Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168433.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_646, 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: 20781
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Found at i:584 original size:17 final size:17
Alignment explanation
Indices: 562--609 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
552 AATAAAAATT
562 AATTATAATTATATTTC
1 AATTATAATTATATTTC
* *
579 AATTATAAATGAT-TTTT
1 AATTAT-AATTATATTTC
*
596 ATTTATAATTATAT
1 AATTATAATTATAT
610 GTTAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTATAATTATATTTC
Found at i:1426 original size:181 final size:180
Alignment explanation
Indices: 1106--2695 Score: 919
Period size: 181 Copynumber: 8.8 Consensus size: 180
1096 AGATAATTTC
* * *
1106 TACTTATTAATTTTGAAAATATTAATAAACTAGTATTATTTTA-TTCTAATTAGGCTTGTATGAT
1 TACTTATTAATTTTG-AAATATTAATAAATTAGTATTATTTTATTTCGAA-TAAGCTT-T-T-AT
* * * * ** * * *
1170 GAAA--AAACAATTG--TTA-AAC-AACCAAAAAGTTCAAAAATAATTGGAAAATAGATAATTGT
61 GAAATGAAACAATTGTTTTATGACAAAAC-AAAAGGTCATAACGATTTGAAAAAT-GATAATTAT
* * *
1229 TCAAAT-GGCTATAACTATTTAAATTGATTCGATAAAATGATTTATGTTTT-AATCTCC
124 TCAAATAGTC-ATAACTATTTAAATTG-TTCGATAAAATGATTTATTTTTTAAATCTCT
* * * * * *
1286 AACTTCTTAACTTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTATGAAA
1 TACTTATTAA-TTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAAA
* * * *
1351 TGAAACAATTGTTTTATGATAAAA-ACAAAGGTCATAACGATTTTAAAAATGATAATTGTTTAAA
65 TGAAACAATTGTTTTATGACAAAACA-AAAGGTCATAACGATTTGAAAAATGATAATTATTCAAA
* * *
1415 TAGTCATAACTATTTAAAACTTGTTTGGTAAACA-GATTTATTTTTTAATTC-CT
129 TAGTCATAACTATTT-AAA-TTGTTCGATAAA-ATGATTTATTTTTTAAATCTCT
* * * *
1468 TACTTATTAATTTTTTG-AATGTTAATAAAATAGTATTATTTTATTTCGAATAAAG-ATGTATGA
1 TACTTATTAA--TTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAAT-AAGCTTTTATGA
* * * ** * * *
1531 ACTG-AACAATTATTTTATGACTAAACAAAAGGTCGGAATGATTTGAAATA-GATAATTATT-TA
63 AATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAAAATGATAATTATTCAA
* * * *
1593 ATAGTCTTAATTATTTGAATTGGTTC-A-ACAAATACATTTATTTTTTAAATCTCT
128 ATAGTCATAACTATTTAAATT-GTTCGATA-AAAT-GATTTATTTTTTAAATCTCT
* * ** * * * *
1647 TACTTATTAATTTTTAGAATATTATTAGTTTAGCAATA-TTTACTCCGAATAAG-TTTGTATGGA
1 TACTTATTAATTTTGA-AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTT-TAT-GA
* * * * * *
1710 CA-GAAATAATTGTTTTATGACAAAAC-AAAGATCATACCTGA-TTGGAGAATAGATAATTATTC
63 AATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC-GATTTGAAAAAT-GATAATTATTC
* * * * *
1772 AAATAGTCCCATAACTATTTGAATTAGTCCAGATAAAACAGATATA-GTTTTAAA--TC-
126 AAATAGT--CATAACTATTTAAATT-GTTC-GATAAAA-TGATTTATTTTTTAAATCTCT
* *
1828 T-CTTATTAATTTTCAAATATTAATAAAATTAGTATTATTTTATCTTTGAATAA--TTATGTATG
1 TACTTATTAATTTTGAAATATTAAT-AAATTAGTATTATTTTAT-TTCGAATAAGCTT-T-TATG
* * * ** *
1890 -AATAGAAA-AATTTTTTTATTAAAAAAC-AAAGGATCATAACGATTTGAAAAAAAATATTTATT
62 AAAT-GAAACAATTGTTTTATGACAAAACAAAAGG-TCATAACGATTTGAAAAATGATAATTATT
* * * ** * * ** * *
1952 TAAATAGTCATAATTATTTGAACTCACTCCGCTAAAACAAATTTATTTTTTAAATATTT
125 CAAATAGTCATAACTATTT-AAAT-TGTTCGATAAAA-TGATTTATTTTTTAAATCTCT
* * * * *
2011 TTCTTATTAATTTTTAAAATTTTAGTAAATTAGTATTATTTTATTTCGAATAAACTTTTATG-AA
1 TACTTATTAA-TTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAAA
* *
2075 TAGAAACAATT-TGTTTATGACAAAACAAAAGGTCATAATGATTTGAAATA-GATAATTATTCAA
65 T-GAAACAATTGT-TTTATGACAAAACAAAAGGTCATAACGATTTGAAAAATGATAATTATTCAA
* * ** * ** * * * * * *
2138 ATGGTCATAATTATTTTGAACGTGTTC-AAAAAACAAATATAATCTATATAT-TTT
128 ATAGTCATAACTA-TTT-AAATTGTTCGATAAAA-TGATTTATTTTTTAAATCTCT
* * * * **
2192 TACTTACTAATCTTTGGAATATTAGTAAATTTA-TATTATTTCATTT-GAAATAAGCTTGCATGA
1 TACTTATTAAT-TTTGAAATATTAATAAA-TTAGTATTATTTTATTTCG-AATAAGCTTTTATGA
* * * * *
2255 ACA-GAAACAATTTTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATA-GATAATTGTTCA
63 A-ATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAAAATGATAATTATTCA
* * * *
2318 AATAGTCATAACTATTTGAACTTGTTTGGT-AAATAGATTCCA-TTTTTAAATCTCT
127 AATAGTCATAACTATTT-AAATTGTTCGATAAAAT-GATT-TATTTTTTAAATCTCT
** * * * * * * * *
2373 TACTCGTTAATTTTTGGAATAGTAATAAGTTAGCATTATTTTATTTTGAATAAGCGTATATGAAT
1 TACTTATTAA-TTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAAA
* * *** *
2438 TGATATAATTGTTTTATGGTGAAACAAAAGGTCATAACGATTT--AAAATAGATAATTATTCAGA
65 TGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAAAAT-GATAATTATTCAAA
* * * * * *
2501 TACTTATTACTATTTGAACTTGTTCGGTAAACAT-ATTTATTTTTTAAATCTTT
129 TAGTCATAACTATTT-AAATTGTTCGATAAA-ATGATTTATTTTTTAAATCTCT
* * * * **
2554 TACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCCAAATAAGCTAATATGTAC
1 TACTTATTAATT-TTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATG-A-
* * * *
2619 AA--AAATAATTGTTTTATGACAAAACAAAAGGTCATAATGATTT--AAAATAAATAATTGTTTC
63 AATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAAAAT-GATAATT-ATTC
2680 -AATAGTCATAACTATT
126 AAATAGTCATAACTATT
2696 CAAAATTATT
Statistics
Matches: 1108, Mismatches: 220, Indels: 163
0.74 0.15 0.11
Matches are distributed among these distances:
176 2 0.00
177 18 0.02
178 47 0.04
179 107 0.10
180 122 0.11
181 478 0.43
182 150 0.14
183 84 0.08
184 72 0.06
185 27 0.02
186 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
TACTTATTAATTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTTATGAAAT
GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAAAATGATAATTATTCAAATA
GTCATAACTATTTAAATTGTTCGATAAAATGATTTATTTTTTAAATCTCT
Found at i:2562 original size:543 final size:537
Alignment explanation
Indices: 1320--2695 Score: 1341
Period size: 543 Copynumber: 2.5 Consensus size: 537
1310 ATAAAGTAAT
* * * *
1320 ATTATTTTATTTTGGATAAGCTTTTATGAAATGAAACAATTGTTTTATGATAAAAACAAAGGTCA
1 ATTATTTTATTTTGAATAAGCATATATGAATTGAAA-AATTGTTTTATG-TAAAAACAAAGGTCA
* * * *
1385 TAACGATTTTAAAAATGATAATTGTTTAAATAGTCATAACTATTTAAAACTTGTTTGGTAAACAG
64 TAACGA-TTTAAAAA-GATAATTATTTAAATAGTCATAACTATTT-GAACTTGTTCGGTAAACAA
* * ** * *
1450 ATTTATTTTTTAATTC-CTTACTTATTAATTTTTTGAATGTTAATAAAATAGTATTATTTTATTT
126 ATTTATTTTTTAAATCTTTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTT
** * * **
1514 CGAATAAAGATGTATGAACT-G-AACAATTAT-TTTATGACTAAACAAAAGGTCGGAATGATTTG
191 CGAATAAACTTATATGAA-TAGAAACAATT-TGTTTATGACAAAACAAAAGGTCATAATGATTTG
* * * * * * * * * *
1576 AAATAGATAATTATTTAATAGTCTTAATTATTTGAATTGGTTCAACAAATACATTTATTTTTTAA
254 AAATAGATAATTATTAAATAGTCATAATTATTTGAAGTGGTTCAAAAAACAAATATAATCTATAA
* * * * * *
1641 ATCTCTTACTTATTAATTTTTAGAATATTATTAGTTTAGCAATATTTACTCCGAATAAGTTTGTA
319 ATCTCTTACTTACTAATCTTTAGAATATTATAAATTTAGCAATATTTACTCCGAATAAGCTTGCA
* * * *
1706 TGGACAGAAATAATTGTTTTATGACAAAACAAAGATCATACCTGATTGGAGAATAGATAATTATT
384 TGAACAGAAACAATTGTTTTATGACAAAACAAAGATCATAACTAATTGGAGAATAGATAATTATT
1771 CAAATAGTCCCATAACTATTTGAATTAGTCCAGATAAAACAGATATAGTTTTAAATCTCTTATTA
449 CAAATAGT-CCATAACTATTTGAATTAGTCCAGATAAAACAGATATAGTTTTAAATCTCTTATTA
* *
1836 ATTTTCAAATATTAATAAAATTAGT
513 ATTTTCAAATAGTAATAAAATTAGC
** * * *
1861 ATTATTTTATCTTTGAATAATTATGTATGAATAGAAAAATTTTTTTAT-TAAAAAACAAAGGATC
1 ATTATTTTAT-TTTGAATAAGCATATATGAATTGAAAAATTGTTTTATGT-AAAAACAAAGG-TC
* * * ** * *
1925 ATAACGATTTGAAAAAAAATATTTATTTAAATAGTCATAATTATTTGAACTCACTCCGCTAAAAC
63 ATAACGATTT--AAAAAGATAATTATTTAAATAGTCATAACTATTTGAACT-TGTTCGGT-AAAC
* * * *
1990 AAATTTATTTTTTAAATATTTTTCTTATTAATTTTTAAAATTTTAGTAAATTAGTATTATTTTAT
124 AAATTTATTTTTTAAATCTTTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTAT
*
2055 TTCGAATAAACTTTTATGAATAGAAACAATTTGTTTATGACAAAACAAAAGGTCATAATGATTTG
