGCTG-AAGTTTCTTGTGGACTTGGTATTATCTCAAA
1 CACAGTCTGAGCTTTTTGCGGTCTTGTATGCTGTAAGTTTCTTGTGGACTTGGTATTATCTCAAA
*
390595 TCTTAAAAGCTTTGCATGTCAATTTATTAAAAGACTAGCCATTATCAAAGCTGTGGTTTATCTGA
66 TCTTAAAAGCTTTGCACGTCAATTTATTAAAAGACTAGCCATTATCAAAGCTGTGGTTTATCTGA
390660 GTTTGAAATGTTATTTGATATGTGTG
131 GTTTGAAATGTTATTTGATATGTGTG
390686 TGTGTGTGTG
Statistics
Matches: 152, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
156 120 0.79
157 32 0.21
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (157 bp):
CACAGTCTGAGCTTTTTGCGGTCTTGTATGCTGTAAGTTTCTTGTGGACTTGGTATTATCTCAAA
TCTTAAAAGCTTTGCACGTCAATTTATTAAAAGACTAGCCATTATCAAAGCTGTGGTTTATCTGA
GTTTGAAATGTTATTTGATATGTGTGG
Found at i:390687 original size:2 final size:2
Alignment explanation
Indices: 390680--390706 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
390670 TTATTTGATA
390680 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
390707 TTGTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:407851 original size:3 final size:3
Alignment explanation
Indices: 407843--407869 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
407833 TATCTATTTT
407843 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
407870 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:407874 original size:3 final size:3
Alignment explanation
Indices: 407868--407915 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
407858 ATAATAATAA
407868 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
407916 CACTTAGCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:423856 original size:2 final size:2
Alignment explanation
Indices: 423851--423879 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
423841 AAAAAAGAAA
423851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
423880 GCTTGTAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:428725 original size:14 final size:13
Alignment explanation
Indices: 428700--428725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
428690 AATTATCTTG
428700 ATTTCCTTTTTTT
1 ATTTCCTTTTTTT
428713 ATTTCCTTTTTTT
1 ATTTCCTTTTTTT
428726 GTTGTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTCCTTTTTTT
Found at i:432936 original size:2 final size:2
Alignment explanation
Indices: 432931--432977 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
432921 AAAATCAAAG
432931 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
432973 TC TC T
1 TC TC T
432978 AACTATGAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:449287 original size:13 final size:13
Alignment explanation
Indices: 449271--449296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
449261 AAGTATTTTC
449271 TAGAAAATAAAAA
1 TAGAAAATAAAAA
449284 TAGAAAATAAAAA
1 TAGAAAATAAAAA
449297 CAAAAAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TAGAAAATAAAAA
Found at i:453509 original size:44 final size:44
Alignment explanation
Indices: 453459--453547 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
453449 GAACAAGAAA
* * *
453459 GAGAGAAGATGTTATCTTTACTAGCGACTTTCTGAATGATTGAT
1 GAGAGAAGAGGGTATCTTTACTAGCGACTTTCTAAATGATTGAT
*
453503 GAGAGAAGAGGGTATCTTTACTGGCGACTTTCTAAATGATTGAT
1 GAGAGAAGAGGGTATCTTTACTAGCGACTTTCTAAATGATTGAT
453547 G
1 G
453548 TTTATTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (44 bp):
GAGAGAAGAGGGTATCTTTACTAGCGACTTTCTAAATGATTGAT
Found at i:456732 original size:2 final size:2
Alignment explanation
Indices: 456725--456751 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
456715 AAGAAAGCAA
456725 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
456752 GTATTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:474476 original size:18 final size:17
Alignment explanation
Indices: 474450--474483 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
474440 GACCTCATTG
*
474450 CTGATGTCCAAATAGATA
1 CTGAAGTCCAAA-AGATA
474468 CTGAAGTCCAAAAGAT
1 CTGAAGTCCAAAAGAT
474484 CCCTCACGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
CTGAAGTCCAAAAGATA
Found at i:475202 original size:2 final size:2
Alignment explanation
Indices: 475190--475219 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
475180 ATGTATGGCT
*
475190 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
475220 AGGAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:477153 original size:12 final size:12
Alignment explanation
Indices: 477136--477177 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