189 TTCGAATAAACTTATATGAATAGAAACAATTTGTTTATGACAAAACAAAAGGTCATAATGATTTG
*
2120 AAATAGATAATTATTCAAATGGTCATAATTATTTTGAACGT-GTTCAAAAAACAAATATAATCTA
254 AAATAGATAATTATT-AAATAGTCATAATTA-TTTGAA-GTGGTTCAAAAAACAAATATAATCTA
* * * * * **
2184 TATAT-TTTTACTTACTAATCTTTGGAATATTAGTAAATTTA-TATTATTT-CATTTGAAATAAG
316 TAAATCTCTTACTTACTAATCTTTAGAATATTA-TAAATTTAGCAATATTTAC-TCCG-AATAAG
* * * *
2246 CTTGCATGAACAGAAACAATTTTTTTATGGCAAAACAAAAGGTCATAAC-AATTTGA-AATAGAT
378 CTTGCATGAACAGAAACAATTGTTTTATGACAAAAC-AAAGATCATAACTAATTGGAGAATAGAT
* ** * * *
2309 AATTGTTCAAATAGT-CATAACTATTTGAACTT-GT-TTGGT-AAATAGAT-TCCATTTTTAAAT
442 AATTATTCAAATAGTCCATAACTATTTGAA-TTAGTCCAGATAAAACAGATAT--AGTTTTAAAT
** *
2369 CTCTTACTCGTTAATTTTTGGAATAGTAAT-AAGTTAGC
504 CTCTTA----TTAA-TTTTCAAATAGTAATAAAATTAGC
* * *
2407 ATTATTTTATTTTGAATAAGCGTATATGAATTGATATAATTGTTTTATGGT-GAAACAAAAGGTC
1 ATTATTTTATTTTGAATAAGCATATATGAATTGA-AAAATTGTTTTAT-GTAAAAAC-AAAGGTC
* * * * * *
2471 ATAACGATTTAAAATAGATAATTATTCAGATACTTATTACTATTTGAACTTGTTCGGTAAACATA
63 ATAACGATTTAAAA-AGATAATTATTTAAATAGTCATAACTATTTGAACTTGTTCGGTAAACAAA
* * * * *
2536 TTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCC
127 TTTATTTTTTAAATCTTTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTC
* * * * * * * *
2601 AAATAAGCTAATATGTACAAAAATAA-TTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAA
192 GAATAAACTTATATGAATAGAAACAATTTG-TTTATGACAAAACAAAAGGTCATAATGATTTGAA
* * * *
2665 ATAAATAATTGTTTCAATAGTCATAACTATT
256 ATAGATAATT-ATTAAATAGTCATAATTATT
2696 CAAAATTATT
Statistics
Matches: 681, Mismatches: 121, Indels: 65
0.79 0.14 0.07
Matches are distributed among these distances:
539 1 0.00
540 19 0.03
541 64 0.09
542 66 0.10
543 208 0.31
544 64 0.09
545 110 0.16
546 120 0.18
547 28 0.04
548 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (537 bp):
ATTATTTTATTTTGAATAAGCATATATGAATTGAAAAATTGTTTTATGTAAAAACAAAGGTCATA
ACGATTTAAAAAGATAATTATTTAAATAGTCATAACTATTTGAACTTGTTCGGTAAACAAATTTA
TTTTTTAAATCTTTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTCGAAT
AAACTTATATGAATAGAAACAATTTGTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGA
TAATTATTAAATAGTCATAATTATTTGAAGTGGTTCAAAAAACAAATATAATCTATAAATCTCTT
ACTTACTAATCTTTAGAATATTATAAATTTAGCAATATTTACTCCGAATAAGCTTGCATGAACAG
AAACAATTGTTTTATGACAAAACAAAGATCATAACTAATTGGAGAATAGATAATTATTCAAATAG
TCCATAACTATTTGAATTAGTCCAGATAAAACAGATATAGTTTTAAATCTCTTATTAATTTTCAA
ATAGTAATAAAATTAGC
Found at i:3331 original size:28 final size:27
Alignment explanation
Indices: 3296--3352 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
3286 TATTATTATT
*
3296 ATTTTAATCTATACAGTTAATAATTTA
1 ATTTTAATCTATACAGTAAATAATTTA
3323 ATTTATAATCTATACAGTAAATAATTTA
1 ATTT-TAATCTATACAGTAAATAATTTA
3351 AT
1 AT
3353 AATTATAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTTTAATCTATACAGTAAATAATTTA
Found at i:3927 original size:7 final size:7
Alignment explanation
Indices: 3911--4031 Score: 61
Period size: 7 Copynumber: 16.7 Consensus size: 7
3901 TTAATTAGTT
3911 TTAATAA
1 TTAATAA
*
3918 TTAATTA
1 TTAATAA
*
3925 TTAAACATA
1 TT-AATA-A
3934 TTAATAA
1 TTAATAA
* *
3941 TTATTAT
1 TTAATAA
3948 TTAATAA
1 TTAATAA
3955 TTAAT-A
1 TTAATAA
*
3961 TCAATAATA
1 TTAAT-A-A
3970 TTAA-AA
1 TTAATAA
*
3976 TTGATAA
1 TTAATAA
*
3983 TATAGT-A
1 T-TAATAA
3990 TTAAT-A
1 TTAATAA
3996 TTAATAAA
1 TTAAT-AA
*
4004 TTATTAA
1 TTAATAA
*
4011 TTAATAT
1 TTAATAA
4018 TTCAATATA
1 TT-AATA-A
4027 TTAAT
1 TTAAT
4032 TTTATTCGAA
Statistics
Matches: 85, Mismatches: 18, Indels: 21
0.69 0.15 0.17
Matches are distributed among these distances:
6 18 0.21
7 39 0.46
8 19 0.22
9 9 0.11
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (7 bp):
TTAATAA
Found at i:3935 original size:33 final size:33
Alignment explanation
Indices: 3868--3952 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 33
3858 ATTAAATAAG
*
3868 TTAATTATTTTAATTAATGAATAAATTCAAATA
1 TTAATTATTTTAATTAATGAATAAATTAAAATA
* *
3901 TTAATTAGTTTTAA-TAATTAAT-TATTAAACATA
1 TTAATTA-TTTTAATTAATGAATAAATTAAA-ATA
* *
3934 TTAATAATTATTATTTAAT
1 TTAATTATT-TTAATTAAT
3953 AATTAATATC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 7 0.16
33 26 0.60
34 10 0.23
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (33 bp):
TTAATTATTTTAATTAATGAATAAATTAAAATA
Found at i:5465 original size:181 final size:180
Alignment explanation
Indices: 4196--5849 Score: 1141
Period size: 180 Copynumber: 9.2 Consensus size: 180
4186 ATTATGTCAA
* * * * * *
4196 AATACTAATTTGTTAATATTTTGACAATTAAATAAGTAAAA-ATTTTAAAAATAAATATGTTTAC
1 AATACTAATTTATTAATATTCTAAAAATT-AATAAGTAAAAGATTTAAAAAATAAATATTTTTAC
* * * * * * *
4260 C-ACACTAGATCAAATAATCACGACAATTTGAAATAATTATCTA-TT----TCA--ATGA-CCTT
65 CGA-ACAAGTTCAAATAGTTATGACTATTTG-AATAATTATCTATTTCAAATCATTATGATCTTT
* * * * * **
4316 TGCTTTGTCATAAAAGAATT-GTTC-AATCATATAAACTTA-TTCAAAATAAAAT
128 TGTTTTGTCAT-AAACAATTATTTCTATTCATACAAGTTTATTTC-AAATAAAAT
* * * * * * *
4368 AATACTAATTTATTAATAATCCAAAAATTTATAA-TAAAGAGATTTAAAAAATGACTCTGTTT-C
1 AATACTAATTTATTAATATTCTAAAAATTAATAAGTAAA-AGATTTAAAAAATAAATATTTTTAC
** * * * * * * * * * *
4431 TAAACAAATTTAAATAATTAGGACTGTTTAAAATAATTATCTATTTGAAAT-AGCTATAACCTTT
65 CGAACAAGTTCAAATAGTTATGACTATTT-GAATAATTATCTATTTCAAATCA-TTATGATCTTT
* * * * *
4495 TGTTTTGTCATACAAGAATTTTTTTTGTTTGTTCAT-CTAAGCTTATTTCAAAT-AAAT
128 TGTTTTGTCATA-AACAA---TTATT-TCTATTCATAC-AAGTTTATTTCAAATAAAAT
4552 AATAC-ATATTTATTAATA-T-TAAGACAATTAATAAGTAAAAGATTTAAAAAATAAAT-TTGTT
1 AATACTA-ATTTATTAATATTCTAA-A-AATTAATAAGTAAAAGATTTAAAAAATAAATATT-TT
* * * ** * * **
4613 TACCAAACAAGTTCAAATCA-TTATGGCAATTTGAGCAATTATTTATTTCAACTTGTTATGA-CT
62 TACCGAACAAGTTCAAAT-AGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGATC-
* *
4676 TTTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTAATTCAGATTAAAAT
125 TTTTGTTTTGTCAT-AAACAATTATTTCTATTCATACAAGTTTATTTCA-AATAAAAT
* * * * ** *
4734 AATATTAATTTATAAATATTTTGATCATTAATAAGTAAAAGATTTAAAAAAATAAATATATTTAC
1 AATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTT-AAAAAATAAATATTTTTAC
** * * * *
4799 TAAACAAGTTCAAATAGTCATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTC
65 CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGATCTTTTG
* * * * * * * * *
4864 TTTTGTAATAAAAACACTTGTTTCAATTCTTAGAAGTTTATTTGAAGTAAGAT
130 TTTTGTCAT--AAACAATTATTTCTATTCATACAAGTTTATTTCAAATAAAAT
* * * * * *
4917 AATACTAATTCATTAATATTCTGAAAATTAATGAGTAAGAGAATTAAAAAA-AGAATATGTTTAC
1 AATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATA-AATATTTTTAC
* * * * *
4981 CGAATAAGTTCAAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTACGATCTTTTG
65 CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGATCTTTTG
* ** * * * * *
5046 TTTTGTCATTAAACAGTTGGTTATGCTT-ATGCAAGCTTATTTCAAATAAAGT
130 TTTTGTCA-TAAACAATTATTTCT-ATTCATACAAGTTTATTTCAAATAAAAT
* * *
5098 AAT-TTAAATTTATTAATATTCCAAAAATTAATAAGT-AAA-ACTTAAAAAA-AAATATATATTT
1 AATACT-AATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATAT-T-TTT
* * * * ** *
5159 TCTGAACAATTTCAAATAGTTATGACTATTTGAAGAATTATCTATTTCAAATTGTTATGACCTTT
63 ACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGATCTTT
* * * *
5224 TGTTTTGTCATAAACCAACTGTTTCTATTCATAAAAGCTTT-TTTGAAATAAAAT
128 TGTTTTGTCATAAA-CAATTATTTCTATTCATACAAG-TTTATTTCAAATAAAAT
* * *
5278 AATACTAATTTTTTAAAATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTTTTTAC
1 AATACTAATTTATTAATATTCT-AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATTTTTAC
* * * * *
5343 CGAGCAAGTTCAAATAATTATGACTATTGGAATAATTTTTTATTTCAAATCATTATGATCTTTTG
65 CGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGATCTTTTG
* * *
5408 TTTTGTCATAAACAATTATTTCTATTCACACAATTTTATTTGAAATAAAAT
130 TTTTGTCATAAACAATTATTTCTATTCATACAAGTTTATTTCAAATAAAAT
* ***
5459 AATACTAATTTATTAGTATTCTAAAAATTAATAAGTTTGAGATTTAAAAAATAAAT-TTGTTTAC
1 AATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATT-TTTAC
* * * ** * *
5523 CAAACAAGTTTAAATAGTCATGTTTATTTGAACT-ATTATTTATTTCAAATCATAATGA-CATTT
65 CGAACAAGTTCAAATAGTTATGACTATTTGAA-TAATTATCTATTTCAAATCATTATGATC-TTT
** * *
5586 TGTTTTGTTGTAAAACAATTATTTCTGTTCATGTACAA--TTA-TTCAGAATATAAT
128 TGTTTTGTCAT-AAACAATTATTTCTATTCA--TACAAGTTTATTTCA-AATAAAAT
* * * * * * *
5640 AATACTGATCTATTAATATTTTGATAATTAATAAG----AGATTTAAAAACA-AAATCTATTTAC
1 AATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAA-ATAAATATTTTTAC
* * * *
5700 CGAA-ATAATTCAAATATTTATGACTATTTGAATAATTATCTATCTCAAATCTTTATGATC-TTT
65 CGAACA-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGATCTTTT
* * * *** * * * *
5763 ATTTTGTCATAAAACAA-GAGTTTCTTTTCATATTGGCTT-CTTCAATTCAAAT
129 GTTTTGTCAT-AAACAATTA-TTTCTATTCATACAAGTTTATTTCAAATAAAAT
* * *
5815 AATACTAATTTAATAATATTCCAAAAATTAGTAAG
1 AATACTAATTTATTAATATTCTAAAAATTAATAAG
5850 AGATTTAAAA
Statistics
Matches: 1176, Mismatches: 232, Indels: 145
0.76 0.15 0.09
Matches are distributed among these distances:
170 4 0.00
171 36 0.03
172 43 0.04
174 2 0.00
175 34 0.03
176 35 0.03
177 63 0.05
178 12 0.01
179 37 0.03
180 226 0.19
181 187 0.16
182 194 0.16
183 138 0.12
184 121 0.10
185 40 0.03
186 4 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (180 bp):
AATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATTTTTACC
GAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATGATCTTTTGT
TTTGTCATAAACAATTATTTCTATTCATACAAGTTTATTTCAAATAAAAT
Found at i:5643 original size:362 final size:356
Alignment explanation
Indices: 4196--5861 Score: 1176
Period size: 362 Copynumber: 4.6 Consensus size: 356
4186 ATTATGTCAA
* * * * * *
4196 AATACTAATTTGTTAATATTTTGACAATTAAATAAGTAAAA-ATTTTAAAAATAAATATGTTTAC
1 AATACTAATTTATTAATATTCTGAAAATT-AATAAGTAAAAGA-TTTAAAAAAAAATCTTTTTAC
* * * * * * *
4260 C-ACACTAGATCAAATAATCACGACAATTTGAAATAATTATCTA-TT----TCA--ATGA-CCTT
64 CGA-ACAAGTTCAAATAATTATGACTATTTG-AACAATTATCTATTTCAAATCATTATGATCTTT
* * * * * ** *
4316 TGCTTTGTCATAAAAGAATT-GTTC-AATCATATAAACTTA-TTCAAAATAAAATAATACTAATT
127 TGTTTTGTCAT-AAACAATTATTTCTATTCATACAAGTTTATTTC-AAATAAAATAATATTAATT
* * * * * * * * *
4378 TATTAATAATCCAAAAATTTATAA-TAAAGAGATTTAAAAAATGACTCTGTTT-CTAAACAAATT
190 TATTAATATTCTAAAAATTAATAAGT-TA-AGATTTAAAAAATAAATTTATTTACTAAACAAGTT
* * * * * * * * * *
4441 TAAATAATTAGGACTGTTTAAAATAATTATCTATTTGAAAT-AGCTATAACCTTTTGTTTTGTCA
253 TAAATAGTCATGAATATTT-GAAT-ATTATCTATTTCAAATCA-TTATGACCTTTTGTTTTGTAA
* * * * * ** * *
4505 TACAAGAATTTTTTTTGTTTGTTCATCTAAGCTTATTTCAAATAAAT
315 TAAAACAATTGTTTCTATTCATT-A--AAAG-TTATTT-GAATAAAT
** *
4552 AATAC-ATATTTATTAATATTAAGACAATTAATAAGTAAAAGATTTAAAAAATAAAT-TTGTTTA
1 AATACTA-ATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAA-AAATCTT-TTTA
* * * * * * * **
4615 CCAAACAAGTTCAAATCATTATGGCAATTTGAGCAATTATTTATTTCAACTTGTTATGA-CTTTT
63 CCGAACAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGATC-TTT
* *
4679 TGTTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTAATTCAGATTAAAATAATATTAATT
127 TGTTTTGTCAT-AAACAATTATTTCTATTCATACAAGTTTATTTCA-AATAAAATAATATTAATT
* * * ** * *
4744 TATAAATATTTTGATCATTAATAAGTAAAAGATTTAAAAAAATAAATATATTTACTAAACAAGTT
190 TATTAATATTCTAAAAATTAATAAGT-TAAGATTT-AAAAAATAAATTTATTTACTAAACAAGTT
* *
4809 CAAATAGTCATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTCTTTTGTAATA
253 TAAATAGTCATGAATATTTGAAT-ATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTAAT-
* * *
4874 AAAACACTTGTTTCAATTC-TTAGAAGTTTATTTGAAGTAAGAT
316 AAAACAATTGTTTCTATTCATTAAAAG-TTATTTGAA-TAA-AT
* * * * * *
4917 AATACTAATTCATTAATATTCTGAAAATTAATGAGTAAGAGAATTAAAAAAAGAATATGTTTACC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAAA-AATCTTTTTACC
* * * * *
4982 GAATAAGTTCAAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTACGATCTTTTGT
65 GAACAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGATCTTTTGT
* ** * * * * *
5047 TTTGTCATTAAACAGTTGGTTATGCTT-ATGCAAGCTTATTTCAAATAAAGTAAT-TTAAATTTA
130 TTTGTCA-TAAACAATTATTTCT-ATTCATACAAGTTTATTTCAAATAAAATAATATT-AATTTA
* * * * *
5110 TTAATATTCCAAAAATTAATAAG-TAAAACTTAAAAAA-AAATATATATTTTCTGAACAA-TTTC
192 TTAATATTCTAAAAATTAATAAGTTAAGATTTAAAAAATAAAT-T-TATTTACTAAACAAGTTT-
* * * ** *
5172 AAATAGTTATGACTATTTGAAGAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAA
254 AAATAGTCATGAATATTTGAA-TATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTAATAA
* * *
5237 ACCAACTGTTTCTATTCA-TAAAAGCTTTTTTGAAATAAAAT
318 AACAATTGTTTCTATTCATTAAAAG-TTATTTG-AAT-AAAT
* * *
5278 AATACTAATTTTTTAAAATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTTTTTAC
1 AATACTAATTTATTAATATTCT-GAAAATTAATAAGTAAAAGATTTAAAAAA-AAATCTTTTTAC
* * * * *
5343 CGAGCAAGTTCAAATAATTATGACTATTGGAATAATTTTTTATTTCAAATCATTATGATCTTTTG
64 CGAACAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGATCTTTTG
* * * *
5408 TTTTGTCATAAACAATTATTTCTATTCACACAATTTTATTTGAAATAAAATAATACTAATTTATT
129 TTTTGTCATAAACAATTATTTCTATTCATACAAGTTTATTTCAAATAAAATAATATTAATTTATT
* * * *
5473 AGTATTCTAAAAATTAATAAGTTTGAGATTTAAAAAATAAATTTGTTTACCAAACAAGTTTAAAT
194 AATATTCTAAAAATTAATAAG-TTAAGATTTAAAAAATAAATTTATTTACTAAACAAGTTTAAAT
** * * * **
5538 AGTCATGTTTATTTGAACTATTATTTATTTCAAATCATAATGACATTTTGTTTTGTTGTAAAACA
258 AGTCATGAATATTTGAA-TATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTAATAAAACA
* * * *
5603 ATTATTTCTGTTCATGTACAA-TTATTCAGAATATAAT
322 ATTGTTTCTATTCAT-TAAAAGTTATT-TGAATA-AAT
* * * * *
5640 AATACTGATCTATTAATATTTTGATAATTAATAAG----AGATTTAAAAACAAAATCTATTTACC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAA-AAAATCTTTTTACC
* * * * * *
5701 GAA-ATAATTCAAATATTTATGACTATTTGAATAATTATCTATCTCAAATCTTTATGATC-TTTA
65 GAACA-AGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGATCTTTTG
* * *** * * * * *
5764 TTTTGTCATAAAACAA-GAGTTTCTTTTCATATTGGCTT-CTTCAATTCAAATAATACTAATTTA
129 TTTTGTCAT-AAACAATTA-TTTCTATTCATACAAGTTTATTTCAAATAAAATAATATTAATTTA
* * *
5827 ATAATATTCCAAAAATTAGTAAG---AGATTTAAAAAA
192 TTAATATTCTAAAAATTAATAAGTTAAGATTTAAAAAA
5862 AATAGTTAAA
Statistics
Matches: 1043, Mismatches: 213, Indels: 112
0.76 0.16 0.08
Matches are distributed among these distances:
352 12 0.01
355 30 0.03
356 112 0.11
357 91 0.09
358 1 0.00
360 7 0.01
361 127 0.12
362 283 0.27
363 41 0.04
364 56 0.05
365 144 0.14
366 48 0.05
367 56 0.05
368 35 0.03
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (356 bp):
AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAAAAATCTTTTTACCG
AACAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGATCTTTTGTT
TTGTCATAAACAATTATTTCTATTCATACAAGTTTATTTCAAATAAAATAATATTAATTTATTAA
TATTCTAAAAATTAATAAGTTAAGATTTAAAAAATAAATTTATTTACTAAACAAGTTTAAATAGT
CATGAATATTTGAATATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTAATAAAACAATTG
TTTCTATTCATTAAAAGTTATTTGAATAAAT
Found at i:6381 original size:22 final size:22
Alignment explanation
Indices: 6355--6401 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6345 AATTTAACTA
6355 ATATTCTAA-ATATTAATTAAAG
1 ATATTCTAATATATTAATT-AAG
* *
6377 ATATTTTAATTTATTAATTAAG
1 ATATTCTAATATATTAATTAAG
6399 ATA
1 ATA
6402 ATAATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
ATATTCTAATATATTAATTAAG
Found at i:6449 original size:10 final size:9
Alignment explanation