477126 GATCTCAAGT
*
477136 TTATTATATTTA
1 TTATTATAATTA
477148 TTATTATAATTA
1 TTATTATAATTA
477160 TGTATTA-AATTA
1 T-TATTATAATTA
477172 CTTATT
1 -TTATT
477178 TGCAACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:488564 original size:56 final size:56
Alignment explanation
Indices: 488478--488591 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
488468 GAAAAAAGAA
*
488478 TACTAATTACTGGTACTAATTTCTTTAAATATTTCTTTCAAACCAGGATAATAGTC
1 TACTAATTACTGGTACTAATTTCTTTAAATATTTCTTGCAAACCAGGATAATAGTC
*
488534 TACTAATTACTGGTACTAATTTCTTTAAATATTTCTTGCAAATCAGGATAATAGTC
1 TACTAATTACTGGTACTAATTTCTTTAAATATTTCTTGCAAACCAGGATAATAGTC
488590 TA
1 TA
488592 GAAGGAAACT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (56 bp):
TACTAATTACTGGTACTAATTTCTTTAAATATTTCTTGCAAACCAGGATAATAGTC
Found at i:494344 original size:32 final size:34
Alignment explanation
Indices: 494285--494347 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
494275 AGGGTAAAAA
***
494285 AAAAAAAAAAGGAAAGAAATGTTAAAGAAAAATG
1 AAAAAAAAAAGGAAAGAAATAACAAAGAAAAATG
494319 AAAAAAAAAA-G-AAGAAATAACAAAGAAAA
1 AAAAAAAAAAGGAAAGAAATAACAAAGAAAA
494348 TTTGGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 15 0.58
33 1 0.04
34 10 0.38
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (34 bp):
AAAAAAAAAAGGAAAGAAATAACAAAGAAAAATG
Found at i:495418 original size:16 final size:17
Alignment explanation
Indices: 495397--495434 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
495387 AATTCATGAA
*
495397 TTTATTTTG-TAAAGAT
1 TTTATTTTGAAAAAGAT
495413 TTTA-TTTGAAAAAGAT
1 TTTATTTTGAAAAAGAT
495429 TTTATT
1 TTTATT
495435 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 4 0.21
16 14 0.74
17 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (17 bp):
TTTATTTTGAAAAAGAT
Found at i:497886 original size:16 final size:16
Alignment explanation
Indices: 497866--498030 Score: 110
Period size: 16 Copynumber: 10.4 Consensus size: 16
497856 CTAGGTTTTT
*
497866 AAAACCCCTGAAATCC
1 AAAACCCCTAAAATCC
* *
497882 GAAACCCTTAAAATCC
1 AAAACCCCTAAAATCC
*
497898 TAAACCCCCTAAAAATCC
1 -AAAACCCCT-AAAATCC
* *
497916 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
497932 -AAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
*
497948 AAAACCCCAAAAAATCC
1 AAAACCCC-TAAAATCC
* *
497965 AAAA--TCTCAAA-CC
1 AAAACCCCTAAAATCC
* * *
497978 TTTAAA-CTCTTAAATCC
1 --AAAACCCCTAAAATCC
497995 -AAACCCC-AAAATCC
1 AAAACCCCTAAAATCC
*
498009 AAAATCCCTAAAATCC
1 AAAACCCCTAAAATCC
498025 AAAACC
1 AAAACC
498031 TTAAATCAAA
Statistics
Matches: 116, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.02
14 12 0.10
15 19 0.16
16 43 0.37
17 33 0.28
18 7 0.06
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:497924 original size:17 final size:17
Alignment explanation
Indices: 497866--497968 Score: 106
Period size: 17 Copynumber: 6.2 Consensus size: 17
497856 CTAGGTTTTT
*
497866 AAAACCCCT-GAAATCC
1 AAAACCCCTAAAAATCC
* *
497882 GAAA-CCCTTAAAATCC
1 AAAACCCCTAAAAATCC
*
497898 TAAACCCCCTAAAAATCC
1 -AAAACCCCTAAAAATCC
* *
497916 AAAATCCCT-TAAATCC
1 AAAACCCCTAAAAATCC
497932 -AAACCCCTAAAAATCC
1 AAAACCCCTAAAAATCC
*
497948 AAAACCCCAAAAAATCC
1 AAAACCCCTAAAAATCC
497965 AAAA
1 AAAA
497969 TCTCAAACCT
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
15 11 0.15
16 21 0.30
17 28 0.39
18 11 0.15
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAACCCCTAAAAATCC
Found at i:497953 original size:50 final size:49
Alignment explanation
Indices: 497866--498048 Score: 145
Period size: 44 Copynumber: 3.9 Consensus size: 49
497856 CTAGGTTTTT
* * * *
497866 AAAACCCCTGAAATCCGAAACCCTTAAAATCCTAAACCCCCTAAAAATCC
1 AAAATCCCTGAAATCCGAAACCCTAAAAATCC-AAAACCCCAAAAAATCC
*
497916 AAAATCCCTTAAATCC-AAACCCCTAAAAATCCAAAACCCCAAAAAATCC
1 AAAATCCCTGAAATCCGAAA-CCCTAAAAATCCAAAACCCCAAAAAATCC
* * * *
497965 AAAAT--CTCAAA-CCTTTAAACTCT-TAAATCC-AAACCCC--AAAATCC
1 AAAATCCCTGAAATCC--GAAACCCTAAAAATCCAAAACCCCAAAAAATCC
* * *
498009 AAAATCCCTAAAATCC-AAAACCT-TAAAT-CAAAACCCCAAA
1 AAAATCCCTGAAATCCGAAACCCTAAAAATCCAAAACCCCAAA
498049 CCTCAAAACC
Statistics
Matches: 112, Mismatches: 11, Indels: 24
0.76 0.07 0.16
Matches are distributed among these distances:
43 1 0.01
44 29 0.26
46 15 0.13
47 13 0.12
48 3 0.03
49 26 0.23
50 25 0.22
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (49 bp):
AAAATCCCTGAAATCCGAAACCCTAAAAATCCAAAACCCCAAAAAATCC
Done.