Indices: 6399--6488 Score: 57
Period size: 8 Copynumber: 10.1 Consensus size: 9
6389 ATTAATTAAG
6399 ATAATAATTA
1 ATAAT-ATTA
*
6409 ATTACTATATA
1 A-TAATAT-TA
*
6420 ATAATA-AA
1 ATAATATTA
6428 ATAATATTA
1 ATAATATTA
6437 ATAATATT-
1 ATAATATTA
6445 -TAATAATTA
1 ATAAT-ATTA
*
6454 TTAAT-TTA
1 ATAATATTA
6462 ATAATATTA
1 ATAATATTA
*
6471 CTACAT-TTA
1 ATA-ATATTA
6480 ATAAT-TTA
1 ATAATATTA
6488 A
1 A
6489 GTACTACTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
7 4 0.06
8 23 0.35
9 19 0.29
10 13 0.20
11 6 0.09
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
ATAATATTA
Found at i:6462 original size:15 final size:16
Alignment explanation
Indices: 6442--6485 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
6432 TATTAATAAT
*
6442 ATTTAATAATTATTA-
1 ATTTAATAATTACTAC
6457 ATTTAATAATATTACTAC
1 ATTTAAT-A-ATTACTAC
6475 ATTTAATAATT
1 ATTTAATAATT
6486 TAAGTACTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.28
16 4 0.16
17 7 0.28
18 7 0.28
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAATAATTACTAC
Found at i:6716 original size:14 final size:15
Alignment explanation
Indices: 6697--6733 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
6687 TATAATTAAT
6697 TTAATTAATAT-TTA
1 TTAATTAATATATTA
6711 TTAATTAA-ATATTA
1 TTAATTAATATATTA
6725 TT-ATTAATA
1 TTAATTAATA
6734 AAATAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATTAATATATTA
Found at i:6730 original size:17 final size:15
Alignment explanation
Indices: 6697--6738 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
6687 TATAATTAAT
6697 TTAATT-AATATTTA
1 TTAATTAAATATTTA
6711 TTAATTAAATATTATTA
1 TTAATTAAATA-T-TTA
*
6728 TTAATAAAATA
1 TTAATTAAATA
6739 ATAGTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 1 0.04
17 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAAATATTTA
Found at i:6746 original size:17 final size:17
Alignment explanation
Indices: 6709--6747 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6699 AATTAATATT
* * *
6709 TATTAATTAAATATTAT
1 TATTAATAAAATAATAG
6726 TATTAATAAAATAATAG
1 TATTAATAAAATAATAG
6743 TATTA
1 TATTA
6748 TTTTAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTAATAAAATAATAG
Found at i:7124 original size:19 final size:18
Alignment explanation
Indices: 7092--7130 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7082 ATGTTATTTT
7092 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
* *
7110 ATTAAAATATTAATTGTTA
1 ATTAAAA-ATAAATTATTA
7129 AT
1 AT
7131 ATTTCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:7503 original size:16 final size:16
Alignment explanation
Indices: 7462--7509 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
7452 ATTATAAAAA
7462 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
7479 TATAATAATATTA-AT
1 TATTATAATATTATAT
7494 TATTAGTAATATTATA
1 TATTA-TAATATTATA
7510 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:7513 original size:25 final size:25
Alignment explanation
Indices: 7442--7519 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 25
7432 TGGATAATAA
7442 AATTATTAATATTATAAAAATATT-AT
1 AATTA-TAATATTAT-AAAATATTAAT
*
7468 AATTATTATATTATAATAATATTAAT
1 AATTATAATATTATAA-AATATTAAT
*
7494 TATTAGTAATATTAT-AAATATTAAT
1 AATTA-TAATATTATAAAATATTAAT
7519 A
1 A
7520 TAATAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
24 2 0.04
25 23 0.51
26 12 0.27
27 8 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (25 bp):
AATTATAATATTATAAAATATTAAT
Found at i:7537 original size:15 final size:15
Alignment explanation
Indices: 7500--7544 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
7490 TAATTATTAG
*
7500 TAATATTATAAATAT
1 TAATATAATAAATAT
7515 TAATATAATAAAT-T
1 TAATATAATAAATAT
7529 TAATAATAATATAATA
1 TAAT-ATAATA-AATA
7545 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 5 0.19
15 18 0.69
16 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATATAATAAATAT
Found at i:7620 original size:44 final size:45
Alignment explanation
Indices: 7528--7613 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 45
7518 TATAATAAAT
* * * * *
7528 TTAATAATAATATAATAATACTAATTACAATTGATTATTAAACTA
1 TTAATAATAATATAATAATACTAATAAAAATTAATCAGTAAACTA
* *
7573 TTAATAATAA-ATAATCATAGTAATAAAAATTAATCAGTAAA
1 TTAATAATAATATAATAATACTAATAAAAATTAATCAGTAAA
7614 TAATTAAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 24 0.71
45 10 0.29
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (45 bp):
TTAATAATAATATAATAATACTAATAAAAATTAATCAGTAAACTA
Found at i:8468 original size:13 final size:13
Alignment explanation
Indices: 8450--8474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8440 TTATAATAAA
8450 TTAGTTTTAAATT
1 TTAGTTTTAAATT
8463 TTAGTTTTAAAT
1 TTAGTTTTAAAT
8475 CTCTTATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTAGTTTTAAATT
Found at i:8744 original size:163 final size:161
Alignment explanation
Indices: 8534--8850 Score: 406
Period size: 163 Copynumber: 2.0 Consensus size: 161
8524 AATAATTTGC
* * * * *
8534 ATGAATAGAAACATTGTTTTATGACAAAAAAAGGTCATAATTATTTGAAATAGATAATTGTTCAA
1 ATGAATAGAAACATTGTTTTAGGACAAAAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAA
* * * * * **
8599 ATGGACAT-GACTATTTGGACTTA-TTCAGTAAATAGATTTATTTTTTAAA-TTTCTACTTACTA
66 ATAGACATAAACGATTT-GAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTTCTACTTACTA
*
8661 ACTTTCAAAGTATTAATCAATTAGTATTATTGT
130 ACTTTCAAA-TATTAATAAATTAGTATTATTGT
8694 ATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTT
1 ATGAATAGAAAC-ATTGTTTTAGGAC-AAA-AAAAGATCATAACTATTTGAAATAAAAAATTGTT
* * *
8759 CAAATAGCCATAAACGATTTGAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTTTTACTTAT
63 CAAATAGACATAAACGATTTGAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTTCTACTTAC
* *
8824 TAATTTTGAAATATTAATAAATTAGTA
128 TAACTTTCAAATATTAATAAATTAGTA
8851 CATTTTATTT
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
160 12 0.09
161 12 0.09
162 3 0.02
163 44 0.33
164 44 0.33
165 18 0.14
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (161 bp):
ATGAATAGAAACATTGTTTTAGGACAAAAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAA
ATAGACATAAACGATTTGAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTTCTACTTACTAA
CTTTCAAATATTAATAAATTAGTATTATTGT
Found at i:9099 original size:183 final size:179
Alignment explanation
Indices: 8690--9126 Score: 558
Period size: 180 Copynumber: 2.4 Consensus size: 179
8680 ATTAGTATTA
* *
8690 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAG-TCATAACTATTTGAAATAGATAAT
* * * *
8755 TGTTCAAATAGCCATAAACGATTTGAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTTTTAC
65 TGTTCAAAGAGCCATAAACGATTTGAATCAGTTCAGAAAACAAATTTATTTTAAAAATTTTTTAC
* *
8820 TTATTAATTTTGAAATATTAATAAATTAGTACATTTTATTTCAAATATGC
130 TTATTAATTTTGAAATATTAATAAATTAGTACATTTTACTTCAAATAAGC
* * *
8870 TTGTATGAATAGAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTATTTGAAATAGATAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAA-AGTCATAACTATTTGAAATAGATAAT
* * * * *
8935 TGTTCAAAGAGTCAT-AACTATTTG-ATCATGTTTAGAAAACATAATTATTTTTTTAAAATTTTT
65 TGTTCAAAGAGCCATAAACGATTTGAATCA-GTTCAGAAAACA-AATT-TATTTTAAAAATTTTT
*
8998 TACTTATTAATTTTTGAAATATTAATAAATTTA-TATTATTTT-CTTCAGAATAAGC
127 TACTTATTAA-TTTTGAAATATTAATAAA-TTAGTA-CATTTTACTTCA-AATAAGC
* * *
9053 TTGTTTGAATAGAAACAATTGTTTTAGGATAAAACAAAATGTCATAAACAATTTGAAATAGATAA
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAA-GTCAT-AACTATTTGAAATAGATAA
*
9118 TAGTTCAAA
64 TTGTTCAAA
9127 TGGACATGAC
Statistics
Matches: 223, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
178 3 0.01
179 18 0.08
180 74 0.33
181 25 0.11
182 24 0.11
183 53 0.24
184 26 0.12
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.39
Consensus pattern (179 bp):
TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGTCATAACTATTTGAAATAGATAATT
GTTCAAAGAGCCATAAACGATTTGAATCAGTTCAGAAAACAAATTTATTTTAAAAATTTTTTACT
TATTAATTTTGAAATATTAATAAATTAGTACATTTTACTTCAAATAAGC
Found at i:10370 original size:361 final size:357
Alignment explanation
Indices: 9624--10480 Score: 892
Period size: 361 Copynumber: 2.4 Consensus size: 357
9614 TTCCACAAAT
* ** * * * * * * *
9624 AGATTTATTTTTTAAATTCCTGCCTACTAATTTTTAGAGTATTAATCAATTAGTATTATTTTATT
1 AGATTTAGTTTTTAAATTTTTACTTATTAATTTTTAAAATAATAATAAATTAGTATTATTTTATT
*
9689 CAAATAAACTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAA
66 CAAATAAACTTGTATGAATAGAAACAATTATTTTAGGACAAAACAAAAGATCATAACTATTTGAA
* *
9754 ATAAATAATTGTTCAAATCATGATGATTTAAACTAACTCGGTAAACAGATTTTATTTTAAAATTT
131 ATAAATAATAGTTCAAATCATGATGATTTAAACTAACTCGGTAAACAGATTTTATTTTAAAATCT
*** * * *
9819 TTTACTCATTAATTTTTGGAATATTAAGAAATTAGTATTATTTTATTTCAATACATTTGTATGAA
196 CCAACTCATTAATTTTTAGAATATTAAGAAATTAGTATTATTTTATTTCAATAAACTTGTATGAA
* *
9884 TAGAAACAATTGGTTTATGACAAAACAAAAGGGTCATAACTATTTGAAATAGATAATTGTTCAAA
261 TAGAAACAATTGGTTTATGACAAAACAAAAGGATCATAACTATTTGAAATAAATAATTGTTCAAA
* *
9949 AAGTCATAACTATTTGAACGTGTTCAAAAAAT
326 AAGTCATAACTATTTGAACGTATTCAAAAAAC
*
9981 ATATTTAGTTTTTAAATTTTTACTTATTAATTTTTGAAAA-AATAATAAATTTA-TATTATTTTA
1 AGATTTAGTTTTTAAATTTTTACTTATTAATTTTT-AAAATAATAATAAA-TTAGTATTATTTTA
* * * *
10044 TTCGAAATCAGCTTGTTTGAATAGAAACAATTATTTTATGACAAAA-AAAATG-TCATAA-TGAT
64 TTC-AAATAAACTTGTATGAATAGAAACAATTATTTTAGGACAAAACAAAA-GATCATAACT-AT
* *** * *
10106 TTGAAATAAATAATAGTTCAAATGGACATGATTATTTAAACTTTTTTGGTAAACA-ATTTTTTTT
126 TTGAAATAAATAATAGTTCAAAT---CATGATGATTTAAACTAACTCGGTAAACAGA--TTTTAT
* * *** *
10170 TTTTAAATCTCCAACTTATTAATTTTTAGAATATTAATTTATTAGTATTA-TTTATTTTGAATAA
186 TTTAAAATCTCCAACTCATTAATTTTTAGAATATTAAGAAATTAGTATTATTTTA-TTTCAATAA
* *
10234 ACTTGTATGAATAGAAA-TATATGTTTTATGACAAAACAAAA-GATCATAA-TGATTTGAAATAA
250 ACTTGTATGAATAGAAACAAT-TGGTTTATGACAAAACAAAAGGATCATAACT-ATTTGAAATAA
* * * * ****
10296 ATAATTGTTTAAATAGTTATAATTATTTGAAC-TCATTTGGTAAAC
313 ATAATTGTTCAAAAAGTCATAACTATTTGAACGT-ATTCAAAAAAC
* **
10341 AGATTTAGTTTTTAAATCTTTTGCTTATTAATTTTTAAAATTTTAATAAATTAGTATTATTTTAT
1 AGATTTAGTTTTTAAAT-TTTTACTTATTAATTTTTAAAATAATAATAAATTAGTATTATTTTA-
** * * * * ** * * * *
10406 TTTGAATAAATTTTTATGCACAGAAACAATTGGTTTATGACAAAACAAAAGGTAATAAC-ATTAG
64 TTCAAATAAACTTGTATGAATAGAAACAATTATTTTAGGACAAAACAAAAGATCATAACTATTTG
*
10470 AAATAGATAAT
129 AAATAAATAAT
10481 CATTAAAATA
Statistics
Matches: 411, Mismatches: 68, Indels: 38
0.79 0.13 0.07
Matches are distributed among these distances:
356 1 0.00
357 82 0.20
358 43 0.10
359 3 0.01
360 103 0.25
361 168 0.41
362 11 0.03
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (357 bp):
AGATTTAGTTTTTAAATTTTTACTTATTAATTTTTAAAATAATAATAAATTAGTATTATTTTATT
CAAATAAACTTGTATGAATAGAAACAATTATTTTAGGACAAAACAAAAGATCATAACTATTTGAA
ATAAATAATAGTTCAAATCATGATGATTTAAACTAACTCGGTAAACAGATTTTATTTTAAAATCT
CCAACTCATTAATTTTTAGAATATTAAGAAATTAGTATTATTTTATTTCAATAAACTTGTATGAA
TAGAAACAATTGGTTTATGACAAAACAAAAGGATCATAACTATTTGAAATAAATAATTGTTCAAA
AAGTCATAACTATTTGAACGTATTCAAAAAAC
Found at i:10505 original size:180 final size:177
Alignment explanation
Indices: 9624--10506 Score: 782
Period size: 181 Copynumber: 4.9 Consensus size: 177
9614 TTCCACAAAT
* ** * * * * *
9624 AGATTTATTTTTTAAATTCCTGCCTACTAATTTTTAGAGTATTAATCAATTAGTATTATTTTATT
1 AGATTTAGTTTTTAAATTTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATT
** * * *
9689 CAAATAAACTTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAA
66 TGAATAAATTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC-ATTTGAA
* * * *
9754 ATAAATAATTGTT-CAA-A-TCATGA-TGATTTAAACTAACTCGGTAAAC
130 ATAAATAATTGTTAAAATAGTCATAACT-ATTTGAACT-ATTCGGTAAAC
* * * *
9800 AGATTTTA-TTTTAAAATTTTTTACTCATTAATTTTTGGAATATTAAGAAATTAGTATTATTTTA
1 AGA-TTTAGTTTTTAAA-TTTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTA
* * *
9864 TTTCAATACATTTGTATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGGTCATAACTATTT
64 TTTGAATAAATTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAA-GGTCATAAC-ATTT
* * *** *
9929 GAAATAGATAATTGTTCAAAA-AGTCATAACTATTTGAACGTGTTCAAAAAAT
127 GAAATAAATAATTGTT-AAAATAGTCATAACTATTTGAAC-TATTCGGTAAAC
* * *
9981 ATATTTAGTTTTTAAATTTTTACTTATTAATTTTT-GAAAAAATAATAAATTTA-TATTATTTTA
1 AGATTTAGTTTTTAAATTTTTACTTATTAATTTTTAG-AATATTAATAAA-TTAGTATTATTTTA
* * ** * * * *
10044 TTCGAAATCAGCTTGTTTGAATAGAAACAATTATTTTATGACAAAA-AAAATGTCATAATGATTT
64 TTTG-AATAAATTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA-CATTT
* * * * * * * * *
10108 GAAATAAATAATAGTTCAAATGGACATGATTATTTAAACTTTTTTGGTAAAC
127 GAAATAAATAATTGTTAAAATAGTCATAACTATTTGAAC-TATTCGGTAAAC
** *** **
10160 A-ATTTTTTTTTTTTAAATCTCCAACTTATTAATTTTTAGAATATTAATTTATTAGTATTA-TTT
1 AGA--TTTAGTTTTTAAAT-TTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTT
* * * *
10223 ATTTTGAATAAACTTGTATGAATAGAAA-TATATGTTTTATGACAAAACAAAAGATCATAATGAT
63 A-TTTGAATAAATTTGTATGAATAGAAACAAT-TGTTTTATGACAAAACAAAAGGTCATAA-CAT
* * * *
10287 TTGAAATAAATAATTGTTTAAATAGTTATAATTATTTGAACTCATTTGGTAAAC
125 TTGAAATAAATAATTGTTAAAATAGTCATAACTATTTGAACT-ATTCGGTAAAC
* * *
10341 AGATTTAGTTTTTAAATCTTTTGCTTATTAATTTTTAAAATTTTAATAAATTAGTATTATTTTAT
1 AGATTTAGTTTTTAAAT-TTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTA-
* * * * * *
10406 TTTGAATAAATTTTTATGCACAGAAACAATTGGTTTATGACAAAACAAAAGGTAATAACATTAGA
64 TTTGAATAAATTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACATTTGA
* **
10471 AATAGATAATCATTAAAATAGTCATAACTATTTGAA
129 AATAAATAATTGTTAAAATAGTCATAACTATTTGAA
10507 TATGTTTAGA
Statistics
Matches: 570, Mismatches: 111, Indels: 48
0.78 0.15 0.07
Matches are distributed among these distances:
176 10 0.02
177 85 0.15
178 32 0.06
179 48 0.08
180 184 0.32
181 205 0.36
182 6 0.01
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (177 bp):
AGATTTAGTTTTTAAATTTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATT
TGAATAAATTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACATTTGAAA
TAAATAATTGTTAAAATAGTCATAACTATTTGAACTATTCGGTAAAC
Found at i:10745 original size:13 final size:13
Alignment explanation
Indices: 10727--10851 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
10717 GTTACAATAA
10727 ATATAATATAATT
1 ATATAATATAATT
* *
10740 ATATAACA-AGTAT
1 ATATAATATAAT-T
*
10753 ATGATAAT-T-GTT
1 AT-ATAATATAATT
* *
10765 ATCTAATGTAATT
1 ATATAATATAATT
*
10778 ATA-ATATTTAATT
1 ATATA-ATATAATT
10791 ATAGTAATA-AATT
1 ATA-TAATATAATT
**
10804 ATATTCTATAATTT
1 ATATAATATAA-TT
* *
10818 AAATATTATAATT
1 ATATAATATAATT
*
10831 -TATAATAAAATT
1 ATATAATATAATT
10843 ATA-AATATA
1 ATATAATATA
10852 TAATTTTTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 23
0.68 0.14 0.19
Matches are distributed among these distances:
11 4 0.05
12 24 0.29
13 39 0.46
14 16 0.19
15 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:10827 original size:14 final size:13
Alignment explanation
Indices: 10810--10857 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
10800 AATTATATTC
10810 TATAATTTAAATA
1 TATAATTTAAATA
10823 TTATAATTTATAATA
1 -TATAATTTA-AATA
10838 -A-AATTATAAATA
1 TATAATT-TAAATA
10850 TATAATTT
1 TATAATTT
10858 TTAATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.27
13 5 0.17
14 13 0.43
15 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATTTAAATA
Found at i:10853 original size:19 final size:19
Alignment explanation
Indices: 10817--10855 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10807 TTCTATAATT
*
10817 TAAATATTATAATTTATAA
1 TAAATATTATAATATATAA
10836 TAAA-ATTATAAATATATAA
1 TAAATATTAT-AATATATAA
10855 T
1 T
10856 TTTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATATTATAATATATAA
Found at i:10871 original size:27 final size:27
Alignment explanation
Indices: 10813--10864 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
10803 TATATTCTAT
10813 AATT-TAAATATTATAATTTATAATAA
1 AATTATAAATATTATAATTTATAATAA
*
10839 AATTATAAATA-TATAATTTTTAATAA
1 AATTATAAATATTATAATTTATAATAA
10865 TTATTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTATAAATATTATAATTTATAATAA
Found at i:10986 original size:18 final size:17
Alignment explanation
Indices: 10963--11006 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
10953 CAATTAGTTA
10963 ATTAATTAATATATAAAT
1 ATTAATTAATATAT-AAT
*
10981 ATTAATTAAT-TATAGT
1 ATTAATTAATATATAAT
10997 ATTAA-TAATA
1 ATTAATTAATA
11007 ATTTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 3 0.12
18 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTAATTAATATATAAT
Found at i:10987 original size:22 final size:23
Alignment explanation
Indices: 10960--11016 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
10950 GTACAATTAG
10960 TTAATTAATTAATA-TATAAATA
1 TTAATTAATTAATAGTATAAATA
*
10982 TTAATTAATT-ATAGTATTAATA
1 TTAATTAATTAATAGTATAAATA
* *
11004 ATAATTTATTAAT
1 TTAATTAATTAAT
11017 TCAAATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 25 0.83
23 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTAATTAATTAATAGTATAAATA
Found at i:11465 original size:27 final size:28
Alignment explanation
Indices: 11433--11492 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
11423 TCATGGTTAT
*
11433 TATTATTATTAAT-TTAA-ATTATTATAA
1 TATTATTATTAATAATAATATTATTA-AA
11460 TATTATTATTAATAATAATATTATTAAA
1 TATTATTATTAATAATAATATTATTAAA
11488 TATTA
1 TATTA
11493 ATGTACTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.43
28 10 0.33
29 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATTATTATTAATAATAATATTATTAAA
Found at i:12761 original size:28 final size:27
Alignment explanation
Indices: 12708--12759 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
12698 ATACTGATAA
12708 TTAAATAATAAAAATTAAATATTTTAT
1 TTAAATAATAAAAATTAAATATTTTAT
* *
12735 TTAAATATTTAAAATTTAAA-ATTTT
1 TTAAATA-ATAAAAATTAAATATTTT
12760 TAATTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAATAATAAAAATTAAATATTTTAT
Found at i:12778 original size:23 final size:24
Alignment explanation
Indices: 12734--12778 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
12724 AAATATTTTA
*
12734 TTTAAATATTTAAAATTTAAAATT
1 TTTAAATATTTAAAATTCAAAATT
* *
12758 TTTAATTA-TTAACATTCAAAA
1 TTTAAATATTTAAAATTCAAAA
12779 AATTAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAAATATTTAAAATTCAAAATT
Found at i:13012 original size:180 final size:180
Alignment explanation
Indices: 12824--13744 Score: 792
Period size: 178 Copynumber: 5.1 Consensus size: 180
12814 TTATCGATCA
*
12824 AGTTCAAATAGTTATGA-TATTTGAACAATTATTTATTTAAAATTATTATGACCTTTTGTTTTGG
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTT-G
* * * *
12888 ACAAAAAACAATTGTTTTAGTTCATAAAAGCTTATCTAAATAAAATAATACTAATTTCTTAATAT
65 TCATAAAACAATTGTTTTAGTTCATACAAGCTTATCTAAATAAAATAATACTAATTTATTAATAT
*
12953 TTCAAAAATTAATAAGCAAGAG-TTTAAAAAAATTAATTTGTTTACTAAACA
130 TTCAAAAATTAATAAGCAAGAGATTT-AAAAAATTAATTTGTTTACTAAACC
* * *
13004 AATTCAAATAGTTATAACTATTTGAACAATTATCTATTTAAAATCATTATGACC-TTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGT
* * **
13068 CATAAAA-AATTGTTTCAGTTCATACAAGCTTATTCGAAAATAAAATAATTGTAATTTATTAATA
66 CATAAAACAATTGTTTTAGTTCATACAAGCTTA-TC-TAAATAAAATAATACTAATTTATTAATA
* * * * * **
13132 TTTCAAAAATTAATAAGTAAGTGATTTAAAAAATGATTTTGTTTACCAAATT
129 TTTCAAAAATTAATAAGCAAGAGATTTAAAAAATTAATTTGTTTACTAAACC
* * * * * ** * * * *
13184 AGTTGAAATAATTATGGCTATTTCAATAATTATCTATTCGAAATCAATATTACCTTTTGTTTGGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGT
* * *
13249 CATATAACAATTGTTTT-TTGTCATACAAGC-T-T-TAGAATAAAATAATACTAATTTATTAATC
66 CATAAAACAATTGTTTTAGT-TCATACAAGCTTATCTA-AATAAAATAATACTAATTTATTAATA
* * * * * * *
13310 TTTCAAAAGTTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATTGAACC
129 TTTCAAAAATTAATAAGCAAGAGATTTAAAAAATTAATTTGTTTACTAAACC
* * * * * *
13362 CGTTTAAATAGTTATGACTATTTGAACAAATGTATAGTTTAAATAAGTTATTTAAAAAATAAACC
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTA-TTT-AA-AA-TTA-TT-----AT-GACC
* * * * *
13427 TTTTTTGTTCTATCATAAAA-AATT-ATTCATGTTCATACAAGC-TATTTGAAATAAAATAATAC
55 --TTTTGTTTTGTCATAAAACAATTGTTTTA-GTTCATACAAGCTTATCT-AAATAAAATAATAC
* * * * * *
13489 TAATCTAATAATA-CTCTAAAATTAATAA-CTAAGAGATTTAAAAAA-TAAATT-TTTACTGAAC
116 TAATTTATTAATATTTCAAAAATTAATAAGC-AAGAGATTTAAAAAATTAATTTGTTTACTAAAC
13550 C
180 C
* * * * * *
13551 AGTTTAAATAGTTAAGACTATATGAACAATTATCTATTTTAAATTGTTATGATCTTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGT
* * * *
13616 CATAAAACAATT-TTTTCAATTCATACTAGCTTATTTAGAATAAAAGAA-A-TGAATTTATTAAT
66 CATAAAACAATTGTTTT-AGTTCATACAAGCTTATCTA-AATAAAATAATACT-AATTTATTAAT
* *
13678 ATTTCAAAAATTAAT----AAGAGATTTAACAAA-TAATTCTGCTTACCT-AACC
128 ATTTCAAAAATTAATAAGCAAGAGATTTAAAAAATTAATT-TGTTTA-CTAAACC
*
13727 AGTTCAAATAATTATGAC
1 AGTTCAAATAGTTATGAC
13745 CTTTTGTTTT
Statistics
Matches: 597, Mismatches: 108, Indels: 76
0.76 0.14 0.10
Matches are distributed among these distances:
174 18 0.03
175 1 0.00
176 39 0.07
177 31 0.05
178 142 0.24
179 14 0.02
180 132 0.22
181 56 0.09
182 20 0.03
183 1 0.00
184 2 0.00
185 2 0.00
186 2 0.00
187 1 0.00
188 5 0.01
189 45 0.08
190 19 0.03
191 42 0.07
192 24 0.04
193 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (180 bp):
AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGT
CATAAAACAATTGTTTTAGTTCATACAAGCTTATCTAAATAAAATAATACTAATTTATTAATATT
TCAAAAATTAATAAGCAAGAGATTTAAAAAATTAATTTGTTTACTAAACC
Found at i:14187 original size:22 final size:23
Alignment explanation
Indices: 14162--14223 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
14152 TTATATTGGA
14162 AATAATTTA-AATAGTTATTAT-T
1 AATAATTTATAATA-TTATTATCT
**
14184 AATAATAGATAATATTATTATCT
1 AATAATTTATAATATTATTATCT
*
14207 ATTAATTTATTAATATT
1 AATAATTTA-TAATATT
14224 TCTAGAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 14 0.44
23 11 0.34
24 7 0.22
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
AATAATTTATAATATTATTATCT
Found at i:14478 original size:10 final size:10
Alignment explanation
Indices: 14437--14525 Score: 62
Period size: 10 Copynumber: 9.2 Consensus size: 10
14427 GATAATAACA
14437 ATAATTAT-T
1 ATAATTATAT
*
14446 -TAACTATAT
1 ATAATTATAT
14455 ATAA-T-TA-
1 ATAATTATAT
14462 ATAATTATAT
1 ATAATTATAT
* *
14472 TTAATTATTT
1 ATAATTATAT
*
14482 AATTATTTATAT
1 -A-TAATTATAT
14494 ATAATTATAT
1 ATAATTATAT
* * *
14504 ATAATAAAAC
1 ATAATTATAT
14514 ATAATTATAT
1 ATAATTATAT
14524 AT
1 AT
14526 TATTTAGATT
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
7 4 0.07
8 9 0.15
9 4 0.07
10 35 0.58
11 1 0.02
12 7 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
ATAATTATAT
Found at i:14482 original size:35 final size:32
Alignment explanation
Indices: 14437--14508 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 32
14427 GATAATAACA
14437 ATAATTATTTAACTATATATAATTAATAATTATAT
1 ATAATTATTTAACTATATAT-A-T-ATAATTATAT
* * *
14472 TTAATTATTTAATTATTTATATATAATTATAT
1 ATAATTATTTAACTATATATATATAATTATAT
14504 ATAAT
1 ATAAT
14509 AAAACATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 14 0.42
33 1 0.03
34 1 0.03
35 17 0.52
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
ATAATTATTTAACTATATATATATAATTATAT
Found at i:14502 original size:8 final size:8
Alignment explanation
Indices: 14437--14504 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
14427 GATAATAACA
14437 ATAATTAT
1 ATAATTAT
*
14445 TTAACTATAT
1 ATAA-T-TAT
14455 ATAATTA-
1 ATAATTAT
14462 ATAATTAT
1 ATAATTAT
14470 ATTTAATTAT
1 A--TAATTAT
*
14480 TTAATTAT
1 ATAATTAT
*
14488 -TTA-TAT
1 ATAATTAT
14494 ATAATTAT
1 ATAATTAT
14502 ATA
1 ATA
14505 TAATAAAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
6 3 0.06
7 11 0.23
8 19 0.40
9 2 0.04
10 13 0.27
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (8 bp):
ATAATTAT
Found at i:14823 original size:18 final size:18
Alignment explanation
Indices: 14791--14827 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14781 ATTTTATTAA
14791 TGTTATGTTATTAATAAT
1 TGTTATGTTATTAATAAT
14809 TGTTCATGTTA-TAATAAT
1 TGTT-ATGTTATTAATAAT
14827 T
1 T
14828 ATATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (18 bp):
TGTTATGTTATTAATAAT
Found at i:14878 original size:15 final size:13
Alignment explanation
Indices: 14842--14888 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
14832 AAAATAATTT
14842 TGATTAATTTTTA
1 TGATTAATTTTTA
14855 -GATTTAATTATTTA
1 TGA-TTAATT-TTTA
14869 CTGATTAATTTTTA
1 -TGATTAATTTTTA
*
14883 TAATTA
1 TGATTA
14889 TGAAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 2 0.07
13 11 0.38
14 8 0.28
15 6 0.21
16 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (13 bp):
TGATTAATTTTTA
Found at i:15191 original size:29 final size:29
Alignment explanation
Indices: 15149--15217 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
15139 TAATATTTGC
*
15149 TAATTATTAAATT-AGTATCTATTAT-TAA
1 TAATTATTAAATTAAAT-TCTATTATATAA
*
15177 TAATTATTTATATTAAATTCTATTATATAA
1 TAATTA-TTAAATTAAATTCTATTATATAA
15207 T-ATTAATTAAA
1 TAATT-ATTAAA
15218 GATAATCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.18
29 21 0.62
30 7 0.21
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (29 bp):
TAATTATTAAATTAAATTCTATTATATAA
Found at i:15560 original size:24 final size:24
Alignment explanation
Indices: 15503--15566 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
15493 TGTTTATATT
15503 ATTATTAAAATTATTAATAATTAA
1 ATTATTAAAATTATTAATAATTAA
* * *
15527 ATAATCAAAATTATTAATTAA-TAG
1 ATTATTAAAATTATTAA-TAATTAA
* *
15551 TTTATTAAAAGTATTA
1 ATTATTAAAATTATTA
15567 GTTTAATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (24 bp):
ATTATTAAAATTATTAATAATTAA
Found at i:15806 original size:16 final size:16
Alignment explanation
Indices: 15766--15824 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
15756 TTGTTAAAAT
15766 ATTAATTATTAATTTCT-
1 ATTAATTATT-ATTT-TA
*
15783 ATT-TTTATTATTTTA
1 ATTAATTATTATTTTA
**
15798 ATTAATTATTAAATTA
1 ATTAATTATTATTTTA
*
15814 ATTAAATATTA
1 ATTAATTATTA
15825 AATGTTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 7 0.20
16 24 0.69
17 3 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTAATTATTATTTTA
Found at i:15825 original size:16 final size:16
Alignment explanation
Indices: 15795--15827 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15785 TTTTATTATT
*
15795 TTAATTAATTATTAAA
1 TTAATTAAATATTAAA
15811 TTAATTAAATATTAAA
1 TTAATTAAATATTAAA
15827 T
1 T
15828 GTTAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATTAAATATTAAA
Found at i:15854 original size:21 final size:21
Alignment explanation
Indices: 15809--15856 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
15799 TTAATTATTA
*
15809 AATTAATTAAATATTAAATGTT
1 AATTAATTAAATA-TAAATGAT
15831 AATTAATATAAATA-AAATGAT
1 AATTAAT-TAAATATAAATGAT
15852 AATTA
1 AATTA
15857 TTTGAACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
AATTAATTAAATATAAATGAT
Found at i:16241 original size:14 final size:14
Alignment explanation
Indices: 16218--16248 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16208 ATATATTATT
*
16218 ATATATAATAATTA
1 ATATAAAATAATTA
16232 ATATAAAATAATTA
1 ATATAAAATAATTA
16246 ATA
1 ATA
16249 ATATCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAAAATAATTA
Found at i:16579 original size:20 final size:20
Alignment explanation
Indices: 16542--16579 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16532 AAAAATTTTA
*
16542 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
16562 TAATTTATATATAT-TAAT
1 TAATTTAT-TATATGTAAT
16580 AAGTTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:16773 original size:13 final size:13
Alignment explanation
Indices: 16749--16813 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
16739 AGTTAATATA
16749 ATAATAATAATTAT
1 ATAAT-ATAATTAT
*
16763 TTAATATAATTAT
1 ATAATATAATTAT
*
16776 ATAATATTTATTAT
1 ATAATA-TAATTAT
* *
16790 ATTAT-TTATTAT
1 ATAATATAATTAT
16802 -TAATAATAATTA
1 ATAAT-ATAATTA
16814 ATTTATGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 3 0.07
12 7 0.17
13 18 0.43
14 14 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAATATAATTAT
Found at i:16787 original size:24 final size:21
Alignment explanation
Indices: 16725--16783 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
16715 AATTTCTAAA
* *
16725 ATAATAGTAATATTAGTTAAT
1 ATAATAATAATATTATTTAAT
16746 ATAATAATAATAATTATTTAAT
1 ATAATAATAAT-ATTATTTAAT
16768 ATAATTATATAATATT
1 ATAA-TA-ATAATATT
16784 TATTATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.30
22 13 0.39
23 5 0.15
24 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
ATAATAATAATATTATTTAAT
Found at i:16795 original size:12 final size:12
Alignment explanation
Indices: 16752--16806 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
16742 TAATATAATA
*
16752 ATAATAATTATT
1 ATAATATTTATT
16764 -TAATATAATTA-T
1 ATAATAT--TTATT
16776 ATAATATTTATT
1 ATAATATTTATT
*
16788 ATATTATTTATT
1 ATAATATTTATT
16800 ATTAATA
1 A-TAATA
16807 ATAATTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
11 8 0.23
12 14 0.40
13 13 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATAATATTTATT
Found at i:17575 original size:25 final size:23
Alignment explanation
Indices: 17543--17595 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
17533 ATATAATTAT
17543 TTAT-TTAAAATTAAATAATAAATG
1 TTATATTAAAATTAAA-AAT-AATG
* *
17567 TTATATTAACATTAAACATAATG
1 TTATATTAAAATTAAAAATAATG
17590 TTATAT
1 TTATAT
17596 AATTTATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 6 0.23
25 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTATATTAAAATTAAAAATAATG
Found at i:17629 original size:17 final size:19
Alignment explanation
Indices: 17594--17630 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
17584 ATAATGTTAT
17594 ATAATTTATCTAATCTATTA
1 ATAATTTATCTAA-CTATTA
17614 ATAATTTAT-TAA-TATTA
1 ATAATTTATCTAACTATTA
17631 TATTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATTTATCTAACTATTA
Found at i:18044 original size:13 final size:14
Alignment explanation
Indices: 18028--18067 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
18018 TTTGATTAAC
*
18028 TAATTATTTAAT-T
1 TAATTATTAAATAT
18041 TAATT-TTAAATAT
1 TAATTATTAAATAT
18054 TAATTATT-AATAT
1 TAATTATTAAATAT
18067 T
1 T
18068 TTGTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.21
13 17 0.71
14 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTAAATAT
Found at i:18209 original size:17 final size:18
Alignment explanation
Indices: 18173--18229 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
18163 TTAAATTATG
18173 TAATT-AATAAAA-A-TA
1 TAATTAAATAAAATATTA
*
18188 GTAATTAAAT-AAATATTT
1 -TAATTAAATAAAATATTA
**
18206 TAATTGTATAAAATATTA
1 TAATTAAATAAAATATTA
18224 TAATTA
1 TAATTA
18230 TATATAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.25
17 11 0.34
18 13 0.41
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAATTAAATAAAATATTA
Found at i:18221 original size:18 final size:19
Alignment explanation
Indices: 18196--18238 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
18186 TAGTAATTAA
* *
18196 ATAAATATTTTAATTGTAT
1 ATAAATATTATAATTATAT
18215 A-AAATATTATAATTATAT
1 ATAAATATTATAATTATAT
18233 ATAAAT
1 ATAAAT
18239 TCTACAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATAAATATTATAATTATAT
Found at i:18343 original size:25 final size:24
Alignment explanation
Indices: 18310--18385 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
18300 TATCAATTGT
* *
18310 AATAGTAATTATTATTAATATAATA
1 AATATTAATTATT-TTAAAATAATA
* *
18335 ATTTTTAA-TATTTTTAAAATAATTA
1 AATATTAATTA-TTTTAAAATAA-TA
*
18360 AATATTAATTATTTTAACATTAATA
1 AATATTAATTATTTTAA-AATAATA
18385 A
1 A
18386 GGTGTCAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
24 10 0.25
25 24 0.60
26 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
AATATTAATTATTTTAAAATAATA
Found at i:18907 original size:26 final size:27
Alignment explanation
Indices: 18858--18934 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
18848 TTTAAAATTT
**
18858 AAATATTATATATATTATCTATTAT-TAC
1 AAATA-TATA-ATATTATAAATTATCTAC
18886 AAATATATAATATTATAAATTATTGCTAC
1 AAATATATAATATTATAAATTA-T-CTAC
18915 AAATAT-TAAT-TTA-AAATTAT
1 AAATATATAATATTATAAATTAT
18935 ATAATTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 1 0.02
26 17 0.39
27 8 0.18
28 9 0.20
29 9 0.20
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (27 bp):
AAATATATAATATTATAAATTATCTAC
Found at i:19151 original size:23 final size:23
Alignment explanation
Indices: 19124--19170 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
19114 AATTATTAAA
19124 TTAATTAAATAATAAATAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
19147 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
19170 T
1 T
19171 AAAATTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:19369 original size:24 final size:24
Alignment explanation
Indices: 19342--19402 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
19332 ATTAACAAAT
* *
19342 ATTATATAAATT-TATAATATATTA
1 ATTAAATAAATTAAATAA-ATATTA
*
19366 ATTAAATTAATTAAATAAATATTA
1 ATTAAATAAATTAAATAAATATTA
*
19390 ATT-AATTAATTAA
1 ATTAAATAAATTAA
19403 TATTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.30
24 19 0.58
25 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAAATAAATTAAATAAATATTA
Found at i:19377 original size:4 final size:4
Alignment explanation
Indices: 19362--19403 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
19352 TTTATAATAT
* *
19362 ATTA ATTAA ATTA ATTA AATA AAT- ATTA ATTA ATTA ATTA AT
1 ATTA ATT-A ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
19404 ATTAATAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.82
5 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:19394 original size:19 final size:18
Alignment explanation
Indices: 19370--19409 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19360 ATATTAATTA
19370 AATTAATTAAATAAATATT
1 AATTAATT-AATAAATATT
*
19389 AATTAATTAATTAATATT
1 AATTAATTAATAAATATT
19407 AAT
1 AAT
19410 AATCTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAATTAATAAATATT
Found at i:19410 original size:24 final size:24
Alignment explanation
Indices: 19355--19402 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
19345 ATATAAATTT
19355 ATAATATATTAATTAAATTAATTAA
1 ATAA-ATATTAATTAAATTAATTAA
19380 ATAAATATTAATT-AATTAATTAA
1 ATAAATATTAATTAAATTAATTAA
19403 TATTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.43
24 9 0.39
25 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATATTAATTAAATTAATTAA
Found at i:19454 original size:26 final size:25
Alignment explanation
Indices: 19414--19484 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
19404 ATTAATAATC
19414 TTATA-ATATATAAATAGTTTTATTT
1 TTATATATATA-AAATAGTTTTATTT
* *
19439 GTTATATATATAAAATAGCTTAATTT
1 -TTATATATATAAAATAGTTTTATTT
*
19465 TTA-ATATA-AATATA-TTTTAT
1 TTATATATATAAAATAGTTTTAT
19485 AAAATAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 5 0.13
25 3 0.08
26 17 0.44
27 5 0.13
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (25 bp):
TTATATATATAAAATAGTTTTATTT
Found at i:19548 original size:18 final size:18
Alignment explanation
Indices: 19517--19551 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19507 GTAAGTAAAA
* *
19517 ATAATTTATTAATATATT
1 ATAATCTATAAATATATT
19535 ATAATCTATAAATATAT
1 ATAATCTATAAATATAT
19552 ATTATAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATCTATAAATATATT
Found at i:19557 original size:25 final size:27
Alignment explanation
Indices: 19547--19643 Score: 65
Period size: 28 Copynumber: 3.5 Consensus size: 27
19537 AATCTATAAA
*
19547 TATATATTATAATATCAATTATAATTAT
1 TATATATTATATTATCAATTATAA-TAT
* * *
19575 TATATATGATATTAT-TATTAAAATATT
1 TATATATTATATTATCAATTATAATA-T
* *
19602 TAAATAATATT-TGTTATTAATTAATAATAT
1 T--AT-ATATTATATTATCAATT-ATAATAT
19632 TATA-ATTATATT
1 TATATATTATATT
19644 TATATTATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
26 5 0.09
27 12 0.23
28 15 0.28
29 7 0.13
30 9 0.17
31 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TATATATTATATTATCAATTATAATAT
Found at i:19658 original size:21 final size:22
Alignment explanation
Indices: 19629--19676 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
19619 TAATTAATAA
19629 TATTATAATTATA-TT-TATAT
1 TATTATAATTATAGTTATATAT
19649 TATTAATAATTATAGTTAATATAT
1 TATT-ATAATTATAGTT-ATATAT
19673 TATT
1 TATT
19677 TGAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 2 0.08
24 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATAATTATAGTTATATAT
Found at i:19959 original size:41 final size:39
Alignment explanation
Indices: 19906--20003 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 39
19896 AATTTATATT
*
19906 TTATT-ATATAATTAAATATAGTATATT-TTCAAAGTAATTAA
1 TTATTAAT-TAATTAAATATAGTATATTATTC-AA-CAA-TAA
* *
19947 TTATTAATTAATT-AATTTATTATATTATTCAACAATAA
1 TTATTAATTAATTAAATATAGTATATTATTCAACAATAA
19985 TTA-TAATTAATTATAATAT
1 TTATTAATTAATTA-AATAT
20004 TTTATCATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
37 9 0.18
38 6 0.12
39 6 0.12
40 13 0.27
41 13 0.27
42 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (39 bp):
TTATTAATTAATTAAATATAGTATATTATTCAACAATAA
Found at i:20206 original size:16 final size:16
Alignment explanation
Indices: 20136--20216 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 16
20126 TGTTTTTAAT
*
20136 TAATAATTTTAAATTCA
1 TAATAATTATAAATT-A
* * *
20153 TTATTATTAT-TATTAA
1 TAATAATTATAAATT-A
* * *
20169 TATTAAATATAAAATA
1 TAATAATTATAAATTA
20185 -AATAA-TATAATATTA
1 TAATAATTATAA-ATTA
20200 TAATAATTATAAATTA
1 TAATAATTATAAATTA
20216 T
1 T
20217 TATTATTATT
Statistics
Matches: 47, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
14 5 0.11
15 7 0.15
16 21 0.45
17 14 0.30
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATTATAAATTA
Done.